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{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '6']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'databasesKEGG'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'organism'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'ens_ids'}; {'id': '6', 'type': 'block', 'children': ['7', '20', '29', '33', '171', '182', '193', '210', '219', '281']}; {'id': '7', 'type': 'expression_statement', 'children': ['8']}; {'id': '8', 'type': 'assignment', 'children': ['9', '10']}; {'id': '9', 'type': 'identifier', 'children': [], 'value': 'all_genes'}; {'id': '10', 'type': 'call', 'children': ['11', '19']}; {'id': '11', 'type': 'attribute', 'children': ['12', '18']}; {'id': '12', 'type': 'call', 'children': ['13', '14']}; {'id': '13', 'type': 'identifier', 'children': [], 'value': 'urlopen'}; {'id': '14', 'type': 'argument_list', 'children': ['15']}; {'id': '15', 'type': 'binary_operator', 'children': ['16', '17'], 'value': '+'}; {'id': '16', 'type': 'string', 'children': [], 'value': '"http://rest.kegg.jp/list/"'}; {'id': '17', 'type': 'identifier', 'children': [], 'value': 'organism'}; {'id': '18', 'type': 'identifier', 'children': [], 'value': 'read'}; {'id': '19', 'type': 'argument_list', 'children': []}; {'id': '20', 'type': 'expression_statement', 'children': ['21']}; {'id': '21', 'type': 'assignment', 'children': ['22', '23']}; {'id': '22', 'type': 'identifier', 'children': [], 'value': 'all_genes'}; {'id': '23', 'type': 'call', 'children': ['24', '27']}; {'id': '24', 'type': 'attribute', 'children': ['25', '26']}; {'id': '25', 'type': 'identifier', 'children': [], 'value': 'all_genes'}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'split'}; {'id': '27', 'type': 'argument_list', 'children': ['28']}; {'id': '28', 'type': 'string', 'children': [], 'value': '"\\n"'}; {'id': '29', 'type': 'expression_statement', 'children': ['30']}; {'id': '30', 'type': 'assignment', 'children': ['31', '32']}; {'id': '31', 'type': 'identifier', 'children': [], 'value': 'dbs'}; {'id': '32', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '33', 'type': 'while_statement', 'children': ['34', '40']}; {'id': '34', 'type': 'comparison_operator', 'children': ['35', '39'], 'value': '=='}; {'id': '35', 'type': 'call', 'children': ['36', '37']}; {'id': '36', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '37', 'type': 'argument_list', 'children': ['38']}; {'id': '38', 'type': 'identifier', 'children': [], 'value': 'dbs'}; {'id': '39', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '40', 'type': 'block', 'children': ['41']}; {'id': '41', 'type': 'for_statement', 'children': ['42', '43', '44']}; {'id': '42', 'type': 'identifier', 'children': [], 'value': 'g'}; {'id': '43', 'type': 'identifier', 'children': [], 'value': 'all_genes'}; {'id': '44', 'type': 'block', 'children': ['45']}; {'id': '45', 'type': 'if_statement', 'children': ['46', '52', '168']}; {'id': '46', 'type': 'comparison_operator', 'children': ['47', '51'], 'value': '=='}; {'id': '47', 'type': 'call', 'children': ['48', '49']}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '49', 'type': 'argument_list', 'children': ['50']}; {'id': '50', 'type': 'identifier', 'children': [], 'value': 'dbs'}; {'id': '51', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '52', 'type': 'block', 'children': ['53', '64', '77', '86', '98']}; {'id': '53', 'type': 'expression_statement', 'children': ['54']}; {'id': '54', 'type': 'assignment', 'children': ['55', '56']}; {'id': '55', 'type': 'identifier', 'children': [], 'value': 'kid'}; {'id': '56', 'type': 'subscript', 'children': ['57', '63']}; {'id': '57', 'type': 'call', 'children': ['58', '61']}; {'id': '58', 'type': 'attribute', 'children': ['59', '60']}; {'id': '59', 'type': 'identifier', 'children': [], 'value': 'g'}; {'id': '60', 'type': 'identifier', 'children': [], 'value': 'split'}; {'id': '61', 'type': 'argument_list', 'children': ['62']}; {'id': '62', 'type': 'string', 'children': [], 'value': '"\\t"'}; {'id': '63', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '64', 'type': 'expression_statement', 'children': ['65']}; {'id': '65', 'type': 'assignment', 'children': ['66', '67']}; {'id': '66', 'type': 'identifier', 'children': [], 'value': 'gene'}; {'id': '67', 'type': 'call', 'children': ['68', '76']}; {'id': '68', 'type': 'attribute', 'children': ['69', '75']}; {'id': '69', 'type': 'call', 'children': ['70', '71']}; {'id': '70', 'type': 'identifier', 'children': [], 'value': 'urlopen'}; {'id': '71', 'type': 'argument_list', 'children': ['72']}; {'id': '72', 'type': 'binary_operator', 'children': ['73', '74'], 'value': '+'}; {'id': '73', 'type': 'string', 'children': [], 'value': '"http://rest.kegg.jp/get/"'}; {'id': '74', 'type': 'identifier', 'children': [], 'value': 'kid'}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'read'}; {'id': '76', 'type': 'argument_list', 'children': []}; {'id': '77', 'type': 'expression_statement', 'children': ['78']}; {'id': '78', 'type': 'assignment', 'children': ['79', '80']}; {'id': '79', 'type': 'identifier', 'children': [], 'value': 'DBLINKS'}; {'id': '80', 'type': 'call', 'children': ['81', '84']}; {'id': '81', 'type': 'attribute', 'children': ['82', '83']}; {'id': '82', 'type': 'identifier', 'children': [], 'value': 'gene'}; {'id': '83', 'type': 'identifier', 'children': [], 'value': 'split'}; {'id': '84', 'type': 'argument_list', 'children': ['85']}; {'id': '85', 'type': 'string', 'children': [], 'value': '"\\n"'}; {'id': '86', 'type': 'expression_statement', 'children': ['87']}; {'id': '87', 'type': 'assignment', 'children': ['88', '89']}; {'id': '88', 'type': 'identifier', 'children': [], 'value': 'DBLINKS'}; {'id': '89', 'type': 'list_comprehension', 'children': ['90', '91', '94']}; {'id': '90', 'type': 'identifier', 'children': [], 'value': 's'}; {'id': '91', 'type': 'for_in_clause', 'children': ['92', '93']}; {'id': '92', 'type': 'identifier', 'children': [], 'value': 's'}; {'id': '93', 'type': 'identifier', 'children': [], 'value': 'DBLINKS'}; {'id': '94', 'type': 'if_clause', 'children': ['95']}; {'id': '95', 'type': 'comparison_operator', 'children': ['96', '97'], 'value': 'in'}; {'id': '96', 'type': 'string', 'children': [], 'value': '":"'}; {'id': '97', 'type': 'identifier', 'children': [], 'value': 's'}; {'id': '98', 'type': 'for_statement', 'children': ['99', '100', '101']}; {'id': '99', 'type': 'identifier', 'children': [], 'value': 'd'}; {'id': '100', 'type': 'identifier', 'children': [], 'value': 'DBLINKS'}; {'id': '101', 'type': 'block', 'children': ['102', '111', '122']}; {'id': '102', 'type': 'expression_statement', 'children': ['103']}; {'id': '103', 'type': 'assignment', 'children': ['104', '105']}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'test'}; {'id': '105', 'type': 'call', 'children': ['106', '109']}; {'id': '106', 'type': 'attribute', 'children': ['107', '108']}; {'id': '107', 'type': 'identifier', 'children': [], 'value': 'd'}; {'id': '108', 'type': 'identifier', 'children': [], 'value': 'split'}; {'id': '109', 'type': 'argument_list', 'children': ['110']}; {'id': '110', 'type': 'string', 'children': [], 'value': '" "'}; {'id': '111', 'type': 'expression_statement', 'children': ['112']}; {'id': '112', 'type': 'assignment', 'children': ['113', '114']}; {'id': '113', 'type': 'identifier', 'children': [], 'value': 'test'}; {'id': '114', 'type': 'subscript', 'children': ['115', '116']}; {'id': '115', 'type': 'identifier', 'children': [], 'value': 'test'}; {'id': '116', 'type': 'binary_operator', 'children': ['117', '121'], 'value': '-'}; {'id': '117', 'type': 'call', 'children': ['118', '119']}; {'id': '118', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '119', 'type': 'argument_list', 'children': ['120']}; {'id': '120', 'type': 'identifier', 'children': [], 'value': 'test'}; {'id': '121', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '122', 'type': 'if_statement', 'children': ['123', '126']}; {'id': '123', 'type': 'comparison_operator', 'children': ['124', '125'], 'value': 'in'}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'test'}; {'id': '125', 'type': 'identifier', 'children': [], 'value': 'ens_ids'}; {'id': '126', 'type': 'block', 'children': ['127', '139', '150', '161']}; {'id': '127', 'type': 'expression_statement', 'children': ['128']}; {'id': '128', 'type': 'assignment', 'children': ['129', '130']}; {'id': '129', 'type': 'identifier', 'children': [], 'value': 'DBLINK'}; {'id': '130', 'type': 'list_comprehension', 'children': ['131', '132', '135']}; {'id': '131', 'type': 'identifier', 'children': [], 'value': 's'}; {'id': '132', 'type': 'for_in_clause', 'children': ['133', '134']}; {'id': '133', 'type': 'identifier', 'children': [], 'value': 's'}; {'id': '134', 'type': 'identifier', 'children': [], 'value': 'DBLINKS'}; {'id': '135', 'type': 'if_clause', 'children': ['136']}; {'id': '136', 'type': 'comparison_operator', 'children': ['137', '138'], 'value': 'in'}; {'id': '137', 'type': 'identifier', 'children': [], 'value': 'test'}; {'id': '138', 'type': 'identifier', 'children': [], 'value': 's'}; {'id': '139', 'type': 'expression_statement', 'children': ['140']}; {'id': '140', 'type': 'assignment', 'children': ['141', '142']}; {'id': '141', 'type': 'identifier', 'children': [], 'value': 'DBLINK'}; {'id': '142', 'type': 'call', 'children': ['143', '148']}; {'id': '143', 'type': 'attribute', 'children': ['144', '147']}; {'id': '144', 'type': 'subscript', 'children': ['145', '146']}; {'id': '145', 'type': 'identifier', 'children': [], 'value': 'DBLINK'}; {'id': '146', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '147', 'type': 'identifier', 'children': [], 'value': 'split'}; {'id': '148', 'type': 'argument_list', 'children': ['149']}; {'id': '149', 'type': 'string', 'children': [], 'value': '":"'}; {'id': '150', 'type': 'expression_statement', 'children': ['151']}; {'id': '151', 'type': 'assignment', 'children': ['152', '153']}; {'id': '152', 'type': 'identifier', 'children': [], 'value': 'DBLINK'}; {'id': '153', 'type': 'subscript', 'children': ['154', '155']}; {'id': '154', 'type': 'identifier', 'children': [], 'value': 'DBLINK'}; {'id': '155', 'type': 'binary_operator', 'children': ['156', '160'], 'value': '-'}; {'id': '156', 'type': 'call', 'children': ['157', '158']}; {'id': '157', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '158', 'type': 'argument_list', 'children': ['159']}; {'id': '159', 'type': 'identifier', 'children': [], 'value': 'DBLINK'}; {'id': '160', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '161', 'type': 'expression_statement', 'children': ['162']}; {'id': '162', 'type': 'call', 'children': ['163', '166']}; {'id': '163', 'type': 'attribute', 'children': ['164', '165']}; {'id': '164', 'type': 'identifier', 'children': [], 'value': 'dbs'}; {'id': '165', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '166', 'type': 'argument_list', 'children': ['167']}; {'id': '167', 'type': 'identifier', 'children': [], 'value': 'DBLINK'}; {'id': '168', 'type': 'else_clause', 'children': ['169']}; {'id': '169', 'type': 'block', 'children': ['170']}; {'id': '170', 'type': 'break_statement', 'children': []}; {'id': '171', 'type': 'expression_statement', 'children': ['172']}; {'id': '172', 'type': 'assignment', 'children': ['173', '174']}; {'id': '173', 'type': 'identifier', 'children': [], 'value': 'ens_db'}; {'id': '174', 'type': 'call', 'children': ['175', '180']}; {'id': '175', 'type': 'attribute', 'children': ['176', '179']}; {'id': '176', 'type': 'subscript', 'children': ['177', '178']}; {'id': '177', 'type': 'identifier', 'children': [], 'value': 'dbs'}; {'id': '178', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '179', 'type': 'identifier', 'children': [], 'value': 'split'}; {'id': '180', 'type': 'argument_list', 'children': ['181']}; {'id': '181', 'type': 'string', 'children': [], 'value': '" "'}; {'id': '182', 'type': 'expression_statement', 'children': ['183']}; {'id': '183', 'type': 'assignment', 'children': ['184', '185']}; {'id': '184', 'type': 'identifier', 'children': [], 'value': 'ens_db'}; {'id': '185', 'type': 'subscript', 'children': ['186', '187']}; {'id': '186', 'type': 'identifier', 'children': [], 'value': 'ens_db'}; {'id': '187', 'type': 'binary_operator', 'children': ['188', '192'], 'value': '-'}; {'id': '188', 'type': 'call', 'children': ['189', '190']}; {'id': '189', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '190', 'type': 'argument_list', 'children': ['191']}; {'id': '191', 'type': 'identifier', 'children': [], 'value': 'ens_db'}; {'id': '192', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '193', 'type': 'expression_statement', 'children': ['194']}; {'id': '194', 'type': 'assignment', 'children': ['195', '196']}; {'id': '195', 'type': 'identifier', 'children': [], 'value': 'test_db'}; {'id': '196', 'type': 'call', 'children': ['197', '209']}; {'id': '197', 'type': 'attribute', 'children': ['198', '208']}; {'id': '198', 'type': 'call', 'children': ['199', '200']}; {'id': '199', 'type': 'identifier', 'children': [], 'value': 'urlopen'}; {'id': '200', 'type': 'argument_list', 'children': ['201']}; {'id': '201', 'type': 'binary_operator', 'children': ['202', '207'], 'value': '+'}; {'id': '202', 'type': 'binary_operator', 'children': ['203', '206'], 'value': '+'}; {'id': '203', 'type': 'binary_operator', 'children': ['204', '205'], 'value': '+'}; {'id': '204', 'type': 'string', 'children': [], 'value': '"http://rest.genome.jp/link/"'}; {'id': '205', 'type': 'identifier', 'children': [], 'value': 'ens_db'}; {'id': '206', 'type': 'string', 'children': [], 'value': '"/"'}; {'id': '207', 'type': 'identifier', 'children': [], 'value': 'organism'}; {'id': '208', 'type': 'identifier', 'children': [], 'value': 'read'}; {'id': '209', 'type': 'argument_list', 'children': []}; {'id': '210', 'type': 'expression_statement', 'children': ['211']}; {'id': '211', 'type': 'assignment', 'children': ['212', '213']}; {'id': '212', 'type': 'identifier', 'children': [], 'value': 'test_db'}; {'id': '213', 'type': 'call', 'children': ['214', '217']}; {'id': '214', 'type': 'attribute', 'children': ['215', '216']}; {'id': '215', 'type': 'identifier', 'children': [], 'value': 'test_db'}; {'id': '216', 'type': 'identifier', 'children': [], 'value': 'split'}; {'id': '217', 'type': 'argument_list', 'children': ['218']}; {'id': '218', 'type': 'string', 'children': [], 'value': '"\\n"'}; {'id': '219', 'type': 'if_statement', 'children': ['220', '226', '260']}; {'id': '220', 'type': 'comparison_operator', 'children': ['221', '225'], 'value': '=='}; {'id': '221', 'type': 'call', 'children': ['222', '223']}; {'id': '222', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '223', 'type': 'argument_list', 'children': ['224']}; {'id': '224', 'type': 'identifier', 'children': [], 'value': 'test_db'}; {'id': '225', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '226', 'type': 'block', 'children': ['227', '238', '243', '248', '256']}; {'id': '227', 'type': 'expression_statement', 'children': ['228']}; {'id': '228', 'type': 'call', 'children': ['229', '230']}; {'id': '229', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '230', 'type': 'argument_list', 'children': ['231']}; {'id': '231', 'type': 'binary_operator', 'children': ['232', '237'], 'value': '+'}; {'id': '232', 'type': 'binary_operator', 'children': ['233', '236'], 'value': '+'}; {'id': '233', 'type': 'binary_operator', 'children': ['234', '235'], 'value': '+'}; {'id': '234', 'type': 'string', 'children': [], 'value': '"For "'}; {'id': '235', 'type': 'identifier', 'children': [], 'value': 'organism'}; {'id': '236', 'type': 'string', 'children': [], 'value': '" the following db was found: "'}; {'id': '237', 'type': 'identifier', 'children': [], 'value': 'ens_db'}; {'id': '238', 'type': 'expression_statement', 'children': ['239']}; {'id': '239', 'type': 'call', 'children': ['240', '241']}; {'id': '240', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '241', 'type': 'argument_list', 'children': ['242']}; {'id': '242', 'type': 'string', 'children': [], 'value': '"This database does not seem to be valid KEGG-linked database identifier"'}; {'id': '243', 'type': 'expression_statement', 'children': ['244']}; {'id': '244', 'type': 'call', 'children': ['245', '246']}; {'id': '245', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '246', 'type': 'argument_list', 'children': ['247']}; {'id': '247', 'type': 'string', 'children': [], 'value': '"For \\n\'hsa\' use \'ensembl-hsa\'\\n\'mmu\' use \'ensembl-mmu\'\\n\'cel\' use \'EnsemblGenomes-Gn\'\\n\'dme\' use \'FlyBase\'"'}; {'id': '248', 'type': 'expression_statement', 'children': ['249']}; {'id': '249', 'type': 'call', 'children': ['250', '255']}; {'id': '250', 'type': 'attribute', 'children': ['251', '254']}; {'id': '251', 'type': 'attribute', 'children': ['252', '253']}; {'id': '252', 'type': 'identifier', 'children': [], 'value': 'sys'}; {'id': '253', 'type': 'identifier', 'children': [], 'value': 'stdout'}; {'id': '254', 'type': 'identifier', 'children': [], 'value': 'flush'}; {'id': '255', 'type': 'argument_list', 'children': []}; {'id': '256', 'type': 'expression_statement', 'children': ['257']}; {'id': '257', 'type': 'assignment', 'children': ['258', '259']}; {'id': '258', 'type': 'identifier', 'children': [], 'value': 'ens_db'}; {'id': '259', 'type': 'None', 'children': []}; {'id': '260', 'type': 'else_clause', 'children': ['261']}; {'id': '261', 'type': 'block', 'children': ['262', '273']}; {'id': '262', 'type': 'expression_statement', 'children': ['263']}; {'id': '263', 'type': 'call', 'children': ['264', '265']}; {'id': '264', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '265', 'type': 'argument_list', 'children': ['266']}; {'id': '266', 'type': 'binary_operator', 'children': ['267', '272'], 'value': '+'}; {'id': '267', 'type': 'binary_operator', 'children': ['268', '271'], 'value': '+'}; {'id': '268', 'type': 'binary_operator', 'children': ['269', '270'], 'value': '+'}; {'id': '269', 'type': 'string', 'children': [], 'value': '"For "'}; {'id': '270', 'type': 'identifier', 'children': [], 'value': 'organism'}; {'id': '271', 'type': 'string', 'children': [], 'value': '" the following db was found: "'}; {'id': '272', 'type': 'identifier', 'children': [], 'value': 'ens_db'}; {'id': '273', 'type': 'expression_statement', 'children': ['274']}; {'id': '274', 'type': 'call', 'children': ['275', '280']}; {'id': '275', 'type': 'attribute', 'children': ['276', '279']}; {'id': '276', 'type': 'attribute', 'children': ['277', '278']}; {'id': '277', 'type': 'identifier', 'children': [], 'value': 'sys'}; {'id': '278', 'type': 'identifier', 'children': [], 'value': 'stdout'}; {'id': '279', 'type': 'identifier', 'children': [], 'value': 'flush'}; {'id': '280', 'type': 'argument_list', 'children': []}; {'id': '281', 'type': 'return_statement', 'children': ['282']}; {'id': '282', 'type': 'identifier', 'children': [], 'value': 'ens_db'} | def databasesKEGG(organism,ens_ids):
all_genes=urlopen("http://rest.kegg.jp/list/"+organism).read()
all_genes=all_genes.split("\n")
dbs=[]
while len(dbs) == 0:
for g in all_genes:
if len(dbs) == 0:
kid = g.split("\t")[0]
gene=urlopen("http://rest.kegg.jp/get/"+kid).read()
DBLINKS=gene.split("\n")
DBLINKS=[ s for s in DBLINKS if ":" in s ]
for d in DBLINKS:
test=d.split(" ")
test=test[len(test)-1]
if test in ens_ids:
DBLINK=[ s for s in DBLINKS if test in s ]
DBLINK=DBLINK[0].split(":")
DBLINK=DBLINK[len(DBLINK)-2]
dbs.append(DBLINK)
else:
break
ens_db=dbs[0].split(" ")
ens_db=ens_db[len(ens_db)-1]
test_db=urlopen("http://rest.genome.jp/link/"+ens_db+"/"+organism).read()
test_db=test_db.split("\n")
if len(test_db) == 1:
print("For "+organism+" the following db was found: "+ens_db)
print("This database does not seem to be valid KEGG-linked database identifier")
print("For \n'hsa' use 'ensembl-hsa'\n'mmu' use 'ensembl-mmu'\n'cel' use 'EnsemblGenomes-Gn'\n'dme' use 'FlyBase'")
sys.stdout.flush()
ens_db = None
else:
print("For "+organism+" the following db was found: "+ens_db)
sys.stdout.flush()
return ens_db |
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{'id': '307', 'type': 'argument_list', 'children': ['308']}; {'id': '308', 'type': 'subscript', 'children': ['309', '319']}; {'id': '309', 'type': 'subscript', 'children': ['310', '315', '316']}; {'id': '310', 'type': 'subscript', 'children': ['311', '314']}; {'id': '311', 'type': 'attribute', 'children': ['312', '313']}; {'id': '312', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '313', 'type': 'identifier', 'children': [], 'value': '_dyn_fields'}; {'id': '314', 'type': 'identifier', 'children': [], 'value': 'field_cname'}; {'id': '315', 'type': 'line_continuation', 'children': [], 'value': '\\'}; {'id': '316', 'type': 'attribute', 'children': ['317', '318']}; {'id': '317', 'type': 'identifier', 'children': [], 'value': 'validator'}; {'id': '318', 'type': 'identifier', 'children': [], 'value': '__name__'}; {'id': '319', 'type': 'string', 'children': [], 'value': "'kwargs'"}; {'id': '320', 'type': 'block', 'children': ['321', '340']}; {'id': '321', 'type': 'try_statement', 'children': ['322', '337']}; {'id': '322', 'type': 'block', 'children': ['323']}; {'id': '323', 'type': 'expression_statement', 'children': ['324']}; {'id': '324', 'type': 'assignment', 'children': ['325', '326']}; {'id': '325', 'type': 'identifier', 'children': [], 'value': 'arg'}; {'id': '326', 'type': 'call', 'children': ['327', '330']}; {'id': '327', 'type': 'attribute', 'children': ['328', '329']}; {'id': '328', 'type': 'identifier', 'children': [], 'value': 're_field_name'}; {'id': '329', 'type': 'identifier', 'children': [], 'value': 'sub'}; {'id': '330', 'type': 'argument_list', 'children': ['331', '336']}; {'id': '331', 'type': 'binary_operator', 'children': ['332', '335'], 'value': '+'}; {'id': '332', 'type': 'binary_operator', 'children': ['333', '334'], 'value': '+'}; {'id': '333', 'type': 'string', 'children': [], 'value': "r'\\1'"}; {'id': '334', 'type': 'string', 'children': [], 'value': "'_'"}; {'id': '335', 'type': 'identifier', 'children': [], 'value': 'current_set_number'}; {'id': '336', 'type': 'identifier', 'children': [], 'value': 'arg'}; {'id': '337', 'type': 'except_clause', 'children': ['338']}; {'id': '338', 'type': 'block', 'children': ['339']}; {'id': '339', 'type': 'pass_statement', 'children': []}; {'id': '340', 'type': 'expression_statement', 'children': ['341']}; {'id': '341', 'type': 'assignment', 'children': ['342', '345']}; {'id': '342', 'type': 'subscript', 'children': ['343', '344']}; {'id': '343', 'type': 'identifier', 'children': [], 'value': 'kwargs'}; {'id': '344', 'type': 'identifier', 'children': [], 'value': 'key'}; {'id': '345', 'type': 'identifier', 'children': [], 'value': 'arg'}; {'id': '346', 'type': 'expression_statement', 'children': ['347']}; {'id': '347', 'type': 'call', 'children': ['348', '351']}; {'id': '348', 'type': 'attribute', 'children': ['349', '350']}; {'id': '349', 'type': 'identifier', 'children': [], 'value': 'validators'}; {'id': '350', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '351', 'type': 'argument_list', 'children': ['352']}; {'id': '352', 'type': 'call', 'children': ['353', '354']}; {'id': '353', 'type': 'identifier', 'children': [], 'value': 'validator'}; {'id': '354', 'type': 'argument_list', 'children': ['355', '357']}; {'id': '355', 'type': 'list_splat', 'children': ['356']}; {'id': '356', 'type': 'identifier', 'children': [], 'value': 'args'}; {'id': '357', 'type': 'dictionary_splat', 'children': ['358']}; {'id': '358', 'type': 'identifier', 'children': [], 'value': 'kwargs'}; {'id': '359', 'type': 'expression_statement', 'children': ['360']}; {'id': '360', 'type': 'assignment', 'children': ['361', '362']}; {'id': '361', 'type': 'identifier', 'children': [], 'value': 'field_type'}; {'id': '362', 'type': 'subscript', 'children': ['363', '368']}; {'id': '363', 'type': 'subscript', 'children': ['364', '367']}; {'id': '364', 'type': 'attribute', 'children': ['365', '366']}; {'id': '365', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '366', 'type': 'identifier', 'children': [], 'value': '_dyn_fields'}; {'id': '367', 'type': 'identifier', 'children': [], 'value': 'field_cname'}; {'id': '368', 'type': 'string', 'children': [], 'value': "'type'"}; {'id': '369', 'type': 'expression_statement', 'children': ['370']}; {'id': '370', 'type': 'assignment', 'children': ['371', '372']}; {'id': '371', 'type': 'identifier', 'children': [], 'value': 'field_label'}; {'id': '372', 'type': 'subscript', 'children': ['373', '378']}; {'id': '373', 'type': 'subscript', 'children': ['374', '377']}; {'id': '374', 'type': 'attribute', 'children': ['375', '376']}; {'id': '375', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '376', 'type': 'identifier', 'children': [], 'value': '_dyn_fields'}; {'id': '377', 'type': 'identifier', 'children': [], 'value': 'field_cname'}; {'id': '378', 'type': 'string', 'children': [], 'value': "'label'"}; {'id': '379', 'type': 'expression_statement', 'children': ['380']}; {'id': '380', 'type': 'assignment', 'children': ['381', '382']}; {'id': '381', 'type': 'identifier', 'children': [], 'value': 'field_args'}; {'id': '382', 'type': 'subscript', 'children': ['383', '388']}; {'id': '383', 'type': 'subscript', 'children': ['384', '387']}; {'id': '384', 'type': 'attribute', 'children': ['385', '386']}; {'id': '385', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '386', 'type': 'identifier', 'children': [], 'value': '_dyn_fields'}; {'id': '387', 'type': 'identifier', 'children': [], 'value': 'field_cname'}; {'id': '388', 'type': 'string', 'children': [], 'value': "'args'"}; {'id': '389', 'type': 'expression_statement', 'children': ['390']}; {'id': '390', 'type': 'assignment', 'children': ['391', '392']}; {'id': '391', 'type': 'identifier', 'children': [], 'value': 'field_kwargs'}; {'id': '392', 'type': 'subscript', 'children': ['393', '398']}; {'id': '393', 'type': 'subscript', 'children': ['394', '397']}; {'id': '394', 'type': 'attribute', 'children': ['395', '396']}; {'id': '395', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '396', 'type': 'identifier', 'children': [], 'value': '_dyn_fields'}; {'id': '397', 'type': 'identifier', 'children': [], 'value': 'field_cname'}; {'id': '398', 'type': 'string', 'children': [], 'value': "'kwargs'"}; {'id': '399', 'type': 'expression_statement', 'children': ['400']}; {'id': '400', 'type': 'call', 'children': ['401', '402']}; {'id': '401', 'type': 'identifier', 'children': [], 'value': 'setattr'}; {'id': '402', 'type': 'argument_list', 'children': ['403', '404', '405']}; {'id': '403', 'type': 'identifier', 'children': [], 'value': 'F'}; {'id': '404', 'type': 'identifier', 'children': [], 'value': 'field'}; {'id': '405', 'type': 'call', 'children': ['406', '407']}; {'id': '406', 'type': 'identifier', 'children': [], 'value': 'field_type'}; {'id': '407', 'type': 'argument_list', 'children': ['408', '409', '412', '414']}; {'id': '408', 'type': 'identifier', 'children': [], 'value': 'field_label'}; {'id': '409', 'type': 'keyword_argument', 'children': ['410', '411']}; {'id': '410', 'type': 'identifier', 'children': [], 'value': 'validators'}; {'id': '411', 'type': 'identifier', 'children': [], 'value': 'validators'}; {'id': '412', 'type': 'list_splat', 'children': ['413']}; {'id': '413', 'type': 'identifier', 'children': [], 'value': 'field_args'}; {'id': '414', 'type': 'dictionary_splat', 'children': ['415']}; {'id': '415', 'type': 'identifier', 'children': [], 'value': 'field_kwargs'}; {'id': '416', 'type': 'if_statement', 'children': ['417', '420', '427']}; {'id': '417', 'type': 'attribute', 'children': ['418', '419']}; {'id': '418', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '419', 'type': 'identifier', 'children': [], 'value': 'flask_wtf'}; {'id': '420', 'type': 'block', 'children': ['421']}; {'id': '421', 'type': 'expression_statement', 'children': ['422']}; {'id': '422', 'type': 'assignment', 'children': ['423', '424']}; {'id': '423', 'type': 'identifier', 'children': [], 'value': 'form'}; {'id': '424', 'type': 'call', 'children': ['425', '426']}; {'id': '425', 'type': 'identifier', 'children': [], 'value': 'F'}; {'id': '426', 'type': 'argument_list', 'children': []}; {'id': '427', 'type': 'else_clause', 'children': ['428']}; {'id': '428', 'type': 'block', 'children': ['429']}; {'id': '429', 'type': 'expression_statement', 'children': ['430']}; {'id': '430', 'type': 'assignment', 'children': ['431', '432']}; {'id': '431', 'type': 'identifier', 'children': [], 'value': 'form'}; {'id': '432', 'type': 'call', 'children': ['433', '434']}; {'id': '433', 'type': 'identifier', 'children': [], 'value': 'F'}; {'id': '434', 'type': 'argument_list', 'children': ['435']}; {'id': '435', 'type': 'identifier', 'children': [], 'value': 'post'}; {'id': '436', 'type': 'return_statement', 'children': ['437']}; {'id': '437', 'type': 'identifier', 'children': [], 'value': 'form'} | def process(self, form, post):
if not isinstance(form, FormMeta):
raise TypeError('Given form is not a valid WTForm.')
re_field_name = re.compile(r'\%([a-zA-Z0-9_]*)\%')
class F(form):
pass
for field, data in post.iteritems():
if field in F():
continue
else:
if field in self._dyn_fields:
field_cname = field
current_set_number = None
elif (field.split('_')[-1].isdigit()
and field[:-(len(field.split('_')[-1]))-1] in self._dyn_fields.keys()):
field_cname = field[:-(len(field.split('_')[-1]))-1]
current_set_number = str(field.split('_')[-1])
else:
continue
validators = []
if 'validators' in self._dyn_fields[field_cname]:
for validator in self._dyn_fields[field_cname]['validators']:
args = []
kwargs = {}
if 'args' in self._dyn_fields[field_cname]\
[validator.__name__]:
if not current_set_number:
args = self._dyn_fields[field_cname]\
[validator.__name__]['args']
else:
for arg in self._dyn_fields[field_cname]\
[validator.__name__]['args']:
try:
arg = re_field_name.sub(r'\1'+'_'+current_set_number,
arg)
except:
pass
args.append(arg)
if 'kwargs' in self._dyn_fields[field_cname]\
[validator.__name__]:
if not current_set_number:
kwargs = self._dyn_fields[field_cname]\
[validator.__name__]['kwargs']
else:
for key, arg in self.iteritems(self._dyn_fields[field_cname]\
[validator.__name__]['kwargs']):
try:
arg = re_field_name.sub(r'\1'+'_'+current_set_number,
arg)
except:
pass
kwargs[key] = arg
validators.append(validator(*args, **kwargs))
field_type = self._dyn_fields[field_cname]['type']
field_label = self._dyn_fields[field_cname]['label']
field_args = self._dyn_fields[field_cname]['args']
field_kwargs = self._dyn_fields[field_cname]['kwargs']
setattr(F, field, field_type(field_label,
validators=validators,
*field_args,
**field_kwargs))
if self.flask_wtf:
form = F()
else:
form = F(post)
return form |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '6']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'distinct_values'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 't_old'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 't_new'}; {'id': '6', 'type': 'block', 'children': ['7', '11', '19', '118']}; {'id': '7', 'type': 'expression_statement', 'children': ['8']}; {'id': '8', 'type': 'assignment', 'children': ['9', '10']}; {'id': '9', 'type': 'identifier', 'children': [], 'value': 'res'}; {'id': '10', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '11', 'type': 'expression_statement', 'children': ['12']}; {'id': '12', 'type': 'call', 'children': ['13', '16']}; {'id': '13', 'type': 'attribute', 'children': ['14', '15']}; {'id': '14', 'type': 'identifier', 'children': [], 'value': 'res'}; {'id': '15', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '16', 'type': 'argument_list', 'children': ['17']}; {'id': '17', 'type': 'list', 'children': ['18'], 'value': "[' -- NOT IN check -- ']"}; {'id': '18', 'type': 'string', 'children': [], 'value': "' -- NOT IN check -- '"}; {'id': '19', 'type': 'for_statement', 'children': ['20', '21', '24']}; {'id': '20', 'type': 'identifier', 'children': [], 'value': 'new_col'}; {'id': '21', 'type': 'attribute', 'children': ['22', '23']}; {'id': '22', 'type': 'identifier', 'children': [], 'value': 't_new'}; {'id': '23', 'type': 'identifier', 'children': [], 'value': 'header'}; {'id': '24', 'type': 'block', 'children': ['25', '35']}; {'id': '25', 'type': 'expression_statement', 'children': ['26']}; {'id': '26', 'type': 'assignment', 'children': ['27', '28']}; {'id': '27', 'type': 'identifier', 'children': [], 'value': 'dist_new'}; {'id': '28', 'type': 'call', 'children': ['29', '32']}; {'id': '29', 'type': 'attribute', 'children': ['30', '31']}; {'id': '30', 'type': 'identifier', 'children': [], 'value': 't_new'}; {'id': '31', 'type': 'identifier', 'children': [], 'value': 'get_distinct_values_from_cols'}; {'id': '32', 'type': 'argument_list', 'children': ['33']}; {'id': '33', 'type': 'list', 'children': ['34'], 'value': '[new_col]'}; {'id': '34', 'type': 'identifier', 'children': [], 'value': 'new_col'}; {'id': '35', 'type': 'for_statement', 'children': ['36', '37', '40']}; {'id': '36', 'type': 'identifier', 'children': [], 'value': 'old_col'}; {'id': '37', 'type': 'attribute', 'children': ['38', '39']}; {'id': '38', 'type': 'identifier', 'children': [], 'value': 't_old'}; {'id': '39', 'type': 'identifier', 'children': [], 'value': 'header'}; {'id': '40', 'type': 'block', 'children': ['41']}; {'id': '41', 'type': 'if_statement', 'children': ['42', '45']}; {'id': '42', 'type': 'comparison_operator', 'children': ['43', '44'], 'value': '=='}; {'id': '43', 'type': 'identifier', 'children': [], 'value': 'old_col'}; {'id': '44', 'type': 'identifier', 'children': [], 'value': 'new_col'}; {'id': '45', 'type': 'block', 'children': ['46', '56', '72', '87', '103']}; {'id': '46', 'type': 'expression_statement', 'children': ['47']}; {'id': '47', 'type': 'assignment', 'children': ['48', '49']}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'dist_old'}; {'id': '49', 'type': 'call', 'children': ['50', '53']}; {'id': '50', 'type': 'attribute', 'children': ['51', '52']}; {'id': '51', 'type': 'identifier', 'children': [], 'value': 't_old'}; {'id': '52', 'type': 'identifier', 'children': [], 'value': 'get_distinct_values_from_cols'}; {'id': '53', 'type': 'argument_list', 'children': ['54']}; {'id': '54', 'type': 'list', 'children': ['55'], 'value': '[old_col]'}; {'id': '55', 'type': 'identifier', 'children': [], 'value': 'old_col'}; {'id': '56', 'type': 'expression_statement', 'children': ['57']}; {'id': '57', 'type': 'assignment', 'children': ['58', '59']}; {'id': '58', 'type': 'identifier', 'children': [], 'value': 'not_in_new'}; {'id': '59', 'type': 'list_comprehension', 'children': ['60', '61', '66']}; {'id': '60', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '61', 'type': 'for_in_clause', 'children': ['62', '63']}; {'id': '62', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '63', 'type': 'subscript', 'children': ['64', '65']}; {'id': '64', 'type': 'identifier', 'children': [], 'value': 'dist_old'}; {'id': '65', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '66', 'type': 'if_clause', 'children': ['67']}; {'id': '67', 'type': 'comparison_operator', 'children': ['68', '69'], 'value': 'not'}; {'id': '68', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '69', 'type': 'subscript', 'children': ['70', '71']}; {'id': '70', 'type': 'identifier', 'children': [], 'value': 'dist_new'}; {'id': '71', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '72', 'type': 'if_statement', 'children': ['73', '76']}; {'id': '73', 'type': 'comparison_operator', 'children': ['74', '75'], 'value': '!='}; {'id': '74', 'type': 'identifier', 'children': [], 'value': 'not_in_new'}; {'id': '75', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '76', 'type': 'block', 'children': ['77']}; {'id': '77', 'type': 'expression_statement', 'children': ['78']}; {'id': '78', 'type': 'call', 'children': ['79', '82']}; {'id': '79', 'type': 'attribute', 'children': ['80', '81']}; {'id': '80', 'type': 'identifier', 'children': [], 'value': 'res'}; {'id': '81', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '82', 'type': 'argument_list', 'children': ['83']}; {'id': '83', 'type': 'list', 'children': ['84', '85', '86'], 'value': "['Not in New', old_col, not_in_new]"}; {'id': '84', 'type': 'string', 'children': [], 'value': "'Not in New'"}; {'id': '85', 'type': 'identifier', 'children': [], 'value': 'old_col'}; {'id': '86', 'type': 'identifier', 'children': [], 'value': 'not_in_new'}; {'id': '87', 'type': 'expression_statement', 'children': ['88']}; {'id': '88', 'type': 'assignment', 'children': ['89', '90']}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'not_in_old'}; {'id': '90', 'type': 'list_comprehension', 'children': ['91', '92', '97']}; {'id': '91', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '92', 'type': 'for_in_clause', 'children': ['93', '94']}; {'id': '93', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '94', 'type': 'subscript', 'children': ['95', '96']}; {'id': '95', 'type': 'identifier', 'children': [], 'value': 'dist_new'}; {'id': '96', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '97', 'type': 'if_clause', 'children': ['98']}; {'id': '98', 'type': 'comparison_operator', 'children': ['99', '100'], 'value': 'not'}; {'id': '99', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '100', 'type': 'subscript', 'children': ['101', '102']}; {'id': '101', 'type': 'identifier', 'children': [], 'value': 'dist_old'}; {'id': '102', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '103', 'type': 'if_statement', 'children': ['104', '107']}; {'id': '104', 'type': 'comparison_operator', 'children': ['105', '106'], 'value': '!='}; {'id': '105', 'type': 'identifier', 'children': [], 'value': 'not_in_old'}; {'id': '106', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '107', 'type': 'block', 'children': ['108']}; {'id': '108', 'type': 'expression_statement', 'children': ['109']}; {'id': '109', 'type': 'call', 'children': ['110', '113']}; {'id': '110', 'type': 'attribute', 'children': ['111', '112']}; {'id': '111', 'type': 'identifier', 'children': [], 'value': 'res'}; {'id': '112', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '113', 'type': 'argument_list', 'children': ['114']}; {'id': '114', 'type': 'list', 'children': ['115', '116', '117'], 'value': "['Not in Old', new_col, not_in_old]"}; {'id': '115', 'type': 'string', 'children': [], 'value': "'Not in Old'"}; {'id': '116', 'type': 'identifier', 'children': [], 'value': 'new_col'}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'not_in_old'}; {'id': '118', 'type': 'return_statement', 'children': ['119']}; {'id': '119', 'type': 'call', 'children': ['120', '121']}; {'id': '120', 'type': 'identifier', 'children': [], 'value': 'sorted'}; {'id': '121', 'type': 'argument_list', 'children': ['122']}; {'id': '122', 'type': 'identifier', 'children': [], 'value': 'res'} | def distinct_values(t_old, t_new):
res = []
res.append([' -- NOT IN check -- '])
for new_col in t_new.header:
dist_new = t_new.get_distinct_values_from_cols([new_col])
for old_col in t_old.header:
if old_col == new_col:
dist_old = t_old.get_distinct_values_from_cols([old_col])
not_in_new = [x for x in dist_old[0] if x not in dist_new[0]]
if not_in_new != []:
res.append(['Not in New', old_col, not_in_new])
not_in_old = [x for x in dist_new[0] if x not in dist_old[0]]
if not_in_old != []:
res.append(['Not in Old', new_col, not_in_old])
return sorted(res) |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '13']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'most_similar_catchments'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '7', '10']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'subject_catchment'}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'similarity_dist_function'}; {'id': '7', 'type': 'default_parameter', 'children': ['8', '9']}; {'id': '8', 'type': 'identifier', 'children': [], 'value': 'records_limit'}; {'id': '9', 'type': 'integer', 'children': [], 'value': '500'}; {'id': '10', 'type': 'default_parameter', 'children': ['11', '12']}; {'id': '11', 'type': 'identifier', 'children': [], 'value': 'include_subject_catchment'}; {'id': '12', 'type': 'string', 'children': [], 'value': "'auto'"}; {'id': '13', 'type': 'block', 'children': ['14', '34', '111', '119', '185', '199', '211', '215', '219', '242']}; {'id': '14', 'type': 'if_statement', 'children': ['15', '21']}; {'id': '15', 'type': 'comparison_operator', 'children': ['16', '17'], 'value': 'not'}; {'id': '16', 'type': 'identifier', 'children': [], 'value': 'include_subject_catchment'}; {'id': '17', 'type': 'list', 'children': ['18', '19', '20'], 'value': "['auto', 'force', 'exclude']"}; {'id': '18', 'type': 'string', 'children': [], 'value': "'auto'"}; {'id': '19', 'type': 'string', 'children': [], 'value': "'force'"}; {'id': '20', 'type': 'string', 'children': [], 'value': "'exclude'"}; {'id': '21', 'type': 'block', 'children': ['22']}; {'id': '22', 'type': 'raise_statement', 'children': ['23']}; {'id': '23', 'type': 'call', 'children': ['24', '25']}; {'id': '24', 'type': 'identifier', 'children': [], 'value': 'ValueError'}; {'id': '25', 'type': 'argument_list', 'children': ['26']}; {'id': '26', 'type': 'binary_operator', 'children': ['27', '33'], 'value': '+'}; {'id': '27', 'type': 'call', 'children': ['28', '31']}; {'id': '28', 'type': 'attribute', 'children': ['29', '30']}; {'id': '29', 'type': 'string', 'children': [], 'value': '"Parameter `include_subject_catchment={}` invalid."'}; {'id': '30', 'type': 'identifier', 'children': [], 'value': 'format'}; {'id': '31', 'type': 'argument_list', 'children': ['32']}; {'id': '32', 'type': 'identifier', 'children': [], 'value': 'include_subject_catchment'}; {'id': '33', 'type': 'string', 'children': [], 'value': '"Must be one of `auto`, `force` or `exclude`."'}; {'id': '34', 'type': 'expression_statement', 'children': ['35']}; {'id': '35', 'type': 'assignment', 'children': ['36', '37']}; {'id': '36', 'type': 'identifier', 'children': [], 'value': 'query'}; {'id': '37', 'type': '()', 'children': ['38']}; {'id': '38', 'type': 'call', 'children': ['39', '100']}; {'id': '39', 'type': 'attribute', 'children': ['40', '99']}; {'id': '40', 'type': 'call', 'children': ['41', '97']}; {'id': '41', 'type': 'attribute', 'children': ['42', '96']}; {'id': '42', 'type': 'call', 'children': ['43', '67']}; {'id': '43', 'type': 'attribute', 'children': ['44', '66']}; {'id': '44', 'type': 'call', 'children': ['45', '62']}; {'id': '45', 'type': 'attribute', 'children': ['46', '61']}; {'id': '46', 'type': 'call', 'children': ['47', '57']}; {'id': '47', 'type': 'attribute', 'children': ['48', '56']}; {'id': '48', 'type': 'call', 'children': ['49', '54']}; {'id': '49', 'type': 'attribute', 'children': ['50', '53']}; {'id': '50', 'type': 'attribute', 'children': ['51', '52']}; {'id': '51', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '52', 'type': 'identifier', 'children': [], 'value': 'db_session'}; {'id': '53', 'type': 'identifier', 'children': [], 'value': 'query'}; {'id': '54', 'type': 'argument_list', 'children': ['55']}; {'id': '55', 'type': 'identifier', 'children': [], 'value': 'Catchment'}; {'id': '56', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '57', 'type': 'argument_list', 'children': ['58']}; {'id': '58', 'type': 'attribute', 'children': ['59', '60']}; {'id': '59', 'type': 'identifier', 'children': [], 'value': 'Catchment'}; {'id': '60', 'type': 'identifier', 'children': [], 'value': 'descriptors'}; {'id': '61', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '62', 'type': 'argument_list', 'children': ['63']}; {'id': '63', 'type': 'attribute', 'children': ['64', '65']}; {'id': '64', 'type': 'identifier', 'children': [], 'value': 'Catchment'}; {'id': '65', 'type': 'identifier', 'children': [], 'value': 'amax_records'}; {'id': '66', 'type': 'identifier', 'children': [], 'value': 'filter'}; {'id': '67', 'type': 'argument_list', 'children': ['68', '75', '78', '91']}; {'id': '68', 'type': 'comparison_operator', 'children': ['69', '72'], 'value': '!='}; {'id': '69', 'type': 'attribute', 'children': ['70', '71']}; {'id': '70', 'type': 'identifier', 'children': [], 'value': 'Catchment'}; {'id': '71', 'type': 'identifier', 'children': [], 'value': 'id'}; {'id': '72', 'type': 'attribute', 'children': ['73', '74']}; {'id': '73', 'type': 'identifier', 'children': [], 'value': 'subject_catchment'}; {'id': '74', 'type': 'identifier', 'children': [], 'value': 'id'}; {'id': '75', 'type': 'attribute', 'children': ['76', '77']}; {'id': '76', 'type': 'identifier', 'children': [], 'value': 'Catchment'}; {'id': '77', 'type': 'identifier', 'children': [], 'value': 'is_suitable_for_pooling'}; {'id': '78', 'type': 'call', 'children': ['79', '80']}; {'id': '79', 'type': 'identifier', 'children': [], 'value': 'or_'}; {'id': '80', 'type': 'argument_list', 'children': ['81', '86']}; {'id': '81', 'type': 'comparison_operator', 'children': ['82', '85'], 'value': '<'}; {'id': '82', 'type': 'attribute', 'children': ['83', '84']}; {'id': '83', 'type': 'identifier', 'children': [], 'value': 'Descriptors'}; {'id': '84', 'type': 'identifier', 'children': [], 'value': 'urbext2000'}; {'id': '85', 'type': 'float', 'children': [], 'value': '0.03'}; {'id': '86', 'type': 'comparison_operator', 'children': ['87', '90'], 'value': '=='}; {'id': '87', 'type': 'attribute', 'children': ['88', '89']}; {'id': '88', 'type': 'identifier', 'children': [], 'value': 'Descriptors'}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'urbext2000'}; {'id': '90', 'type': 'None', 'children': []}; {'id': '91', 'type': 'comparison_operator', 'children': ['92', '95'], 'value': '=='}; {'id': '92', 'type': 'attribute', 'children': ['93', '94']}; {'id': '93', 'type': 'identifier', 'children': [], 'value': 'AmaxRecord'}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'flag'}; {'id': '95', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '96', 'type': 'identifier', 'children': [], 'value': 'group_by'}; {'id': '97', 'type': 'argument_list', 'children': ['98']}; {'id': '98', 'type': 'identifier', 'children': [], 'value': 'Catchment'}; {'id': '99', 'type': 'identifier', 'children': [], 'value': 'having'}; {'id': '100', 'type': 'argument_list', 'children': ['101']}; {'id': '101', 'type': 'comparison_operator', 'children': ['102', '110'], 'value': '>='}; {'id': '102', 'type': 'call', 'children': ['103', '106']}; {'id': '103', 'type': 'attribute', 'children': ['104', '105']}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'func'}; {'id': '105', 'type': 'identifier', 'children': [], 'value': 'count'}; {'id': '106', 'type': 'argument_list', 'children': ['107']}; {'id': '107', 'type': 'attribute', 'children': ['108', '109']}; {'id': '108', 'type': 'identifier', 'children': [], 'value': 'AmaxRecord'}; {'id': '109', 'type': 'identifier', 'children': [], 'value': 'catchment_id'}; {'id': '110', 'type': 'integer', 'children': [], 'value': '10'}; {'id': '111', 'type': 'expression_statement', 'children': ['112']}; {'id': '112', 'type': 'assignment', 'children': ['113', '114']}; {'id': '113', 'type': 'identifier', 'children': [], 'value': 'catchments'}; {'id': '114', 'type': 'call', 'children': ['115', '118']}; {'id': '115', 'type': 'attribute', 'children': ['116', '117']}; {'id': '116', 'type': 'identifier', 'children': [], 'value': 'query'}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'all'}; {'id': '118', 'type': 'argument_list', 'children': []}; {'id': '119', 'type': 'if_statement', 'children': ['120', '123', '141']}; {'id': '120', 'type': 'comparison_operator', 'children': ['121', '122'], 'value': '=='}; {'id': '121', 'type': 'identifier', 'children': [], 'value': 'include_subject_catchment'}; {'id': '122', 'type': 'string', 'children': [], 'value': "'force'"}; {'id': '123', 'type': 'block', 'children': ['124']}; {'id': '124', 'type': 'if_statement', 'children': ['125', '133']}; {'id': '125', 'type': 'comparison_operator', 'children': ['126', '132'], 'value': '>='}; {'id': '126', 'type': 'call', 'children': ['127', '128']}; {'id': '127', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '128', 'type': 'argument_list', 'children': ['129']}; {'id': '129', 'type': 'attribute', 'children': ['130', '131']}; {'id': '130', 'type': 'identifier', 'children': [], 'value': 'subject_catchment'}; {'id': '131', 'type': 'identifier', 'children': [], 'value': 'amax_records'}; {'id': '132', 'type': 'integer', 'children': [], 'value': '10'}; {'id': '133', 'type': 'block', 'children': ['134']}; {'id': '134', 'type': 'expression_statement', 'children': ['135']}; {'id': '135', 'type': 'call', 'children': ['136', '139']}; {'id': '136', 'type': 'attribute', 'children': ['137', '138']}; {'id': '137', 'type': 'identifier', 'children': [], 'value': 'catchments'}; {'id': '138', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '139', 'type': 'argument_list', 'children': ['140']}; {'id': '140', 'type': 'identifier', 'children': [], 'value': 'subject_catchment'}; {'id': '141', 'type': 'elif_clause', 'children': ['142', '145']}; {'id': '142', 'type': 'comparison_operator', 'children': ['143', '144'], 'value': '=='}; {'id': '143', 'type': 'identifier', 'children': [], 'value': 'include_subject_catchment'}; {'id': '144', 'type': 'string', 'children': [], 'value': "'auto'"}; {'id': '145', 'type': 'block', 'children': ['146']}; {'id': '146', 'type': 'if_statement', 'children': ['147', '177']}; {'id': '147', 'type': 'boolean_operator', 'children': ['148', '160', '161'], 'value': 'and'}; {'id': '148', 'type': 'boolean_operator', 'children': ['149', '157'], 'value': 'and'}; {'id': '149', 'type': 'comparison_operator', 'children': ['150', '156'], 'value': '>='}; {'id': '150', 'type': 'call', 'children': ['151', '152']}; {'id': '151', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '152', 'type': 'argument_list', 'children': ['153']}; {'id': '153', 'type': 'attribute', 'children': ['154', '155']}; {'id': '154', 'type': 'identifier', 'children': [], 'value': 'subject_catchment'}; {'id': '155', 'type': 'identifier', 'children': [], 'value': 'amax_records'}; {'id': '156', 'type': 'integer', 'children': [], 'value': '10'}; {'id': '157', 'type': 'attribute', 'children': ['158', '159']}; {'id': '158', 'type': 'identifier', 'children': [], 'value': 'subject_catchment'}; {'id': '159', 'type': 'identifier', 'children': [], 'value': 'is_suitable_for_pooling'}; {'id': '160', 'type': 'line_continuation', 'children': [], 'value': '\\'}; {'id': '161', 'type': '()', 'children': ['162']}; {'id': '162', 'type': 'boolean_operator', 'children': ['163', '170'], 'value': 'or'}; {'id': '163', 'type': 'comparison_operator', 'children': ['164', '169'], 'value': '<'}; {'id': '164', 'type': 'attribute', 'children': ['165', '168']}; {'id': '165', 'type': 'attribute', 'children': ['166', '167']}; {'id': '166', 'type': 'identifier', 'children': [], 'value': 'subject_catchment'}; {'id': '167', 'type': 'identifier', 'children': [], 'value': 'descriptors'}; {'id': '168', 'type': 'identifier', 'children': [], 'value': 'urbext2000'}; {'id': '169', 'type': 'float', 'children': [], 'value': '0.03'}; {'id': '170', 'type': 'comparison_operator', 'children': ['171', '176'], 'value': 'is'}; {'id': '171', 'type': 'attribute', 'children': ['172', '175']}; {'id': '172', 'type': 'attribute', 'children': ['173', '174']}; {'id': '173', 'type': 'identifier', 'children': [], 'value': 'subject_catchment'}; {'id': '174', 'type': 'identifier', 'children': [], 'value': 'descriptors'}; {'id': '175', 'type': 'identifier', 'children': [], 'value': 'urbext2000'}; {'id': '176', 'type': 'None', 'children': []}; {'id': '177', 'type': 'block', 'children': ['178']}; {'id': '178', 'type': 'expression_statement', 'children': ['179']}; {'id': '179', 'type': 'call', 'children': ['180', '183']}; {'id': '180', 'type': 'attribute', 'children': ['181', '182']}; {'id': '181', 'type': 'identifier', 'children': [], 'value': 'catchments'}; {'id': '182', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '183', 'type': 'argument_list', 'children': ['184']}; {'id': '184', 'type': 'identifier', 'children': [], 'value': 'subject_catchment'}; {'id': '185', 'type': 'for_statement', 'children': ['186', '187', '188']}; {'id': '186', 'type': 'identifier', 'children': [], 'value': 'catchment'}; {'id': '187', 'type': 'identifier', 'children': [], 'value': 'catchments'}; {'id': '188', 'type': 'block', 'children': ['189']}; {'id': '189', 'type': 'expression_statement', 'children': ['190']}; {'id': '190', 'type': 'assignment', 'children': ['191', '194']}; {'id': '191', 'type': 'attribute', 'children': ['192', '193']}; {'id': '192', 'type': 'identifier', 'children': [], 'value': 'catchment'}; {'id': '193', 'type': 'identifier', 'children': [], 'value': 'similarity_dist'}; {'id': '194', 'type': 'call', 'children': ['195', '196']}; {'id': '195', 'type': 'identifier', 'children': [], 'value': 'similarity_dist_function'}; {'id': '196', 'type': 'argument_list', 'children': ['197', '198']}; {'id': '197', 'type': 'identifier', 'children': [], 'value': 'subject_catchment'}; {'id': '198', 'type': 'identifier', 'children': [], 'value': 'catchment'}; {'id': '199', 'type': 'expression_statement', 'children': ['200']}; {'id': '200', 'type': 'call', 'children': ['201', '204']}; {'id': '201', 'type': 'attribute', 'children': ['202', '203']}; {'id': '202', 'type': 'identifier', 'children': [], 'value': 'catchments'}; {'id': '203', 'type': 'identifier', 'children': [], 'value': 'sort'}; {'id': '204', 'type': 'argument_list', 'children': ['205']}; {'id': '205', 'type': 'keyword_argument', 'children': ['206', '207']}; {'id': '206', 'type': 'identifier', 'children': [], 'value': 'key'}; {'id': '207', 'type': 'call', 'children': ['208', '209']}; {'id': '208', 'type': 'identifier', 'children': [], 'value': 'attrgetter'}; {'id': '209', 'type': 'argument_list', 'children': ['210']}; {'id': '210', 'type': 'string', 'children': [], 'value': "'similarity_dist'"}; {'id': '211', 'type': 'expression_statement', 'children': ['212']}; {'id': '212', 'type': 'assignment', 'children': ['213', '214']}; {'id': '213', 'type': 'identifier', 'children': [], 'value': 'amax_records_count'}; {'id': '214', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '215', 'type': 'expression_statement', 'children': ['216']}; {'id': '216', 'type': 'assignment', 'children': ['217', '218']}; {'id': '217', 'type': 'identifier', 'children': [], 'value': 'catchments_limited'}; {'id': '218', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '219', 'type': 'for_statement', 'children': ['220', '221', '222']}; {'id': '220', 'type': 'identifier', 'children': [], 'value': 'catchment'}; {'id': '221', 'type': 'identifier', 'children': [], 'value': 'catchments'}; {'id': '222', 'type': 'block', 'children': ['223', '230', '236']}; {'id': '223', 'type': 'expression_statement', 'children': ['224']}; {'id': '224', 'type': 'call', 'children': ['225', '228']}; {'id': '225', 'type': 'attribute', 'children': ['226', '227']}; {'id': '226', 'type': 'identifier', 'children': [], 'value': 'catchments_limited'}; {'id': '227', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '228', 'type': 'argument_list', 'children': ['229']}; {'id': '229', 'type': 'identifier', 'children': [], 'value': 'catchment'}; {'id': '230', 'type': 'expression_statement', 'children': ['231']}; {'id': '231', 'type': 'augmented_assignment', 'children': ['232', '233'], 'value': '+='}; {'id': '232', 'type': 'identifier', 'children': [], 'value': 'amax_records_count'}; {'id': '233', 'type': 'attribute', 'children': ['234', '235']}; {'id': '234', 'type': 'identifier', 'children': [], 'value': 'catchment'}; {'id': '235', 'type': 'identifier', 'children': [], 'value': 'record_length'}; {'id': '236', 'type': 'if_statement', 'children': ['237', '240']}; {'id': '237', 'type': 'comparison_operator', 'children': ['238', '239'], 'value': '>='}; {'id': '238', 'type': 'identifier', 'children': [], 'value': 'amax_records_count'}; {'id': '239', 'type': 'identifier', 'children': [], 'value': 'records_limit'}; {'id': '240', 'type': 'block', 'children': ['241']}; {'id': '241', 'type': 'break_statement', 'children': []}; {'id': '242', 'type': 'return_statement', 'children': ['243']}; {'id': '243', 'type': 'identifier', 'children': [], 'value': 'catchments_limited'} | def most_similar_catchments(self, subject_catchment, similarity_dist_function, records_limit=500,
include_subject_catchment='auto'):
if include_subject_catchment not in ['auto', 'force', 'exclude']:
raise ValueError("Parameter `include_subject_catchment={}` invalid.".format(include_subject_catchment) +
"Must be one of `auto`, `force` or `exclude`.")
query = (self.db_session.query(Catchment).
join(Catchment.descriptors).
join(Catchment.amax_records).
filter(Catchment.id != subject_catchment.id,
Catchment.is_suitable_for_pooling,
or_(Descriptors.urbext2000 < 0.03, Descriptors.urbext2000 == None),
AmaxRecord.flag == 0).
group_by(Catchment).
having(func.count(AmaxRecord.catchment_id) >= 10))
catchments = query.all()
if include_subject_catchment == 'force':
if len(subject_catchment.amax_records) >= 10:
catchments.append(subject_catchment)
elif include_subject_catchment == 'auto':
if len(subject_catchment.amax_records) >= 10 and subject_catchment.is_suitable_for_pooling and \
(subject_catchment.descriptors.urbext2000 < 0.03 or subject_catchment.descriptors.urbext2000 is None):
catchments.append(subject_catchment)
for catchment in catchments:
catchment.similarity_dist = similarity_dist_function(subject_catchment, catchment)
catchments.sort(key=attrgetter('similarity_dist'))
amax_records_count = 0
catchments_limited = []
for catchment in catchments:
catchments_limited.append(catchment)
amax_records_count += catchment.record_length
if amax_records_count >= records_limit:
break
return catchments_limited |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '8']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'readSAM'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'SAMfile'}; {'id': '5', 'type': 'default_parameter', 'children': ['6', '7']}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'header'}; {'id': '7', 'type': 'False', 'children': []}; {'id': '8', 'type': 'block', 'children': ['9', '57', '75', '97', '111', '117', '127', '139', '149', '205', '222']}; {'id': '9', 'type': 'if_statement', 'children': ['10', '13']}; {'id': '10', 'type': 'comparison_operator', 'children': ['11', '12'], 'value': '=='}; {'id': '11', 'type': 'identifier', 'children': [], 'value': 'header'}; {'id': '12', 'type': 'True', 'children': []}; {'id': '13', 'type': 'block', 'children': ['14', '22', '26', '51']}; {'id': '14', 'type': 'expression_statement', 'children': ['15']}; {'id': '15', 'type': 'assignment', 'children': ['16', '17']}; {'id': '16', 'type': 'identifier', 'children': [], 'value': 'f'}; {'id': '17', 'type': 'call', 'children': ['18', '19']}; {'id': '18', 'type': 'identifier', 'children': [], 'value': 'open'}; {'id': '19', 'type': 'argument_list', 'children': ['20', '21']}; {'id': '20', 'type': 'identifier', 'children': [], 'value': 'SAMfile'}; {'id': '21', 'type': 'string', 'children': [], 'value': '"r+"'}; {'id': '22', 'type': 'expression_statement', 'children': ['23']}; {'id': '23', 'type': 'assignment', 'children': ['24', '25']}; {'id': '24', 'type': 'identifier', 'children': [], 'value': 'head'}; {'id': '25', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '26', 'type': 'for_statement', 'children': ['27', '28', '33']}; {'id': '27', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '28', 'type': 'call', 'children': ['29', '32']}; {'id': '29', 'type': 'attribute', 'children': ['30', '31']}; {'id': '30', 'type': 'identifier', 'children': [], 'value': 'f'}; {'id': '31', 'type': 'identifier', 'children': [], 'value': 'readlines'}; {'id': '32', 'type': 'argument_list', 'children': []}; {'id': '33', 'type': 'block', 'children': ['34']}; {'id': '34', 'type': 'if_statement', 'children': ['35', '40', '48']}; {'id': '35', 'type': 'comparison_operator', 'children': ['36', '39'], 'value': '=='}; {'id': '36', 'type': 'subscript', 'children': ['37', '38']}; {'id': '37', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '38', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '39', 'type': 'string', 'children': [], 'value': '"@"'}; {'id': '40', 'type': 'block', 'children': ['41']}; {'id': '41', 'type': 'expression_statement', 'children': ['42']}; {'id': '42', 'type': 'call', 'children': ['43', '46']}; {'id': '43', 'type': 'attribute', 'children': ['44', '45']}; {'id': '44', 'type': 'identifier', 'children': [], 'value': 'head'}; {'id': '45', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '46', 'type': 'argument_list', 'children': ['47']}; {'id': '47', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '48', 'type': 'else_clause', 'children': ['49']}; {'id': '49', 'type': 'block', 'children': ['50']}; {'id': '50', 'type': 'continue_statement', 'children': []}; {'id': '51', 'type': 'expression_statement', 'children': ['52']}; {'id': '52', 'type': 'call', 'children': ['53', '56']}; {'id': '53', 'type': 'attribute', 'children': ['54', '55']}; {'id': '54', 'type': 'identifier', 'children': [], 'value': 'f'}; {'id': '55', 'type': 'identifier', 'children': [], 'value': 'close'}; {'id': '56', 'type': 'argument_list', 'children': []}; {'id': '57', 'type': 'expression_statement', 'children': ['58']}; {'id': '58', 'type': 'assignment', 'children': ['59', '60']}; {'id': '59', 'type': 'identifier', 'children': [], 'value': 'sam'}; {'id': '60', 'type': 'call', 'children': ['61', '64']}; {'id': '61', 'type': 'attribute', 'children': ['62', '63']}; {'id': '62', 'type': 'identifier', 'children': [], 'value': 'pd'}; {'id': '63', 'type': 'identifier', 'children': [], 'value': 'read_table'}; {'id': '64', 'type': 'argument_list', 'children': ['65', '66', '69', '72']}; {'id': '65', 'type': 'identifier', 'children': [], 'value': 'SAMfile'}; {'id': '66', 'type': 'keyword_argument', 'children': ['67', '68']}; {'id': '67', 'type': 'identifier', 'children': [], 'value': 'sep'}; {'id': '68', 'type': 'string', 'children': [], 'value': '"this_gives_one_column"'}; {'id': '69', 'type': 'keyword_argument', 'children': ['70', '71']}; {'id': '70', 'type': 'identifier', 'children': [], 'value': 'comment'}; {'id': '71', 'type': 'string', 'children': [], 'value': '"@"'}; {'id': '72', 'type': 'keyword_argument', 'children': ['73', '74']}; {'id': '73', 'type': 'identifier', 'children': [], 'value': 'header'}; {'id': '74', 'type': 'None', 'children': []}; {'id': '75', 'type': 'expression_statement', 'children': ['76']}; {'id': '76', 'type': 'assignment', 'children': ['77', '78']}; {'id': '77', 'type': 'identifier', 'children': [], 'value': 'sam'}; {'id': '78', 'type': 'call', 'children': ['79', '82']}; {'id': '79', 'type': 'attribute', 'children': ['80', '81']}; {'id': '80', 'type': 'identifier', 'children': [], 'value': 'pd'}; {'id': '81', 'type': 'identifier', 'children': [], 'value': 'DataFrame'}; {'id': '82', 'type': 'argument_list', 'children': ['83']}; {'id': '83', 'type': 'call', 'children': ['84', '96']}; {'id': '84', 'type': 'attribute', 'children': ['85', '95']}; {'id': '85', 'type': 'call', 'children': ['86', '93']}; {'id': '86', 'type': 'attribute', 'children': ['87', '92']}; {'id': '87', 'type': 'attribute', 'children': ['88', '91']}; {'id': '88', 'type': 'subscript', 'children': ['89', '90']}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'sam'}; {'id': '90', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '91', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '92', 'type': 'identifier', 'children': [], 'value': 'split'}; {'id': '93', 'type': 'argument_list', 'children': ['94']}; {'id': '94', 'type': 'string', 'children': [], 'value': '"\\t"'}; {'id': '95', 'type': 'identifier', 'children': [], 'value': 'tolist'}; {'id': '96', 'type': 'argument_list', 'children': []}; {'id': '97', 'type': 'expression_statement', 'children': ['98']}; {'id': '98', 'type': 'assignment', 'children': ['99', '100']}; {'id': '99', 'type': 'identifier', 'children': [], 'value': 'acols'}; {'id': '100', 'type': 'list', 'children': ['101', '102', '103', '104', '105', '106', '107', '108', '109', '110'], 'value': '[0,1,2,3,4,5,6,7,8,9]'}; {'id': '101', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '102', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '103', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '104', 'type': 'integer', 'children': [], 'value': '3'}; {'id': '105', 'type': 'integer', 'children': [], 'value': '4'}; {'id': '106', 'type': 'integer', 'children': [], 'value': '5'}; {'id': '107', 'type': 'integer', 'children': [], 'value': '6'}; {'id': '108', 'type': 'integer', 'children': [], 'value': '7'}; {'id': '109', 'type': 'integer', 'children': [], 'value': '8'}; {'id': '110', 'type': 'integer', 'children': [], 'value': '9'}; {'id': '111', 'type': 'expression_statement', 'children': ['112']}; {'id': '112', 'type': 'assignment', 'children': ['113', '114']}; {'id': '113', 'type': 'identifier', 'children': [], 'value': 'sam_'}; {'id': '114', 'type': 'subscript', 'children': ['115', '116']}; {'id': '115', 'type': 'identifier', 'children': [], 'value': 'sam'}; {'id': '116', 'type': 'identifier', 'children': [], 'value': 'acols'}; {'id': '117', 'type': 'expression_statement', 'children': ['118']}; {'id': '118', 'type': 'assignment', 'children': ['119', '120']}; {'id': '119', 'type': 'identifier', 'children': [], 'value': 'samcols'}; {'id': '120', 'type': 'call', 'children': ['121', '126']}; {'id': '121', 'type': 'attribute', 'children': ['122', '125']}; {'id': '122', 'type': 'attribute', 'children': ['123', '124']}; {'id': '123', 'type': 'identifier', 'children': [], 'value': 'sam'}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'columns'}; {'id': '125', 'type': 'identifier', 'children': [], 'value': 'tolist'}; {'id': '126', 'type': 'argument_list', 'children': []}; {'id': '127', 'type': 'expression_statement', 'children': ['128']}; {'id': '128', 'type': 'assignment', 'children': ['129', '130']}; {'id': '129', 'type': 'identifier', 'children': [], 'value': 'bcols'}; {'id': '130', 'type': 'list_comprehension', 'children': ['131', '132', '135']}; {'id': '131', 'type': 'identifier', 'children': [], 'value': 's'}; {'id': '132', 'type': 'for_in_clause', 'children': ['133', '134']}; {'id': '133', 'type': 'identifier', 'children': [], 'value': 's'}; {'id': '134', 'type': 'identifier', 'children': [], 'value': 'samcols'}; {'id': '135', 'type': 'if_clause', 'children': ['136']}; {'id': '136', 'type': 'comparison_operator', 'children': ['137', '138'], 'value': 'not'}; {'id': '137', 'type': 'identifier', 'children': [], 'value': 's'}; {'id': '138', 'type': 'identifier', 'children': [], 'value': 'acols'}; {'id': '139', 'type': 'expression_statement', 'children': ['140']}; {'id': '140', 'type': 'assignment', 'children': ['141', '144']}; {'id': '141', 'type': 'subscript', 'children': ['142', '143']}; {'id': '142', 'type': 'identifier', 'children': [], 'value': 'sam_'}; {'id': '143', 'type': 'integer', 'children': [], 'value': '10'}; {'id': '144', 'type': 'subscript', 'children': ['145', '146']}; {'id': '145', 'type': 'identifier', 'children': [], 'value': 'sam'}; {'id': '146', 'type': 'subscript', 'children': ['147', '148']}; {'id': '147', 'type': 'identifier', 'children': [], 'value': 'bcols'}; {'id': '148', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '149', 'type': 'if_statement', 'children': ['150', '156']}; {'id': '150', 'type': 'comparison_operator', 'children': ['151', '155'], 'value': '>'}; {'id': '151', 'type': 'call', 'children': ['152', '153']}; {'id': '152', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '153', 'type': 'argument_list', 'children': ['154']}; {'id': '154', 'type': 'identifier', 'children': [], 'value': 'bcols'}; {'id': '155', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '156', 'type': 'block', 'children': ['157']}; {'id': '157', 'type': 'for_statement', 'children': ['158', '159', '164']}; {'id': '158', 'type': 'identifier', 'children': [], 'value': 'c'}; {'id': '159', 'type': 'subscript', 'children': ['160', '161']}; {'id': '160', 'type': 'identifier', 'children': [], 'value': 'bcols'}; {'id': '161', 'type': 'slice', 'children': ['162', '163']}; {'id': '162', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '163', 'type': 'colon', 'children': []}; {'id': '164', 'type': 'block', 'children': ['165', '178', '191']}; {'id': '165', 'type': 'expression_statement', 'children': ['166']}; {'id': '166', 'type': 'assignment', 'children': ['167', '170']}; {'id': '167', 'type': 'subscript', 'children': ['168', '169']}; {'id': '168', 'type': 'identifier', 'children': [], 'value': 'sam_'}; {'id': '169', 'type': 'integer', 'children': [], 'value': '10'}; {'id': '170', 'type': 'call', 'children': ['171', '176']}; {'id': '171', 'type': 'attribute', 'children': ['172', '175']}; {'id': '172', 'type': 'subscript', 'children': ['173', '174']}; {'id': '173', 'type': 'identifier', 'children': [], 'value': 'sam_'}; {'id': '174', 'type': 'integer', 'children': [], 'value': '10'}; {'id': '175', 'type': 'identifier', 'children': [], 'value': 'astype'}; {'id': '176', 'type': 'argument_list', 'children': ['177']}; {'id': '177', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '178', 'type': 'expression_statement', 'children': ['179']}; {'id': '179', 'type': 'assignment', 'children': ['180', '183']}; {'id': '180', 'type': 'subscript', 'children': ['181', '182']}; {'id': '181', 'type': 'identifier', 'children': [], 'value': 'sam'}; {'id': '182', 'type': 'identifier', 'children': [], 'value': 'c'}; {'id': '183', 'type': 'call', 'children': ['184', '189']}; {'id': '184', 'type': 'attribute', 'children': ['185', '188']}; {'id': '185', 'type': 'subscript', 'children': ['186', '187']}; {'id': '186', 'type': 'identifier', 'children': [], 'value': 'sam'}; {'id': '187', 'type': 'identifier', 'children': [], 'value': 'c'}; {'id': '188', 'type': 'identifier', 'children': [], 'value': 'astype'}; {'id': '189', 'type': 'argument_list', 'children': ['190']}; {'id': '190', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '191', 'type': 'expression_statement', 'children': ['192']}; {'id': '192', 'type': 'assignment', 'children': ['193', '196']}; {'id': '193', 'type': 'subscript', 'children': ['194', '195']}; {'id': '194', 'type': 'identifier', 'children': [], 'value': 'sam_'}; {'id': '195', 'type': 'integer', 'children': [], 'value': '10'}; {'id': '196', 'type': 'binary_operator', 'children': ['197', '202'], 'value': '+'}; {'id': '197', 'type': 'binary_operator', 'children': ['198', '201'], 'value': '+'}; {'id': '198', 'type': 'subscript', 'children': ['199', '200']}; {'id': '199', 'type': 'identifier', 'children': [], 'value': 'sam_'}; {'id': '200', 'type': 'integer', 'children': [], 'value': '10'}; {'id': '201', 'type': 'string', 'children': [], 'value': '"\\t"'}; {'id': '202', 'type': 'subscript', 'children': ['203', '204']}; {'id': '203', 'type': 'identifier', 'children': [], 'value': 'sam'}; {'id': '204', 'type': 'identifier', 'children': [], 'value': 'c'}; {'id': '205', 'type': 'expression_statement', 'children': ['206']}; {'id': '206', 'type': 'assignment', 'children': ['207', '210']}; {'id': '207', 'type': 'attribute', 'children': ['208', '209']}; {'id': '208', 'type': 'identifier', 'children': [], 'value': 'sam_'}; {'id': '209', 'type': 'identifier', 'children': [], 'value': 'columns'}; {'id': '210', 'type': 'list', 'children': ['211', '212', '213', '214', '215', '216', '217', '218', '219', '220', '221'], 'value': "['QNAME','FLAG','RNAME','POS','MAPQ','CIGAR','RNEXT','PNEXT','TLEN','SEQ','QUAL']"}; {'id': '211', 'type': 'string', 'children': [], 'value': "'QNAME'"}; {'id': '212', 'type': 'string', 'children': [], 'value': "'FLAG'"}; {'id': '213', 'type': 'string', 'children': [], 'value': "'RNAME'"}; {'id': '214', 'type': 'string', 'children': [], 'value': "'POS'"}; {'id': '215', 'type': 'string', 'children': [], 'value': "'MAPQ'"}; {'id': '216', 'type': 'string', 'children': [], 'value': "'CIGAR'"}; {'id': '217', 'type': 'string', 'children': [], 'value': "'RNEXT'"}; {'id': '218', 'type': 'string', 'children': [], 'value': "'PNEXT'"}; {'id': '219', 'type': 'string', 'children': [], 'value': "'TLEN'"}; {'id': '220', 'type': 'string', 'children': [], 'value': "'SEQ'"}; {'id': '221', 'type': 'string', 'children': [], 'value': "'QUAL'"}; {'id': '222', 'type': 'if_statement', 'children': ['223', '226', '231']}; {'id': '223', 'type': 'comparison_operator', 'children': ['224', '225'], 'value': '=='}; {'id': '224', 'type': 'identifier', 'children': [], 'value': 'header'}; {'id': '225', 'type': 'True', 'children': []}; {'id': '226', 'type': 'block', 'children': ['227']}; {'id': '227', 'type': 'return_statement', 'children': ['228']}; {'id': '228', 'type': 'expression_list', 'children': ['229', '230']}; {'id': '229', 'type': 'identifier', 'children': [], 'value': 'sam_'}; {'id': '230', 'type': 'identifier', 'children': [], 'value': 'head'}; {'id': '231', 'type': 'else_clause', 'children': ['232']}; {'id': '232', 'type': 'block', 'children': ['233']}; {'id': '233', 'type': 'return_statement', 'children': ['234']}; {'id': '234', 'type': 'identifier', 'children': [], 'value': 'sam_'} | def readSAM(SAMfile,header=False):
if header==True:
f=open(SAMfile,"r+")
head=[]
for line in f.readlines():
if line[0]=="@":
head.append(line)
else:
continue
f.close()
sam=pd.read_table(SAMfile,sep="this_gives_one_column",comment="@",header=None)
sam=pd.DataFrame(sam[0].str.split("\t").tolist())
acols=[0,1,2,3,4,5,6,7,8,9]
sam_=sam[acols]
samcols=sam.columns.tolist()
bcols=[ s for s in samcols if s not in acols ]
sam_[10]=sam[bcols[0]]
if len(bcols) > 1:
for c in bcols[1:]:
sam_[10]=sam_[10].astype(str)
sam[c]=sam[c].astype(str)
sam_[10]=sam_[10]+"\t"+sam[c]
sam_.columns=['QNAME','FLAG','RNAME','POS','MAPQ','CIGAR','RNEXT','PNEXT','TLEN','SEQ','QUAL']
if header==True:
return sam_, head
else:
return sam_ |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'SAMflags'}; {'id': '3', 'type': 'parameters', 'children': ['4']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '5', 'type': 'block', 'children': ['6', '10', '25', '32', '47', '54', '69', '76', '91', '98', '113', '120', '135', '142', '157', '164', '179', '186', '201', '208', '223', '230', '245', '252', '267', '274']}; {'id': '6', 'type': 'expression_statement', 'children': ['7']}; {'id': '7', 'type': 'assignment', 'children': ['8', '9']}; {'id': '8', 'type': 'identifier', 'children': [], 'value': 'flags'}; {'id': '9', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '10', 'type': 'if_statement', 'children': ['11', '14', '19']}; {'id': '11', 'type': 'binary_operator', 'children': ['12', '13'], 'value': '&'}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '13', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '14', 'type': 'block', 'children': ['15']}; {'id': '15', 'type': 'expression_statement', 'children': ['16']}; {'id': '16', 'type': 'assignment', 'children': ['17', '18']}; {'id': '17', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '18', 'type': 'string', 'children': [], 'value': '"1: Read paired"'}; {'id': '19', 'type': 'else_clause', 'children': ['20']}; {'id': '20', 'type': 'block', 'children': ['21']}; {'id': '21', 'type': 'expression_statement', 'children': ['22']}; {'id': '22', 'type': 'assignment', 'children': ['23', '24']}; {'id': '23', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '24', 'type': 'string', 'children': [], 'value': '"0: Read unpaired"'}; {'id': '25', 'type': 'expression_statement', 'children': ['26']}; {'id': '26', 'type': 'call', 'children': ['27', '30']}; {'id': '27', 'type': 'attribute', 'children': ['28', '29']}; {'id': '28', 'type': 'identifier', 'children': [], 'value': 'flags'}; {'id': '29', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '30', 'type': 'argument_list', 'children': ['31']}; {'id': '31', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '32', 'type': 'if_statement', 'children': ['33', '36', '41']}; {'id': '33', 'type': 'binary_operator', 'children': ['34', '35'], 'value': '&'}; {'id': '34', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '35', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '36', 'type': 'block', 'children': ['37']}; {'id': '37', 'type': 'expression_statement', 'children': ['38']}; {'id': '38', 'type': 'assignment', 'children': ['39', '40']}; {'id': '39', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '40', 'type': 'string', 'children': [], 'value': '"1: Read mapped in proper pair"'}; {'id': '41', 'type': 'else_clause', 'children': ['42']}; {'id': '42', 'type': 'block', 'children': ['43']}; {'id': '43', 'type': 'expression_statement', 'children': ['44']}; {'id': '44', 'type': 'assignment', 'children': ['45', '46']}; {'id': '45', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '46', 'type': 'string', 'children': [], 'value': '"0: Read not mapped in proper pair"'}; {'id': '47', 'type': 'expression_statement', 'children': ['48']}; {'id': '48', 'type': 'call', 'children': ['49', '52']}; {'id': '49', 'type': 'attribute', 'children': ['50', '51']}; {'id': '50', 'type': 'identifier', 'children': [], 'value': 'flags'}; {'id': '51', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '52', 'type': 'argument_list', 'children': ['53']}; {'id': '53', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '54', 'type': 'if_statement', 'children': ['55', '58', '63']}; {'id': '55', 'type': 'binary_operator', 'children': ['56', '57'], 'value': '&'}; {'id': '56', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '57', 'type': 'integer', 'children': [], 'value': '4'}; {'id': '58', 'type': 'block', 'children': ['59']}; {'id': '59', 'type': 'expression_statement', 'children': ['60']}; {'id': '60', 'type': 'assignment', 'children': ['61', '62']}; {'id': '61', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '62', 'type': 'string', 'children': [], 'value': '"1: Read unmapped"'}; {'id': '63', 'type': 'else_clause', 'children': ['64']}; {'id': '64', 'type': 'block', 'children': ['65']}; {'id': '65', 'type': 'expression_statement', 'children': ['66']}; {'id': '66', 'type': 'assignment', 'children': ['67', '68']}; {'id': '67', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '68', 'type': 'string', 'children': [], 'value': '"0: Read mapped"'}; {'id': '69', 'type': 'expression_statement', 'children': ['70']}; {'id': '70', 'type': 'call', 'children': ['71', '74']}; {'id': '71', 'type': 'attribute', 'children': ['72', '73']}; {'id': '72', 'type': 'identifier', 'children': [], 'value': 'flags'}; {'id': '73', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '74', 'type': 'argument_list', 'children': ['75']}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '76', 'type': 'if_statement', 'children': ['77', '80', '85']}; {'id': '77', 'type': 'binary_operator', 'children': ['78', '79'], 'value': '&'}; {'id': '78', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '79', 'type': 'integer', 'children': [], 'value': '8'}; {'id': '80', 'type': 'block', 'children': ['81']}; {'id': '81', 'type': 'expression_statement', 'children': ['82']}; {'id': '82', 'type': 'assignment', 'children': ['83', '84']}; {'id': '83', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '84', 'type': 'string', 'children': [], 'value': '"1: Mate unmapped"'}; {'id': '85', 'type': 'else_clause', 'children': ['86']}; {'id': '86', 'type': 'block', 'children': ['87']}; {'id': '87', 'type': 'expression_statement', 'children': ['88']}; {'id': '88', 'type': 'assignment', 'children': ['89', '90']}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '90', 'type': 'string', 'children': [], 'value': '"0: Mate mapped"'}; {'id': '91', 'type': 'expression_statement', 'children': ['92']}; {'id': '92', 'type': 'call', 'children': ['93', '96']}; {'id': '93', 'type': 'attribute', 'children': ['94', '95']}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'flags'}; {'id': '95', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '96', 'type': 'argument_list', 'children': ['97']}; {'id': '97', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '98', 'type': 'if_statement', 'children': ['99', '102', '107']}; {'id': '99', 'type': 'binary_operator', 'children': ['100', '101'], 'value': '&'}; {'id': '100', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '101', 'type': 'integer', 'children': [], 'value': '16'}; {'id': '102', 'type': 'block', 'children': ['103']}; {'id': '103', 'type': 'expression_statement', 'children': ['104']}; {'id': '104', 'type': 'assignment', 'children': ['105', '106']}; {'id': '105', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '106', 'type': 'string', 'children': [], 'value': '"1: Read reverse strand"'}; {'id': '107', 'type': 'else_clause', 'children': ['108']}; {'id': '108', 'type': 'block', 'children': ['109']}; {'id': '109', 'type': 'expression_statement', 'children': ['110']}; {'id': '110', 'type': 'assignment', 'children': ['111', '112']}; {'id': '111', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '112', 'type': 'string', 'children': [], 'value': '"0: Read direct strand"'}; {'id': '113', 'type': 'expression_statement', 'children': ['114']}; {'id': '114', 'type': 'call', 'children': ['115', '118']}; {'id': '115', 'type': 'attribute', 'children': ['116', '117']}; {'id': '116', 'type': 'identifier', 'children': [], 'value': 'flags'}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '118', 'type': 'argument_list', 'children': ['119']}; {'id': '119', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '120', 'type': 'if_statement', 'children': ['121', '124', '129']}; {'id': '121', 'type': 'binary_operator', 'children': ['122', '123'], 'value': '&'}; {'id': '122', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '123', 'type': 'integer', 'children': [], 'value': '32'}; {'id': '124', 'type': 'block', 'children': ['125']}; {'id': '125', 'type': 'expression_statement', 'children': ['126']}; {'id': '126', 'type': 'assignment', 'children': ['127', '128']}; {'id': '127', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '128', 'type': 'string', 'children': [], 'value': '"1: Mate reverse strand"'}; {'id': '129', 'type': 'else_clause', 'children': ['130']}; {'id': '130', 'type': 'block', 'children': ['131']}; {'id': '131', 'type': 'expression_statement', 'children': ['132']}; {'id': '132', 'type': 'assignment', 'children': ['133', '134']}; {'id': '133', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '134', 'type': 'string', 'children': [], 'value': '"0: Mate direct strand"'}; {'id': '135', 'type': 'expression_statement', 'children': ['136']}; {'id': '136', 'type': 'call', 'children': ['137', '140']}; {'id': '137', 'type': 'attribute', 'children': ['138', '139']}; {'id': '138', 'type': 'identifier', 'children': [], 'value': 'flags'}; {'id': '139', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '140', 'type': 'argument_list', 'children': ['141']}; {'id': '141', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '142', 'type': 'if_statement', 'children': ['143', '146', '151']}; {'id': '143', 'type': 'binary_operator', 'children': ['144', '145'], 'value': '&'}; {'id': '144', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '145', 'type': 'integer', 'children': [], 'value': '64'}; {'id': '146', 'type': 'block', 'children': ['147']}; {'id': '147', 'type': 'expression_statement', 'children': ['148']}; {'id': '148', 'type': 'assignment', 'children': ['149', '150']}; {'id': '149', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '150', 'type': 'string', 'children': [], 'value': '"1: First in pair"'}; {'id': '151', 'type': 'else_clause', 'children': ['152']}; {'id': '152', 'type': 'block', 'children': ['153']}; {'id': '153', 'type': 'expression_statement', 'children': ['154']}; {'id': '154', 'type': 'assignment', 'children': ['155', '156']}; {'id': '155', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '156', 'type': 'string', 'children': [], 'value': '"0: Second in pair"'}; {'id': '157', 'type': 'expression_statement', 'children': ['158']}; {'id': '158', 'type': 'call', 'children': ['159', '162']}; {'id': '159', 'type': 'attribute', 'children': ['160', '161']}; {'id': '160', 'type': 'identifier', 'children': [], 'value': 'flags'}; {'id': '161', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '162', 'type': 'argument_list', 'children': ['163']}; {'id': '163', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '164', 'type': 'if_statement', 'children': ['165', '168', '173']}; {'id': '165', 'type': 'binary_operator', 'children': ['166', '167'], 'value': '&'}; {'id': '166', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '167', 'type': 'integer', 'children': [], 'value': '128'}; {'id': '168', 'type': 'block', 'children': ['169']}; {'id': '169', 'type': 'expression_statement', 'children': ['170']}; {'id': '170', 'type': 'assignment', 'children': ['171', '172']}; {'id': '171', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '172', 'type': 'string', 'children': [], 'value': '"1: Second in pair"'}; {'id': '173', 'type': 'else_clause', 'children': ['174']}; {'id': '174', 'type': 'block', 'children': ['175']}; {'id': '175', 'type': 'expression_statement', 'children': ['176']}; {'id': '176', 'type': 'assignment', 'children': ['177', '178']}; {'id': '177', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '178', 'type': 'string', 'children': [], 'value': '"0: First in pair"'}; {'id': '179', 'type': 'expression_statement', 'children': ['180']}; {'id': '180', 'type': 'call', 'children': ['181', '184']}; {'id': '181', 'type': 'attribute', 'children': ['182', '183']}; {'id': '182', 'type': 'identifier', 'children': [], 'value': 'flags'}; {'id': '183', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '184', 'type': 'argument_list', 'children': ['185']}; {'id': '185', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '186', 'type': 'if_statement', 'children': ['187', '190', '195']}; {'id': '187', 'type': 'binary_operator', 'children': ['188', '189'], 'value': '&'}; {'id': '188', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '189', 'type': 'integer', 'children': [], 'value': '256'}; {'id': '190', 'type': 'block', 'children': ['191']}; {'id': '191', 'type': 'expression_statement', 'children': ['192']}; {'id': '192', 'type': 'assignment', 'children': ['193', '194']}; {'id': '193', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '194', 'type': 'string', 'children': [], 'value': '"1: Not primary alignment"'}; {'id': '195', 'type': 'else_clause', 'children': ['196']}; {'id': '196', 'type': 'block', 'children': ['197']}; {'id': '197', 'type': 'expression_statement', 'children': ['198']}; {'id': '198', 'type': 'assignment', 'children': ['199', '200']}; {'id': '199', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '200', 'type': 'string', 'children': [], 'value': '"0: Primary alignment"'}; {'id': '201', 'type': 'expression_statement', 'children': ['202']}; {'id': '202', 'type': 'call', 'children': ['203', '206']}; {'id': '203', 'type': 'attribute', 'children': ['204', '205']}; {'id': '204', 'type': 'identifier', 'children': [], 'value': 'flags'}; {'id': '205', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '206', 'type': 'argument_list', 'children': ['207']}; {'id': '207', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '208', 'type': 'if_statement', 'children': ['209', '212', '217']}; {'id': '209', 'type': 'binary_operator', 'children': ['210', '211'], 'value': '&'}; {'id': '210', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '211', 'type': 'integer', 'children': [], 'value': '512'}; {'id': '212', 'type': 'block', 'children': ['213']}; {'id': '213', 'type': 'expression_statement', 'children': ['214']}; {'id': '214', 'type': 'assignment', 'children': ['215', '216']}; {'id': '215', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '216', 'type': 'string', 'children': [], 'value': '"1: Read fails platform/vendor quality checks"'}; {'id': '217', 'type': 'else_clause', 'children': ['218']}; {'id': '218', 'type': 'block', 'children': ['219']}; {'id': '219', 'type': 'expression_statement', 'children': ['220']}; {'id': '220', 'type': 'assignment', 'children': ['221', '222']}; {'id': '221', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '222', 'type': 'string', 'children': [], 'value': '"0: Read passes platform/vendor quality checks"'}; {'id': '223', 'type': 'expression_statement', 'children': ['224']}; {'id': '224', 'type': 'call', 'children': ['225', '228']}; {'id': '225', 'type': 'attribute', 'children': ['226', '227']}; {'id': '226', 'type': 'identifier', 'children': [], 'value': 'flags'}; {'id': '227', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '228', 'type': 'argument_list', 'children': ['229']}; {'id': '229', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '230', 'type': 'if_statement', 'children': ['231', '234', '239']}; {'id': '231', 'type': 'binary_operator', 'children': ['232', '233'], 'value': '&'}; {'id': '232', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '233', 'type': 'integer', 'children': [], 'value': '1024'}; {'id': '234', 'type': 'block', 'children': ['235']}; {'id': '235', 'type': 'expression_statement', 'children': ['236']}; {'id': '236', 'type': 'assignment', 'children': ['237', '238']}; {'id': '237', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '238', 'type': 'string', 'children': [], 'value': '"1: Read is PCR or optical duplicate"'}; {'id': '239', 'type': 'else_clause', 'children': ['240']}; {'id': '240', 'type': 'block', 'children': ['241']}; {'id': '241', 'type': 'expression_statement', 'children': ['242']}; {'id': '242', 'type': 'assignment', 'children': ['243', '244']}; {'id': '243', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '244', 'type': 'string', 'children': [], 'value': '"0: Read is not PCR or optical duplicate"'}; {'id': '245', 'type': 'expression_statement', 'children': ['246']}; {'id': '246', 'type': 'call', 'children': ['247', '250']}; {'id': '247', 'type': 'attribute', 'children': ['248', '249']}; {'id': '248', 'type': 'identifier', 'children': [], 'value': 'flags'}; {'id': '249', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '250', 'type': 'argument_list', 'children': ['251']}; {'id': '251', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '252', 'type': 'if_statement', 'children': ['253', '256', '261']}; {'id': '253', 'type': 'binary_operator', 'children': ['254', '255'], 'value': '&'}; {'id': '254', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '255', 'type': 'integer', 'children': [], 'value': '2048'}; {'id': '256', 'type': 'block', 'children': ['257']}; {'id': '257', 'type': 'expression_statement', 'children': ['258']}; {'id': '258', 'type': 'assignment', 'children': ['259', '260']}; {'id': '259', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '260', 'type': 'string', 'children': [], 'value': '"1: Supplementary alignment"'}; {'id': '261', 'type': 'else_clause', 'children': ['262']}; {'id': '262', 'type': 'block', 'children': ['263']}; {'id': '263', 'type': 'expression_statement', 'children': ['264']}; {'id': '264', 'type': 'assignment', 'children': ['265', '266']}; {'id': '265', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '266', 'type': 'string', 'children': [], 'value': '"0: Not supplementary alignment"'}; {'id': '267', 'type': 'expression_statement', 'children': ['268']}; {'id': '268', 'type': 'call', 'children': ['269', '272']}; {'id': '269', 'type': 'attribute', 'children': ['270', '271']}; {'id': '270', 'type': 'identifier', 'children': [], 'value': 'flags'}; {'id': '271', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '272', 'type': 'argument_list', 'children': ['273']}; {'id': '273', 'type': 'identifier', 'children': [], 'value': 'l'}; {'id': '274', 'type': 'return_statement', 'children': ['275']}; {'id': '275', 'type': 'identifier', 'children': [], 'value': 'flags'} | def SAMflags(x):
flags=[]
if x & 1:
l="1: Read paired"
else:
l="0: Read unpaired"
flags.append(l)
if x & 2 :
l="1: Read mapped in proper pair"
else:
l="0: Read not mapped in proper pair"
flags.append(l)
if x & 4 :
l="1: Read unmapped"
else:
l="0: Read mapped"
flags.append(l)
if x & 8 :
l="1: Mate unmapped"
else:
l="0: Mate mapped"
flags.append(l)
if x & 16 :
l="1: Read reverse strand"
else:
l="0: Read direct strand"
flags.append(l)
if x & 32 :
l="1: Mate reverse strand"
else:
l="0: Mate direct strand"
flags.append(l)
if x & 64 :
l="1: First in pair"
else:
l="0: Second in pair"
flags.append(l)
if x & 128 :
l="1: Second in pair"
else:
l="0: First in pair"
flags.append(l)
if x & 256 :
l="1: Not primary alignment"
else:
l="0: Primary alignment"
flags.append(l)
if x & 512 :
l="1: Read fails platform/vendor quality checks"
else:
l="0: Read passes platform/vendor quality checks"
flags.append(l)
if x & 1024 :
l="1: Read is PCR or optical duplicate"
else:
l="0: Read is not PCR or optical duplicate"
flags.append(l)
if x & 2048 :
l="1: Supplementary alignment"
else:
l="0: Not supplementary alignment"
flags.append(l)
return flags |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '74']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'BLASTquery'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '7', '10', '11', '14', '17', '18', '21', '24', '25', '28', '31', '32', '35', '38', '39', '42', '43', '46', '49', '50', '53', '56', '57', '60', '63', '64', '67', '70', '71']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'query'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'database'}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'program'}; {'id': '7', 'type': 'default_parameter', 'children': ['8', '9']}; {'id': '8', 'type': 'identifier', 'children': [], 'value': 'filter'}; {'id': '9', 'type': 'None', 'children': []}; {'id': '10', 'type': 'line_continuation', 'children': [], 'value': '\\'}; {'id': '11', 'type': 'default_parameter', 'children': ['12', '13']}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'format_type'}; {'id': '13', 'type': 'None', 'children': []}; {'id': '14', 'type': 'default_parameter', 'children': ['15', '16']}; {'id': '15', 'type': 'identifier', 'children': [], 'value': 'expect'}; {'id': '16', 'type': 'None', 'children': []}; {'id': '17', 'type': 'line_continuation', 'children': [], 'value': '\\'}; {'id': '18', 'type': 'default_parameter', 'children': ['19', '20']}; {'id': '19', 'type': 'identifier', 'children': [], 'value': 'nucl_reward'}; {'id': '20', 'type': 'None', 'children': []}; {'id': '21', 'type': 'default_parameter', 'children': ['22', '23']}; {'id': '22', 'type': 'identifier', 'children': [], 'value': 'nucl_penalty'}; {'id': '23', 'type': 'None', 'children': []}; {'id': '24', 'type': 'line_continuation', 'children': [], 'value': '\\'}; {'id': '25', 'type': 'default_parameter', 'children': ['26', '27']}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'gapcosts'}; {'id': '27', 'type': 'None', 'children': []}; {'id': '28', 'type': 'default_parameter', 'children': ['29', '30']}; {'id': '29', 'type': 'identifier', 'children': [], 'value': 'matrix'}; {'id': '30', 'type': 'None', 'children': []}; {'id': '31', 'type': 'line_continuation', 'children': [], 'value': '\\'}; {'id': '32', 'type': 'default_parameter', 'children': ['33', '34']}; {'id': '33', 'type': 'identifier', 'children': [], 'value': 'hitlist_size'}; {'id': '34', 'type': 'None', 'children': []}; {'id': '35', 'type': 'default_parameter', 'children': ['36', '37']}; {'id': '36', 'type': 'identifier', 'children': [], 'value': 'descriptions'}; {'id': '37', 'type': 'None', 'children': []}; {'id': '38', 'type': 'line_continuation', 'children': [], 'value': '\\'}; {'id': '39', 'type': 'default_parameter', 'children': ['40', '41']}; {'id': '40', 'type': 'identifier', 'children': [], 'value': 'alignments'}; {'id': '41', 'type': 'None', 'children': []}; {'id': '42', 'type': 'line_continuation', 'children': [], 'value': '\\'}; {'id': '43', 'type': 'default_parameter', 'children': ['44', '45']}; {'id': '44', 'type': 'identifier', 'children': [], 'value': 'ncbi_gi'}; {'id': '45', 'type': 'None', 'children': []}; {'id': '46', 'type': 'default_parameter', 'children': ['47', '48']}; {'id': '47', 'type': 'identifier', 'children': [], 'value': 'threshold'}; {'id': '48', 'type': 'None', 'children': []}; {'id': '49', 'type': 'line_continuation', 'children': [], 'value': '\\'}; {'id': '50', 'type': 'default_parameter', 'children': ['51', '52']}; {'id': '51', 'type': 'identifier', 'children': [], 'value': 'word_size'}; {'id': '52', 'type': 'None', 'children': []}; {'id': '53', 'type': 'default_parameter', 'children': ['54', '55']}; {'id': '54', 'type': 'identifier', 'children': [], 'value': 'composition_based_statistics'}; {'id': '55', 'type': 'None', 'children': []}; {'id': '56', 'type': 'line_continuation', 'children': [], 'value': '\\'}; {'id': '57', 'type': 'default_parameter', 'children': ['58', '59']}; {'id': '58', 'type': 'identifier', 'children': [], 'value': 'organism'}; {'id': '59', 'type': 'None', 'children': []}; {'id': '60', 'type': 'default_parameter', 'children': ['61', '62']}; {'id': '61', 'type': 'identifier', 'children': [], 'value': 'others'}; {'id': '62', 'type': 'None', 'children': []}; {'id': '63', 'type': 'line_continuation', 'children': [], 'value': '\\'}; {'id': '64', 'type': 'default_parameter', 'children': ['65', '66']}; {'id': '65', 'type': 'identifier', 'children': [], 'value': 'num_threads'}; {'id': '66', 'type': 'None', 'children': []}; {'id': '67', 'type': 'default_parameter', 'children': ['68', '69']}; {'id': '68', 'type': 'identifier', 'children': [], 'value': 'baseURL'}; {'id': '69', 'type': 'string', 'children': [], 'value': '"http://blast.ncbi.nlm.nih.gov"'}; {'id': '70', 'type': 'line_continuation', 'children': [], 'value': '\\'}; {'id': '71', 'type': 'default_parameter', 'children': ['72', '73']}; {'id': '72', 'type': 'identifier', 'children': [], 'value': 'verbose'}; {'id': '73', 'type': 'False', 'children': []}; {'id': '74', 'type': 'block', 'children': ['75', '116', '122', '147', '211', '222', '228', '244', '255', '266', '278', '311']}; {'id': '75', 'type': 'if_statement', 'children': ['76', '77', '110']}; {'id': '76', 'type': 'identifier', 'children': [], 'value': 'organism'}; {'id': '77', 'type': 'block', 'children': ['78', '106']}; {'id': '78', 'type': 'expression_statement', 'children': ['79']}; {'id': '79', 'type': 'assignment', 'children': ['80', '81']}; {'id': '80', 'type': 'identifier', 'children': [], 'value': 'organism'}; {'id': '81', 'type': 'call', 'children': ['82', '103']}; {'id': '82', 'type': 'attribute', 'children': ['83', '102']}; {'id': '83', 'type': 'call', 'children': ['84', '99']}; {'id': '84', 'type': 'attribute', 'children': ['85', '98']}; {'id': '85', 'type': 'call', 'children': ['86', '95']}; {'id': '86', 'type': 'attribute', 'children': ['87', '94']}; {'id': '87', 'type': 'call', 'children': ['88', '91']}; {'id': '88', 'type': 'attribute', 'children': ['89', '90']}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'organism'}; {'id': '90', 'type': 'identifier', 'children': [], 'value': 'replace'}; {'id': '91', 'type': 'argument_list', 'children': ['92', '93']}; {'id': '92', 'type': 'string', 'children': [], 'value': '" "'}; {'id': '93', 'type': 'string', 'children': [], 'value': '"%20"'}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'replace'}; {'id': '95', 'type': 'argument_list', 'children': ['96', '97']}; {'id': '96', 'type': 'string', 'children': [], 'value': '"("'}; {'id': '97', 'type': 'string', 'children': [], 'value': '"%28"'}; {'id': '98', 'type': 'identifier', 'children': [], 'value': 'replace'}; {'id': '99', 'type': 'argument_list', 'children': ['100', '101']}; {'id': '100', 'type': 'string', 'children': [], 'value': '")"'}; {'id': '101', 'type': 'string', 'children': [], 'value': '"%29"'}; {'id': '102', 'type': 'identifier', 'children': [], 'value': 'replace'}; {'id': '103', 'type': 'argument_list', 'children': ['104', '105']}; {'id': '104', 'type': 'string', 'children': [], 'value': '":"'}; {'id': '105', 'type': 'string', 'children': [], 'value': '"%3A"'}; {'id': '106', 'type': 'expression_statement', 'children': ['107']}; {'id': '107', 'type': 'assignment', 'children': ['108', '109']}; {'id': '108', 'type': 'identifier', 'children': [], 'value': 'EQ_MENU'}; {'id': '109', 'type': 'identifier', 'children': [], 'value': 'organism'}; {'id': '110', 'type': 'else_clause', 'children': ['111']}; {'id': '111', 'type': 'block', 'children': ['112']}; {'id': '112', 'type': 'expression_statement', 'children': ['113']}; {'id': '113', 'type': 'assignment', 'children': ['114', '115']}; {'id': '114', 'type': 'identifier', 'children': [], 'value': 'EQ_MENU'}; {'id': '115', 'type': 'None', 'children': []}; {'id': '116', 'type': 'expression_statement', 'children': ['117']}; {'id': '117', 'type': 'assignment', 'children': ['118', '119']}; {'id': '118', 'type': 'identifier', 'children': [], 'value': 'URL'}; {'id': '119', 'type': 'binary_operator', 'children': ['120', '121'], 'value': '+'}; {'id': '120', 'type': 'identifier', 'children': [], 'value': 'baseURL'}; {'id': '121', 'type': 'string', 'children': [], 'value': '"/Blast.cgi?"'}; {'id': '122', 'type': 'expression_statement', 'children': ['123']}; {'id': '123', 'type': 'assignment', 'children': ['124', '125']}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'URL'}; {'id': '125', 'type': 'binary_operator', 'children': ['126', '143'], 'value': '+'}; {'id': '126', 'type': 'binary_operator', 'children': ['127', '142'], 'value': '+'}; {'id': '127', 'type': 'binary_operator', 'children': ['128', '138'], 'value': '+'}; {'id': '128', 'type': 'binary_operator', 'children': ['129', '137'], 'value': '+'}; {'id': '129', 'type': 'binary_operator', 'children': ['130', '133'], 'value': '+'}; {'id': '130', 'type': 'binary_operator', 'children': ['131', '132'], 'value': '+'}; {'id': '131', 'type': 'identifier', 'children': [], 'value': 'URL'}; {'id': '132', 'type': 'string', 'children': [], 'value': '"QUERY="'}; {'id': '133', 'type': 'call', 'children': ['134', '135']}; {'id': '134', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '135', 'type': 'argument_list', 'children': ['136']}; {'id': '136', 'type': 'identifier', 'children': [], 'value': 'query'}; {'id': '137', 'type': 'string', 'children': [], 'value': '"&DATABASE="'}; {'id': '138', 'type': 'call', 'children': ['139', '140']}; {'id': '139', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '140', 'type': 'argument_list', 'children': ['141']}; {'id': '141', 'type': 'identifier', 'children': [], 'value': 'database'}; {'id': '142', 'type': 'string', 'children': [], 'value': '"&PROGRAM="'}; {'id': '143', 'type': 'call', 'children': ['144', '145']}; {'id': '144', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '145', 'type': 'argument_list', 'children': ['146']}; {'id': '146', 'type': 'identifier', 'children': [], 'value': 'program'}; {'id': '147', 'type': 'for_statement', 'children': ['148', '151', '192']}; {'id': '148', 'type': 'pattern_list', 'children': ['149', '150']}; {'id': '149', 'type': 'identifier', 'children': [], 'value': 'o'}; {'id': '150', 'type': 'identifier', 'children': [], 'value': 'varname'}; {'id': '151', 'type': 'call', 'children': ['152', '153']}; {'id': '152', 'type': 'identifier', 'children': [], 'value': 'zip'}; {'id': '153', 'type': 'argument_list', 'children': ['154', '174', '175']}; {'id': '154', 'type': 'list', 'children': ['155', '156', '157', '158', '159', '160', '161', '162', '163', '164', '165', '166', '167', '168', '169', '170', '171', '172', '173'], 'value': '[filter, format_type, expect, nucl_reward, nucl_penalty,\\\n gapcosts, matrix, hitlist_size, descriptions, alignments,\\\n ncbi_gi, threshold, word_size, composition_based_statistics,\\\n EQ_MENU, num_threads]'}; {'id': '155', 'type': 'identifier', 'children': [], 'value': 'filter'}; {'id': '156', 'type': 'identifier', 'children': [], 'value': 'format_type'}; {'id': '157', 'type': 'identifier', 'children': [], 'value': 'expect'}; {'id': '158', 'type': 'identifier', 'children': [], 'value': 'nucl_reward'}; {'id': '159', 'type': 'identifier', 'children': [], 'value': 'nucl_penalty'}; {'id': '160', 'type': 'line_continuation', 'children': [], 'value': '\\'}; {'id': '161', 'type': 'identifier', 'children': [], 'value': 'gapcosts'}; {'id': '162', 'type': 'identifier', 'children': [], 'value': 'matrix'}; {'id': '163', 'type': 'identifier', 'children': [], 'value': 'hitlist_size'}; {'id': '164', 'type': 'identifier', 'children': [], 'value': 'descriptions'}; {'id': '165', 'type': 'identifier', 'children': [], 'value': 'alignments'}; {'id': '166', 'type': 'line_continuation', 'children': [], 'value': '\\'}; {'id': '167', 'type': 'identifier', 'children': [], 'value': 'ncbi_gi'}; {'id': '168', 'type': 'identifier', 'children': [], 'value': 'threshold'}; {'id': '169', 'type': 'identifier', 'children': [], 'value': 'word_size'}; {'id': '170', 'type': 'identifier', 'children': [], 'value': 'composition_based_statistics'}; {'id': '171', 'type': 'line_continuation', 'children': [], 'value': '\\'}; {'id': '172', 'type': 'identifier', 'children': [], 'value': 'EQ_MENU'}; {'id': '173', 'type': 'identifier', 'children': [], 'value': 'num_threads'}; {'id': '174', 'type': 'line_continuation', 'children': [], 'value': '\\'}; {'id': '175', 'type': 'list', 'children': ['176', '177', '178', '179', '180', '181', '182', '183', '184', '185', '186', '187', '188', '189', '190', '191'], 'value': "['FILTER' , 'FORMAT_TYPE', 'EXPECT', 'NUCL_REWARD', 'NUCL_PENALTY',\\\n 'GAPCOSTS', 'MATRIX', 'HITLIST_SIZE', 'DESCRIPTIONS', 'ALIGNMENTS',\\\n 'NCBI_GI', 'THRESHOLD', 'WORD_SIZE', 'COMPOSITION_BASED_STATISTICS',\\\n 'EQ_MENU', 'NUM_THREADS']"}; {'id': '176', 'type': 'string', 'children': [], 'value': "'FILTER'"}; {'id': '177', 'type': 'string', 'children': [], 'value': "'FORMAT_TYPE'"}; {'id': '178', 'type': 'string', 'children': [], 'value': "'EXPECT'"}; {'id': '179', 'type': 'string', 'children': [], 'value': "'NUCL_REWARD'"}; {'id': '180', 'type': 'string', 'children': [], 'value': "'NUCL_PENALTY'"}; {'id': '181', 'type': 'string', 'children': [], 'value': "'GAPCOSTS'"}; {'id': '182', 'type': 'string', 'children': [], 'value': "'MATRIX'"}; {'id': '183', 'type': 'string', 'children': [], 'value': "'HITLIST_SIZE'"}; {'id': '184', 'type': 'string', 'children': [], 'value': "'DESCRIPTIONS'"}; {'id': '185', 'type': 'string', 'children': [], 'value': "'ALIGNMENTS'"}; {'id': '186', 'type': 'string', 'children': [], 'value': "'NCBI_GI'"}; {'id': '187', 'type': 'string', 'children': [], 'value': "'THRESHOLD'"}; {'id': '188', 'type': 'string', 'children': [], 'value': "'WORD_SIZE'"}; {'id': '189', 'type': 'string', 'children': [], 'value': "'COMPOSITION_BASED_STATISTICS'"}; {'id': '190', 'type': 'string', 'children': [], 'value': "'EQ_MENU'"}; {'id': '191', 'type': 'string', 'children': [], 'value': "'NUM_THREADS'"}; {'id': '192', 'type': 'block', 'children': ['193']}; {'id': '193', 'type': 'if_statement', 'children': ['194', '195']}; {'id': '194', 'type': 'identifier', 'children': [], 'value': 'o'}; {'id': '195', 'type': 'block', 'children': ['196']}; {'id': '196', 'type': 'expression_statement', 'children': ['197']}; {'id': '197', 'type': 'assignment', 'children': ['198', '199']}; {'id': '198', 'type': 'identifier', 'children': [], 'value': 'URL'}; {'id': '199', 'type': 'binary_operator', 'children': ['200', '207'], 'value': '+'}; {'id': '200', 'type': 'binary_operator', 'children': ['201', '206'], 'value': '+'}; {'id': '201', 'type': 'binary_operator', 'children': ['202', '205'], 'value': '+'}; {'id': '202', 'type': 'binary_operator', 'children': ['203', '204'], 'value': '+'}; {'id': '203', 'type': 'identifier', 'children': [], 'value': 'URL'}; {'id': '204', 'type': 'string', 'children': [], 'value': '"&"'}; {'id': '205', 'type': 'identifier', 'children': [], 'value': 'varname'}; {'id': '206', 'type': 'string', 'children': [], 'value': '"="'}; {'id': '207', 'type': 'call', 'children': ['208', '209']}; {'id': '208', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '209', 'type': 'argument_list', 'children': ['210']}; {'id': '210', 'type': 'identifier', 'children': [], 'value': 'o'}; {'id': '211', 'type': 'if_statement', 'children': ['212', '213']}; {'id': '212', 'type': 'identifier', 'children': [], 'value': 'others'}; {'id': '213', 'type': 'block', 'children': ['214']}; {'id': '214', 'type': 'expression_statement', 'children': ['215']}; {'id': '215', 'type': 'assignment', 'children': ['216', '217']}; {'id': '216', 'type': 'identifier', 'children': [], 'value': 'URL'}; {'id': '217', 'type': 'binary_operator', 'children': ['218', '221'], 'value': '+'}; {'id': '218', 'type': 'binary_operator', 'children': ['219', '220'], 'value': '+'}; {'id': '219', 'type': 'identifier', 'children': [], 'value': 'URL'}; {'id': '220', 'type': 'string', 'children': [], 'value': '"&"'}; {'id': '221', 'type': 'identifier', 'children': [], 'value': 'others'}; {'id': '222', 'type': 'expression_statement', 'children': ['223']}; {'id': '223', 'type': 'assignment', 'children': ['224', '225']}; {'id': '224', 'type': 'identifier', 'children': [], 'value': 'URL'}; {'id': '225', 'type': 'binary_operator', 'children': ['226', '227'], 'value': '+'}; {'id': '226', 'type': 'identifier', 'children': [], 'value': 'URL'}; {'id': '227', 'type': 'string', 'children': [], 'value': '"&CMD=Put"'}; {'id': '228', 'type': 'if_statement', 'children': ['229', '230']}; {'id': '229', 'type': 'identifier', 'children': [], 'value': 'verbose'}; {'id': '230', 'type': 'block', 'children': ['231', '236']}; {'id': '231', 'type': 'expression_statement', 'children': ['232']}; {'id': '232', 'type': 'call', 'children': ['233', '234']}; {'id': '233', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '234', 'type': 'argument_list', 'children': ['235']}; {'id': '235', 'type': 'identifier', 'children': [], 'value': 'URL'}; {'id': '236', 'type': 'expression_statement', 'children': ['237']}; {'id': '237', 'type': 'call', 'children': ['238', '243']}; {'id': '238', 'type': 'attribute', 'children': ['239', '242']}; {'id': '239', 'type': 'attribute', 'children': ['240', '241']}; {'id': '240', 'type': 'identifier', 'children': [], 'value': 'sys'}; {'id': '241', 'type': 'identifier', 'children': [], 'value': 'stdout'}; {'id': '242', 'type': 'identifier', 'children': [], 'value': 'flush'}; {'id': '243', 'type': 'argument_list', 'children': []}; {'id': '244', 'type': 'expression_statement', 'children': ['245']}; {'id': '245', 'type': 'assignment', 'children': ['246', '247']}; {'id': '246', 'type': 'identifier', 'children': [], 'value': 'response'}; {'id': '247', 'type': 'call', 'children': ['248', '251']}; {'id': '248', 'type': 'attribute', 'children': ['249', '250']}; {'id': '249', 'type': 'identifier', 'children': [], 'value': 'requests'}; {'id': '250', 'type': 'identifier', 'children': [], 'value': 'get'}; {'id': '251', 'type': 'argument_list', 'children': ['252']}; {'id': '252', 'type': 'keyword_argument', 'children': ['253', '254']}; {'id': '253', 'type': 'identifier', 'children': [], 'value': 'url'}; {'id': '254', 'type': 'identifier', 'children': [], 'value': 'URL'}; {'id': '255', 'type': 'expression_statement', 'children': ['256']}; {'id': '256', 'type': 'assignment', 'children': ['257', '258']}; {'id': '257', 'type': 'identifier', 'children': [], 'value': 'r'}; {'id': '258', 'type': 'call', 'children': ['259', '264']}; {'id': '259', 'type': 'attribute', 'children': ['260', '263']}; {'id': '260', 'type': 'attribute', 'children': ['261', '262']}; {'id': '261', 'type': 'identifier', 'children': [], 'value': 'response'}; {'id': '262', 'type': 'identifier', 'children': [], 'value': 'content'}; {'id': '263', 'type': 'identifier', 'children': [], 'value': 'split'}; {'id': '264', 'type': 'argument_list', 'children': ['265']}; {'id': '265', 'type': 'string', 'children': [], 'value': '"\\n"'}; {'id': '266', 'type': 'expression_statement', 'children': ['267']}; {'id': '267', 'type': 'assignment', 'children': ['268', '269']}; {'id': '268', 'type': 'identifier', 'children': [], 'value': 'RID'}; {'id': '269', 'type': 'list_comprehension', 'children': ['270', '271', '274']}; {'id': '270', 'type': 'identifier', 'children': [], 'value': 's'}; {'id': '271', 'type': 'for_in_clause', 'children': ['272', '273']}; {'id': '272', 'type': 'identifier', 'children': [], 'value': 's'}; {'id': '273', 'type': 'identifier', 'children': [], 'value': 'r'}; {'id': '274', 'type': 'if_clause', 'children': ['275']}; {'id': '275', 'type': 'comparison_operator', 'children': ['276', '277'], 'value': 'in'}; {'id': '276', 'type': 'string', 'children': [], 'value': '"RID = "'}; {'id': '277', 'type': 'identifier', 'children': [], 'value': 's'}; {'id': '278', 'type': 'if_statement', 'children': ['279', '285', '300']}; {'id': '279', 'type': 'comparison_operator', 'children': ['280', '284'], 'value': '>'}; {'id': '280', 'type': 'call', 'children': ['281', '282']}; {'id': '281', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '282', 'type': 'argument_list', 'children': ['283']}; {'id': '283', 'type': 'identifier', 'children': [], 'value': 'RID'}; {'id': '284', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '285', 'type': 'block', 'children': ['286']}; {'id': '286', 'type': 'expression_statement', 'children': ['287']}; {'id': '287', 'type': 'assignment', 'children': ['288', '289']}; {'id': '288', 'type': 'identifier', 'children': [], 'value': 'RID'}; {'id': '289', 'type': 'subscript', 'children': ['290', '298']}; {'id': '290', 'type': 'call', 'children': ['291', '296']}; {'id': '291', 'type': 'attribute', 'children': ['292', '295']}; {'id': '292', 'type': 'subscript', 'children': ['293', '294']}; {'id': '293', 'type': 'identifier', 'children': [], 'value': 'RID'}; {'id': '294', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '295', 'type': 'identifier', 'children': [], 'value': 'split'}; {'id': '296', 'type': 'argument_list', 'children': ['297']}; {'id': '297', 'type': 'string', 'children': [], 'value': '" "'}; {'id': '298', 'type': 'unary_operator', 'children': ['299'], 'value': '-'}; {'id': '299', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '300', 'type': 'else_clause', 'children': ['301']}; {'id': '301', 'type': 'block', 'children': ['302', '307']}; {'id': '302', 'type': 'expression_statement', 'children': ['303']}; {'id': '303', 'type': 'call', 'children': ['304', '305']}; {'id': '304', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '305', 'type': 'argument_list', 'children': ['306']}; {'id': '306', 'type': 'string', 'children': [], 'value': '"Could not return an RID for this query."'}; {'id': '307', 'type': 'expression_statement', 'children': ['308']}; {'id': '308', 'type': 'assignment', 'children': ['309', '310']}; {'id': '309', 'type': 'identifier', 'children': [], 'value': 'RID'}; {'id': '310', 'type': 'None', 'children': []}; {'id': '311', 'type': 'return_statement', 'children': ['312']}; {'id': '312', 'type': 'identifier', 'children': [], 'value': 'RID'} | def BLASTquery(query,database,program,filter=None,\
format_type=None, expect=None,\
nucl_reward=None, nucl_penalty=None,\
gapcosts=None, matrix=None,\
hitlist_size=None, descriptions=None,\
alignments=None,\
ncbi_gi=None, threshold=None,\
word_size=None, composition_based_statistics=None,\
organism=None, others=None,\
num_threads=None, baseURL="http://blast.ncbi.nlm.nih.gov",\
verbose=False):
if organism:
organism=organism.replace(" ", "%20").replace("(", "%28").replace(")", "%29").replace(":", "%3A")
EQ_MENU=organism
else:
EQ_MENU=None
URL=baseURL+"/Blast.cgi?"
URL=URL+"QUERY="+str(query)+"&DATABASE="+str(database)+"&PROGRAM="+str(program)
for o,varname in zip([filter, format_type, expect, nucl_reward, nucl_penalty,\
gapcosts, matrix, hitlist_size, descriptions, alignments,\
ncbi_gi, threshold, word_size, composition_based_statistics,\
EQ_MENU, num_threads],\
['FILTER' , 'FORMAT_TYPE', 'EXPECT', 'NUCL_REWARD', 'NUCL_PENALTY',\
'GAPCOSTS', 'MATRIX', 'HITLIST_SIZE', 'DESCRIPTIONS', 'ALIGNMENTS',\
'NCBI_GI', 'THRESHOLD', 'WORD_SIZE', 'COMPOSITION_BASED_STATISTICS',\
'EQ_MENU', 'NUM_THREADS']):
if o:
URL=URL+"&"+ varname +"="+str(o)
if others:
URL=URL+"&"+others
URL=URL+"&CMD=Put"
if verbose:
print(URL)
sys.stdout.flush()
response=requests.get(url = URL)
r=response.content.split("\n")
RID=[ s for s in r if "RID = " in s ]
if len(RID) > 0:
RID=RID[0].split(" ")[-1]
else:
print("Could not return an RID for this query.")
RID=None
return RID |
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{'id': '13', 'type': 'string', 'children': [], 'value': "'type'"}; {'id': '14', 'type': 'tuple', 'children': ['15', '16']}; {'id': '15', 'type': 'string', 'children': [], 'value': "'star'"}; {'id': '16', 'type': 'string', 'children': [], 'value': "'starlong'"}; {'id': '17', 'type': 'expression_statement', 'children': ['18']}; {'id': '18', 'type': 'assignment', 'children': ['19', '20']}; {'id': '19', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '20', 'type': 'call', 'children': ['21', '24']}; {'id': '21', 'type': 'attribute', 'children': ['22', '23']}; {'id': '22', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '23', 'type': 'identifier', 'children': [], 'value': 'getcwd'}; {'id': '24', 'type': 'argument_list', 'children': []}; {'id': '25', 'type': 'expression_statement', 'children': ['26']}; {'id': '26', 'type': 'assignment', 'children': ['27', '28']}; {'id': '27', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '28', 'type': 'dictionary', 'children': ['29', '34', '39']}; {'id': '29', 'type': 'pair', 'children': ['30', '31']}; {'id': '30', 'type': 'string', 'children': [], 'value': "'rna_cutadapt_1.fastq'"}; {'id': '31', 'type': 'subscript', 'children': ['32', '33']}; {'id': '32', 'type': 'identifier', 'children': [], 'value': 'fastqs'}; {'id': '33', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '34', 'type': 'pair', 'children': ['35', '36']}; {'id': '35', 'type': 'string', 'children': [], 'value': "'rna_cutadapt_2.fastq'"}; {'id': '36', 'type': 'subscript', 'children': ['37', '38']}; {'id': '37', 'type': 'identifier', 'children': [], 'value': 'fastqs'}; {'id': '38', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '39', 'type': 'pair', 'children': ['40', '41']}; {'id': '40', 'type': 'string', 'children': [], 'value': "'star_index.tar.gz'"}; {'id': '41', 'type': 'subscript', 'children': ['42', '43']}; {'id': '42', 'type': 'identifier', 'children': [], 'value': 'star_options'}; {'id': '43', 'type': 'string', 'children': [], 'value': "'index'"}; {'id': '44', 'type': 'expression_statement', 'children': ['45']}; {'id': '45', 'type': 'assignment', 'children': ['46', '47']}; {'id': '46', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '47', 'type': 'call', 'children': ['48', '49']}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'get_files_from_filestore'}; {'id': '49', 'type': 'argument_list', 'children': ['50', '51', '52', '53']}; {'id': '50', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '51', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '52', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '53', 'type': 'keyword_argument', 'children': ['54', '55']}; {'id': '54', 'type': 'identifier', 'children': [], 'value': 'docker'}; {'id': '55', 'type': 'False', 'children': []}; {'id': '56', 'type': 'expression_statement', 'children': ['57']}; {'id': '57', 'type': 'assignment', 'children': ['58', '59']}; {'id': '58', 'type': 'identifier', 'children': [], 'value': 'gz'}; {'id': '59', 'type': 'conditional_expression', 'children': ['60', '61', '67'], 'value': 'if'}; {'id': '60', 'type': 'string', 'children': [], 'value': "'.gz'"}; {'id': '61', 'type': 'call', 'children': ['62', '63']}; {'id': '62', 'type': 'identifier', 'children': [], 'value': 'is_gzipfile'}; {'id': '63', 'type': 'argument_list', 'children': ['64']}; {'id': '64', 'type': 'subscript', 'children': ['65', '66']}; {'id': '65', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '66', 'type': 'string', 'children': [], 'value': "'rna_cutadapt_1.fastq'"}; {'id': '67', 'type': 'string', 'children': [], 'value': "''"}; {'id': '68', 'type': 'if_statement', 'children': ['69', '70']}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'gz'}; {'id': '70', 'type': 'block', 'children': ['71']}; {'id': '71', 'type': 'for_statement', 'children': ['72', '73', '76']}; {'id': '72', 'type': 'identifier', 'children': [], 'value': 'read_file'}; {'id': '73', 'type': 'expression_list', 'children': ['74', '75']}; {'id': '74', 'type': 'string', 'children': [], 'value': "'rna_cutadapt_1.fastq'"}; {'id': '75', 'type': 'string', 'children': [], 'value': "'rna_cutadapt_2.fastq'"}; {'id': '76', 'type': 'block', 'children': ['77', '87']}; {'id': '77', 'type': 'expression_statement', 'children': ['78']}; {'id': '78', 'type': 'call', 'children': ['79', '82']}; {'id': '79', 'type': 'attribute', 'children': ['80', '81']}; {'id': '80', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '81', 'type': 'identifier', 'children': [], 'value': 'symlink'}; {'id': '82', 'type': 'argument_list', 'children': ['83', '84']}; {'id': '83', 'type': 'identifier', 'children': [], 'value': 'read_file'}; {'id': '84', 'type': 'binary_operator', 'children': ['85', '86'], 'value': '+'}; {'id': '85', 'type': 'identifier', 'children': [], 'value': 'read_file'}; {'id': '86', 'type': 'identifier', 'children': [], 'value': 'gz'}; {'id': '87', 'type': 'expression_statement', 'children': ['88']}; {'id': '88', 'type': 'assignment', 'children': ['89', '94']}; {'id': '89', 'type': 'subscript', 'children': ['90', '91']}; {'id': '90', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '91', 'type': 'binary_operator', 'children': ['92', '93'], 'value': '+'}; {'id': '92', 'type': 'identifier', 'children': [], 'value': 'read_file'}; {'id': '93', 'type': 'identifier', 'children': [], 'value': 'gz'}; {'id': '94', 'type': 'binary_operator', 'children': ['95', '98'], 'value': '+'}; {'id': '95', 'type': 'subscript', 'children': ['96', '97']}; {'id': '96', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '97', 'type': 'identifier', 'children': [], 'value': 'read_file'}; {'id': '98', 'type': 'identifier', 'children': [], 'value': 'gz'}; {'id': '99', 'type': 'expression_statement', 'children': ['100']}; {'id': '100', 'type': 'assignment', 'children': ['101', '104']}; {'id': '101', 'type': 'subscript', 'children': ['102', '103']}; {'id': '102', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '103', 'type': 'string', 'children': [], 'value': "'star_index'"}; {'id': '104', 'type': 'call', 'children': ['105', '106']}; {'id': '105', 'type': 'identifier', 'children': [], 'value': 'untargz'}; {'id': '106', 'type': 'argument_list', 'children': ['107', '110']}; {'id': '107', 'type': 'subscript', 'children': ['108', '109']}; {'id': '108', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '109', 'type': 'string', 'children': [], 'value': "'star_index.tar.gz'"}; {'id': '110', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '111', 'type': 'expression_statement', 'children': ['112']}; {'id': '112', 'type': 'assignment', 'children': ['113', '114']}; {'id': '113', 'type': 'identifier', 'children': [], 'value': 'star_fusion_idx'}; {'id': '114', 'type': 'call', 'children': ['115', '120']}; {'id': '115', 'type': 'attribute', 'children': ['116', '119']}; {'id': '116', 'type': 'attribute', 'children': ['117', '118']}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '118', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '119', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '120', 'type': 'argument_list', 'children': ['121', '124']}; {'id': '121', 'type': 'subscript', 'children': ['122', '123']}; {'id': '122', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '123', 'type': 'string', 'children': [], 'value': "'star_index'"}; {'id': '124', 'type': 'string', 'children': [], 'value': "'ref_genome.fa.star.idx'"}; {'id': '125', 'type': 'if_statement', 'children': ['126', '134']}; {'id': '126', 'type': 'call', 'children': ['127', '132']}; {'id': '127', 'type': 'attribute', 'children': ['128', '131']}; {'id': '128', 'type': 'attribute', 'children': ['129', '130']}; {'id': '129', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '130', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '131', 'type': 'identifier', 'children': [], 'value': 'exists'}; {'id': '132', 'type': 'argument_list', 'children': ['133']}; {'id': '133', 'type': 'identifier', 'children': [], 'value': 'star_fusion_idx'}; {'id': '134', 'type': 'block', 'children': ['135']}; {'id': '135', 'type': 'expression_statement', 'children': ['136']}; {'id': '136', 'type': 'assignment', 'children': ['137', '140']}; {'id': '137', 'type': 'subscript', 'children': ['138', '139']}; {'id': '138', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '139', 'type': 'string', 'children': [], 'value': "'star_index'"}; {'id': '140', 'type': 'identifier', 'children': [], 'value': 'star_fusion_idx'}; {'id': '141', 'type': 'expression_statement', 'children': ['142']}; {'id': '142', 'type': 'assignment', 'children': ['143', '144']}; {'id': '143', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '144', 'type': 'dictionary_comprehension', 'children': ['145', '154']}; {'id': '145', 'type': 'pair', 'children': ['146', '147']}; {'id': '146', 'type': 'identifier', 'children': [], 'value': 'key'}; {'id': '147', 'type': 'call', 'children': ['148', '149']}; {'id': '148', 'type': 'identifier', 'children': [], 'value': 'docker_path'}; {'id': '149', 'type': 'argument_list', 'children': ['150', '151']}; {'id': '150', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '151', 'type': 'keyword_argument', 'children': ['152', '153']}; {'id': '152', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '153', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '154', 'type': 'for_in_clause', 'children': ['155', '158']}; {'id': '155', 'type': 'pattern_list', 'children': ['156', '157']}; {'id': '156', 'type': 'identifier', 'children': [], 'value': 'key'}; {'id': '157', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '158', 'type': 'call', 'children': ['159', '162']}; {'id': '159', 'type': 'attribute', 'children': ['160', '161']}; {'id': '160', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '161', 'type': 'identifier', 'children': [], 'value': 'items'}; {'id': '162', 'type': 'argument_list', 'children': []}; {'id': '163', 'type': 'expression_statement', 'children': ['164']}; {'id': '164', 'type': 'assignment', 'children': ['165', '166']}; {'id': '165', 'type': 'identifier', 'children': [], 'value': 'parameters'}; {'id': '166', 'type': 'list', 'children': ['167', '168', '174', '175', '178', '179', '180', '181', '182', '183', '184', '185', '186', '187', '188', '189', '190', '191', '192', '193', '194', '195', '196', '197', '198', '199', '200', '201', '202', '203', '208', '213', '214', '215', '216', '217', '218', '219', '220', '221', '222', '223'], 'value': "['--runThreadN', str(star_options['n']),\n '--genomeDir', input_files['star_index'],\n '--twopassMode', 'Basic',\n '--outReadsUnmapped', 'None',\n '--chimSegmentMin', '12',\n '--chimJunctionOverhangMin', '12',\n '--alignSJDBoverhangMin', '10',\n '--alignMatesGapMax', '200000',\n '--alignIntronMax', '200000',\n '--chimSegmentReadGapMax', 'parameter', '3',\n '--alignSJstitchMismatchNmax', '5', '-1', '5', '5',\n '--outFileNamePrefix', 'rna',\n '--readFilesIn',\n input_files['rna_cutadapt_1.fastq' + gz],\n input_files['rna_cutadapt_2.fastq' + gz],\n '--outSAMattributes', 'NH', 'HI', 'AS', 'NM', 'MD',\n '--outSAMtype', 'BAM', 'Unsorted',\n '--quantMode', 'TranscriptomeSAM']"}; {'id': '167', 'type': 'string', 'children': [], 'value': "'--runThreadN'"}; {'id': '168', 'type': 'call', 'children': ['169', '170']}; {'id': '169', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '170', 'type': 'argument_list', 'children': ['171']}; {'id': '171', 'type': 'subscript', 'children': ['172', '173']}; {'id': '172', 'type': 'identifier', 'children': [], 'value': 'star_options'}; {'id': '173', 'type': 'string', 'children': [], 'value': "'n'"}; {'id': '174', 'type': 'string', 'children': [], 'value': "'--genomeDir'"}; {'id': '175', 'type': 'subscript', 'children': ['176', '177']}; {'id': '176', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '177', 'type': 'string', 'children': [], 'value': "'star_index'"}; {'id': '178', 'type': 'string', 'children': [], 'value': "'--twopassMode'"}; {'id': '179', 'type': 'string', 'children': [], 'value': "'Basic'"}; {'id': '180', 'type': 'string', 'children': [], 'value': "'--outReadsUnmapped'"}; {'id': '181', 'type': 'string', 'children': [], 'value': "'None'"}; {'id': '182', 'type': 'string', 'children': [], 'value': "'--chimSegmentMin'"}; {'id': '183', 'type': 'string', 'children': [], 'value': "'12'"}; {'id': '184', 'type': 'string', 'children': [], 'value': "'--chimJunctionOverhangMin'"}; {'id': '185', 'type': 'string', 'children': [], 'value': "'12'"}; {'id': '186', 'type': 'string', 'children': [], 'value': "'--alignSJDBoverhangMin'"}; {'id': '187', 'type': 'string', 'children': [], 'value': "'10'"}; {'id': '188', 'type': 'string', 'children': [], 'value': "'--alignMatesGapMax'"}; {'id': '189', 'type': 'string', 'children': [], 'value': "'200000'"}; {'id': '190', 'type': 'string', 'children': [], 'value': "'--alignIntronMax'"}; {'id': '191', 'type': 'string', 'children': [], 'value': "'200000'"}; {'id': '192', 'type': 'string', 'children': [], 'value': "'--chimSegmentReadGapMax'"}; {'id': '193', 'type': 'string', 'children': [], 'value': "'parameter'"}; {'id': '194', 'type': 'string', 'children': [], 'value': "'3'"}; {'id': '195', 'type': 'string', 'children': [], 'value': "'--alignSJstitchMismatchNmax'"}; {'id': '196', 'type': 'string', 'children': [], 'value': "'5'"}; {'id': '197', 'type': 'string', 'children': [], 'value': "'-1'"}; {'id': '198', 'type': 'string', 'children': [], 'value': "'5'"}; {'id': '199', 'type': 'string', 'children': [], 'value': "'5'"}; {'id': '200', 'type': 'string', 'children': [], 'value': "'--outFileNamePrefix'"}; {'id': '201', 'type': 'string', 'children': [], 'value': "'rna'"}; {'id': '202', 'type': 'string', 'children': [], 'value': "'--readFilesIn'"}; {'id': '203', 'type': 'subscript', 'children': ['204', '205']}; {'id': '204', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '205', 'type': 'binary_operator', 'children': ['206', '207'], 'value': '+'}; {'id': '206', 'type': 'string', 'children': [], 'value': "'rna_cutadapt_1.fastq'"}; {'id': '207', 'type': 'identifier', 'children': [], 'value': 'gz'}; {'id': '208', 'type': 'subscript', 'children': ['209', '210']}; {'id': '209', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '210', 'type': 'binary_operator', 'children': ['211', '212'], 'value': '+'}; {'id': '211', 'type': 'string', 'children': [], 'value': "'rna_cutadapt_2.fastq'"}; {'id': '212', 'type': 'identifier', 'children': [], 'value': 'gz'}; {'id': '213', 'type': 'string', 'children': [], 'value': "'--outSAMattributes'"}; {'id': '214', 'type': 'string', 'children': [], 'value': "'NH'"}; {'id': '215', 'type': 'string', 'children': [], 'value': "'HI'"}; {'id': '216', 'type': 'string', 'children': [], 'value': "'AS'"}; {'id': '217', 'type': 'string', 'children': [], 'value': "'NM'"}; {'id': '218', 'type': 'string', 'children': [], 'value': "'MD'"}; {'id': '219', 'type': 'string', 'children': [], 'value': "'--outSAMtype'"}; {'id': '220', 'type': 'string', 'children': [], 'value': "'BAM'"}; {'id': '221', 'type': 'string', 'children': [], 'value': "'Unsorted'"}; {'id': '222', 'type': 'string', 'children': [], 'value': "'--quantMode'"}; {'id': '223', 'type': 'string', 'children': [], 'value': "'TranscriptomeSAM'"}; {'id': '224', 'type': 'if_statement', 'children': ['225', '226']}; {'id': '225', 'type': 'identifier', 'children': [], 'value': 'gz'}; {'id': '226', 'type': 'block', 'children': ['227']}; {'id': '227', 'type': 'expression_statement', 'children': ['228']}; {'id': '228', 'type': 'call', 'children': ['229', '232']}; {'id': '229', 'type': 'attribute', 'children': ['230', '231']}; {'id': '230', 'type': 'identifier', 'children': [], 'value': 'parameters'}; {'id': '231', 'type': 'identifier', 'children': [], 'value': 'extend'}; {'id': '232', 'type': 'argument_list', 'children': ['233']}; {'id': '233', 'type': 'list', 'children': ['234', '235'], 'value': "['--readFilesCommand', 'zcat']"}; {'id': '234', 'type': 'string', 'children': [], 'value': "'--readFilesCommand'"}; {'id': '235', 'type': 'string', 'children': [], 'value': "'zcat'"}; {'id': '236', 'type': 'if_statement', 'children': ['237', '242', '266']}; {'id': '237', 'type': 'comparison_operator', 'children': ['238', '241'], 'value': '=='}; {'id': '238', 'type': 'subscript', 'children': ['239', '240']}; {'id': '239', 'type': 'identifier', 'children': [], 'value': 'star_options'}; {'id': '240', 'type': 'string', 'children': [], 'value': "'type'"}; {'id': '241', 'type': 'string', 'children': [], 'value': "'star'"}; {'id': '242', 'type': 'block', 'children': ['243']}; {'id': '243', 'type': 'expression_statement', 'children': ['244']}; {'id': '244', 'type': 'call', 'children': ['245', '246']}; {'id': '245', 'type': 'identifier', 'children': [], 'value': 'docker_call'}; {'id': '246', 'type': 'argument_list', 'children': ['247', '250', '253', '256', '261']}; {'id': '247', 'type': 'keyword_argument', 'children': ['248', '249']}; {'id': '248', 'type': 'identifier', 'children': [], 'value': 'tool'}; {'id': '249', 'type': 'string', 'children': [], 'value': "'star'"}; {'id': '250', 'type': 'keyword_argument', 'children': ['251', '252']}; {'id': '251', 'type': 'identifier', 'children': [], 'value': 'tool_parameters'}; {'id': '252', 'type': 'identifier', 'children': [], 'value': 'parameters'}; {'id': '253', 'type': 'keyword_argument', 'children': ['254', '255']}; {'id': '254', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '255', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '256', 'type': 'keyword_argument', 'children': ['257', '258']}; {'id': '257', 'type': 'identifier', 'children': [], 'value': 'dockerhub'}; {'id': '258', 'type': 'subscript', 'children': ['259', '260']}; {'id': '259', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '260', 'type': 'string', 'children': [], 'value': "'dockerhub'"}; {'id': '261', 'type': 'keyword_argument', 'children': ['262', '263']}; {'id': '262', 'type': 'identifier', 'children': [], 'value': 'tool_version'}; {'id': '263', 'type': 'subscript', 'children': ['264', '265']}; {'id': '264', 'type': 'identifier', 'children': [], 'value': 'star_options'}; {'id': '265', 'type': 'string', 'children': [], 'value': "'version'"}; {'id': '266', 'type': 'else_clause', 'children': ['267']}; {'id': '267', 'type': 'block', 'children': ['268']}; {'id': '268', 'type': 'expression_statement', 'children': ['269']}; {'id': '269', 'type': 'call', 'children': ['270', '271']}; {'id': '270', 'type': 'identifier', 'children': [], 'value': 'docker_call'}; {'id': '271', 'type': 'argument_list', 'children': ['272', '275', '278', '281', '286']}; {'id': '272', 'type': 'keyword_argument', 'children': ['273', '274']}; {'id': '273', 'type': 'identifier', 'children': [], 'value': 'tool'}; {'id': '274', 'type': 'string', 'children': [], 'value': "'starlong'"}; {'id': '275', 'type': 'keyword_argument', 'children': ['276', '277']}; {'id': '276', 'type': 'identifier', 'children': [], 'value': 'tool_parameters'}; {'id': '277', 'type': 'identifier', 'children': [], 'value': 'parameters'}; {'id': '278', 'type': 'keyword_argument', 'children': ['279', '280']}; {'id': '279', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '280', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '281', 'type': 'keyword_argument', 'children': ['282', '283']}; {'id': '282', 'type': 'identifier', 'children': [], 'value': 'dockerhub'}; {'id': '283', 'type': 'subscript', 'children': ['284', '285']}; {'id': '284', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '285', 'type': 'string', 'children': [], 'value': "'dockerhub'"}; {'id': '286', 'type': 'keyword_argument', 'children': ['287', '288']}; {'id': '287', 'type': 'identifier', 'children': [], 'value': 'tool_version'}; {'id': '288', 'type': 'subscript', 'children': ['289', '290']}; {'id': '289', 'type': 'identifier', 'children': [], 'value': 'star_options'}; {'id': '290', 'type': 'string', 'children': [], 'value': "'version'"}; {'id': '291', 'type': 'expression_statement', 'children': ['292']}; {'id': '292', 'type': 'assignment', 'children': ['293', '294']}; {'id': '293', 'type': 'identifier', 'children': [], 'value': 'output_files'}; {'id': '294', 'type': 'call', 'children': ['295', '296']}; {'id': '295', 'type': 'identifier', 'children': [], 'value': 'defaultdict'}; {'id': '296', 'type': 'argument_list', 'children': []}; {'id': '297', 'type': 'for_statement', 'children': ['298', '299', '303']}; {'id': '298', 'type': 'identifier', 'children': [], 'value': 'output_file'}; {'id': '299', 'type': 'list', 'children': ['300', '301', '302'], 'value': "['rnaAligned.toTranscriptome.out.bam',\n 'rnaAligned.out.bam',\n 'rnaChimeric.out.junction']"}; {'id': '300', 'type': 'string', 'children': [], 'value': "'rnaAligned.toTranscriptome.out.bam'"}; {'id': '301', 'type': 'string', 'children': [], 'value': "'rnaAligned.out.bam'"}; {'id': '302', 'type': 'string', 'children': [], 'value': "'rnaChimeric.out.junction'"}; {'id': '303', 'type': 'block', 'children': ['304']}; {'id': '304', 'type': 'expression_statement', 'children': ['305']}; {'id': '305', 'type': 'assignment', 'children': ['306', '309']}; {'id': '306', 'type': 'subscript', 'children': ['307', '308']}; {'id': '307', 'type': 'identifier', 'children': [], 'value': 'output_files'}; {'id': '308', 'type': 'identifier', 'children': [], 'value': 'output_file'}; {'id': '309', 'type': 'call', 'children': ['310', '315']}; {'id': '310', 'type': 'attribute', 'children': ['311', '314']}; {'id': '311', 'type': 'attribute', 'children': ['312', '313']}; {'id': '312', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '313', 'type': 'identifier', 'children': [], 'value': 'fileStore'}; {'id': '314', 'type': 'identifier', 'children': [], 'value': 'writeGlobalFile'}; {'id': '315', 'type': 'argument_list', 'children': ['316']}; {'id': '316', 'type': 'call', 'children': ['317', '320']}; {'id': '317', 'type': 'attribute', 'children': ['318', '319']}; {'id': '318', 'type': 'string', 'children': [], 'value': "'/'"}; {'id': '319', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '320', 'type': 'argument_list', 'children': ['321']}; {'id': '321', 'type': 'list', 'children': ['322', '323'], 'value': '[work_dir, output_file]'}; {'id': '322', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '323', 'type': 'identifier', 'children': [], 'value': 'output_file'}; {'id': '324', 'type': 'expression_statement', 'children': ['325']}; {'id': '325', 'type': 'call', 'children': ['326', '327']}; {'id': '326', 'type': 'identifier', 'children': [], 'value': 'export_results'}; {'id': '327', 'type': 'argument_list', 'children': ['328', '329', '332', '333', '334']}; {'id': '328', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '329', 'type': 'subscript', 'children': ['330', '331']}; {'id': '330', 'type': 'identifier', 'children': [], 'value': 'output_files'}; {'id': '331', 'type': 'string', 'children': [], 'value': "'rnaAligned.toTranscriptome.out.bam'"}; {'id': '332', 'type': 'string', 'children': [], 'value': "'rna_transcriptome.bam'"}; {'id': '333', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '334', 'type': 'keyword_argument', 'children': ['335', '336']}; {'id': '335', 'type': 'identifier', 'children': [], 'value': 'subfolder'}; {'id': '336', 'type': 'string', 'children': [], 'value': "'alignments'"}; {'id': '337', 'type': 'expression_statement', 'children': ['338']}; {'id': '338', 'type': 'call', 'children': ['339', '340']}; {'id': '339', 'type': 'identifier', 'children': [], 'value': 'export_results'}; {'id': '340', 'type': 'argument_list', 'children': ['341', '342', '345', '346', '347']}; {'id': '341', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '342', 'type': 'subscript', 'children': ['343', '344']}; {'id': '343', 'type': 'identifier', 'children': [], 'value': 'output_files'}; {'id': '344', 'type': 'string', 'children': [], 'value': "'rnaChimeric.out.junction'"}; {'id': '345', 'type': 'string', 'children': [], 'value': "'rna_chimeric.junction'"}; {'id': '346', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '347', 'type': 'keyword_argument', 'children': ['348', '349']}; {'id': '348', 'type': 'identifier', 'children': [], 'value': 'subfolder'}; {'id': '349', 'type': 'string', 'children': [], 'value': "'mutations/fusions'"}; {'id': '350', 'type': 'expression_statement', 'children': ['351']}; {'id': '351', 'type': 'call', 'children': ['352', '357']}; {'id': '352', 'type': 'attribute', 'children': ['353', '356']}; {'id': '353', 'type': 'attribute', 'children': ['354', '355']}; {'id': '354', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '355', 'type': 'identifier', 'children': [], 'value': 'fileStore'}; {'id': '356', 'type': 'identifier', 'children': [], 'value': 'logToMaster'}; {'id': '357', 'type': 'argument_list', 'children': ['358']}; {'id': '358', 'type': 'binary_operator', 'children': ['359', '360'], 'value': '%'}; {'id': '359', 'type': 'string', 'children': [], 'value': "'Ran STAR on %s successfully'"}; {'id': '360', 'type': 'subscript', 'children': ['361', '362']}; {'id': '361', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '362', 'type': 'string', 'children': [], 'value': "'patient'"}; {'id': '363', 'type': 'return_statement', 'children': ['364']}; {'id': '364', 'type': 'identifier', 'children': [], 'value': 'output_files'} | def run_star(job, fastqs, univ_options, star_options):
assert star_options['type'] in ('star', 'starlong')
work_dir = os.getcwd()
input_files = {
'rna_cutadapt_1.fastq': fastqs[0],
'rna_cutadapt_2.fastq': fastqs[1],
'star_index.tar.gz': star_options['index']}
input_files = get_files_from_filestore(job, input_files, work_dir,
docker=False)
gz = '.gz' if is_gzipfile(input_files['rna_cutadapt_1.fastq']) else ''
if gz:
for read_file in 'rna_cutadapt_1.fastq', 'rna_cutadapt_2.fastq':
os.symlink(read_file, read_file + gz)
input_files[read_file + gz] = input_files[read_file] + gz
input_files['star_index'] = untargz(input_files['star_index.tar.gz'], work_dir)
star_fusion_idx = os.path.join(input_files['star_index'], 'ref_genome.fa.star.idx')
if os.path.exists(star_fusion_idx):
input_files['star_index'] = star_fusion_idx
input_files = {key: docker_path(path, work_dir=work_dir) for key, path in input_files.items()}
parameters = ['--runThreadN', str(star_options['n']),
'--genomeDir', input_files['star_index'],
'--twopassMode', 'Basic',
'--outReadsUnmapped', 'None',
'--chimSegmentMin', '12',
'--chimJunctionOverhangMin', '12',
'--alignSJDBoverhangMin', '10',
'--alignMatesGapMax', '200000',
'--alignIntronMax', '200000',
'--chimSegmentReadGapMax', 'parameter', '3',
'--alignSJstitchMismatchNmax', '5', '-1', '5', '5',
'--outFileNamePrefix', 'rna',
'--readFilesIn',
input_files['rna_cutadapt_1.fastq' + gz],
input_files['rna_cutadapt_2.fastq' + gz],
'--outSAMattributes', 'NH', 'HI', 'AS', 'NM', 'MD',
'--outSAMtype', 'BAM', 'Unsorted',
'--quantMode', 'TranscriptomeSAM']
if gz:
parameters.extend(['--readFilesCommand', 'zcat'])
if star_options['type'] == 'star':
docker_call(tool='star', tool_parameters=parameters, work_dir=work_dir,
dockerhub=univ_options['dockerhub'], tool_version=star_options['version'])
else:
docker_call(tool='starlong', tool_parameters=parameters, work_dir=work_dir,
dockerhub=univ_options['dockerhub'], tool_version=star_options['version'])
output_files = defaultdict()
for output_file in ['rnaAligned.toTranscriptome.out.bam',
'rnaAligned.out.bam',
'rnaChimeric.out.junction']:
output_files[output_file] = job.fileStore.writeGlobalFile('/'.join([work_dir, output_file]))
export_results(job, output_files['rnaAligned.toTranscriptome.out.bam'], 'rna_transcriptome.bam',
univ_options, subfolder='alignments')
export_results(job, output_files['rnaChimeric.out.junction'], 'rna_chimeric.junction',
univ_options, subfolder='mutations/fusions')
job.fileStore.logToMaster('Ran STAR on %s successfully' % univ_options['patient'])
return output_files |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '8']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'sort_and_index_star'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '7']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'star_bams'}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '7', 'type': 'identifier', 'children': [], 'value': 'star_options'}; {'id': '8', 'type': 'block', 'children': ['9', '19', '47', '82', '89', '96']}; {'id': '9', 'type': 'expression_statement', 'children': ['10']}; {'id': '10', 'type': 'assignment', 'children': ['11', '16']}; {'id': '11', 'type': 'subscript', 'children': ['12', '15']}; {'id': '12', 'type': 'subscript', 'children': ['13', '14']}; {'id': '13', 'type': 'identifier', 'children': [], 'value': 'star_options'}; {'id': '14', 'type': 'string', 'children': [], 'value': "'samtools'"}; {'id': '15', 'type': 'string', 'children': [], 'value': "'n'"}; {'id': '16', 'type': 'subscript', 'children': ['17', '18']}; {'id': '17', 'type': 'identifier', 'children': [], 'value': 'star_options'}; {'id': '18', 'type': 'string', 'children': [], 'value': "'n'"}; {'id': '19', 'type': 'expression_statement', 'children': ['20']}; {'id': '20', 'type': 'assignment', 'children': ['21', '22']}; {'id': '21', 'type': 'identifier', 'children': [], 'value': 'sort'}; {'id': '22', 'type': 'call', 'children': ['23', '26']}; {'id': '23', 'type': 'attribute', 'children': ['24', '25']}; {'id': '24', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '25', 'type': 'identifier', 'children': [], 'value': 'wrapJobFn'}; {'id': '26', 'type': 'argument_list', 'children': ['27', '28', '31', '32', '33', '38']}; {'id': '27', 'type': 'identifier', 'children': [], 'value': 'sort_bamfile'}; {'id': '28', 'type': 'subscript', 'children': ['29', '30']}; {'id': '29', 'type': 'identifier', 'children': [], 'value': 'star_bams'}; {'id': '30', 'type': 'string', 'children': [], 'value': "'rnaAligned.out.bam'"}; {'id': '31', 'type': 'string', 'children': [], 'value': "'rna'"}; {'id': '32', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '33', 'type': 'keyword_argument', 'children': ['34', '35']}; {'id': '34', 'type': 'identifier', 'children': [], 'value': 'samtools_options'}; {'id': '35', 'type': 'subscript', 'children': ['36', '37']}; {'id': '36', 'type': 'identifier', 'children': [], 'value': 'star_options'}; {'id': '37', 'type': 'string', 'children': [], 'value': "'samtools'"}; {'id': '38', 'type': 'keyword_argument', 'children': ['39', '40']}; {'id': '39', 'type': 'identifier', 'children': [], 'value': 'disk'}; {'id': '40', 'type': 'call', 'children': ['41', '42']}; {'id': '41', 'type': 'identifier', 'children': [], 'value': 'PromisedRequirement'}; {'id': '42', 'type': 'argument_list', 'children': ['43', '44']}; {'id': '43', 'type': 'identifier', 'children': [], 'value': 'sort_disk'}; {'id': '44', 'type': 'subscript', 'children': ['45', '46']}; {'id': '45', 'type': 'identifier', 'children': [], 'value': 'star_bams'}; {'id': '46', 'type': 'string', 'children': [], 'value': "'rnaAligned.out.bam'"}; {'id': '47', 'type': 'expression_statement', 'children': ['48']}; {'id': '48', 'type': 'assignment', 'children': ['49', '50']}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'index'}; {'id': '50', 'type': 'call', 'children': ['51', '54']}; {'id': '51', 'type': 'attribute', 'children': ['52', '53']}; {'id': '52', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '53', 'type': 'identifier', 'children': [], 'value': 'wrapJobFn'}; {'id': '54', 'type': 'argument_list', 'children': ['55', '56', '61', '62', '63', '68', '71']}; {'id': '55', 'type': 'identifier', 'children': [], 'value': 'index_bamfile'}; {'id': '56', 'type': 'call', 'children': ['57', '60']}; {'id': '57', 'type': 'attribute', 'children': ['58', '59']}; {'id': '58', 'type': 'identifier', 'children': [], 'value': 'sort'}; {'id': '59', 'type': 'identifier', 'children': [], 'value': 'rv'}; {'id': '60', 'type': 'argument_list', 'children': []}; {'id': '61', 'type': 'string', 'children': [], 'value': "'rna'"}; {'id': '62', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '63', 'type': 'keyword_argument', 'children': ['64', '65']}; {'id': '64', 'type': 'identifier', 'children': [], 'value': 'samtools_options'}; {'id': '65', 'type': 'subscript', 'children': ['66', '67']}; {'id': '66', 'type': 'identifier', 'children': [], 'value': 'star_options'}; {'id': '67', 'type': 'string', 'children': [], 'value': "'samtools'"}; {'id': '68', 'type': 'keyword_argument', 'children': ['69', '70']}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'sample_info'}; {'id': '70', 'type': 'string', 'children': [], 'value': "'genome_sorted'"}; {'id': '71', 'type': 'keyword_argument', 'children': ['72', '73']}; {'id': '72', 'type': 'identifier', 'children': [], 'value': 'disk'}; {'id': '73', 'type': 'call', 'children': ['74', '75']}; {'id': '74', 'type': 'identifier', 'children': [], 'value': 'PromisedRequirement'}; {'id': '75', 'type': 'argument_list', 'children': ['76', '77']}; {'id': '76', 'type': 'identifier', 'children': [], 'value': 'index_disk'}; {'id': '77', 'type': 'call', 'children': ['78', '81']}; {'id': '78', 'type': 'attribute', 'children': ['79', '80']}; {'id': '79', 'type': 'identifier', 'children': [], 'value': 'sort'}; {'id': '80', 'type': 'identifier', 'children': [], 'value': 'rv'}; {'id': '81', 'type': 'argument_list', 'children': []}; {'id': '82', 'type': 'expression_statement', 'children': ['83']}; {'id': '83', 'type': 'call', 'children': ['84', '87']}; {'id': '84', 'type': 'attribute', 'children': ['85', '86']}; {'id': '85', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '86', 'type': 'identifier', 'children': [], 'value': 'addChild'}; {'id': '87', 'type': 'argument_list', 'children': ['88']}; {'id': '88', 'type': 'identifier', 'children': [], 'value': 'sort'}; {'id': '89', 'type': 'expression_statement', 'children': ['90']}; {'id': '90', 'type': 'call', 'children': ['91', '94']}; {'id': '91', 'type': 'attribute', 'children': ['92', '93']}; {'id': '92', 'type': 'identifier', 'children': [], 'value': 'sort'}; {'id': '93', 'type': 'identifier', 'children': [], 'value': 'addChild'}; {'id': '94', 'type': 'argument_list', 'children': ['95']}; {'id': '95', 'type': 'identifier', 'children': [], 'value': 'index'}; {'id': '96', 'type': 'return_statement', 'children': ['97']}; {'id': '97', 'type': 'dictionary', 'children': ['98', '105', '110']}; {'id': '98', 'type': 'pair', 'children': ['99', '100']}; {'id': '99', 'type': 'string', 'children': [], 'value': "'rna_genome'"}; {'id': '100', 'type': 'call', 'children': ['101', '104']}; {'id': '101', 'type': 'attribute', 'children': ['102', '103']}; {'id': '102', 'type': 'identifier', 'children': [], 'value': 'index'}; {'id': '103', 'type': 'identifier', 'children': [], 'value': 'rv'}; {'id': '104', 'type': 'argument_list', 'children': []}; {'id': '105', 'type': 'pair', 'children': ['106', '107']}; {'id': '106', 'type': 'string', 'children': [], 'value': "'rna_transcriptome.bam'"}; {'id': '107', 'type': 'subscript', 'children': ['108', '109']}; {'id': '108', 'type': 'identifier', 'children': [], 'value': 'star_bams'}; {'id': '109', 'type': 'string', 'children': [], 'value': "'rnaAligned.toTranscriptome.out.bam'"}; {'id': '110', 'type': 'pair', 'children': ['111', '112']}; {'id': '111', 'type': 'string', 'children': [], 'value': "'rnaChimeric.out.junction'"}; {'id': '112', 'type': 'subscript', 'children': ['113', '114']}; {'id': '113', 'type': 'identifier', 'children': [], 'value': 'star_bams'}; {'id': '114', 'type': 'string', 'children': [], 'value': "'rnaChimeric.out.junction'"} | def sort_and_index_star(job, star_bams, univ_options, star_options):
star_options['samtools']['n'] = star_options['n']
sort = job.wrapJobFn(sort_bamfile, star_bams['rnaAligned.out.bam'], 'rna', univ_options,
samtools_options=star_options['samtools'],
disk=PromisedRequirement(sort_disk, star_bams['rnaAligned.out.bam']))
index = job.wrapJobFn(index_bamfile, sort.rv(), 'rna', univ_options,
samtools_options=star_options['samtools'], sample_info='genome_sorted',
disk=PromisedRequirement(index_disk, sort.rv()))
job.addChild(sort)
sort.addChild(index)
return {'rna_genome': index.rv(),
'rna_transcriptome.bam': star_bams['rnaAligned.toTranscriptome.out.bam'],
'rnaChimeric.out.junction': star_bams['rnaChimeric.out.junction']} |
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{'id': '15', 'type': 'identifier', 'children': [], 'value': 'token'}; {'id': '16', 'type': 'attribute', 'children': ['17', '18']}; {'id': '17', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '18', 'type': 'identifier', 'children': [], 'value': 'expr'}; {'id': '19', 'type': 'block', 'children': ['20']}; {'id': '20', 'type': 'if_statement', 'children': ['21', '26', '58']}; {'id': '21', 'type': 'call', 'children': ['22', '23']}; {'id': '22', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '23', 'type': 'argument_list', 'children': ['24', '25']}; {'id': '24', 'type': 'identifier', 'children': [], 'value': 'token'}; {'id': '25', 'type': 'identifier', 'children': [], 'value': 'int'}; {'id': '26', 'type': 'block', 'children': ['27', '51']}; {'id': '27', 'type': 'while_statement', 'children': ['28', '39']}; {'id': '28', 'type': 'boolean_operator', 'children': ['29', '33'], 'value': 'and'}; {'id': '29', 'type': 'call', 'children': ['30', '31']}; {'id': '30', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '31', 'type': 'argument_list', 'children': ['32']}; {'id': '32', 'type': 'identifier', 'children': [], 'value': 'ops'}; {'id': '33', 'type': 'comparison_operator', 'children': ['34', '35'], 'value': '<='}; {'id': '34', 'type': 'identifier', 'children': [], 'value': 'token'}; {'id': '35', 'type': 'subscript', 'children': ['36', '37']}; {'id': '36', 'type': 'identifier', 'children': [], 'value': 'ops'}; {'id': '37', 'type': 'unary_operator', 'children': ['38'], 'value': '-'}; {'id': '38', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '39', 'type': 'block', 'children': ['40']}; {'id': '40', 'type': 'expression_statement', 'children': ['41']}; {'id': '41', 'type': 'call', 'children': ['42', '45']}; {'id': '42', 'type': 'attribute', 'children': ['43', '44']}; {'id': '43', 'type': 'identifier', 'children': [], 'value': 'rpn'}; {'id': '44', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '45', 'type': 'argument_list', 'children': ['46']}; {'id': '46', 'type': 'call', 'children': ['47', '50']}; {'id': '47', 'type': 'attribute', 'children': ['48', '49']}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'ops'}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'pop'}; {'id': '50', 'type': 'argument_list', 'children': []}; {'id': '51', 'type': 'expression_statement', 'children': ['52']}; {'id': '52', 'type': 'call', 'children': ['53', '56']}; {'id': '53', 'type': 'attribute', 'children': ['54', '55']}; {'id': '54', 'type': 'identifier', 'children': [], 'value': 'ops'}; {'id': '55', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '56', 'type': 'argument_list', 'children': ['57']}; {'id': '57', 'type': 'identifier', 'children': [], 'value': 'token'}; {'id': '58', 'type': 'else_clause', 'children': ['59']}; {'id': '59', 'type': 'block', 'children': ['60']}; {'id': '60', 'type': 'expression_statement', 'children': ['61']}; {'id': '61', 'type': 'call', 'children': ['62', '65']}; {'id': '62', 'type': 'attribute', 'children': ['63', '64']}; {'id': '63', 'type': 'identifier', 'children': [], 'value': 'rpn'}; {'id': '64', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '65', 'type': 'argument_list', 'children': ['66']}; {'id': '66', 'type': 'identifier', 'children': [], 'value': 'token'}; {'id': '67', 'type': 'while_statement', 'children': ['68', '72']}; {'id': '68', 'type': 'call', 'children': ['69', '70']}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '70', 'type': 'argument_list', 'children': ['71']}; {'id': '71', 'type': 'identifier', 'children': [], 'value': 'ops'}; {'id': '72', 'type': 'block', 'children': ['73']}; {'id': '73', 'type': 'expression_statement', 'children': ['74']}; {'id': '74', 'type': 'call', 'children': ['75', '78']}; {'id': '75', 'type': 'attribute', 'children': ['76', '77']}; {'id': '76', 'type': 'identifier', 'children': [], 'value': 'rpn'}; {'id': '77', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '78', 'type': 'argument_list', 'children': ['79']}; {'id': '79', 'type': 'call', 'children': ['80', '83']}; {'id': '80', 'type': 'attribute', 'children': ['81', '82']}; {'id': '81', 'type': 'identifier', 'children': [], 'value': 'ops'}; {'id': '82', 'type': 'identifier', 'children': [], 'value': 'pop'}; {'id': '83', 'type': 'argument_list', 'children': []}; {'id': '84', 'type': 'expression_statement', 'children': ['85']}; {'id': '85', 'type': 'assignment', 'children': ['86', '87']}; {'id': '86', 'type': 'identifier', 'children': [], 'value': 'stack'}; {'id': '87', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '88', 'type': 'for_statement', 'children': ['89', '90', '91']}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'token'}; {'id': '90', 'type': 'identifier', 'children': [], 'value': 'rpn'}; {'id': '91', 'type': 'block', 'children': ['92']}; {'id': '92', 'type': 'if_statement', 'children': ['93', '98', '182']}; {'id': '93', 'type': 'call', 'children': ['94', '95']}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '95', 'type': 'argument_list', 'children': ['96', '97']}; 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{'id': '111', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '112', 'type': 'call', 'children': ['113', '114']}; {'id': '113', 'type': 'identifier', 'children': [], 'value': 'IsNot'}; {'id': '114', 'type': 'argument_list', 'children': ['115']}; {'id': '115', 'type': 'subscript', 'children': ['116', '117']}; {'id': '116', 'type': 'identifier', 'children': [], 'value': 'stack'}; {'id': '117', 'type': 'unary_operator', 'children': ['118'], 'value': '-'}; {'id': '118', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '119', 'type': 'continue_statement', 'children': []}; {'id': '120', 'type': 'if_statement', 'children': ['121', '127']}; {'id': '121', 'type': 'comparison_operator', 'children': ['122', '126'], 'value': '<'}; {'id': '122', 'type': 'call', 'children': ['123', '124']}; {'id': '123', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '124', 'type': 'argument_list', 'children': ['125']}; {'id': '125', 'type': 'identifier', 'children': [], 'value': 'stack'}; {'id': '126', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '127', 'type': 'block', 'children': ['128']}; {'id': '128', 'type': 'raise_statement', 'children': ['129']}; {'id': '129', 'type': 'call', 'children': ['130', '131']}; {'id': '130', 'type': 'identifier', 'children': [], 'value': 'RuntimeError'}; {'id': '131', 'type': 'argument_list', 'children': ['132']}; {'id': '132', 'type': 'string', 'children': [], 'value': "'Unable to build a valid expression. Not enough operands available.'"}; {'id': '133', 'type': 'if_statement', 'children': ['134', '139', '155']}; {'id': '134', 'type': 'comparison_operator', 'children': ['135', '136'], 'value': '=='}; {'id': '135', 'type': 'identifier', 'children': [], 'value': 'token'}; {'id': '136', 'type': 'attribute', 'children': ['137', '138']}; {'id': '137', 'type': 'identifier', 'children': [], 'value': 'OPERATOR'}; {'id': '138', 'type': 'identifier', 'children': [], 'value': 'OR'}; {'id': '139', 'type': 'block', 'children': ['140']}; {'id': '140', 'type': 'expression_statement', 'children': ['141']}; {'id': '141', 'type': 'assignment', 'children': ['142', '143']}; {'id': '142', 'type': 'identifier', 'children': [], 'value': 'matcher'}; {'id': '143', 'type': 'call', 'children': ['144', '147']}; {'id': '144', 'type': 'attribute', 'children': ['145', '146']}; {'id': '145', 'type': 'identifier', 'children': [], 'value': 'hc'}; {'id': '146', 'type': 'identifier', 'children': [], 'value': 'any_of'}; {'id': '147', 'type': 'argument_list', 'children': ['148']}; {'id': '148', 'type': 'list_splat', 'children': ['149']}; {'id': '149', 'type': 'subscript', 'children': ['150', '151']}; {'id': '150', 'type': 'identifier', 'children': [], 'value': 'stack'}; {'id': '151', 'type': 'slice', 'children': ['152', '154']}; {'id': '152', 'type': 'unary_operator', 'children': ['153'], 'value': '-'}; {'id': '153', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '154', 'type': 'colon', 'children': []}; {'id': '155', 'type': 'else_clause', 'children': ['156']}; {'id': '156', 'type': 'block', 'children': ['157']}; {'id': '157', 'type': 'expression_statement', 'children': ['158']}; {'id': '158', 'type': 'assignment', 'children': ['159', '160']}; {'id': '159', 'type': 'identifier', 'children': [], 'value': 'matcher'}; {'id': '160', 'type': 'call', 'children': ['161', '164']}; {'id': '161', 'type': 'attribute', 'children': ['162', '163']}; {'id': '162', 'type': 'identifier', 'children': [], 'value': 'hc'}; {'id': '163', 'type': 'identifier', 'children': [], 'value': 'all_of'}; {'id': '164', 'type': 'argument_list', 'children': ['165']}; {'id': '165', 'type': 'list_splat', 'children': ['166']}; {'id': '166', 'type': 'subscript', 'children': ['167', '168']}; {'id': '167', 'type': 'identifier', 'children': [], 'value': 'stack'}; {'id': '168', 'type': 'slice', 'children': ['169', '171']}; {'id': '169', 'type': 'unary_operator', 'children': ['170'], 'value': '-'}; {'id': '170', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '171', 'type': 'colon', 'children': []}; {'id': '172', 'type': 'expression_statement', 'children': ['173']}; {'id': '173', 'type': 'assignment', 'children': ['174', '180']}; {'id': '174', 'type': 'subscript', 'children': ['175', '176']}; {'id': '175', 'type': 'identifier', 'children': [], 'value': 'stack'}; {'id': '176', 'type': 'slice', 'children': ['177', '179']}; {'id': '177', 'type': 'unary_operator', 'children': ['178'], 'value': '-'}; {'id': '178', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '179', 'type': 'colon', 'children': []}; {'id': '180', 'type': 'list', 'children': ['181'], 'value': '[matcher]'}; {'id': '181', 'type': 'identifier', 'children': [], 'value': 'matcher'}; {'id': '182', 'type': 'else_clause', 'children': ['183']}; {'id': '183', 'type': 'block', 'children': ['184']}; {'id': '184', 'type': 'expression_statement', 'children': ['185']}; {'id': '185', 'type': 'call', 'children': ['186', '189']}; {'id': '186', 'type': 'attribute', 'children': ['187', '188']}; {'id': '187', 'type': 'identifier', 'children': [], 'value': 'stack'}; {'id': '188', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '189', 'type': 'argument_list', 'children': ['190']}; {'id': '190', 'type': 'identifier', 'children': [], 'value': 'token'}; {'id': '191', 'type': 'if_statement', 'children': ['192', '198']}; {'id': '192', 'type': 'comparison_operator', 'children': ['193', '197'], 'value': '!='}; {'id': '193', 'type': 'call', 'children': ['194', '195']}; {'id': '194', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '195', 'type': 'argument_list', 'children': ['196']}; {'id': '196', 'type': 'identifier', 'children': [], 'value': 'stack'}; {'id': '197', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '198', 'type': 'block', 'children': ['199']}; {'id': '199', 'type': 'raise_statement', 'children': ['200']}; {'id': '200', 'type': 'call', 'children': ['201', '202']}; {'id': '201', 'type': 'identifier', 'children': [], 'value': 'RuntimeError'}; {'id': '202', 'type': 'argument_list', 'children': ['203']}; {'id': '203', 'type': 'string', 'children': [], 'value': "'Unable to build a valid expression. The RPN stack should have just one item.'"}; {'id': '204', 'type': 'expression_statement', 'children': ['205']}; {'id': '205', 'type': 'assignment', 'children': ['206', '207']}; {'id': '206', 'type': 'identifier', 'children': [], 'value': 'matcher'}; {'id': '207', 'type': 'call', 'children': ['208', '211']}; {'id': '208', 'type': 'attribute', 'children': ['209', '210']}; {'id': '209', 'type': 'identifier', 'children': [], 'value': 'stack'}; {'id': '210', 'type': 'identifier', 'children': [], 'value': 'pop'}; {'id': '211', 'type': 'argument_list', 'children': []}; {'id': '212', 'type': 'if_statement', 'children': ['213', '216']}; {'id': '213', 'type': 'attribute', 'children': ['214', '215']}; {'id': '214', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '215', 'type': 'identifier', 'children': [], 'value': 'description'}; {'id': '216', 'type': 'block', 'children': ['217']}; {'id': '217', 'type': 'expression_statement', 'children': ['218']}; {'id': '218', 'type': 'assignment', 'children': ['219', '220']}; {'id': '219', 'type': 'identifier', 'children': [], 'value': 'matcher'}; {'id': '220', 'type': 'call', 'children': ['221', '224']}; {'id': '221', 'type': 'attribute', 'children': ['222', '223']}; {'id': '222', 'type': 'identifier', 'children': [], 'value': 'hc'}; {'id': '223', 'type': 'identifier', 'children': [], 'value': 'described_as'}; {'id': '224', 'type': 'argument_list', 'children': ['225', '228']}; {'id': '225', 'type': 'attribute', 'children': ['226', '227']}; {'id': '226', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '227', 'type': 'identifier', 'children': [], 'value': 'description'}; {'id': '228', 'type': 'identifier', 'children': [], 'value': 'matcher'}; {'id': '229', 'type': 'return_statement', 'children': ['230']}; {'id': '230', 'type': 'identifier', 'children': [], 'value': 'matcher'} | def evaluate(self):
ops = []
rpn = []
for token in self.expr:
if isinstance(token, int):
while len(ops) and token <= ops[-1]:
rpn.append(ops.pop())
ops.append(token)
else:
rpn.append(token)
while len(ops):
rpn.append(ops.pop())
stack = []
for token in rpn:
if isinstance(token, int):
if token == OPERATOR.NOT:
stack[-1] = IsNot(stack[-1])
continue
if len(stack) < 2:
raise RuntimeError('Unable to build a valid expression. Not enough operands available.')
if token == OPERATOR.OR:
matcher = hc.any_of(*stack[-2:])
else:
matcher = hc.all_of(*stack[-2:])
stack[-2:] = [matcher]
else:
stack.append(token)
if len(stack) != 1:
raise RuntimeError('Unable to build a valid expression. The RPN stack should have just one item.')
matcher = stack.pop()
if self.description:
matcher = hc.described_as(self.description, matcher)
return matcher |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '8']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': '_ensure_patient_group_is_ok'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'patient_object'}; {'id': '5', 'type': 'default_parameter', 'children': ['6', '7']}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'patient_name'}; {'id': '7', 'type': 'None', 'children': []}; {'id': '8', 'type': 'block', 'children': ['9', '16', '29', '36', '70']}; {'id': '9', 'type': 'import_from_statement', 'children': ['10', '14']}; {'id': '10', 'type': 'dotted_name', 'children': ['11', '12', '13']}; {'id': '11', 'type': 'identifier', 'children': [], 'value': 'protect'}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'addons'}; {'id': '13', 'type': 'identifier', 'children': [], 'value': 'common'}; {'id': '14', 'type': 'dotted_name', 'children': ['15']}; {'id': '15', 'type': 'identifier', 'children': [], 'value': 'TCGAToGTEx'}; {'id': '16', 'type': 'assert_statement', 'children': ['17', '24']}; {'id': '17', 'type': 'call', 'children': ['18', '19']}; {'id': '18', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '19', 'type': 'argument_list', 'children': ['20', '21']}; {'id': '20', 'type': 'identifier', 'children': [], 'value': 'patient_object'}; {'id': '21', 'type': 'tuple', 'children': ['22', '23']}; {'id': '22', 'type': 'identifier', 'children': [], 'value': 'set'}; {'id': '23', 'type': 'identifier', 'children': [], 'value': 'dict'}; {'id': '24', 'type': 'binary_operator', 'children': ['25', '26'], 'value': '%'}; {'id': '25', 'type': 'string', 'children': [], 'value': "'%s,%s'"}; {'id': '26', 'type': 'tuple', 'children': ['27', '28']}; {'id': '27', 'type': 'identifier', 'children': [], 'value': 'patient_object'}; {'id': '28', 'type': 'identifier', 'children': [], 'value': 'patient_name'}; {'id': '29', 'type': 'expression_statement', 'children': ['30']}; {'id': '30', 'type': 'assignment', 'children': ['31', '32']}; {'id': '31', 'type': 'identifier', 'children': [], 'value': 'test_set'}; {'id': '32', 'type': 'call', 'children': ['33', '34']}; {'id': '33', 'type': 'identifier', 'children': [], 'value': 'set'}; {'id': '34', 'type': 'argument_list', 'children': ['35']}; {'id': '35', 'type': 'identifier', 'children': [], 'value': 'patient_object'}; {'id': '36', 'type': 'if_statement', 'children': ['37', '40', '51']}; {'id': '37', 'type': 'comparison_operator', 'children': ['38', '39'], 'value': 'not'}; {'id': '38', 'type': 'string', 'children': [], 'value': "'tumor_type'"}; {'id': '39', 'type': 'identifier', 'children': [], 'value': 'patient_object'}; {'id': '40', 'type': 'block', 'children': ['41']}; {'id': '41', 'type': 'raise_statement', 'children': ['42']}; {'id': '42', 'type': 'call', 'children': ['43', '44']}; {'id': '43', 'type': 'identifier', 'children': [], 'value': 'ParameterError'}; {'id': '44', 'type': 'argument_list', 'children': ['45']}; {'id': '45', 'type': 'binary_operator', 'children': ['46', '50'], 'value': '+'}; {'id': '46', 'type': '()', 'children': ['47']}; {'id': '47', 'type': 'binary_operator', 'children': ['48', '49'], 'value': '%'}; {'id': '48', 'type': 'string', 'children': [], 'value': "'The patient entry for sample %s '"}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'patient_name'}; {'id': '50', 'type': 'string', 'children': [], 'value': "'does not contain a Tumor type.'"}; {'id': '51', 'type': 'elif_clause', 'children': ['52', '57']}; {'id': '52', 'type': 'comparison_operator', 'children': ['53', '56'], 'value': 'not'}; {'id': '53', 'type': 'subscript', 'children': ['54', '55']}; {'id': '54', 'type': 'identifier', 'children': [], 'value': 'patient_object'}; {'id': '55', 'type': 'string', 'children': [], 'value': "'tumor_type'"}; {'id': '56', 'type': 'identifier', 'children': [], 'value': 'TCGAToGTEx'}; {'id': '57', 'type': 'block', 'children': ['58']}; {'id': '58', 'type': 'raise_statement', 'children': ['59']}; {'id': '59', 'type': 'call', 'children': ['60', '61']}; {'id': '60', 'type': 'identifier', 'children': [], 'value': 'ParameterError'}; {'id': '61', 'type': 'argument_list', 'children': ['62']}; {'id': '62', 'type': 'binary_operator', 'children': ['63', '67'], 'value': '+'}; {'id': '63', 'type': '()', 'children': ['64']}; {'id': '64', 'type': 'binary_operator', 'children': ['65', '66'], 'value': '%'}; {'id': '65', 'type': 'string', 'children': [], 'value': "'The patient entry for sample %s '"}; {'id': '66', 'type': 'identifier', 'children': [], 'value': 'patient_name'}; {'id': '67', 'type': 'concatenated_string', 'children': ['68', '69']}; {'id': '68', 'type': 'string', 'children': [], 'value': "'does contains an invalid Tumor type. Please use one of the '"}; {'id': '69', 'type': 'string', 'children': [], 'value': "'valid TCGA tumor types.'"}; {'id': '70', 'type': 'if_statement', 'children': ['71', '80', '82']}; {'id': '71', 'type': 'call', 'children': ['72', '78']}; {'id': '72', 'type': 'attribute', 'children': ['73', '77']}; {'id': '73', 'type': 'set', 'children': ['74', '75', '76']}; {'id': '74', 'type': 'string', 'children': [], 'value': "'tumor_dna_fastq_1'"}; {'id': '75', 'type': 'string', 'children': [], 'value': "'normal_dna_fastq_1'"}; {'id': '76', 'type': 'string', 'children': [], 'value': "'tumor_rna_fastq_1'"}; {'id': '77', 'type': 'identifier', 'children': [], 'value': 'issubset'}; {'id': '78', 'type': 'argument_list', 'children': ['79']}; {'id': '79', 'type': 'identifier', 'children': [], 'value': 'test_set'}; {'id': '80', 'type': 'block', 'children': ['81']}; {'id': '81', 'type': 'pass_statement', 'children': []}; {'id': '82', 'type': 'else_clause', 'children': ['83']}; {'id': '83', 'type': 'block', 'children': ['84', '101', '156', '196']}; {'id': '84', 'type': 'if_statement', 'children': ['85', '88']}; {'id': '85', 'type': 'comparison_operator', 'children': ['86', '87'], 'value': 'not'}; {'id': '86', 'type': 'string', 'children': [], 'value': "'hla_haplotype_files'"}; {'id': '87', 'type': 'identifier', 'children': [], 'value': 'test_set'}; {'id': '88', 'type': 'block', 'children': ['89']}; {'id': '89', 'type': 'raise_statement', 'children': ['90']}; {'id': '90', 'type': 'call', 'children': ['91', '92']}; {'id': '91', 'type': 'identifier', 'children': [], 'value': 'ParameterError'}; {'id': '92', 'type': 'argument_list', 'children': ['93']}; {'id': '93', 'type': 'binary_operator', 'children': ['94', '98'], 'value': '+'}; {'id': '94', 'type': '()', 'children': ['95']}; {'id': '95', 'type': 'binary_operator', 'children': ['96', '97'], 'value': '%'}; {'id': '96', 'type': 'string', 'children': [], 'value': "'The patient entry for sample %s '"}; {'id': '97', 'type': 'identifier', 'children': [], 'value': 'patient_name'}; {'id': '98', 'type': 'concatenated_string', 'children': ['99', '100']}; {'id': '99', 'type': 'string', 'children': [], 'value': "'does not contain a hla_haplotype_files entry.\\nCannot haplotype '"}; {'id': '100', 'type': 'string', 'children': [], 'value': "'patient if all the input sequence files are not fastqs.'"}; {'id': '101', 'type': 'if_statement', 'children': ['102', '142']}; {'id': '102', 'type': '()', 'children': ['103']}; {'id': '103', 'type': 'boolean_operator', 'children': ['104', '134'], 'value': 'and'}; {'id': '104', 'type': '()', 'children': ['105']}; {'id': '105', 'type': 'boolean_operator', 'children': ['106', '120'], 'value': 'or'}; {'id': '106', 'type': 'comparison_operator', 'children': ['107', '118'], 'value': '=='}; {'id': '107', 'type': 'set_comprehension', 'children': ['108', '115']}; {'id': '108', 'type': 'call', 'children': ['109', '112']}; {'id': '109', 'type': 'attribute', 'children': ['110', '111']}; {'id': '110', 'type': 'identifier', 'children': [], 'value': 're'}; {'id': '111', 'type': 'identifier', 'children': [], 'value': 'search'}; {'id': '112', 'type': 'argument_list', 'children': ['113', '114']}; {'id': '113', 'type': 'string', 'children': [], 'value': "'tumor_dna_((bam)|(fastq_1)).*'"}; {'id': '114', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '115', 'type': 'for_in_clause', 'children': ['116', '117']}; {'id': '116', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'test_set'}; {'id': '118', 'type': 'set', 'children': ['119']}; {'id': '119', 'type': 'None', 'children': []}; {'id': '120', 'type': 'comparison_operator', 'children': ['121', '132'], 'value': '=='}; {'id': '121', 'type': 'set_comprehension', 'children': ['122', '129']}; {'id': '122', 'type': 'call', 'children': ['123', '126']}; {'id': '123', 'type': 'attribute', 'children': ['124', '125']}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 're'}; {'id': '125', 'type': 'identifier', 'children': [], 'value': 'search'}; {'id': '126', 'type': 'argument_list', 'children': ['127', '128']}; {'id': '127', 'type': 'string', 'children': [], 'value': "'normal_dna_((bam)|(fastq_1)).*'"}; {'id': '128', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '129', 'type': 'for_in_clause', 'children': ['130', '131']}; {'id': '130', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '131', 'type': 'identifier', 'children': [], 'value': 'test_set'}; {'id': '132', 'type': 'set', 'children': ['133']}; {'id': '133', 'type': 'None', 'children': []}; {'id': '134', 'type': '()', 'children': ['135']}; {'id': '135', 'type': 'boolean_operator', 'children': ['136', '139'], 'value': 'and'}; {'id': '136', 'type': 'comparison_operator', 'children': ['137', '138'], 'value': 'not'}; {'id': '137', 'type': 'string', 'children': [], 'value': "'mutation_vcf'"}; {'id': '138', 'type': 'identifier', 'children': [], 'value': 'test_set'}; {'id': '139', 'type': 'comparison_operator', 'children': ['140', '141'], 'value': 'not'}; {'id': '140', 'type': 'string', 'children': [], 'value': "'fusion_bedpe'"}; {'id': '141', 'type': 'identifier', 'children': [], 'value': 'test_set'}; {'id': '142', 'type': 'block', 'children': ['143']}; {'id': '143', 'type': 'raise_statement', 'children': ['144']}; {'id': '144', 'type': 'call', 'children': ['145', '146']}; {'id': '145', 'type': 'identifier', 'children': [], 'value': 'ParameterError'}; {'id': '146', 'type': 'argument_list', 'children': ['147']}; {'id': '147', 'type': 'binary_operator', 'children': ['148', '152'], 'value': '+'}; {'id': '148', 'type': '()', 'children': ['149']}; {'id': '149', 'type': 'binary_operator', 'children': ['150', '151'], 'value': '%'}; {'id': '150', 'type': 'string', 'children': [], 'value': "'The patient entry for sample %s '"}; {'id': '151', 'type': 'identifier', 'children': [], 'value': 'patient_name'}; {'id': '152', 'type': 'concatenated_string', 'children': ['153', '154', '155']}; {'id': '153', 'type': 'string', 'children': [], 'value': "'does not contain a mutation_vcf or fusion_bedpe entry. If both '"}; {'id': '154', 'type': 'string', 'children': [], 'value': "'tumor and normal DNA sequences (fastqs or bam) are not provided, '"}; {'id': '155', 'type': 'string', 'children': [], 'value': "'a pre-computed vcf and/or bedpe must be provided.'"}; {'id': '156', 'type': 'if_statement', 'children': ['157', '171']}; {'id': '157', 'type': 'comparison_operator', 'children': ['158', '169'], 'value': '=='}; {'id': '158', 'type': 'set_comprehension', 'children': ['159', '166']}; {'id': '159', 'type': 'call', 'children': ['160', '163']}; {'id': '160', 'type': 'attribute', 'children': ['161', '162']}; {'id': '161', 'type': 'identifier', 'children': [], 'value': 're'}; {'id': '162', 'type': 'identifier', 'children': [], 'value': 'search'}; {'id': '163', 'type': 'argument_list', 'children': ['164', '165']}; {'id': '164', 'type': 'string', 'children': [], 'value': "'tumor_rna_((bam)|(fastq_1)).*'"}; {'id': '165', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '166', 'type': 'for_in_clause', 'children': ['167', '168']}; {'id': '167', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '168', 'type': 'identifier', 'children': [], 'value': 'test_set'}; {'id': '169', 'type': 'set', 'children': ['170']}; {'id': '170', 'type': 'None', 'children': []}; {'id': '171', 'type': 'block', 'children': ['172']}; {'id': '172', 'type': 'if_statement', 'children': ['173', '180', '182']}; {'id': '173', 'type': 'boolean_operator', 'children': ['174', '177'], 'value': 'and'}; {'id': '174', 'type': 'comparison_operator', 'children': ['175', '176'], 'value': 'not'}; {'id': '175', 'type': 'string', 'children': [], 'value': "'mutation_vcf'"}; {'id': '176', 'type': 'identifier', 'children': [], 'value': 'test_set'}; {'id': '177', 'type': 'comparison_operator', 'children': ['178', '179'], 'value': 'in'}; {'id': '178', 'type': 'string', 'children': [], 'value': "'fusion_bedpe'"}; {'id': '179', 'type': 'identifier', 'children': [], 'value': 'test_set'}; {'id': '180', 'type': 'block', 'children': ['181']}; {'id': '181', 'type': 'pass_statement', 'children': []}; {'id': '182', 'type': 'else_clause', 'children': ['183']}; {'id': '183', 'type': 'block', 'children': ['184']}; {'id': '184', 'type': 'raise_statement', 'children': ['185']}; {'id': '185', 'type': 'call', 'children': ['186', '187']}; {'id': '186', 'type': 'identifier', 'children': [], 'value': 'ParameterError'}; {'id': '187', 'type': 'argument_list', 'children': ['188']}; {'id': '188', 'type': 'binary_operator', 'children': ['189', '193'], 'value': '+'}; {'id': '189', 'type': '()', 'children': ['190']}; {'id': '190', 'type': 'binary_operator', 'children': ['191', '192'], 'value': '%'}; {'id': '191', 'type': 'string', 'children': [], 'value': "'The patient entry for sample %s '"}; {'id': '192', 'type': 'identifier', 'children': [], 'value': 'patient_name'}; {'id': '193', 'type': 'concatenated_string', 'children': ['194', '195']}; {'id': '194', 'type': 'string', 'children': [], 'value': "'does not contain a tumor rna sequence data entry. We require '"}; {'id': '195', 'type': 'string', 'children': [], 'value': "'either tumor_rna_fastq_1 or tumor_rna_bam.'"}; {'id': '196', 'type': 'if_statement', 'children': ['197', '204']}; {'id': '197', 'type': 'boolean_operator', 'children': ['198', '201'], 'value': 'and'}; {'id': '198', 'type': 'comparison_operator', 'children': ['199', '200'], 'value': 'in'}; {'id': '199', 'type': 'string', 'children': [], 'value': "'tumor_rna_bam'"}; {'id': '200', 'type': 'identifier', 'children': [], 'value': 'test_set'}; {'id': '201', 'type': 'comparison_operator', 'children': ['202', '203'], 'value': 'not'}; {'id': '202', 'type': 'string', 'children': [], 'value': "'tumor_rna_transcriptome_bam'"}; {'id': '203', 'type': 'identifier', 'children': [], 'value': 'test_set'}; {'id': '204', 'type': 'block', 'children': ['205']}; {'id': '205', 'type': 'if_statement', 'children': ['206', '209']}; {'id': '206', 'type': 'comparison_operator', 'children': ['207', '208'], 'value': 'not'}; {'id': '207', 'type': 'string', 'children': [], 'value': "'expression_files'"}; {'id': '208', 'type': 'identifier', 'children': [], 'value': 'test_set'}; {'id': '209', 'type': 'block', 'children': ['210']}; {'id': '210', 'type': 'raise_statement', 'children': ['211']}; {'id': '211', 'type': 'call', 'children': ['212', '213']}; {'id': '212', 'type': 'identifier', 'children': [], 'value': 'ParameterError'}; {'id': '213', 'type': 'argument_list', 'children': ['214']}; {'id': '214', 'type': '()', 'children': ['215']}; {'id': '215', 'type': 'binary_operator', 'children': ['216', '219'], 'value': '+'}; {'id': '216', 'type': 'binary_operator', 'children': ['217', '218'], 'value': '%'}; {'id': '217', 'type': 'string', 'children': [], 'value': "'The patient entry for sample %s '"}; {'id': '218', 'type': 'identifier', 'children': [], 'value': 'patient_name'}; {'id': '219', 'type': 'concatenated_string', 'children': ['220', '221', '222', '223', '224']}; {'id': '220', 'type': 'string', 'children': [], 'value': "'was provided a tumor rna bam with sequences mapped to the '"}; {'id': '221', 'type': 'string', 'children': [], 'value': "'genome but was not provided a matching rna bam for the '"}; {'id': '222', 'type': 'string', 'children': [], 'value': "'transcriptome or a tar containing expression values. '"}; {'id': '223', 'type': 'string', 'children': [], 'value': "'We require either a matching transcriptome bam to estimate'"}; {'id': '224', 'type': 'string', 'children': [], 'value': "'expression, or the precomputed expression values.'"} | def _ensure_patient_group_is_ok(patient_object, patient_name=None):
from protect.addons.common import TCGAToGTEx
assert isinstance(patient_object, (set, dict)), '%s,%s' % (patient_object, patient_name)
test_set = set(patient_object)
if 'tumor_type' not in patient_object:
raise ParameterError(('The patient entry for sample %s ' % patient_name) +
'does not contain a Tumor type.')
elif patient_object['tumor_type'] not in TCGAToGTEx:
raise ParameterError(('The patient entry for sample %s ' % patient_name) +
'does contains an invalid Tumor type. Please use one of the '
'valid TCGA tumor types.')
if {'tumor_dna_fastq_1', 'normal_dna_fastq_1', 'tumor_rna_fastq_1'}.issubset(test_set):
pass
else:
if 'hla_haplotype_files' not in test_set:
raise ParameterError(('The patient entry for sample %s ' % patient_name) +
'does not contain a hla_haplotype_files entry.\nCannot haplotype '
'patient if all the input sequence files are not fastqs.')
if (({re.search('tumor_dna_((bam)|(fastq_1)).*', x) for x in test_set} == {None} or
{re.search('normal_dna_((bam)|(fastq_1)).*', x) for x in test_set} == {None}) and
('mutation_vcf' not in test_set and 'fusion_bedpe' not in test_set)):
raise ParameterError(('The patient entry for sample %s ' % patient_name) +
'does not contain a mutation_vcf or fusion_bedpe entry. If both '
'tumor and normal DNA sequences (fastqs or bam) are not provided, '
'a pre-computed vcf and/or bedpe must be provided.')
if {re.search('tumor_rna_((bam)|(fastq_1)).*', x) for x in test_set} == {None}:
if 'mutation_vcf' not in test_set and 'fusion_bedpe' in test_set:
pass
else:
raise ParameterError(('The patient entry for sample %s ' % patient_name) +
'does not contain a tumor rna sequence data entry. We require '
'either tumor_rna_fastq_1 or tumor_rna_bam.')
if 'tumor_rna_bam' in test_set and 'tumor_rna_transcriptome_bam' not in test_set:
if 'expression_files' not in test_set:
raise ParameterError(('The patient entry for sample %s ' % patient_name +
'was provided a tumor rna bam with sequences mapped to the '
'genome but was not provided a matching rna bam for the '
'transcriptome or a tar containing expression values. '
'We require either a matching transcriptome bam to estimate'
'expression, or the precomputed expression values.')) |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '6']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': '_add_default_entries'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'input_dict'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'defaults_dict'}; {'id': '6', 'type': 'block', 'children': ['7', '93']}; {'id': '7', 'type': 'for_statement', 'children': ['8', '11', '16']}; {'id': '8', 'type': 'pattern_list', 'children': ['9', '10']}; {'id': '9', 'type': 'identifier', 'children': [], 'value': 'key'}; {'id': '10', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '11', 'type': 'call', 'children': ['12', '15']}; {'id': '12', 'type': 'attribute', 'children': ['13', '14']}; {'id': '13', 'type': 'identifier', 'children': [], 'value': 'defaults_dict'}; {'id': '14', 'type': 'identifier', 'children': [], 'value': 'iteritems'}; {'id': '15', 'type': 'argument_list', 'children': []}; {'id': '16', 'type': 'block', 'children': ['17', '28']}; {'id': '17', 'type': 'if_statement', 'children': ['18', '21']}; {'id': '18', 'type': 'comparison_operator', 'children': ['19', '20'], 'value': '=='}; {'id': '19', 'type': 'identifier', 'children': [], 'value': 'key'}; {'id': '20', 'type': 'string', 'children': [], 'value': "'patients'"}; {'id': '21', 'type': 'block', 'children': ['22', '27']}; {'id': '22', 'type': 'expression_statement', 'children': ['23']}; {'id': '23', 'type': 'call', 'children': ['24', '25']}; {'id': '24', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '25', 'type': 'argument_list', 'children': ['26']}; {'id': '26', 'type': 'string', 'children': [], 'value': "'Cannot default `patients`.'"}; {'id': '27', 'type': 'continue_statement', 'children': []}; {'id': '28', 'type': 'if_statement', 'children': ['29', '34', '74']}; {'id': '29', 'type': 'call', 'children': ['30', '31']}; {'id': '30', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '31', 'type': 'argument_list', 'children': ['32', '33']}; {'id': '32', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '33', 'type': 'identifier', 'children': [], 'value': 'dict'}; {'id': '34', 'type': 'block', 'children': ['35']}; {'id': '35', 'type': 'if_statement', 'children': ['36', '45', '52']}; {'id': '36', 'type': 'boolean_operator', 'children': ['37', '40'], 'value': 'or'}; {'id': '37', 'type': 'comparison_operator', 'children': ['38', '39'], 'value': 'not'}; {'id': '38', 'type': 'identifier', 'children': [], 'value': 'key'}; {'id': '39', 'type': 'identifier', 'children': [], 'value': 'input_dict'}; {'id': '40', 'type': 'comparison_operator', 'children': ['41', '44'], 'value': 'is'}; {'id': '41', 'type': 'subscript', 'children': ['42', '43']}; {'id': '42', 'type': 'identifier', 'children': [], 'value': 'input_dict'}; {'id': '43', 'type': 'identifier', 'children': [], 'value': 'key'}; {'id': '44', 'type': 'None', 'children': []}; {'id': '45', 'type': 'block', 'children': ['46']}; {'id': '46', 'type': 'expression_statement', 'children': ['47']}; {'id': '47', 'type': 'assignment', 'children': ['48', '51']}; {'id': '48', 'type': 'subscript', 'children': ['49', '50']}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'input_dict'}; {'id': '50', 'type': 'identifier', 'children': [], 'value': 'key'}; {'id': '51', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '52', 'type': 'else_clause', 'children': ['53']}; {'id': '53', 'type': 'block', 'children': ['54', '68']}; {'id': '54', 'type': 'expression_statement', 'children': ['55']}; {'id': '55', 'type': 'assignment', 'children': ['56', '57']}; {'id': '56', 'type': 'identifier', 'children': [], 'value': 'r'}; {'id': '57', 'type': 'call', 'children': ['58', '59']}; {'id': '58', 'type': 'identifier', 'children': [], 'value': '_add_default_entries'}; {'id': '59', 'type': 'argument_list', 'children': ['60', '67']}; {'id': '60', 'type': 'call', 'children': ['61', '64']}; {'id': '61', 'type': 'attribute', 'children': ['62', '63']}; {'id': '62', 'type': 'identifier', 'children': [], 'value': 'input_dict'}; {'id': '63', 'type': 'identifier', 'children': [], 'value': 'get'}; {'id': '64', 'type': 'argument_list', 'children': ['65', '66']}; {'id': '65', 'type': 'identifier', 'children': [], 'value': 'key'}; {'id': '66', 'type': 'dictionary', 'children': []}; {'id': '67', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '68', 'type': 'expression_statement', 'children': ['69']}; {'id': '69', 'type': 'assignment', 'children': ['70', '73']}; {'id': '70', 'type': 'subscript', 'children': ['71', '72']}; {'id': '71', 'type': 'identifier', 'children': [], 'value': 'input_dict'}; {'id': '72', 'type': 'identifier', 'children': [], 'value': 'key'}; {'id': '73', 'type': 'identifier', 'children': [], 'value': 'r'}; {'id': '74', 'type': 'else_clause', 'children': ['75']}; {'id': '75', 'type': 'block', 'children': ['76']}; {'id': '76', 'type': 'if_statement', 'children': ['77', '86']}; {'id': '77', 'type': 'boolean_operator', 'children': ['78', '81'], 'value': 'or'}; {'id': '78', 'type': 'comparison_operator', 'children': ['79', '80'], 'value': 'not'}; {'id': '79', 'type': 'identifier', 'children': [], 'value': 'key'}; {'id': '80', 'type': 'identifier', 'children': [], 'value': 'input_dict'}; {'id': '81', 'type': 'comparison_operator', 'children': ['82', '85'], 'value': 'is'}; {'id': '82', 'type': 'subscript', 'children': ['83', '84']}; {'id': '83', 'type': 'identifier', 'children': [], 'value': 'input_dict'}; {'id': '84', 'type': 'identifier', 'children': [], 'value': 'key'}; {'id': '85', 'type': 'None', 'children': []}; {'id': '86', 'type': 'block', 'children': ['87']}; {'id': '87', 'type': 'expression_statement', 'children': ['88']}; {'id': '88', 'type': 'assignment', 'children': ['89', '92']}; {'id': '89', 'type': 'subscript', 'children': ['90', '91']}; {'id': '90', 'type': 'identifier', 'children': [], 'value': 'input_dict'}; {'id': '91', 'type': 'identifier', 'children': [], 'value': 'key'}; {'id': '92', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '93', 'type': 'return_statement', 'children': ['94']}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'input_dict'} | def _add_default_entries(input_dict, defaults_dict):
for key, value in defaults_dict.iteritems():
if key == 'patients':
print('Cannot default `patients`.')
continue
if isinstance(value, dict):
if key not in input_dict or input_dict[key] is None:
input_dict[key] = value
else:
r = _add_default_entries(input_dict.get(key, {}), value)
input_dict[key] = r
else:
if key not in input_dict or input_dict[key] is None:
input_dict[key] = value
return input_dict |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '4']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'main'}; {'id': '3', 'type': 'parameters', 'children': []}; {'id': '4', 'type': 'block', 'children': ['5', '24', '35', '56', '78', '105', '115', '250']}; {'id': '5', 'type': 'expression_statement', 'children': ['6']}; {'id': '6', 'type': 'assignment', 'children': ['7', '8']}; {'id': '7', 'type': 'identifier', 'children': [], 'value': 'parser'}; {'id': '8', 'type': 'call', 'children': ['9', '12']}; {'id': '9', 'type': 'attribute', 'children': ['10', '11']}; {'id': '10', 'type': 'identifier', 'children': [], 'value': 'argparse'}; {'id': '11', 'type': 'identifier', 'children': [], 'value': 'ArgumentParser'}; {'id': '12', 'type': 'argument_list', 'children': ['13', '16', '19']}; {'id': '13', 'type': 'keyword_argument', 'children': ['14', '15']}; {'id': '14', 'type': 'identifier', 'children': [], 'value': 'prog'}; {'id': '15', 'type': 'string', 'children': [], 'value': "'ProTECT'"}; {'id': '16', 'type': 'keyword_argument', 'children': ['17', '18']}; {'id': '17', 'type': 'identifier', 'children': [], 'value': 'description'}; {'id': '18', 'type': 'string', 'children': [], 'value': "'Prediction of T-Cell Epitopes for Cancer Therapy'"}; {'id': '19', 'type': 'keyword_argument', 'children': ['20', '21']}; {'id': '20', 'type': 'identifier', 'children': [], 'value': 'epilog'}; {'id': '21', 'type': 'concatenated_string', 'children': ['22', '23']}; {'id': '22', 'type': 'string', 'children': [], 'value': "'Contact Arjun Rao (aarao@ucsc.edu) if you encounter '"}; {'id': '23', 'type': 'string', 'children': [], 'value': "'any problems while running ProTECT'"}; {'id': '24', 'type': 'expression_statement', 'children': ['25']}; {'id': '25', 'type': 'assignment', 'children': ['26', '27']}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'inputs'}; {'id': '27', 'type': 'call', 'children': ['28', '31']}; 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{'id': '43', 'type': 'identifier', 'children': [], 'value': 'dest'}; {'id': '44', 'type': 'string', 'children': [], 'value': "'config_file'"}; {'id': '45', 'type': 'keyword_argument', 'children': ['46', '47']}; {'id': '46', 'type': 'identifier', 'children': [], 'value': 'help'}; {'id': '47', 'type': 'concatenated_string', 'children': ['48', '49']}; {'id': '48', 'type': 'string', 'children': [], 'value': "'Config file to be used in the '"}; {'id': '49', 'type': 'string', 'children': [], 'value': "'run.'"}; {'id': '50', 'type': 'keyword_argument', 'children': ['51', '52']}; {'id': '51', 'type': 'identifier', 'children': [], 'value': 'type'}; {'id': '52', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '53', 'type': 'keyword_argument', 'children': ['54', '55']}; {'id': '54', 'type': 'identifier', 'children': [], 'value': 'default'}; {'id': '55', 'type': 'None', 'children': []}; {'id': '56', 'type': 'expression_statement', 'children': ['57']}; {'id': '57', 'type': 'call', 'children': ['58', '61']}; {'id': '58', 'type': 'attribute', 'children': ['59', '60']}; {'id': '59', 'type': 'identifier', 'children': [], 'value': 'inputs'}; {'id': '60', 'type': 'identifier', 'children': [], 'value': 'add_argument'}; {'id': '61', 'type': 'argument_list', 'children': ['62', '63', '66', '72', '75']}; {'id': '62', 'type': 'string', 'children': [], 'value': "'--generate_config'"}; {'id': '63', 'type': 'keyword_argument', 'children': ['64', '65']}; {'id': '64', 'type': 'identifier', 'children': [], 'value': 'dest'}; {'id': '65', 'type': 'string', 'children': [], 'value': "'generate_config'"}; {'id': '66', 'type': 'keyword_argument', 'children': ['67', '68']}; {'id': '67', 'type': 'identifier', 'children': [], 'value': 'help'}; {'id': '68', 'type': 'concatenated_string', 'children': ['69', '70', '71']}; {'id': '69', 'type': 'string', 'children': [], 'value': "'Generate a config file '"}; {'id': '70', 'type': 'string', 'children': [], 'value': "'in the current directory that is pre-filled with references and flags for '"}; {'id': '71', 'type': 'string', 'children': [], 'value': "'an hg19 run.'"}; {'id': '72', 'type': 'keyword_argument', 'children': ['73', '74']}; {'id': '73', 'type': 'identifier', 'children': [], 'value': 'action'}; {'id': '74', 'type': 'string', 'children': [], 'value': "'store_true'"}; {'id': '75', 'type': 'keyword_argument', 'children': ['76', '77']}; {'id': '76', 'type': 'identifier', 'children': [], 'value': 'default'}; {'id': '77', 'type': 'False', 'children': []}; {'id': '78', 'type': 'expression_statement', 'children': ['79']}; {'id': '79', 'type': 'call', 'children': ['80', '83']}; {'id': '80', 'type': 'attribute', 'children': ['81', '82']}; {'id': '81', 'type': 'identifier', 'children': [], 'value': 'parser'}; {'id': '82', 'type': 'identifier', 'children': [], 'value': 'add_argument'}; {'id': '83', 'type': 'argument_list', 'children': ['84', '85', '88', '96', '99', '102']}; {'id': '84', 'type': 'string', 'children': [], 'value': "'--max-cores-per-job'"}; {'id': '85', 'type': 'keyword_argument', 'children': ['86', '87']}; {'id': '86', 'type': 'identifier', 'children': [], 'value': 'dest'}; {'id': '87', 'type': 'string', 'children': [], 'value': "'max_cores'"}; {'id': '88', 'type': 'keyword_argument', 'children': ['89', '90']}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'help'}; {'id': '90', 'type': 'concatenated_string', 'children': ['91', '92', '93', '94', '95']}; {'id': '91', 'type': 'string', 'children': [], 'value': "'Maximum cores to use per '"}; {'id': '92', 'type': 'string', 'children': [], 'value': "'job. Aligners and Haplotypers ask for cores dependent on the machine that '"}; {'id': '93', 'type': 'string', 'children': [], 'value': "'the launchpad gets assigned to -- In a heterogeneous cluster, this can '"}; {'id': '94', 'type': 'string', 'children': [], 'value': "'lead to problems. This value should be set to the number of cpus on the '"}; {'id': '95', 'type': 'string', 'children': [], 'value': "'smallest node in a cluster.'"}; {'id': '96', 'type': 'keyword_argument', 'children': ['97', '98']}; {'id': '97', 'type': 'identifier', 'children': [], 'value': 'type'}; {'id': '98', 'type': 'identifier', 'children': [], 'value': 'int'}; {'id': '99', 'type': 'keyword_argument', 'children': ['100', '101']}; {'id': '100', 'type': 'identifier', 'children': [], 'value': 'required'}; {'id': '101', 'type': 'False', 'children': []}; {'id': '102', 'type': 'keyword_argument', 'children': ['103', '104']}; {'id': '103', 'type': 'identifier', 'children': [], 'value': 'default'}; {'id': '104', 'type': 'None', 'children': []}; {'id': '105', 'type': 'expression_statement', 'children': ['106']}; {'id': '106', 'type': 'assignment', 'children': ['107', '110']}; {'id': '107', 'type': 'pattern_list', 'children': ['108', '109']}; {'id': '108', 'type': 'identifier', 'children': [], 'value': 'params'}; {'id': '109', 'type': 'identifier', 'children': [], 'value': 'others'}; {'id': '110', 'type': 'call', 'children': ['111', '114']}; {'id': '111', 'type': 'attribute', 'children': ['112', '113']}; {'id': '112', 'type': 'identifier', 'children': [], 'value': 'parser'}; {'id': '113', 'type': 'identifier', 'children': [], 'value': 'parse_known_args'}; {'id': '114', 'type': 'argument_list', 'children': []}; {'id': '115', 'type': 'if_statement', 'children': ['116', '119', '124']}; {'id': '116', 'type': 'attribute', 'children': ['117', '118']}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'params'}; {'id': '118', 'type': 'identifier', 'children': [], 'value': 'generate_config'}; {'id': '119', 'type': 'block', 'children': ['120']}; {'id': '120', 'type': 'expression_statement', 'children': ['121']}; {'id': '121', 'type': 'call', 'children': ['122', '123']}; {'id': '122', 'type': 'identifier', 'children': [], 'value': 'generate_config_file'}; {'id': '123', 'type': 'argument_list', 'children': []}; {'id': '124', 'type': 'else_clause', 'children': ['125']}; {'id': '125', 'type': 'block', 'children': ['126', '135', '143', '158', '225', '240']}; {'id': '126', 'type': 'expression_statement', 'children': ['127']}; {'id': '127', 'type': 'call', 'children': ['128', '133']}; {'id': '128', 'type': 'attribute', 'children': ['129', '132']}; {'id': '129', 'type': 'attribute', 'children': ['130', '131']}; {'id': '130', 'type': 'identifier', 'children': [], 'value': 'Job'}; {'id': '131', 'type': 'identifier', 'children': [], 'value': 'Runner'}; {'id': '132', 'type': 'identifier', 'children': [], 'value': 'addToilOptions'}; {'id': '133', 'type': 'argument_list', 'children': ['134']}; {'id': '134', 'type': 'identifier', 'children': [], 'value': 'parser'}; {'id': '135', 'type': 'expression_statement', 'children': ['136']}; {'id': '136', 'type': 'assignment', 'children': ['137', '138']}; {'id': '137', 'type': 'identifier', 'children': [], 'value': 'params'}; {'id': '138', 'type': 'call', 'children': ['139', '142']}; 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{'id': '154', 'type': 'argument_list', 'children': ['155']}; {'id': '155', 'type': 'attribute', 'children': ['156', '157']}; {'id': '156', 'type': 'identifier', 'children': [], 'value': 'params'}; {'id': '157', 'type': 'identifier', 'children': [], 'value': 'config_file'}; {'id': '158', 'type': 'if_statement', 'children': ['159', '162']}; {'id': '159', 'type': 'attribute', 'children': ['160', '161']}; {'id': '160', 'type': 'identifier', 'children': [], 'value': 'params'}; {'id': '161', 'type': 'identifier', 'children': [], 'value': 'maxCores'}; {'id': '162', 'type': 'block', 'children': ['163']}; {'id': '163', 'type': 'if_statement', 'children': ['164', '168', '180']}; {'id': '164', 'type': 'not_operator', 'children': ['165']}; {'id': '165', 'type': 'attribute', 'children': ['166', '167']}; {'id': '166', 'type': 'identifier', 'children': [], 'value': 'params'}; {'id': '167', 'type': 'identifier', 'children': [], 'value': 'max_cores'}; {'id': '168', 'type': 'block', 'children': ['169']}; {'id': '169', 'type': 'expression_statement', 'children': ['170']}; {'id': '170', 'type': 'assignment', 'children': ['171', '174']}; {'id': '171', 'type': 'attribute', 'children': ['172', '173']}; {'id': '172', 'type': 'identifier', 'children': [], 'value': 'params'}; {'id': '173', 'type': 'identifier', 'children': [], 'value': 'max_cores'}; {'id': '174', 'type': 'call', 'children': ['175', '176']}; {'id': '175', 'type': 'identifier', 'children': [], 'value': 'int'}; {'id': '176', 'type': 'argument_list', 'children': ['177']}; {'id': '177', 'type': 'attribute', 'children': ['178', '179']}; {'id': '178', 'type': 'identifier', 'children': [], 'value': 'params'}; {'id': '179', 'type': 'identifier', 'children': [], 'value': 'maxCores'}; {'id': '180', 'type': 'else_clause', 'children': ['181']}; {'id': '181', 'type': 'block', 'children': ['182']}; {'id': '182', 'type': 'if_statement', 'children': ['183', '193']}; {'id': '183', 'type': 'comparison_operator', 'children': ['184', '187'], 'value': '>'}; {'id': '184', 'type': 'attribute', 'children': ['185', '186']}; {'id': '185', 'type': 'identifier', 'children': [], 'value': 'params'}; {'id': '186', 'type': 'identifier', 'children': [], 'value': 'max_cores'}; {'id': '187', 'type': 'call', 'children': ['188', '189']}; {'id': '188', 'type': 'identifier', 'children': [], 'value': 'int'}; {'id': '189', 'type': 'argument_list', 'children': ['190']}; {'id': '190', 'type': 'attribute', 'children': ['191', '192']}; {'id': '191', 'type': 'identifier', 'children': [], 'value': 'params'}; {'id': '192', 'type': 'identifier', 'children': [], 'value': 'maxCores'}; {'id': '193', 'type': 'block', 'children': ['194', '214']}; {'id': '194', 'type': 'expression_statement', 'children': ['195']}; {'id': '195', 'type': 'call', 'children': ['196', '197']}; {'id': '196', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '197', 'type': 'argument_list', 'children': ['198', '209']}; {'id': '198', 'type': 'binary_operator', 'children': ['199', '202'], 'value': '%'}; {'id': '199', 'type': 'concatenated_string', 'children': ['200', '201']}; {'id': '200', 'type': 'string', 'children': [], 'value': '"The value provided to max-cores-per-job (%s) was greater than that "'}; {'id': '201', 'type': 'string', 'children': [], 'value': '"provided to maxCores (%s). Setting max-cores-per-job = maxCores."'}; {'id': '202', 'type': 'tuple', 'children': ['203', '206']}; {'id': '203', 'type': 'attribute', 'children': ['204', '205']}; {'id': '204', 'type': 'identifier', 'children': [], 'value': 'params'}; {'id': '205', 'type': 'identifier', 'children': [], 'value': 'max_cores'}; {'id': '206', 'type': 'attribute', 'children': ['207', '208']}; {'id': '207', 'type': 'identifier', 'children': [], 'value': 'params'}; {'id': '208', 'type': 'identifier', 'children': [], 'value': 'maxCores'}; {'id': '209', 'type': 'keyword_argument', 'children': ['210', '211']}; {'id': '210', 'type': 'identifier', 'children': [], 'value': 'file'}; {'id': '211', 'type': 'attribute', 'children': ['212', '213']}; {'id': '212', 'type': 'identifier', 'children': [], 'value': 'sys'}; {'id': '213', 'type': 'identifier', 'children': [], 'value': 'stderr'}; {'id': '214', 'type': 'expression_statement', 'children': ['215']}; {'id': '215', 'type': 'assignment', 'children': ['216', '219']}; {'id': '216', 'type': 'attribute', 'children': ['217', '218']}; {'id': '217', 'type': 'identifier', 'children': [], 'value': 'params'}; {'id': '218', 'type': 'identifier', 'children': [], 'value': 'max_cores'}; {'id': '219', 'type': 'call', 'children': ['220', '221']}; {'id': '220', 'type': 'identifier', 'children': [], 'value': 'int'}; {'id': '221', 'type': 'argument_list', 'children': ['222']}; {'id': '222', 'type': 'attribute', 'children': ['223', '224']}; {'id': '223', 'type': 'identifier', 'children': [], 'value': 'params'}; {'id': '224', 'type': 'identifier', 'children': [], 'value': 'maxCores'}; {'id': '225', 'type': 'expression_statement', 'children': ['226']}; {'id': '226', 'type': 'assignment', 'children': ['227', '228']}; {'id': '227', 'type': 'identifier', 'children': [], 'value': 'start'}; {'id': '228', 'type': 'call', 'children': ['229', '232']}; {'id': '229', 'type': 'attribute', 'children': ['230', '231']}; {'id': '230', 'type': 'identifier', 'children': [], 'value': 'Job'}; {'id': '231', 'type': 'identifier', 'children': [], 'value': 'wrapJobFn'}; {'id': '232', 'type': 'argument_list', 'children': ['233', '234', '237']}; {'id': '233', 'type': 'identifier', 'children': [], 'value': 'parse_config_file'}; {'id': '234', 'type': 'attribute', 'children': ['235', '236']}; {'id': '235', 'type': 'identifier', 'children': [], 'value': 'params'}; {'id': '236', 'type': 'identifier', 'children': [], 'value': 'config_file'}; {'id': '237', 'type': 'attribute', 'children': ['238', '239']}; {'id': '238', 'type': 'identifier', 'children': [], 'value': 'params'}; {'id': '239', 'type': 'identifier', 'children': [], 'value': 'max_cores'}; {'id': '240', 'type': 'expression_statement', 'children': ['241']}; {'id': '241', 'type': 'call', 'children': ['242', '247']}; {'id': '242', 'type': 'attribute', 'children': ['243', '246']}; {'id': '243', 'type': 'attribute', 'children': ['244', '245']}; {'id': '244', 'type': 'identifier', 'children': [], 'value': 'Job'}; {'id': '245', 'type': 'identifier', 'children': [], 'value': 'Runner'}; {'id': '246', 'type': 'identifier', 'children': [], 'value': 'startToil'}; {'id': '247', 'type': 'argument_list', 'children': ['248', '249']}; {'id': '248', 'type': 'identifier', 'children': [], 'value': 'start'}; {'id': '249', 'type': 'identifier', 'children': [], 'value': 'params'}; {'id': '250', 'type': 'return_statement', 'children': ['251']}; {'id': '251', 'type': 'None', 'children': []} | def main():
parser = argparse.ArgumentParser(prog='ProTECT',
description='Prediction of T-Cell Epitopes for Cancer Therapy',
epilog='Contact Arjun Rao (aarao@ucsc.edu) if you encounter '
'any problems while running ProTECT')
inputs = parser.add_mutually_exclusive_group(required=True)
inputs.add_argument('--config_file', dest='config_file', help='Config file to be used in the '
'run.', type=str, default=None)
inputs.add_argument('--generate_config', dest='generate_config', help='Generate a config file '
'in the current directory that is pre-filled with references and flags for '
'an hg19 run.', action='store_true', default=False)
parser.add_argument('--max-cores-per-job', dest='max_cores', help='Maximum cores to use per '
'job. Aligners and Haplotypers ask for cores dependent on the machine that '
'the launchpad gets assigned to -- In a heterogeneous cluster, this can '
'lead to problems. This value should be set to the number of cpus on the '
'smallest node in a cluster.',
type=int, required=False, default=None)
params, others = parser.parse_known_args()
if params.generate_config:
generate_config_file()
else:
Job.Runner.addToilOptions(parser)
params = parser.parse_args()
params.config_file = os.path.abspath(params.config_file)
if params.maxCores:
if not params.max_cores:
params.max_cores = int(params.maxCores)
else:
if params.max_cores > int(params.maxCores):
print("The value provided to max-cores-per-job (%s) was greater than that "
"provided to maxCores (%s). Setting max-cores-per-job = maxCores." %
(params.max_cores, params.maxCores), file=sys.stderr)
params.max_cores = int(params.maxCores)
start = Job.wrapJobFn(parse_config_file, params.config_file, params.max_cores)
Job.Runner.startToil(start, params)
return None |
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{'id': '28', 'type': 'identifier', 'children': [], 'value': 'bwa_disk'}; {'id': '29', 'type': 'identifier', 'children': [], 'value': 'fastqs'}; {'id': '30', 'type': 'subscript', 'children': ['31', '32']}; {'id': '31', 'type': 'identifier', 'children': [], 'value': 'bwa_options'}; {'id': '32', 'type': 'string', 'children': [], 'value': "'index'"}; {'id': '33', 'type': 'keyword_argument', 'children': ['34', '35']}; {'id': '34', 'type': 'identifier', 'children': [], 'value': 'memory'}; {'id': '35', 'type': 'subscript', 'children': ['36', '37']}; {'id': '36', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '37', 'type': 'string', 'children': [], 'value': "'java_Xmx'"}; {'id': '38', 'type': 'keyword_argument', 'children': ['39', '40']}; {'id': '39', 'type': 'identifier', 'children': [], 'value': 'cores'}; {'id': '40', 'type': 'subscript', 'children': ['41', '42']}; {'id': '41', 'type': 'identifier', 'children': [], 'value': 'bwa_options'}; {'id': '42', 'type': 'string', 'children': [], 'value': "'n'"}; {'id': '43', 'type': 'expression_statement', 'children': ['44']}; {'id': '44', 'type': 'assignment', 'children': ['45', '46']}; {'id': '45', 'type': 'identifier', 'children': [], 'value': 'sam2bam'}; {'id': '46', 'type': 'call', 'children': ['47', '50']}; {'id': '47', 'type': 'attribute', 'children': ['48', '49']}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'wrapJobFn'}; {'id': '50', 'type': 'argument_list', 'children': ['51', '52', '57', '58', '59', '62', '73']}; {'id': '51', 'type': 'identifier', 'children': [], 'value': 'bam_conversion'}; {'id': '52', 'type': 'call', 'children': ['53', '56']}; {'id': '53', 'type': 'attribute', 'children': ['54', '55']}; {'id': '54', 'type': 'identifier', 'children': [], 'value': 'bwa'}; {'id': '55', 'type': 'identifier', 'children': [], 'value': 'rv'}; {'id': '56', 'type': 'argument_list', 'children': []}; {'id': '57', 'type': 'identifier', 'children': [], 'value': 'sample_type'}; {'id': '58', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '59', 'type': 'subscript', 'children': ['60', '61']}; {'id': '60', 'type': 'identifier', 'children': [], 'value': 'bwa_options'}; {'id': '61', 'type': 'string', 'children': [], 'value': "'samtools'"}; {'id': '62', 'type': 'keyword_argument', 'children': ['63', '64']}; {'id': '63', 'type': 'identifier', 'children': [], 'value': 'disk'}; {'id': '64', 'type': 'call', 'children': ['65', '66']}; {'id': '65', 'type': 'identifier', 'children': [], 'value': 'PromisedRequirement'}; {'id': '66', 'type': 'argument_list', 'children': ['67', '68']}; {'id': '67', 'type': 'identifier', 'children': [], 'value': 'sam2bam_disk'}; {'id': '68', 'type': 'call', 'children': ['69', '72']}; {'id': '69', 'type': 'attribute', 'children': ['70', '71']}; {'id': '70', 'type': 'identifier', 'children': [], 'value': 'bwa'}; {'id': '71', 'type': 'identifier', 'children': [], 'value': 'rv'}; {'id': '72', 'type': 'argument_list', 'children': []}; {'id': '73', 'type': 'keyword_argument', 'children': ['74', '75']}; {'id': '74', 'type': 'identifier', 'children': [], 'value': 'memory'}; {'id': '75', 'type': 'subscript', 'children': ['76', '77']}; {'id': '76', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '77', 'type': 'string', 'children': [], 'value': "'java_Xmx'"}; {'id': '78', 'type': 'expression_statement', 'children': ['79']}; {'id': '79', 'type': 'assignment', 'children': ['80', '81']}; {'id': '80', 'type': 'identifier', 'children': [], 'value': 'reheader'}; {'id': '81', 'type': 'call', 'children': ['82', '85']}; {'id': '82', 'type': 'attribute', 'children': ['83', '84']}; {'id': '83', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '84', 'type': 'identifier', 'children': [], 'value': 'wrapJobFn'}; {'id': '85', 'type': 'argument_list', 'children': ['86', '87', '92', '93', '94', '97', '108']}; {'id': '86', 'type': 'identifier', 'children': [], 'value': 'fix_bam_header'}; {'id': '87', 'type': 'call', 'children': ['88', '91']}; 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{'id': '103', 'type': 'call', 'children': ['104', '107']}; {'id': '104', 'type': 'attribute', 'children': ['105', '106']}; {'id': '105', 'type': 'identifier', 'children': [], 'value': 'bwa'}; {'id': '106', 'type': 'identifier', 'children': [], 'value': 'rv'}; {'id': '107', 'type': 'argument_list', 'children': []}; {'id': '108', 'type': 'keyword_argument', 'children': ['109', '110']}; {'id': '109', 'type': 'identifier', 'children': [], 'value': 'memory'}; {'id': '110', 'type': 'subscript', 'children': ['111', '112']}; {'id': '111', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '112', 'type': 'string', 'children': [], 'value': "'java_Xmx'"}; {'id': '113', 'type': 'expression_statement', 'children': ['114']}; {'id': '114', 'type': 'assignment', 'children': ['115', '116']}; {'id': '115', 'type': 'identifier', 'children': [], 'value': 'regroup'}; {'id': '116', 'type': 'call', 'children': ['117', '120']}; {'id': '117', 'type': 'attribute', 'children': ['118', '119']}; {'id': '118', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '119', 'type': 'identifier', 'children': [], 'value': 'wrapJobFn'}; {'id': '120', 'type': 'argument_list', 'children': ['121', '122', '127', '128', '129', '132', '143']}; {'id': '121', 'type': 'identifier', 'children': [], 'value': 'add_readgroups'}; {'id': '122', 'type': 'call', 'children': ['123', '126']}; {'id': '123', 'type': 'attribute', 'children': ['124', '125']}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'reheader'}; {'id': '125', 'type': 'identifier', 'children': [], 'value': 'rv'}; {'id': '126', 'type': 'argument_list', 'children': []}; {'id': '127', 'type': 'identifier', 'children': [], 'value': 'sample_type'}; {'id': '128', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '129', 'type': 'subscript', 'children': ['130', '131']}; {'id': '130', 'type': 'identifier', 'children': [], 'value': 'bwa_options'}; {'id': '131', 'type': 'string', 'children': [], 'value': "'picard'"}; {'id': '132', 'type': 'keyword_argument', 'children': ['133', '134']}; {'id': '133', 'type': 'identifier', 'children': [], 'value': 'disk'}; {'id': '134', 'type': 'call', 'children': ['135', '136']}; {'id': '135', 'type': 'identifier', 'children': [], 'value': 'PromisedRequirement'}; {'id': '136', 'type': 'argument_list', 'children': ['137', '138']}; {'id': '137', 'type': 'identifier', 'children': [], 'value': 'regroup_disk'}; {'id': '138', 'type': 'call', 'children': ['139', '142']}; {'id': '139', 'type': 'attribute', 'children': ['140', '141']}; {'id': '140', 'type': 'identifier', 'children': [], 'value': 'reheader'}; {'id': '141', 'type': 'identifier', 'children': [], 'value': 'rv'}; {'id': '142', 'type': 'argument_list', 'children': []}; {'id': '143', 'type': 'keyword_argument', 'children': ['144', '145']}; {'id': '144', 'type': 'identifier', 'children': [], 'value': 'memory'}; {'id': '145', 'type': 'subscript', 'children': ['146', '147']}; {'id': '146', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '147', 'type': 'string', 'children': [], 'value': "'java_Xmx'"}; {'id': '148', 'type': 'expression_statement', 'children': ['149']}; {'id': '149', 'type': 'assignment', 'children': ['150', '151']}; {'id': '150', 'type': 'identifier', 'children': [], 'value': 'mkdup'}; {'id': '151', 'type': 'call', 'children': ['152', '155']}; {'id': '152', 'type': 'attribute', 'children': ['153', '154']}; {'id': '153', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '154', 'type': 'identifier', 'children': [], 'value': 'wrapJobFn'}; {'id': '155', 'type': 'argument_list', 'children': ['156', '157', '162', '163', '164', '167', '178']}; {'id': '156', 'type': 'identifier', 'children': [], 'value': 'mark_duplicates'}; {'id': '157', 'type': 'call', 'children': ['158', '161']}; {'id': '158', 'type': 'attribute', 'children': ['159', '160']}; {'id': '159', 'type': 'identifier', 'children': [], 'value': 'regroup'}; {'id': '160', 'type': 'identifier', 'children': [], 'value': 'rv'}; {'id': '161', 'type': 'argument_list', 'children': []}; {'id': '162', 'type': 'identifier', 'children': [], 'value': 'sample_type'}; {'id': '163', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '164', 'type': 'subscript', 'children': ['165', '166']}; {'id': '165', 'type': 'identifier', 'children': [], 'value': 'bwa_options'}; {'id': '166', 'type': 'string', 'children': [], 'value': "'picard'"}; {'id': '167', 'type': 'keyword_argument', 'children': ['168', '169']}; {'id': '168', 'type': 'identifier', 'children': [], 'value': 'disk'}; {'id': '169', 'type': 'call', 'children': ['170', '171']}; {'id': '170', 'type': 'identifier', 'children': [], 'value': 'PromisedRequirement'}; {'id': '171', 'type': 'argument_list', 'children': ['172', '173']}; {'id': '172', 'type': 'identifier', 'children': [], 'value': 'mkdup_disk'}; {'id': '173', 'type': 'call', 'children': ['174', '177']}; {'id': '174', 'type': 'attribute', 'children': ['175', '176']}; {'id': '175', 'type': 'identifier', 'children': [], 'value': 'regroup'}; {'id': '176', 'type': 'identifier', 'children': [], 'value': 'rv'}; {'id': '177', 'type': 'argument_list', 'children': []}; {'id': '178', 'type': 'keyword_argument', 'children': ['179', '180']}; {'id': '179', 'type': 'identifier', 'children': [], 'value': 'memory'}; {'id': '180', 'type': 'subscript', 'children': ['181', '182']}; {'id': '181', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '182', 'type': 'string', 'children': [], 'value': "'java_Xmx'"}; {'id': '183', 'type': 'expression_statement', 'children': ['184']}; {'id': '184', 'type': 'assignment', 'children': ['185', '186']}; {'id': '185', 'type': 'identifier', 'children': [], 'value': 'index'}; {'id': '186', 'type': 'call', 'children': ['187', '190']}; {'id': '187', 'type': 'attribute', 'children': ['188', '189']}; {'id': '188', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '189', 'type': 'identifier', 'children': [], 'value': 'wrapJobFn'}; {'id': '190', 'type': 'argument_list', 'children': ['191', '192', '197', '198', '199', '202', '205', '216']}; {'id': '191', 'type': 'identifier', 'children': [], 'value': 'index_bamfile'}; {'id': '192', 'type': 'call', 'children': ['193', '196']}; {'id': '193', 'type': 'attribute', 'children': ['194', '195']}; {'id': '194', 'type': 'identifier', 'children': [], 'value': 'mkdup'}; {'id': '195', 'type': 'identifier', 'children': [], 'value': 'rv'}; {'id': '196', 'type': 'argument_list', 'children': []}; {'id': '197', 'type': 'identifier', 'children': [], 'value': 'sample_type'}; {'id': '198', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '199', 'type': 'subscript', 'children': ['200', '201']}; {'id': '200', 'type': 'identifier', 'children': [], 'value': 'bwa_options'}; {'id': '201', 'type': 'string', 'children': [], 'value': "'samtools'"}; {'id': '202', 'type': 'keyword_argument', 'children': ['203', '204']}; {'id': '203', 'type': 'identifier', 'children': [], 'value': 'sample_info'}; {'id': '204', 'type': 'string', 'children': [], 'value': "'fix_pg_sorted'"}; {'id': '205', 'type': 'keyword_argument', 'children': ['206', '207']}; {'id': '206', 'type': 'identifier', 'children': [], 'value': 'disk'}; {'id': '207', 'type': 'call', 'children': ['208', '209']}; {'id': '208', 'type': 'identifier', 'children': [], 'value': 'PromisedRequirement'}; {'id': '209', 'type': 'argument_list', 'children': ['210', '211']}; {'id': '210', 'type': 'identifier', 'children': [], 'value': 'index_disk'}; {'id': '211', 'type': 'call', 'children': ['212', '215']}; {'id': '212', 'type': 'attribute', 'children': ['213', '214']}; {'id': '213', 'type': 'identifier', 'children': [], 'value': 'mkdup'}; {'id': '214', 'type': 'identifier', 'children': [], 'value': 'rv'}; {'id': '215', 'type': 'argument_list', 'children': []}; {'id': '216', 'type': 'keyword_argument', 'children': ['217', '218']}; {'id': '217', 'type': 'identifier', 'children': [], 'value': 'memory'}; {'id': '218', 'type': 'subscript', 'children': ['219', '220']}; {'id': '219', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '220', 'type': 'string', 'children': [], 'value': "'java_Xmx'"}; {'id': '221', 'type': 'expression_statement', 'children': ['222']}; {'id': '222', 'type': 'call', 'children': ['223', '226']}; {'id': '223', 'type': 'attribute', 'children': ['224', '225']}; {'id': '224', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '225', 'type': 'identifier', 'children': [], 'value': 'addChild'}; {'id': '226', 'type': 'argument_list', 'children': ['227']}; {'id': '227', 'type': 'identifier', 'children': [], 'value': 'bwa'}; {'id': '228', 'type': 'expression_statement', 'children': ['229']}; {'id': '229', 'type': 'call', 'children': ['230', '233']}; {'id': '230', 'type': 'attribute', 'children': ['231', '232']}; {'id': '231', 'type': 'identifier', 'children': [], 'value': 'bwa'}; {'id': '232', 'type': 'identifier', 'children': [], 'value': 'addChild'}; {'id': '233', 'type': 'argument_list', 'children': ['234']}; {'id': '234', 'type': 'identifier', 'children': [], 'value': 'sam2bam'}; {'id': '235', 'type': 'expression_statement', 'children': ['236']}; {'id': '236', 'type': 'call', 'children': ['237', '240']}; {'id': '237', 'type': 'attribute', 'children': ['238', '239']}; {'id': '238', 'type': 'identifier', 'children': [], 'value': 'sam2bam'}; {'id': '239', 'type': 'identifier', 'children': [], 'value': 'addChild'}; {'id': '240', 'type': 'argument_list', 'children': ['241']}; {'id': '241', 'type': 'identifier', 'children': [], 'value': 'reheader'}; {'id': '242', 'type': 'expression_statement', 'children': ['243']}; {'id': '243', 'type': 'call', 'children': ['244', '247']}; {'id': '244', 'type': 'attribute', 'children': ['245', '246']}; {'id': '245', 'type': 'identifier', 'children': [], 'value': 'reheader'}; {'id': '246', 'type': 'identifier', 'children': [], 'value': 'addChild'}; {'id': '247', 'type': 'argument_list', 'children': ['248']}; {'id': '248', 'type': 'identifier', 'children': [], 'value': 'regroup'}; {'id': '249', 'type': 'expression_statement', 'children': ['250']}; {'id': '250', 'type': 'call', 'children': ['251', '254']}; {'id': '251', 'type': 'attribute', 'children': ['252', '253']}; {'id': '252', 'type': 'identifier', 'children': [], 'value': 'regroup'}; {'id': '253', 'type': 'identifier', 'children': [], 'value': 'addChild'}; {'id': '254', 'type': 'argument_list', 'children': ['255']}; {'id': '255', 'type': 'identifier', 'children': [], 'value': 'mkdup'}; {'id': '256', 'type': 'expression_statement', 'children': ['257']}; {'id': '257', 'type': 'call', 'children': ['258', '261']}; {'id': '258', 'type': 'attribute', 'children': ['259', '260']}; {'id': '259', 'type': 'identifier', 'children': [], 'value': 'mkdup'}; {'id': '260', 'type': 'identifier', 'children': [], 'value': 'addChild'}; {'id': '261', 'type': 'argument_list', 'children': ['262']}; {'id': '262', 'type': 'identifier', 'children': [], 'value': 'index'}; {'id': '263', 'type': 'return_statement', 'children': ['264']}; {'id': '264', 'type': 'call', 'children': ['265', '268']}; {'id': '265', 'type': 'attribute', 'children': ['266', '267']}; {'id': '266', 'type': 'identifier', 'children': [], 'value': 'index'}; {'id': '267', 'type': 'identifier', 'children': [], 'value': 'rv'}; {'id': '268', 'type': 'argument_list', 'children': []} | def align_dna(job, fastqs, sample_type, univ_options, bwa_options):
bwa = job.wrapJobFn(run_bwa, fastqs, sample_type, univ_options, bwa_options,
disk=PromisedRequirement(bwa_disk, fastqs, bwa_options['index']),
memory=univ_options['java_Xmx'],
cores=bwa_options['n'])
sam2bam = job.wrapJobFn(bam_conversion, bwa.rv(), sample_type, univ_options,
bwa_options['samtools'],
disk=PromisedRequirement(sam2bam_disk, bwa.rv()),
memory=univ_options['java_Xmx'])
reheader = job.wrapJobFn(fix_bam_header, sam2bam.rv(), sample_type, univ_options,
bwa_options['samtools'],
disk=PromisedRequirement(sam2bam_disk, bwa.rv()),
memory=univ_options['java_Xmx'])
regroup = job.wrapJobFn(add_readgroups, reheader.rv(), sample_type, univ_options,
bwa_options['picard'],
disk=PromisedRequirement(regroup_disk, reheader.rv()),
memory=univ_options['java_Xmx'])
mkdup = job.wrapJobFn(mark_duplicates, regroup.rv(), sample_type, univ_options,
bwa_options['picard'],
disk=PromisedRequirement(mkdup_disk, regroup.rv()),
memory=univ_options['java_Xmx'])
index = job.wrapJobFn(index_bamfile, mkdup.rv(), sample_type, univ_options,
bwa_options['samtools'], sample_info='fix_pg_sorted',
disk=PromisedRequirement(index_disk, mkdup.rv()),
memory=univ_options['java_Xmx'])
job.addChild(bwa)
bwa.addChild(sam2bam)
sam2bam.addChild(reheader)
reheader.addChild(regroup)
regroup.addChild(mkdup)
mkdup.addChild(index)
return index.rv() |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '6']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'create'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'cls'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'entry'}; {'id': '6', 'type': 'block', 'children': ['7', '73', '80', '104', '119']}; {'id': '7', 'type': 'try_statement', 'children': ['8', '16', '40']}; {'id': '8', 'type': 'block', 'children': ['9']}; {'id': '9', 'type': 'expression_statement', 'children': ['10']}; {'id': '10', 'type': 'assignment', 'children': ['11', '12']}; {'id': '11', 'type': 'identifier', 'children': [], 'value': 'module'}; {'id': '12', 'type': 'call', 'children': ['13', '14']}; {'id': '13', 'type': 'identifier', 'children': [], 'value': 'import_module'}; {'id': '14', 'type': 'argument_list', 'children': ['15']}; {'id': '15', 'type': 'identifier', 'children': [], 'value': 'entry'}; {'id': '16', 'type': 'except_clause', 'children': ['17', '18']}; {'id': '17', 'type': 'identifier', 'children': [], 'value': 'ImportError'}; {'id': '18', 'type': 'block', 'children': ['19', '23', '35']}; {'id': '19', 'type': 'expression_statement', 'children': ['20']}; {'id': '20', 'type': 'assignment', 'children': ['21', '22']}; {'id': '21', 'type': 'identifier', 'children': [], 'value': 'module'}; {'id': '22', 'type': 'None', 'children': []}; {'id': '23', 'type': 'expression_statement', 'children': ['24']}; {'id': '24', 'type': 'assignment', 'children': ['25', '29']}; {'id': '25', 'type': 'pattern_list', 'children': ['26', '27', '28']}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'mod_path'}; {'id': '27', 'type': 'identifier', 'children': [], 'value': '_'}; {'id': '28', 'type': 'identifier', 'children': [], 'value': 'cls_name'}; {'id': '29', 'type': 'call', 'children': ['30', '33']}; {'id': '30', 'type': 'attribute', 'children': ['31', '32']}; {'id': '31', 'type': 'identifier', 'children': [], 'value': 'entry'}; {'id': '32', 'type': 'identifier', 'children': [], 'value': 'rpartition'}; {'id': '33', 'type': 'argument_list', 'children': ['34']}; {'id': '34', 'type': 'string', 'children': [], 'value': "'.'"}; {'id': '35', 'type': 'if_statement', 'children': ['36', '38']}; {'id': '36', 'type': 'not_operator', 'children': ['37']}; {'id': '37', 'type': 'identifier', 'children': [], 'value': 'mod_path'}; {'id': '38', 'type': 'block', 'children': ['39']}; {'id': '39', 'type': 'raise_statement', 'children': []}; {'id': '40', 'type': 'else_clause', 'children': ['41']}; {'id': '41', 'type': 'block', 'children': ['42']}; {'id': '42', 'type': 'try_statement', 'children': ['43', '50', '59']}; {'id': '43', 'type': 'block', 'children': ['44']}; {'id': '44', 'type': 'expression_statement', 'children': ['45']}; {'id': '45', 'type': 'assignment', 'children': ['46', '47']}; {'id': '46', 'type': 'identifier', 'children': [], 'value': 'entry'}; {'id': '47', 'type': 'attribute', 'children': ['48', '49']}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'module'}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'default_bot'}; {'id': '50', 'type': 'except_clause', 'children': ['51', '52']}; {'id': '51', 'type': 'identifier', 'children': [], 'value': 'AttributeError'}; {'id': '52', 'type': 'block', 'children': ['53']}; {'id': '53', 'type': 'return_statement', 'children': ['54']}; {'id': '54', 'type': 'call', 'children': ['55', '56']}; {'id': '55', 'type': 'identifier', 'children': [], 'value': 'cls'}; {'id': '56', 'type': 'argument_list', 'children': ['57', '58']}; {'id': '57', 'type': 'string', 'children': [], 'value': "f'{entry}.Bot'"}; {'id': '58', 'type': 'identifier', 'children': [], 'value': 'module'}; {'id': '59', 'type': 'else_clause', 'children': ['60']}; {'id': '60', 'type': 'block', 'children': ['61']}; {'id': '61', 'type': 'expression_statement', 'children': ['62']}; {'id': '62', 'type': 'assignment', 'children': ['63', '67']}; {'id': '63', 'type': 'pattern_list', 'children': ['64', '65', '66']}; {'id': '64', 'type': 'identifier', 'children': [], 'value': 'mod_path'}; {'id': '65', 'type': 'identifier', 'children': [], 'value': '_'}; {'id': '66', 'type': 'identifier', 'children': [], 'value': 'cls_name'}; {'id': '67', 'type': 'call', 'children': ['68', '71']}; {'id': '68', 'type': 'attribute', 'children': ['69', '70']}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'entry'}; {'id': '70', 'type': 'identifier', 'children': [], 'value': 'rpartition'}; {'id': '71', 'type': 'argument_list', 'children': ['72']}; {'id': '72', 'type': 'string', 'children': [], 'value': "'.'"}; {'id': '73', 'type': 'expression_statement', 'children': ['74']}; {'id': '74', 'type': 'assignment', 'children': ['75', '76']}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'mod'}; {'id': '76', 'type': 'call', 'children': ['77', '78']}; {'id': '77', 'type': 'identifier', 'children': [], 'value': 'import_module'}; {'id': '78', 'type': 'argument_list', 'children': ['79']}; {'id': '79', 'type': 'identifier', 'children': [], 'value': 'mod_path'}; {'id': '80', 'type': 'try_statement', 'children': ['81', '90']}; {'id': '81', 'type': 'block', 'children': ['82']}; {'id': '82', 'type': 'expression_statement', 'children': ['83']}; {'id': '83', 'type': 'assignment', 'children': ['84', '85']}; {'id': '84', 'type': 'identifier', 'children': [], 'value': 'bot_cls'}; {'id': '85', 'type': 'call', 'children': ['86', '87']}; {'id': '86', 'type': 'identifier', 'children': [], 'value': 'getattr'}; {'id': '87', 'type': 'argument_list', 'children': ['88', '89']}; {'id': '88', 'type': 'identifier', 'children': [], 'value': 'mod'}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'cls_name'}; {'id': '90', 'type': 'except_clause', 'children': ['91', '92']}; {'id': '91', 'type': 'identifier', 'children': [], 'value': 'AttributeError'}; {'id': '92', 'type': 'block', 'children': ['93', '103']}; {'id': '93', 'type': 'if_statement', 'children': ['94', '97']}; {'id': '94', 'type': 'comparison_operator', 'children': ['95', '96'], 'value': 'is'}; {'id': '95', 'type': 'identifier', 'children': [], 'value': 'module'}; {'id': '96', 'type': 'None', 'children': []}; {'id': '97', 'type': 'block', 'children': ['98']}; {'id': '98', 'type': 'expression_statement', 'children': ['99']}; {'id': '99', 'type': 'call', 'children': ['100', '101']}; {'id': '100', 'type': 'identifier', 'children': [], 'value': 'import_module'}; {'id': '101', 'type': 'argument_list', 'children': ['102']}; {'id': '102', 'type': 'identifier', 'children': [], 'value': 'entry'}; {'id': '103', 'type': 'raise_statement', 'children': []}; {'id': '104', 'type': 'if_statement', 'children': ['105', '111']}; {'id': '105', 'type': 'not_operator', 'children': ['106']}; {'id': '106', 'type': 'call', 'children': ['107', '108']}; {'id': '107', 'type': 'identifier', 'children': [], 'value': 'issubclass'}; {'id': '108', 'type': 'argument_list', 'children': ['109', '110']}; {'id': '109', 'type': 'identifier', 'children': [], 'value': 'bot_cls'}; {'id': '110', 'type': 'identifier', 'children': [], 'value': 'Bot'}; {'id': '111', 'type': 'block', 'children': ['112']}; {'id': '112', 'type': 'raise_statement', 'children': ['113']}; {'id': '113', 'type': 'call', 'children': ['114', '115']}; {'id': '114', 'type': 'identifier', 'children': [], 'value': 'ImproperlyConfigured'}; {'id': '115', 'type': 'argument_list', 'children': ['116']}; {'id': '116', 'type': 'binary_operator', 'children': ['117', '118'], 'value': '%'}; {'id': '117', 'type': 'string', 'children': [], 'value': '"\'%s\' isn\'t a subclass of Bot."'}; {'id': '118', 'type': 'identifier', 'children': [], 'value': 'entry'}; {'id': '119', 'type': 'return_statement', 'children': ['120']}; {'id': '120', 'type': 'call', 'children': ['121', '122']}; {'id': '121', 'type': 'identifier', 'children': [], 'value': 'cls'}; {'id': '122', 'type': 'argument_list', 'children': ['123', '124', '125']}; {'id': '123', 'type': 'identifier', 'children': [], 'value': 'entry'}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'mod'}; {'id': '125', 'type': 'attribute', 'children': ['126', '127']}; {'id': '126', 'type': 'identifier', 'children': [], 'value': 'bot_cls'}; {'id': '127', 'type': 'identifier', 'children': [], 'value': 'label'} | def create(cls, entry):
try:
module = import_module(entry)
except ImportError:
module = None
mod_path, _, cls_name = entry.rpartition('.')
if not mod_path:
raise
else:
try:
entry = module.default_bot
except AttributeError:
return cls(f'{entry}.Bot', module)
else:
mod_path, _, cls_name = entry.rpartition('.')
mod = import_module(mod_path)
try:
bot_cls = getattr(mod, cls_name)
except AttributeError:
if module is None:
import_module(entry)
raise
if not issubclass(bot_cls, Bot):
raise ImproperlyConfigured(
"'%s' isn't a subclass of Bot." % entry)
return cls(entry, mod, bot_cls.label) |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '8']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'populate'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '5', 'type': 'default_parameter', 'children': ['6', '7']}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'installed_bots'}; {'id': '7', 'type': 'None', 'children': []}; {'id': '8', 'type': 'block', 'children': ['9', '15']}; {'id': '9', 'type': 'if_statement', 'children': ['10', '13']}; {'id': '10', 'type': 'attribute', 'children': ['11', '12']}; {'id': '11', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'ready'}; {'id': '13', 'type': 'block', 'children': ['14']}; {'id': '14', 'type': 'return_statement', 'children': []}; {'id': '15', 'type': 'with_statement', 'children': ['16', '21']}; {'id': '16', 'type': 'with_clause', 'children': ['17']}; {'id': '17', 'type': 'with_item', 'children': ['18']}; {'id': '18', 'type': 'attribute', 'children': ['19', '20']}; {'id': '19', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '20', 'type': 'identifier', 'children': [], 'value': '_lock'}; {'id': '21', 'type': 'block', 'children': ['22', '28', '38', '44', '121', '139', '157', '174', '180', '196', '202']}; {'id': '22', 'type': 'if_statement', 'children': ['23', '26']}; {'id': '23', 'type': 'attribute', 'children': ['24', '25']}; {'id': '24', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '25', 'type': 'identifier', 'children': [], 'value': 'ready'}; {'id': '26', 'type': 'block', 'children': ['27']}; {'id': '27', 'type': 'return_statement', 'children': []}; {'id': '28', 'type': 'if_statement', 'children': ['29', '32']}; {'id': '29', 'type': 'attribute', 'children': ['30', '31']}; {'id': '30', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '31', 'type': 'identifier', 'children': [], 'value': 'loading'}; {'id': '32', 'type': 'block', 'children': ['33']}; {'id': '33', 'type': 'raise_statement', 'children': ['34']}; {'id': '34', 'type': 'call', 'children': ['35', '36']}; {'id': '35', 'type': 'identifier', 'children': [], 'value': 'RuntimeError'}; {'id': '36', 'type': 'argument_list', 'children': ['37']}; {'id': '37', 'type': 'string', 'children': [], 'value': '"populate() isn\'t re-entrant"'}; {'id': '38', 'type': 'expression_statement', 'children': ['39']}; {'id': '39', 'type': 'assignment', 'children': ['40', '43']}; {'id': '40', 'type': 'attribute', 'children': ['41', '42']}; {'id': '41', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '42', 'type': 'identifier', 'children': [], 'value': 'loading'}; {'id': '43', 'type': 'True', 'children': []}; {'id': '44', 'type': 'for_statement', 'children': ['45', '46', '49']}; {'id': '45', 'type': 'identifier', 'children': [], 'value': 'entry'}; {'id': '46', 'type': 'boolean_operator', 'children': ['47', '48'], 'value': 'or'}; {'id': '47', 'type': 'identifier', 'children': [], 'value': 'installed_bots'}; {'id': '48', 'type': 'dictionary', 'children': []}; {'id': '49', 'type': 'block', 'children': ['50', '76', '85', '105', '115']}; {'id': '50', 'type': 'if_statement', 'children': ['51', '56']}; {'id': '51', 'type': 'call', 'children': ['52', '53']}; {'id': '52', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '53', 'type': 'argument_list', 'children': ['54', '55']}; {'id': '54', 'type': 'identifier', 'children': [], 'value': 'entry'}; {'id': '55', 'type': 'identifier', 'children': [], 'value': 'Bot'}; {'id': '56', 'type': 'block', 'children': ['57', '61']}; {'id': '57', 'type': 'expression_statement', 'children': ['58']}; {'id': '58', 'type': 'assignment', 'children': ['59', '60']}; {'id': '59', 'type': 'identifier', 'children': [], 'value': 'cls'}; {'id': '60', 'type': 'identifier', 'children': [], 'value': 'entry'}; {'id': '61', 'type': 'expression_statement', 'children': ['62']}; {'id': '62', 'type': 'assignment', 'children': ['63', '64']}; {'id': '63', 'type': 'identifier', 'children': [], 'value': 'entry'}; {'id': '64', 'type': 'call', 'children': ['65', '68']}; {'id': '65', 'type': 'attribute', 'children': ['66', '67']}; {'id': '66', 'type': 'string', 'children': [], 'value': "'.'"}; {'id': '67', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '68', 'type': 'argument_list', 'children': ['69']}; {'id': '69', 'type': 'list', 'children': ['70', '73'], 'value': '[cls.__module__, cls.__name__]'}; {'id': '70', 'type': 'attribute', 'children': ['71', '72']}; {'id': '71', 'type': 'identifier', 'children': [], 'value': 'cls'}; {'id': '72', 'type': 'identifier', 'children': [], 'value': '__module__'}; {'id': '73', 'type': 'attribute', 'children': ['74', '75']}; {'id': '74', 'type': 'identifier', 'children': [], 'value': 'cls'}; {'id': '75', 'type': 'identifier', 'children': [], 'value': '__name__'}; {'id': '76', 'type': 'expression_statement', 'children': ['77']}; {'id': '77', 'type': 'assignment', 'children': ['78', '79']}; {'id': '78', 'type': 'identifier', 'children': [], 'value': 'bot_reg'}; {'id': '79', 'type': 'call', 'children': ['80', '83']}; {'id': '80', 'type': 'attribute', 'children': ['81', '82']}; {'id': '81', 'type': 'identifier', 'children': [], 'value': 'BotRegistry'}; {'id': '82', 'type': 'identifier', 'children': [], 'value': 'create'}; {'id': '83', 'type': 'argument_list', 'children': ['84']}; {'id': '84', 'type': 'identifier', 'children': [], 'value': 'entry'}; {'id': '85', 'type': 'if_statement', 'children': ['86', '93']}; {'id': '86', 'type': 'comparison_operator', 'children': ['87', '90'], 'value': 'in'}; {'id': '87', 'type': 'attribute', 'children': ['88', '89']}; {'id': '88', 'type': 'identifier', 'children': [], 'value': 'bot_reg'}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'label'}; {'id': '90', 'type': 'attribute', 'children': ['91', '92']}; {'id': '91', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '92', 'type': 'identifier', 'children': [], 'value': 'bots'}; {'id': '93', 'type': 'block', 'children': ['94']}; {'id': '94', 'type': 'raise_statement', 'children': ['95']}; {'id': '95', 'type': 'call', 'children': ['96', '97']}; {'id': '96', 'type': 'identifier', 'children': [], 'value': 'ImproperlyConfigured'}; {'id': '97', 'type': 'argument_list', 'children': ['98']}; {'id': '98', 'type': 'binary_operator', 'children': ['99', '102'], 'value': '%'}; {'id': '99', 'type': 'concatenated_string', 'children': ['100', '101']}; {'id': '100', 'type': 'string', 'children': [], 'value': '"Bot labels aren\'t unique, "'}; {'id': '101', 'type': 'string', 'children': [], 'value': '"duplicates: %s"'}; {'id': '102', 'type': 'attribute', 'children': ['103', '104']}; {'id': '103', 'type': 'identifier', 'children': [], 'value': 'bot_reg'}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'label'}; {'id': '105', 'type': 'expression_statement', 'children': ['106']}; {'id': '106', 'type': 'assignment', 'children': ['107', '114']}; {'id': '107', 'type': 'subscript', 'children': ['108', '111']}; {'id': '108', 'type': 'attribute', 'children': ['109', '110']}; {'id': '109', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '110', 'type': 'identifier', 'children': [], 'value': 'bots'}; {'id': '111', 'type': 'attribute', 'children': ['112', '113']}; {'id': '112', 'type': 'identifier', 'children': [], 'value': 'bot_reg'}; {'id': '113', 'type': 'identifier', 'children': [], 'value': 'label'}; {'id': '114', 'type': 'identifier', 'children': [], 'value': 'bot_reg'}; {'id': '115', 'type': 'expression_statement', 'children': ['116']}; {'id': '116', 'type': 'assignment', 'children': ['117', '120']}; {'id': '117', 'type': 'attribute', 'children': ['118', '119']}; {'id': '118', 'type': 'identifier', 'children': [], 'value': 'bot_reg'}; {'id': '119', 'type': 'identifier', 'children': [], 'value': 'bots'}; {'id': '120', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '121', 'type': 'expression_statement', 'children': ['122']}; {'id': '122', 'type': 'assignment', 'children': ['123', '124']}; {'id': '123', 'type': 'identifier', 'children': [], 'value': 'counts'}; {'id': '124', 'type': 'call', 'children': ['125', '126']}; {'id': '125', 'type': 'identifier', 'children': [], 'value': 'Counter'}; {'id': '126', 'type': 'generator_expression', 'children': ['127', '130']}; {'id': '127', 'type': 'attribute', 'children': ['128', '129']}; {'id': '128', 'type': 'identifier', 'children': [], 'value': 'bot_reg'}; {'id': '129', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '130', 'type': 'for_in_clause', 'children': ['131', '132']}; {'id': '131', 'type': 'identifier', 'children': [], 'value': 'bot_reg'}; {'id': '132', 'type': 'call', 'children': ['133', '138']}; {'id': '133', 'type': 'attribute', 'children': ['134', '137']}; {'id': '134', 'type': 'attribute', 'children': ['135', '136']}; {'id': '135', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '136', 'type': 'identifier', 'children': [], 'value': 'bots'}; {'id': '137', 'type': 'identifier', 'children': [], 'value': 'values'}; {'id': '138', 'type': 'argument_list', 'children': []}; {'id': '139', 'type': 'expression_statement', 'children': ['140']}; {'id': '140', 'type': 'assignment', 'children': ['141', '142']}; {'id': '141', 'type': 'identifier', 'children': [], 'value': 'duplicates'}; {'id': '142', 'type': 'list_comprehension', 'children': ['143', '144', '153']}; {'id': '143', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '144', 'type': 'for_in_clause', 'children': ['145', '148']}; {'id': '145', 'type': 'pattern_list', 'children': ['146', '147']}; {'id': '146', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '147', 'type': 'identifier', 'children': [], 'value': 'count'}; {'id': '148', 'type': 'call', 'children': ['149', '152']}; {'id': '149', 'type': 'attribute', 'children': ['150', '151']}; {'id': '150', 'type': 'identifier', 'children': [], 'value': 'counts'}; {'id': '151', 'type': 'identifier', 'children': [], 'value': 'most_common'}; {'id': '152', 'type': 'argument_list', 'children': []}; {'id': '153', 'type': 'if_clause', 'children': ['154']}; {'id': '154', 'type': 'comparison_operator', 'children': ['155', '156'], 'value': '>'}; 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{'id': '170', 'type': 'string', 'children': [], 'value': '", "'}; {'id': '171', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '172', 'type': 'argument_list', 'children': ['173']}; {'id': '173', 'type': 'identifier', 'children': [], 'value': 'duplicates'}; {'id': '174', 'type': 'expression_statement', 'children': ['175']}; {'id': '175', 'type': 'assignment', 'children': ['176', '179']}; {'id': '176', 'type': 'attribute', 'children': ['177', '178']}; {'id': '177', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '178', 'type': 'identifier', 'children': [], 'value': 'bots_ready'}; {'id': '179', 'type': 'True', 'children': []}; {'id': '180', 'type': 'for_statement', 'children': ['181', '182', '189']}; {'id': '181', 'type': 'identifier', 'children': [], 'value': 'bot'}; {'id': '182', 'type': 'call', 'children': ['183', '188']}; {'id': '183', 'type': 'attribute', 'children': ['184', '187']}; {'id': '184', 'type': 'attribute', 'children': ['185', '186']}; {'id': '185', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '186', 'type': 'identifier', 'children': [], 'value': 'bots'}; {'id': '187', 'type': 'identifier', 'children': [], 'value': 'values'}; {'id': '188', 'type': 'argument_list', 'children': []}; {'id': '189', 'type': 'block', 'children': ['190']}; {'id': '190', 'type': 'expression_statement', 'children': ['191']}; {'id': '191', 'type': 'call', 'children': ['192', '195']}; {'id': '192', 'type': 'attribute', 'children': ['193', '194']}; {'id': '193', 'type': 'identifier', 'children': [], 'value': 'bot'}; {'id': '194', 'type': 'identifier', 'children': [], 'value': 'import_configs'}; {'id': '195', 'type': 'argument_list', 'children': []}; {'id': '196', 'type': 'expression_statement', 'children': ['197']}; {'id': '197', 'type': 'assignment', 'children': ['198', '201']}; {'id': '198', 'type': 'attribute', 'children': ['199', '200']}; {'id': '199', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '200', 'type': 'identifier', 'children': [], 'value': 'configs_ready'}; {'id': '201', 'type': 'True', 'children': []}; {'id': '202', 'type': 'expression_statement', 'children': ['203']}; {'id': '203', 'type': 'assignment', 'children': ['204', '207']}; {'id': '204', 'type': 'attribute', 'children': ['205', '206']}; {'id': '205', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '206', 'type': 'identifier', 'children': [], 'value': 'ready'}; {'id': '207', 'type': 'True', 'children': []} | def populate(self, installed_bots=None):
if self.ready:
return
with self._lock:
if self.ready:
return
if self.loading:
raise RuntimeError("populate() isn't re-entrant")
self.loading = True
for entry in installed_bots or {}:
if isinstance(entry, Bot):
cls = entry
entry = '.'.join([cls.__module__, cls.__name__])
bot_reg = BotRegistry.create(entry)
if bot_reg.label in self.bots:
raise ImproperlyConfigured(
"Bot labels aren't unique, "
"duplicates: %s" % bot_reg.label)
self.bots[bot_reg.label] = bot_reg
bot_reg.bots = self
counts = Counter(
bot_reg.name for bot_reg in self.bots.values())
duplicates = [
name for name, count in counts.most_common() if count > 1]
if duplicates:
raise ImproperlyConfigured(
"Bot names aren't unique, "
"duplicates: %s" % ", ".join(duplicates))
self.bots_ready = True
for bot in self.bots.values():
bot.import_configs()
self.configs_ready = True
self.ready = True |
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{'id': '15', 'type': 'list_splat_pattern', 'children': ['16']}; {'id': '16', 'type': 'identifier', 'children': [], 'value': 'args'}; {'id': '17', 'type': 'dictionary_splat_pattern', 'children': ['18']}; {'id': '18', 'type': 'identifier', 'children': [], 'value': 'kwargs'}; {'id': '19', 'type': 'block', 'children': ['20', '42', '48', '56', '98', '150', '156']}; {'id': '20', 'type': 'expression_statement', 'children': ['21']}; {'id': '21', 'type': 'call', 'children': ['22', '25']}; {'id': '22', 'type': 'attribute', 'children': ['23', '24']}; {'id': '23', 'type': 'identifier', 'children': [], 'value': 'kwargs'}; {'id': '24', 'type': 'identifier', 'children': [], 'value': 'update'}; {'id': '25', 'type': 'argument_list', 'children': ['26']}; {'id': '26', 'type': 'dictionary', 'children': ['27', '32', '37']}; {'id': '27', 'type': 'pair', 'children': ['28', '29']}; {'id': '28', 'type': 'string', 'children': [], 'value': "'initial_dict'"}; {'id': '29', 'type': 'boolean_operator', 'children': ['30', '31'], 'value': 'or'}; 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{'id': '45', 'type': 'call', 'children': ['46', '47']}; {'id': '46', 'type': 'identifier', 'children': [], 'value': 'SortedDict'}; {'id': '47', 'type': 'argument_list', 'children': []}; {'id': '48', 'type': 'assert_statement', 'children': ['49', '55']}; {'id': '49', 'type': 'comparison_operator', 'children': ['50', '54'], 'value': '>'}; {'id': '50', 'type': 'call', 'children': ['51', '52']}; {'id': '51', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '52', 'type': 'argument_list', 'children': ['53']}; {'id': '53', 'type': 'identifier', 'children': [], 'value': 'form_list'}; {'id': '54', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '55', 'type': 'string', 'children': [], 'value': "'at least one form is needed'"}; {'id': '56', 'type': 'for_statement', 'children': ['57', '60', '64']}; {'id': '57', 'type': 'pattern_list', 'children': ['58', '59']}; {'id': '58', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '59', 'type': 'identifier', 'children': [], 'value': 'form'}; {'id': '60', 'type': 'call', 'children': ['61', '62']}; {'id': '61', 'type': 'identifier', 'children': [], 'value': 'enumerate'}; {'id': '62', 'type': 'argument_list', 'children': ['63']}; {'id': '63', 'type': 'identifier', 'children': [], 'value': 'form_list'}; {'id': '64', 'type': 'block', 'children': ['65']}; {'id': '65', 'type': 'if_statement', 'children': ['66', '73', '87']}; {'id': '66', 'type': 'call', 'children': ['67', '68']}; {'id': '67', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '68', 'type': 'argument_list', 'children': ['69', '70']}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'form'}; {'id': '70', 'type': 'tuple', 'children': ['71', '72']}; {'id': '71', 'type': 'identifier', 'children': [], 'value': 'list'}; {'id': '72', 'type': 'identifier', 'children': [], 'value': 'tuple'}; {'id': '73', 'type': 'block', 'children': ['74']}; {'id': '74', 'type': 'expression_statement', 'children': ['75']}; {'id': '75', 'type': 'assignment', 'children': ['76', '84']}; 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{'id': '92', 'type': 'identifier', 'children': [], 'value': 'init_form_list'}; {'id': '93', 'type': 'call', 'children': ['94', '95']}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'unicode'}; {'id': '95', 'type': 'argument_list', 'children': ['96']}; {'id': '96', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '97', 'type': 'identifier', 'children': [], 'value': 'form'}; {'id': '98', 'type': 'for_statement', 'children': ['99', '100', '105']}; {'id': '99', 'type': 'identifier', 'children': [], 'value': 'form'}; {'id': '100', 'type': 'call', 'children': ['101', '104']}; {'id': '101', 'type': 'attribute', 'children': ['102', '103']}; {'id': '102', 'type': 'identifier', 'children': [], 'value': 'init_form_list'}; {'id': '103', 'type': 'identifier', 'children': [], 'value': 'itervalues'}; {'id': '104', 'type': 'argument_list', 'children': []}; {'id': '105', 'type': 'block', 'children': ['106', '121']}; {'id': '106', 'type': 'if_statement', 'children': ['107', '114']}; {'id': '107', 'type': 'call', 'children': ['108', '109']}; {'id': '108', 'type': 'identifier', 'children': [], 'value': 'issubclass'}; {'id': '109', 'type': 'argument_list', 'children': ['110', '111']}; {'id': '110', 'type': 'identifier', 'children': [], 'value': 'form'}; {'id': '111', 'type': 'attribute', 'children': ['112', '113']}; {'id': '112', 'type': 'identifier', 'children': [], 'value': 'formsets'}; {'id': '113', 'type': 'identifier', 'children': [], 'value': 'BaseFormSet'}; {'id': '114', 'type': 'block', 'children': ['115']}; {'id': '115', 'type': 'expression_statement', 'children': ['116']}; {'id': '116', 'type': 'assignment', 'children': ['117', '118']}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'form'}; {'id': '118', 'type': 'attribute', 'children': ['119', '120']}; {'id': '119', 'type': 'identifier', 'children': [], 'value': 'form'}; {'id': '120', 'type': 'identifier', 'children': [], 'value': 'form'}; {'id': '121', 'type': 'for_statement', 'children': ['122', '123', '130']}; {'id': '122', 'type': 'identifier', 'children': [], 'value': 'field'}; {'id': '123', 'type': 'call', 'children': ['124', '129']}; {'id': '124', 'type': 'attribute', 'children': ['125', '128']}; {'id': '125', 'type': 'attribute', 'children': ['126', '127']}; {'id': '126', 'type': 'identifier', 'children': [], 'value': 'form'}; {'id': '127', 'type': 'identifier', 'children': [], 'value': 'base_fields'}; {'id': '128', 'type': 'identifier', 'children': [], 'value': 'itervalues'}; {'id': '129', 'type': 'argument_list', 'children': []}; {'id': '130', 'type': 'block', 'children': ['131']}; {'id': '131', 'type': 'if_statement', 'children': ['132', '147']}; {'id': '132', 'type': '()', 'children': ['133']}; {'id': '133', 'type': 'boolean_operator', 'children': ['134', '141'], 'value': 'and'}; {'id': '134', 'type': 'call', 'children': ['135', '136']}; {'id': '135', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '136', 'type': 'argument_list', 'children': ['137', '138']}; {'id': '137', 'type': 'identifier', 'children': [], 'value': 'field'}; {'id': '138', 'type': 'attribute', 'children': ['139', '140']}; {'id': '139', 'type': 'identifier', 'children': [], 'value': 'forms'}; {'id': '140', 'type': 'identifier', 'children': [], 'value': 'FileField'}; {'id': '141', 'type': 'not_operator', 'children': ['142']}; {'id': '142', 'type': 'call', 'children': ['143', '144']}; {'id': '143', 'type': 'identifier', 'children': [], 'value': 'hasattr'}; {'id': '144', 'type': 'argument_list', 'children': ['145', '146']}; {'id': '145', 'type': 'identifier', 'children': [], 'value': 'cls'}; {'id': '146', 'type': 'string', 'children': [], 'value': "'file_storage'"}; {'id': '147', 'type': 'block', 'children': ['148']}; {'id': '148', 'type': 'raise_statement', 'children': ['149']}; {'id': '149', 'type': 'identifier', 'children': [], 'value': 'NoFileStorageConfigured'}; {'id': '150', 'type': 'expression_statement', 'children': ['151']}; {'id': '151', 'type': 'assignment', 'children': ['152', '155']}; {'id': '152', 'type': 'subscript', 'children': ['153', '154']}; {'id': '153', 'type': 'identifier', 'children': [], 'value': 'kwargs'}; {'id': '154', 'type': 'string', 'children': [], 'value': "'form_list'"}; {'id': '155', 'type': 'identifier', 'children': [], 'value': 'init_form_list'}; {'id': '156', 'type': 'return_statement', 'children': ['157']}; {'id': '157', 'type': 'identifier', 'children': [], 'value': 'kwargs'} | def get_initkwargs(cls, form_list, initial_dict=None,
instance_dict=None, condition_dict=None, *args, **kwargs):
kwargs.update({
'initial_dict': initial_dict or {},
'instance_dict': instance_dict or {},
'condition_dict': condition_dict or {},
})
init_form_list = SortedDict()
assert len(form_list) > 0, 'at least one form is needed'
for i, form in enumerate(form_list):
if isinstance(form, (list, tuple)):
init_form_list[unicode(form[0])] = form[1]
else:
init_form_list[unicode(i)] = form
for form in init_form_list.itervalues():
if issubclass(form, formsets.BaseFormSet):
form = form.form
for field in form.base_fields.itervalues():
if (isinstance(field, forms.FileField) and
not hasattr(cls, 'file_storage')):
raise NoFileStorageConfigured
kwargs['form_list'] = init_form_list
return kwargs |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '9']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'post'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '7']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '5', 'type': 'list_splat_pattern', 'children': ['6']}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'args'}; {'id': '7', 'type': 'dictionary_splat_pattern', 'children': ['8']}; {'id': '8', 'type': 'identifier', 'children': [], 'value': 'kwargs'}; {'id': '9', 'type': 'block', 'children': ['10', '24', '86', '102', '115', '123', '149', '171', '247']}; {'id': '10', 'type': 'expression_statement', 'children': ['11']}; {'id': '11', 'type': 'assignment', 'children': ['12', '13']}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'wizard_prev_step'}; {'id': '13', 'type': 'call', 'children': ['14', '21']}; {'id': '14', 'type': 'attribute', 'children': ['15', '20']}; {'id': '15', 'type': 'attribute', 'children': ['16', '19']}; {'id': '16', 'type': 'attribute', 'children': ['17', '18']}; {'id': '17', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '18', 'type': 'identifier', 'children': [], 'value': 'request'}; {'id': '19', 'type': 'identifier', 'children': [], 'value': 'POST'}; {'id': '20', 'type': 'identifier', 'children': [], 'value': 'get'}; {'id': '21', 'type': 'argument_list', 'children': ['22', '23']}; {'id': '22', 'type': 'string', 'children': [], 'value': "'wizard_prev_step'"}; {'id': '23', 'type': 'None', 'children': []}; {'id': '24', 'type': 'if_statement', 'children': ['25', '34']}; {'id': '25', 'type': 'boolean_operator', 'children': ['26', '27'], 'value': 'and'}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'wizard_prev_step'}; {'id': '27', 'type': 'comparison_operator', 'children': ['28', '29'], 'value': 'in'}; {'id': '28', 'type': 'identifier', 'children': [], 'value': 'wizard_prev_step'}; {'id': '29', 'type': 'call', 'children': ['30', '33']}; {'id': '30', 'type': 'attribute', 'children': ['31', '32']}; {'id': '31', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '32', 'type': 'identifier', 'children': [], 'value': 'get_form_list'}; {'id': '33', 'type': 'argument_list', 'children': []}; {'id': '34', 'type': 'block', 'children': ['35', '43', '79']}; {'id': '35', 'type': 'expression_statement', 'children': ['36']}; {'id': '36', 'type': 'assignment', 'children': ['37', '42']}; {'id': '37', 'type': 'attribute', 'children': ['38', '41']}; {'id': '38', 'type': 'attribute', 'children': ['39', '40']}; {'id': '39', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '40', 'type': 'identifier', 'children': [], 'value': 'storage'}; {'id': '41', 'type': 'identifier', 'children': [], 'value': 'current_step'}; {'id': '42', 'type': 'identifier', 'children': [], 'value': 'wizard_prev_step'}; {'id': '43', 'type': 'expression_statement', 'children': ['44']}; {'id': '44', 'type': 'assignment', 'children': ['45', '46']}; {'id': '45', 'type': 'identifier', 'children': [], 'value': 'form'}; {'id': '46', 'type': 'call', 'children': ['47', '50']}; {'id': '47', 'type': 'attribute', 'children': ['48', '49']}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'get_form'}; {'id': '50', 'type': 'argument_list', 'children': ['51', '65']}; {'id': '51', 'type': 'keyword_argument', 'children': ['52', '53']}; {'id': '52', 'type': 'identifier', 'children': [], 'value': 'data'}; {'id': '53', 'type': 'call', 'children': ['54', '59']}; {'id': '54', 'type': 'attribute', 'children': ['55', '58']}; {'id': '55', 'type': 'attribute', 'children': ['56', '57']}; {'id': '56', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '57', 'type': 'identifier', 'children': [], 'value': 'storage'}; {'id': '58', 'type': 'identifier', 'children': [], 'value': 'get_step_data'}; {'id': '59', 'type': 'argument_list', 'children': ['60']}; {'id': '60', 'type': 'attribute', 'children': ['61', '64']}; {'id': '61', 'type': 'attribute', 'children': ['62', '63']}; {'id': '62', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '63', 'type': 'identifier', 'children': [], 'value': 'steps'}; {'id': '64', 'type': 'identifier', 'children': [], 'value': 'current'}; {'id': '65', 'type': 'keyword_argument', 'children': ['66', '67']}; {'id': '66', 'type': 'identifier', 'children': [], 'value': 'files'}; {'id': '67', 'type': 'call', 'children': ['68', '73']}; {'id': '68', 'type': 'attribute', 'children': ['69', '72']}; {'id': '69', 'type': 'attribute', 'children': ['70', '71']}; {'id': '70', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '71', 'type': 'identifier', 'children': [], 'value': 'storage'}; {'id': '72', 'type': 'identifier', 'children': [], 'value': 'get_step_files'}; {'id': '73', 'type': 'argument_list', 'children': ['74']}; {'id': '74', 'type': 'attribute', 'children': ['75', '78']}; {'id': '75', 'type': 'attribute', 'children': ['76', '77']}; {'id': '76', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '77', 'type': 'identifier', 'children': [], 'value': 'steps'}; {'id': '78', 'type': 'identifier', 'children': [], 'value': 'current'}; {'id': '79', 'type': 'return_statement', 'children': ['80']}; {'id': '80', 'type': 'call', 'children': ['81', '84']}; {'id': '81', 'type': 'attribute', 'children': ['82', '83']}; {'id': '82', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '83', 'type': 'identifier', 'children': [], 'value': 'render'}; {'id': '84', 'type': 'argument_list', 'children': ['85']}; {'id': '85', 'type': 'identifier', 'children': [], 'value': 'form'}; {'id': '86', 'type': 'expression_statement', 'children': ['87']}; {'id': '87', 'type': 'assignment', 'children': ['88', '89']}; {'id': '88', 'type': 'identifier', 'children': [], 'value': 'management_form'}; {'id': '89', 'type': 'call', 'children': ['90', '91']}; {'id': '90', 'type': 'identifier', 'children': [], 'value': 'ManagementForm'}; {'id': '91', 'type': 'argument_list', 'children': ['92', '97']}; {'id': '92', 'type': 'attribute', 'children': ['93', '96']}; {'id': '93', 'type': 'attribute', 'children': ['94', '95']}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '95', 'type': 'identifier', 'children': [], 'value': 'request'}; {'id': '96', 'type': 'identifier', 'children': [], 'value': 'POST'}; {'id': '97', 'type': 'keyword_argument', 'children': ['98', '99']}; {'id': '98', 'type': 'identifier', 'children': [], 'value': 'prefix'}; {'id': '99', 'type': 'attribute', 'children': ['100', '101']}; {'id': '100', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '101', 'type': 'identifier', 'children': [], 'value': 'prefix'}; {'id': '102', 'type': 'if_statement', 'children': ['103', '109']}; {'id': '103', 'type': 'not_operator', 'children': ['104']}; {'id': '104', 'type': 'call', 'children': ['105', '108']}; {'id': '105', 'type': 'attribute', 'children': ['106', '107']}; {'id': '106', 'type': 'identifier', 'children': [], 'value': 'management_form'}; {'id': '107', 'type': 'identifier', 'children': [], 'value': 'is_valid'}; {'id': '108', 'type': 'argument_list', 'children': []}; {'id': '109', 'type': 'block', 'children': ['110']}; {'id': '110', 'type': 'raise_statement', 'children': ['111']}; {'id': '111', 'type': 'call', 'children': ['112', '113']}; {'id': '112', 'type': 'identifier', 'children': [], 'value': 'ValidationError'}; {'id': '113', 'type': 'argument_list', 'children': ['114']}; {'id': '114', 'type': 'string', 'children': [], 'value': "'ManagementForm data is missing or has been tampered.'"}; {'id': '115', 'type': 'expression_statement', 'children': ['116']}; {'id': '116', 'type': 'assignment', 'children': ['117', '118']}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'form_current_step'}; {'id': '118', 'type': 'subscript', 'children': ['119', '122']}; {'id': '119', 'type': 'attribute', 'children': ['120', '121']}; {'id': '120', 'type': 'identifier', 'children': [], 'value': 'management_form'}; {'id': '121', 'type': 'identifier', 'children': [], 'value': 'cleaned_data'}; {'id': '122', 'type': 'string', 'children': [], 'value': "'current_step'"}; {'id': '123', 'type': 'if_statement', 'children': ['124', '140']}; {'id': '124', 'type': '()', 'children': ['125']}; {'id': '125', 'type': 'boolean_operator', 'children': ['126', '133'], 'value': 'and'}; {'id': '126', 'type': 'comparison_operator', 'children': ['127', '128'], 'value': '!='}; {'id': '127', 'type': 'identifier', 'children': [], 'value': 'form_current_step'}; {'id': '128', 'type': 'attribute', 'children': ['129', '132']}; {'id': '129', 'type': 'attribute', 'children': ['130', '131']}; {'id': '130', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '131', 'type': 'identifier', 'children': [], 'value': 'steps'}; {'id': '132', 'type': 'identifier', 'children': [], 'value': 'current'}; {'id': '133', 'type': 'comparison_operator', 'children': ['134', '139'], 'value': 'is'}; {'id': '134', 'type': 'attribute', 'children': ['135', '138']}; {'id': '135', 'type': 'attribute', 'children': ['136', '137']}; {'id': '136', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '137', 'type': 'identifier', 'children': [], 'value': 'storage'}; {'id': '138', 'type': 'identifier', 'children': [], 'value': 'current_step'}; {'id': '139', 'type': 'None', 'children': []}; {'id': '140', 'type': 'block', 'children': ['141']}; {'id': '141', 'type': 'expression_statement', 'children': ['142']}; {'id': '142', 'type': 'assignment', 'children': ['143', '148']}; {'id': '143', 'type': 'attribute', 'children': ['144', '147']}; {'id': '144', 'type': 'attribute', 'children': ['145', '146']}; {'id': '145', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '146', 'type': 'identifier', 'children': [], 'value': 'storage'}; {'id': '147', 'type': 'identifier', 'children': [], 'value': 'current_step'}; {'id': '148', 'type': 'identifier', 'children': [], 'value': 'form_current_step'}; {'id': '149', 'type': 'expression_statement', 'children': ['150']}; {'id': '150', 'type': 'assignment', 'children': ['151', '152']}; {'id': '151', 'type': 'identifier', 'children': [], 'value': 'form'}; {'id': '152', 'type': 'call', 'children': ['153', '156']}; {'id': '153', 'type': 'attribute', 'children': ['154', '155']}; {'id': '154', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '155', 'type': 'identifier', 'children': [], 'value': 'get_form'}; {'id': '156', 'type': 'argument_list', 'children': ['157', '164']}; {'id': '157', 'type': 'keyword_argument', 'children': ['158', '159']}; {'id': '158', 'type': 'identifier', 'children': [], 'value': 'data'}; {'id': '159', 'type': 'attribute', 'children': ['160', '163']}; {'id': '160', 'type': 'attribute', 'children': ['161', '162']}; {'id': '161', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '162', 'type': 'identifier', 'children': [], 'value': 'request'}; {'id': '163', 'type': 'identifier', 'children': [], 'value': 'POST'}; {'id': '164', 'type': 'keyword_argument', 'children': ['165', '166']}; {'id': '165', 'type': 'identifier', 'children': [], 'value': 'files'}; {'id': '166', 'type': 'attribute', 'children': ['167', '170']}; {'id': '167', 'type': 'attribute', 'children': ['168', '169']}; {'id': '168', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '169', 'type': 'identifier', 'children': [], 'value': 'request'}; {'id': '170', 'type': 'identifier', 'children': [], 'value': 'FILES'}; {'id': '171', 'type': 'if_statement', 'children': ['172', '177']}; {'id': '172', 'type': 'call', 'children': ['173', '176']}; {'id': '173', 'type': 'attribute', 'children': ['174', '175']}; {'id': '174', 'type': 'identifier', 'children': [], 'value': 'form'}; {'id': '175', 'type': 'identifier', 'children': [], 'value': 'is_valid'}; {'id': '176', 'type': 'argument_list', 'children': []}; {'id': '177', 'type': 'block', 'children': ['178', '197', '216']}; {'id': '178', 'type': 'expression_statement', 'children': ['179']}; {'id': '179', 'type': 'call', 'children': ['180', '185']}; {'id': '180', 'type': 'attribute', 'children': ['181', '184']}; {'id': '181', 'type': 'attribute', 'children': ['182', '183']}; {'id': '182', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '183', 'type': 'identifier', 'children': [], 'value': 'storage'}; {'id': '184', 'type': 'identifier', 'children': [], 'value': 'set_step_data'}; {'id': '185', 'type': 'argument_list', 'children': ['186', '191']}; {'id': '186', 'type': 'attribute', 'children': ['187', '190']}; {'id': '187', 'type': 'attribute', 'children': ['188', '189']}; {'id': '188', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '189', 'type': 'identifier', 'children': [], 'value': 'steps'}; {'id': '190', 'type': 'identifier', 'children': [], 'value': 'current'}; {'id': '191', 'type': 'call', 'children': ['192', '195']}; {'id': '192', 'type': 'attribute', 'children': ['193', '194']}; {'id': '193', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '194', 'type': 'identifier', 'children': [], 'value': 'process_step'}; {'id': '195', 'type': 'argument_list', 'children': ['196']}; {'id': '196', 'type': 'identifier', 'children': [], 'value': 'form'}; {'id': '197', 'type': 'expression_statement', 'children': ['198']}; {'id': '198', 'type': 'call', 'children': ['199', '204']}; {'id': '199', 'type': 'attribute', 'children': ['200', '203']}; {'id': '200', 'type': 'attribute', 'children': ['201', '202']}; {'id': '201', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '202', 'type': 'identifier', 'children': [], 'value': 'storage'}; {'id': '203', 'type': 'identifier', 'children': [], 'value': 'set_step_files'}; {'id': '204', 'type': 'argument_list', 'children': ['205', '210']}; {'id': '205', 'type': 'attribute', 'children': ['206', '209']}; {'id': '206', 'type': 'attribute', 'children': ['207', '208']}; {'id': '207', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '208', 'type': 'identifier', 'children': [], 'value': 'steps'}; {'id': '209', 'type': 'identifier', 'children': [], 'value': 'current'}; {'id': '210', 'type': 'call', 'children': ['211', '214']}; {'id': '211', 'type': 'attribute', 'children': ['212', '213']}; {'id': '212', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '213', 'type': 'identifier', 'children': [], 'value': 'process_step_files'}; {'id': '214', 'type': 'argument_list', 'children': ['215']}; {'id': '215', 'type': 'identifier', 'children': [], 'value': 'form'}; {'id': '216', 'type': 'if_statement', 'children': ['217', '228', '238']}; {'id': '217', 'type': 'comparison_operator', 'children': ['218', '223'], 'value': '=='}; {'id': '218', 'type': 'attribute', 'children': ['219', '222']}; {'id': '219', 'type': 'attribute', 'children': ['220', '221']}; {'id': '220', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '221', 'type': 'identifier', 'children': [], 'value': 'steps'}; {'id': '222', 'type': 'identifier', 'children': [], 'value': 'current'}; {'id': '223', 'type': 'attribute', 'children': ['224', '227']}; {'id': '224', 'type': 'attribute', 'children': ['225', '226']}; {'id': '225', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '226', 'type': 'identifier', 'children': [], 'value': 'steps'}; {'id': '227', 'type': 'identifier', 'children': [], 'value': 'last'}; {'id': '228', 'type': 'block', 'children': ['229']}; {'id': '229', 'type': 'return_statement', 'children': ['230']}; {'id': '230', 'type': 'call', 'children': ['231', '234']}; {'id': '231', 'type': 'attribute', 'children': ['232', '233']}; {'id': '232', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '233', 'type': 'identifier', 'children': [], 'value': 'render_done'}; {'id': '234', 'type': 'argument_list', 'children': ['235', '236']}; {'id': '235', 'type': 'identifier', 'children': [], 'value': 'form'}; {'id': '236', 'type': 'dictionary_splat', 'children': ['237']}; {'id': '237', 'type': 'identifier', 'children': [], 'value': 'kwargs'}; {'id': '238', 'type': 'else_clause', 'children': ['239']}; {'id': '239', 'type': 'block', 'children': ['240']}; {'id': '240', 'type': 'return_statement', 'children': ['241']}; {'id': '241', 'type': 'call', 'children': ['242', '245']}; {'id': '242', 'type': 'attribute', 'children': ['243', '244']}; {'id': '243', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '244', 'type': 'identifier', 'children': [], 'value': 'render_next_step'}; {'id': '245', 'type': 'argument_list', 'children': ['246']}; {'id': '246', 'type': 'identifier', 'children': [], 'value': 'form'}; {'id': '247', 'type': 'return_statement', 'children': ['248']}; {'id': '248', 'type': 'call', 'children': ['249', '252']}; {'id': '249', 'type': 'attribute', 'children': ['250', '251']}; {'id': '250', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '251', 'type': 'identifier', 'children': [], 'value': 'render'}; {'id': '252', 'type': 'argument_list', 'children': ['253']}; {'id': '253', 'type': 'identifier', 'children': [], 'value': 'form'} | def post(self, *args, **kwargs):
wizard_prev_step = self.request.POST.get('wizard_prev_step', None)
if wizard_prev_step and wizard_prev_step in self.get_form_list():
self.storage.current_step = wizard_prev_step
form = self.get_form(
data=self.storage.get_step_data(self.steps.current),
files=self.storage.get_step_files(self.steps.current))
return self.render(form)
management_form = ManagementForm(self.request.POST, prefix=self.prefix)
if not management_form.is_valid():
raise ValidationError(
'ManagementForm data is missing or has been tampered.')
form_current_step = management_form.cleaned_data['current_step']
if (form_current_step != self.steps.current and
self.storage.current_step is not None):
self.storage.current_step = form_current_step
form = self.get_form(data=self.request.POST, files=self.request.FILES)
if form.is_valid():
self.storage.set_step_data(self.steps.current, self.process_step(form))
self.storage.set_step_files(self.steps.current, self.process_step_files(form))
if self.steps.current == self.steps.last:
return self.render_done(form, **kwargs)
else:
return self.render_next_step(form)
return self.render(form) |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '6']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'parse_config_file'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'config_file'}; {'id': '6', 'type': 'block', 'children': ['7', '16', '27', '45', '51', '57', '63', '229', '244', '260', '280', '300']}; {'id': '7', 'type': 'expression_statement', 'children': ['8']}; {'id': '8', 'type': 'call', 'children': ['9', '14']}; {'id': '9', 'type': 'attribute', 'children': ['10', '13']}; {'id': '10', 'type': 'attribute', 'children': ['11', '12']}; {'id': '11', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'fileStore'}; {'id': '13', 'type': 'identifier', 'children': [], 'value': 'logToMaster'}; {'id': '14', 'type': 'argument_list', 'children': ['15']}; {'id': '15', 'type': 'string', 'children': [], 'value': "'Parsing config file'"}; {'id': '16', 'type': 'expression_statement', 'children': ['17']}; {'id': '17', 'type': 'assignment', 'children': ['18', '19']}; {'id': '18', 'type': 'identifier', 'children': [], 'value': 'config_file'}; {'id': '19', 'type': 'call', 'children': ['20', '25']}; {'id': '20', 'type': 'attribute', 'children': ['21', '24']}; {'id': '21', 'type': 'attribute', 'children': ['22', '23']}; {'id': '22', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '23', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '24', 'type': 'identifier', 'children': [], 'value': 'abspath'}; {'id': '25', 'type': 'argument_list', 'children': ['26']}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'config_file'}; {'id': '27', 'type': 'if_statement', 'children': ['28', '37']}; {'id': '28', 'type': 'not_operator', 'children': ['29']}; {'id': '29', 'type': 'call', 'children': ['30', '35']}; {'id': '30', 'type': 'attribute', 'children': ['31', '34']}; {'id': '31', 'type': 'attribute', 'children': ['32', '33']}; {'id': '32', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '33', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '34', 'type': 'identifier', 'children': [], 'value': 'exists'}; {'id': '35', 'type': 'argument_list', 'children': ['36']}; {'id': '36', 'type': 'identifier', 'children': [], 'value': 'config_file'}; {'id': '37', 'type': 'block', 'children': ['38']}; {'id': '38', 'type': 'raise_statement', 'children': ['39']}; {'id': '39', 'type': 'call', 'children': ['40', '41']}; {'id': '40', 'type': 'identifier', 'children': [], 'value': 'ParameterError'}; {'id': '41', 'type': 'argument_list', 'children': ['42']}; {'id': '42', 'type': 'binary_operator', 'children': ['43', '44'], 'value': '+'}; {'id': '43', 'type': 'string', 'children': [], 'value': "'The config file was not found at specified location. Please verify '"}; {'id': '44', 'type': 'string', 'children': [], 'value': "'and retry.'"}; {'id': '45', 'type': 'expression_statement', 'children': ['46']}; {'id': '46', 'type': 'assignment', 'children': ['47', '48']}; {'id': '47', 'type': 'identifier', 'children': [], 'value': 'sample_set'}; {'id': '48', 'type': 'call', 'children': ['49', '50']}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'defaultdict'}; {'id': '50', 'type': 'argument_list', 'children': []}; {'id': '51', 'type': 'expression_statement', 'children': ['52']}; {'id': '52', 'type': 'assignment', 'children': ['53', '54']}; {'id': '53', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '54', 'type': 'call', 'children': ['55', '56']}; {'id': '55', 'type': 'identifier', 'children': [], 'value': 'defaultdict'}; {'id': '56', 'type': 'argument_list', 'children': []}; {'id': '57', 'type': 'expression_statement', 'children': ['58']}; {'id': '58', 'type': 'assignment', 'children': ['59', '60']}; {'id': '59', 'type': 'identifier', 'children': [], 'value': 'tool_options'}; {'id': '60', 'type': 'call', 'children': ['61', '62']}; {'id': '61', 'type': 'identifier', 'children': [], 'value': 'defaultdict'}; {'id': '62', 'type': 'argument_list', 'children': []}; {'id': '63', 'type': 'with_statement', 'children': ['64', '74']}; {'id': '64', 'type': 'with_clause', 'children': ['65']}; {'id': '65', 'type': 'with_item', 'children': ['66']}; {'id': '66', 'type': 'as_pattern', 'children': ['67', '72']}; {'id': '67', 'type': 'call', 'children': ['68', '69']}; {'id': '68', 'type': 'identifier', 'children': [], 'value': 'open'}; {'id': '69', 'type': 'argument_list', 'children': ['70', '71']}; {'id': '70', 'type': 'identifier', 'children': [], 'value': 'config_file'}; {'id': '71', 'type': 'string', 'children': [], 'value': "'r'"}; {'id': '72', 'type': 'as_pattern_target', 'children': ['73']}; {'id': '73', 'type': 'identifier', 'children': [], 'value': 'conf'}; {'id': '74', 'type': 'block', 'children': ['75', '102']}; {'id': '75', 'type': 'for_statement', 'children': ['76', '77', '78']}; {'id': '76', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '77', 'type': 'identifier', 'children': [], 'value': 'conf'}; {'id': '78', 'type': 'block', 'children': ['79', '87']}; {'id': '79', 'type': 'expression_statement', 'children': ['80']}; {'id': '80', 'type': 'assignment', 'children': ['81', '82']}; {'id': '81', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '82', 'type': 'call', 'children': ['83', '86']}; {'id': '83', 'type': 'attribute', 'children': ['84', '85']}; {'id': '84', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '85', 'type': 'identifier', 'children': [], 'value': 'strip'}; {'id': '86', 'type': 'argument_list', 'children': []}; {'id': '87', 'type': 'if_statement', 'children': ['88', '91', '100']}; {'id': '88', 'type': 'attribute', 'children': ['89', '90']}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '90', 'type': 'identifier', 'children': [], 'value': 'startswith'}; {'id': '91', 'type': 'ERROR', 'children': ['92', '93', '94']}; {'id': '92', 'type': 'ERROR', 'children': []}; {'id': '93', 'type': 'identifier', 'children': [], 'value': 'continue'}; {'id': '94', 'type': 'call', 'children': ['95', '98']}; {'id': '95', 'type': 'attribute', 'children': ['96', '97']}; {'id': '96', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '97', 'type': 'identifier', 'children': [], 'value': 'startswith'}; {'id': '98', 'type': 'argument_list', 'children': ['99']}; {'id': '99', 'type': 'string', 'children': [], 'value': "'BEGIN'"}; {'id': '100', 'type': 'block', 'children': ['101']}; {'id': '101', 'type': 'break_statement', 'children': []}; {'id': '102', 'type': 'for_statement', 'children': ['103', '106', '111']}; {'id': '103', 'type': 'pattern_list', 'children': ['104', '105']}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'groupname'}; {'id': '105', 'type': 'identifier', 'children': [], 'value': 'group_params'}; {'id': '106', 'type': 'call', 'children': ['107', '108']}; {'id': '107', 'type': 'identifier', 'children': [], 'value': 'tool_specific_param_generator'}; {'id': '108', 'type': 'argument_list', 'children': ['109', '110']}; {'id': '109', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '110', 'type': 'identifier', 'children': [], 'value': 'conf'}; {'id': '111', 'type': 'block', 'children': ['112']}; {'id': '112', 'type': 'if_statement', 'children': ['113', '116', '139', '221']}; {'id': '113', 'type': 'comparison_operator', 'children': ['114', '115'], 'value': '=='}; {'id': '114', 'type': 'identifier', 'children': [], 'value': 'groupname'}; {'id': '115', 'type': 'string', 'children': [], 'value': "'patient'"}; {'id': '116', 'type': 'block', 'children': ['117', '131']}; {'id': '117', 'type': 'if_statement', 'children': ['118', '125']}; {'id': '118', 'type': 'comparison_operator', 'children': ['119', '120'], 'value': 'not'}; {'id': '119', 'type': 'string', 'children': [], 'value': "'patient_id'"}; {'id': '120', 'type': 'call', 'children': ['121', '124']}; {'id': '121', 'type': 'attribute', 'children': ['122', '123']}; {'id': '122', 'type': 'identifier', 'children': [], 'value': 'group_params'}; {'id': '123', 'type': 'identifier', 'children': [], 'value': 'keys'}; {'id': '124', 'type': 'argument_list', 'children': []}; {'id': '125', 'type': 'block', 'children': ['126']}; {'id': '126', 'type': 'raise_statement', 'children': ['127']}; {'id': '127', 'type': 'call', 'children': ['128', '129']}; {'id': '128', 'type': 'identifier', 'children': [], 'value': 'ParameterError'}; {'id': '129', 'type': 'argument_list', 'children': ['130']}; {'id': '130', 'type': 'string', 'children': [], 'value': "'A patient group is missing the patient_id flag.'"}; {'id': '131', 'type': 'expression_statement', 'children': ['132']}; {'id': '132', 'type': 'assignment', 'children': ['133', '138']}; {'id': '133', 'type': 'subscript', 'children': ['134', '135']}; {'id': '134', 'type': 'identifier', 'children': [], 'value': 'sample_set'}; {'id': '135', 'type': 'subscript', 'children': ['136', '137']}; {'id': '136', 'type': 'identifier', 'children': [], 'value': 'group_params'}; {'id': '137', 'type': 'string', 'children': [], 'value': "'patient_id'"}; {'id': '138', 'type': 'identifier', 'children': [], 'value': 'group_params'}; {'id': '139', 'type': 'elif_clause', 'children': ['140', '143']}; {'id': '140', 'type': 'comparison_operator', 'children': ['141', '142'], 'value': '=='}; {'id': '141', 'type': 'identifier', 'children': [], 'value': 'groupname'}; {'id': '142', 'type': 'string', 'children': [], 'value': "'Universal_Options'"}; {'id': '143', 'type': 'block', 'children': ['144', '148', '155', '171', '193']}; {'id': '144', 'type': 'expression_statement', 'children': ['145']}; {'id': '145', 'type': 'assignment', 'children': ['146', '147']}; {'id': '146', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '147', 'type': 'identifier', 'children': [], 'value': 'group_params'}; {'id': '148', 'type': 'expression_statement', 'children': ['149']}; {'id': '149', 'type': 'assignment', 'children': ['150', '151']}; {'id': '150', 'type': 'identifier', 'children': [], 'value': 'required_options'}; {'id': '151', 'type': 'set', 'children': ['152', '153', '154']}; {'id': '152', 'type': 'string', 'children': [], 'value': "'java_Xmx'"}; {'id': '153', 'type': 'string', 'children': [], 'value': "'output_folder'"}; {'id': '154', 'type': 'string', 'children': [], 'value': "'storage_location'"}; {'id': '155', 'type': 'expression_statement', 'children': ['156']}; {'id': '156', 'type': 'assignment', 'children': ['157', '158']}; {'id': '157', 'type': 'identifier', 'children': [], 'value': 'missing_opts'}; {'id': '158', 'type': 'call', 'children': ['159', '162']}; {'id': '159', 'type': 'attribute', 'children': ['160', '161']}; {'id': '160', 'type': 'identifier', 'children': [], 'value': 'required_options'}; {'id': '161', 'type': 'identifier', 'children': [], 'value': 'difference'}; {'id': '162', 'type': 'argument_list', 'children': ['163']}; {'id': '163', 'type': 'call', 'children': ['164', '165']}; {'id': '164', 'type': 'identifier', 'children': [], 'value': 'set'}; {'id': '165', 'type': 'argument_list', 'children': ['166']}; {'id': '166', 'type': 'call', 'children': ['167', '170']}; {'id': '167', 'type': 'attribute', 'children': ['168', '169']}; {'id': '168', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '169', 'type': 'identifier', 'children': [], 'value': 'keys'}; {'id': '170', 'type': 'argument_list', 'children': []}; {'id': '171', 'type': 'if_statement', 'children': ['172', '178']}; {'id': '172', 'type': 'comparison_operator', 'children': ['173', '177'], 'value': '>'}; {'id': '173', 'type': 'call', 'children': ['174', '175']}; {'id': '174', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '175', 'type': 'argument_list', 'children': ['176']}; {'id': '176', 'type': 'identifier', 'children': [], 'value': 'missing_opts'}; {'id': '177', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '178', 'type': 'block', 'children': ['179']}; {'id': '179', 'type': 'raise_statement', 'children': ['180']}; {'id': '180', 'type': 'call', 'children': ['181', '182']}; {'id': '181', 'type': 'identifier', 'children': [], 'value': 'ParameterError'}; {'id': '182', 'type': 'argument_list', 'children': ['183']}; {'id': '183', 'type': 'binary_operator', 'children': ['184', '187'], 'value': '+'}; {'id': '184', 'type': 'concatenated_string', 'children': ['185', '186']}; {'id': '185', 'type': 'string', 'children': [], 'value': "' The following options have no arguments in the config '"}; {'id': '186', 'type': 'string', 'children': [], 'value': "'file :\\n'"}; {'id': '187', 'type': 'call', 'children': ['188', '191']}; {'id': '188', 'type': 'attribute', 'children': ['189', '190']}; {'id': '189', 'type': 'string', 'children': [], 'value': "'\\n'"}; {'id': '190', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '191', 'type': 'argument_list', 'children': ['192']}; {'id': '192', 'type': 'identifier', 'children': [], 'value': 'missing_opts'}; {'id': '193', 'type': 'if_statement', 'children': ['194', '197']}; {'id': '194', 'type': 'subscript', 'children': ['195', '196']}; {'id': '195', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '196', 'type': 'string', 'children': [], 'value': "'sse_key_is_master'"}; {'id': '197', 'type': 'block', 'children': ['198', '208']}; {'id': '198', 'type': 'assert_statement', 'children': ['199']}; {'id': '199', 'type': 'comparison_operator', 'children': ['200', '203'], 'value': 'in'}; {'id': '200', 'type': 'subscript', 'children': ['201', '202']}; {'id': '201', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '202', 'type': 'string', 'children': [], 'value': "'sse_key_is_master'"}; {'id': '203', 'type': 'tuple', 'children': ['204', '205', '206', '207']}; {'id': '204', 'type': 'string', 'children': [], 'value': "'True'"}; {'id': '205', 'type': 'string', 'children': [], 'value': "'true'"}; {'id': '206', 'type': 'string', 'children': [], 'value': "'False'"}; {'id': '207', 'type': 'string', 'children': [], 'value': "'false'"}; {'id': '208', 'type': 'expression_statement', 'children': ['209']}; {'id': '209', 'type': 'assignment', 'children': ['210', '213', '214']}; {'id': '210', 'type': 'subscript', 'children': ['211', '212']}; {'id': '211', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '212', 'type': 'string', 'children': [], 'value': "'sse_key_is_master'"}; {'id': '213', 'type': 'line_continuation', 'children': [], 'value': '\\'}; {'id': '214', 'type': 'comparison_operator', 'children': ['215', '218'], 'value': 'in'}; {'id': '215', 'type': 'subscript', 'children': ['216', '217']}; {'id': '216', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '217', 'type': 'string', 'children': [], 'value': "'sse_key_is_master'"}; {'id': '218', 'type': 'tuple', 'children': ['219', '220']}; {'id': '219', 'type': 'string', 'children': [], 'value': "'True'"}; {'id': '220', 'type': 'string', 'children': [], 'value': "'true'"}; {'id': '221', 'type': 'else_clause', 'children': ['222']}; {'id': '222', 'type': 'block', 'children': ['223']}; {'id': '223', 'type': 'expression_statement', 'children': ['224']}; {'id': '224', 'type': 'assignment', 'children': ['225', '228']}; {'id': '225', 'type': 'subscript', 'children': ['226', '227']}; {'id': '226', 'type': 'identifier', 'children': [], 'value': 'tool_options'}; {'id': '227', 'type': 'identifier', 'children': [], 'value': 'groupname'}; {'id': '228', 'type': 'identifier', 'children': [], 'value': 'group_params'}; {'id': '229', 'type': 'expression_statement', 'children': ['230']}; {'id': '230', 'type': 'assignment', 'children': ['231', '232']}; {'id': '231', 'type': 'identifier', 'children': [], 'value': 'required_tools'}; {'id': '232', 'type': 'set', 'children': ['233', '234', '235', '236', '237', '238', '239', '240', '241', '242', '243']}; {'id': '233', 'type': 'string', 'children': [], 'value': "'cutadapt'"}; {'id': '234', 'type': 'string', 'children': [], 'value': "'bwa'"}; {'id': '235', 'type': 'string', 'children': [], 'value': "'star'"}; {'id': '236', 'type': 'string', 'children': [], 'value': "'phlat'"}; {'id': '237', 'type': 'string', 'children': [], 'value': "'transgene'"}; {'id': '238', 'type': 'string', 'children': [], 'value': "'mut_callers'"}; {'id': '239', 'type': 'string', 'children': [], 'value': "'rsem'"}; {'id': '240', 'type': 'string', 'children': [], 'value': "'mhci'"}; {'id': '241', 'type': 'string', 'children': [], 'value': "'mhcii'"}; {'id': '242', 'type': 'string', 'children': [], 'value': "'snpeff'"}; {'id': '243', 'type': 'string', 'children': [], 'value': "'rank_boost'"}; {'id': '244', 'type': 'expression_statement', 'children': ['245']}; {'id': '245', 'type': 'assignment', 'children': ['246', '247']}; {'id': '246', 'type': 'identifier', 'children': [], 'value': 'missing_tools'}; {'id': '247', 'type': 'call', 'children': ['248', '251']}; {'id': '248', 'type': 'attribute', 'children': ['249', '250']}; {'id': '249', 'type': 'identifier', 'children': [], 'value': 'required_tools'}; {'id': '250', 'type': 'identifier', 'children': [], 'value': 'difference'}; {'id': '251', 'type': 'argument_list', 'children': ['252']}; {'id': '252', 'type': 'call', 'children': ['253', '254']}; {'id': '253', 'type': 'identifier', 'children': [], 'value': 'set'}; {'id': '254', 'type': 'argument_list', 'children': ['255']}; {'id': '255', 'type': 'call', 'children': ['256', '259']}; {'id': '256', 'type': 'attribute', 'children': ['257', '258']}; {'id': '257', 'type': 'identifier', 'children': [], 'value': 'tool_options'}; {'id': '258', 'type': 'identifier', 'children': [], 'value': 'keys'}; {'id': '259', 'type': 'argument_list', 'children': []}; {'id': '260', 'type': 'if_statement', 'children': ['261', '267']}; {'id': '261', 'type': 'comparison_operator', 'children': ['262', '266'], 'value': '>'}; {'id': '262', 'type': 'call', 'children': ['263', '264']}; {'id': '263', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '264', 'type': 'argument_list', 'children': ['265']}; {'id': '265', 'type': 'identifier', 'children': [], 'value': 'missing_tools'}; {'id': '266', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '267', 'type': 'block', 'children': ['268']}; {'id': '268', 'type': 'raise_statement', 'children': ['269']}; {'id': '269', 'type': 'call', 'children': ['270', '271']}; {'id': '270', 'type': 'identifier', 'children': [], 'value': 'ParameterError'}; {'id': '271', 'type': 'argument_list', 'children': ['272']}; {'id': '272', 'type': 'binary_operator', 'children': ['273', '274'], 'value': '+'}; {'id': '273', 'type': 'string', 'children': [], 'value': "' The following tools have no arguments in the config file : \\n'"}; {'id': '274', 'type': 'call', 'children': ['275', '278']}; {'id': '275', 'type': 'attribute', 'children': ['276', '277']}; {'id': '276', 'type': 'string', 'children': [], 'value': "'\\n'"}; {'id': '277', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '278', 'type': 'argument_list', 'children': ['279']}; {'id': '279', 'type': 'identifier', 'children': [], 'value': 'missing_tools'}; {'id': '280', 'type': 'for_statement', 'children': ['281', '282', '287']}; {'id': '281', 'type': 'identifier', 'children': [], 'value': 'patient_id'}; {'id': '282', 'type': 'call', 'children': ['283', '286']}; {'id': '283', 'type': 'attribute', 'children': ['284', '285']}; {'id': '284', 'type': 'identifier', 'children': [], 'value': 'sample_set'}; {'id': '285', 'type': 'identifier', 'children': [], 'value': 'keys'}; {'id': '286', 'type': 'argument_list', 'children': []}; {'id': '287', 'type': 'block', 'children': ['288']}; {'id': '288', 'type': 'expression_statement', 'children': ['289']}; {'id': '289', 'type': 'call', 'children': ['290', '293']}; {'id': '290', 'type': 'attribute', 'children': ['291', '292']}; {'id': '291', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '292', 'type': 'identifier', 'children': [], 'value': 'addFollowOnJobFn'}; {'id': '293', 'type': 'argument_list', 'children': ['294', '295', '298', '299']}; {'id': '294', 'type': 'identifier', 'children': [], 'value': 'pipeline_launchpad'}; {'id': '295', 'type': 'subscript', 'children': ['296', '297']}; {'id': '296', 'type': 'identifier', 'children': [], 'value': 'sample_set'}; {'id': '297', 'type': 'identifier', 'children': [], 'value': 'patient_id'}; {'id': '298', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '299', 'type': 'identifier', 'children': [], 'value': 'tool_options'}; {'id': '300', 'type': 'return_statement', 'children': ['301']}; {'id': '301', 'type': 'None', 'children': []} | def parse_config_file(job, config_file):
job.fileStore.logToMaster('Parsing config file')
config_file = os.path.abspath(config_file)
if not os.path.exists(config_file):
raise ParameterError('The config file was not found at specified location. Please verify ' +
'and retry.')
sample_set = defaultdict()
univ_options = defaultdict()
tool_options = defaultdict()
with open(config_file, 'r') as conf:
for line in conf:
line = line.strip()
if line.startswith('
continue
if line.startswith('BEGIN'):
break
for groupname, group_params in tool_specific_param_generator(job, conf):
if groupname == 'patient':
if 'patient_id' not in group_params.keys():
raise ParameterError('A patient group is missing the patient_id flag.')
sample_set[group_params['patient_id']] = group_params
elif groupname == 'Universal_Options':
univ_options = group_params
required_options = {'java_Xmx', 'output_folder', 'storage_location'}
missing_opts = required_options.difference(set(univ_options.keys()))
if len(missing_opts) > 0:
raise ParameterError(' The following options have no arguments in the config '
'file :\n' + '\n'.join(missing_opts))
if univ_options['sse_key_is_master']:
assert univ_options['sse_key_is_master'] in ('True', 'true', 'False', 'false')
univ_options['sse_key_is_master'] = \
univ_options['sse_key_is_master'] in ('True', 'true')
else:
tool_options[groupname] = group_params
required_tools = {'cutadapt', 'bwa', 'star', 'phlat', 'transgene', 'mut_callers', 'rsem',
'mhci', 'mhcii', 'snpeff', 'rank_boost'}
missing_tools = required_tools.difference(set(tool_options.keys()))
if len(missing_tools) > 0:
raise ParameterError(' The following tools have no arguments in the config file : \n' +
'\n'.join(missing_tools))
for patient_id in sample_set.keys():
job.addFollowOnJobFn(pipeline_launchpad, sample_set[patient_id], univ_options, tool_options)
return None |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '8']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'run_star'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '7']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'fastqs'}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '7', 'type': 'identifier', 'children': [], 'value': 'star_options'}; {'id': '8', 'type': 'block', 'children': ['9', '17', '30', '40', '59', '71', '108', '153', '159', '185', '196', '207', '224', '231', '241']}; {'id': '9', 'type': 'assert_statement', 'children': ['10']}; {'id': '10', 'type': 'comparison_operator', 'children': ['11', '14'], 'value': 'in'}; {'id': '11', 'type': 'subscript', 'children': ['12', '13']}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'star_options'}; {'id': '13', 'type': 'string', 'children': [], 'value': "'type'"}; {'id': '14', 'type': 'tuple', 'children': ['15', '16']}; {'id': '15', 'type': 'string', 'children': [], 'value': "'star'"}; {'id': '16', 'type': 'string', 'children': [], 'value': "'starlong'"}; {'id': '17', 'type': 'expression_statement', 'children': ['18']}; {'id': '18', 'type': 'call', 'children': ['19', '24']}; {'id': '19', 'type': 'attribute', 'children': ['20', '23']}; {'id': '20', 'type': 'attribute', 'children': ['21', '22']}; {'id': '21', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '22', 'type': 'identifier', 'children': [], 'value': 'fileStore'}; {'id': '23', 'type': 'identifier', 'children': [], 'value': 'logToMaster'}; {'id': '24', 'type': 'argument_list', 'children': ['25']}; {'id': '25', 'type': 'binary_operator', 'children': ['26', '27'], 'value': '%'}; {'id': '26', 'type': 'string', 'children': [], 'value': "'Running STAR on %s'"}; {'id': '27', 'type': 'subscript', 'children': ['28', '29']}; {'id': '28', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '29', 'type': 'string', 'children': [], 'value': "'patient'"}; {'id': '30', 'type': 'expression_statement', 'children': ['31']}; {'id': '31', 'type': 'assignment', 'children': ['32', '33']}; {'id': '32', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '33', 'type': 'call', 'children': ['34', '39']}; {'id': '34', 'type': 'attribute', 'children': ['35', '38']}; {'id': '35', 'type': 'attribute', 'children': ['36', '37']}; {'id': '36', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '37', 'type': 'identifier', 'children': [], 'value': 'fileStore'}; {'id': '38', 'type': 'identifier', 'children': [], 'value': 'getLocalTempDir'}; {'id': '39', 'type': 'argument_list', 'children': []}; {'id': '40', 'type': 'expression_statement', 'children': ['41']}; {'id': '41', 'type': 'assignment', 'children': ['42', '43']}; {'id': '42', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '43', 'type': 'dictionary', 'children': ['44', '49', '54']}; {'id': '44', 'type': 'pair', 'children': ['45', '46']}; {'id': '45', 'type': 'string', 'children': [], 'value': "'rna_cutadapt_1.fastq'"}; {'id': '46', 'type': 'subscript', 'children': ['47', '48']}; {'id': '47', 'type': 'identifier', 'children': [], 'value': 'fastqs'}; {'id': '48', 'type': 'string', 'children': [], 'value': "'rna_cutadapt_1.fastq'"}; {'id': '49', 'type': 'pair', 'children': ['50', '51']}; {'id': '50', 'type': 'string', 'children': [], 'value': "'rna_cutadapt_2.fastq'"}; {'id': '51', 'type': 'subscript', 'children': ['52', '53']}; {'id': '52', 'type': 'identifier', 'children': [], 'value': 'fastqs'}; {'id': '53', 'type': 'string', 'children': [], 'value': "'rna_cutadapt_2.fastq'"}; {'id': '54', 'type': 'pair', 'children': ['55', '56']}; {'id': '55', 'type': 'string', 'children': [], 'value': "'star_index.tar.gz'"}; {'id': '56', 'type': 'subscript', 'children': ['57', '58']}; {'id': '57', 'type': 'identifier', 'children': [], 'value': 'star_options'}; {'id': '58', 'type': 'string', 'children': [], 'value': "'index_tar'"}; {'id': '59', 'type': 'expression_statement', 'children': ['60']}; {'id': '60', 'type': 'assignment', 'children': ['61', '62']}; {'id': '61', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '62', 'type': 'call', 'children': ['63', '64']}; {'id': '63', 'type': 'identifier', 'children': [], 'value': 'get_files_from_filestore'}; {'id': '64', 'type': 'argument_list', 'children': ['65', '66', '67', '68']}; {'id': '65', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '66', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '67', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '68', 'type': 'keyword_argument', 'children': ['69', '70']}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'docker'}; {'id': '70', 'type': 'True', 'children': []}; {'id': '71', 'type': 'expression_statement', 'children': ['72']}; {'id': '72', 'type': 'assignment', 'children': ['73', '74']}; {'id': '73', 'type': 'identifier', 'children': [], 'value': 'parameters'}; {'id': '74', 'type': 'list', 'children': ['75', '76', '82', '83', '86', '87', '88', '89', '92', '95', '96', '97', '98', '99', '100', '101', '102', '103', '104', '105', '106', '107'], 'value': "['--runThreadN', str(star_options['n']),\n '--genomeDir', input_files['star_index'],\n '--outFileNamePrefix', 'rna',\n '--readFilesIn',\n input_files['rna_cutadapt_1.fastq'],\n input_files['rna_cutadapt_2.fastq'],\n '--outSAMattributes', 'NH', 'HI', 'AS', 'NM', 'MD',\n '--outSAMtype', 'BAM', 'SortedByCoordinate',\n '--quantMode', 'TranscriptomeSAM',\n '--outSAMunmapped', 'Within']"}; {'id': '75', 'type': 'string', 'children': [], 'value': "'--runThreadN'"}; {'id': '76', 'type': 'call', 'children': ['77', '78']}; {'id': '77', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '78', 'type': 'argument_list', 'children': ['79']}; {'id': '79', 'type': 'subscript', 'children': ['80', '81']}; {'id': '80', 'type': 'identifier', 'children': [], 'value': 'star_options'}; {'id': '81', 'type': 'string', 'children': [], 'value': "'n'"}; {'id': '82', 'type': 'string', 'children': [], 'value': "'--genomeDir'"}; {'id': '83', 'type': 'subscript', 'children': ['84', '85']}; {'id': '84', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '85', 'type': 'string', 'children': [], 'value': "'star_index'"}; {'id': '86', 'type': 'string', 'children': [], 'value': "'--outFileNamePrefix'"}; {'id': '87', 'type': 'string', 'children': [], 'value': "'rna'"}; {'id': '88', 'type': 'string', 'children': [], 'value': "'--readFilesIn'"}; {'id': '89', 'type': 'subscript', 'children': ['90', '91']}; {'id': '90', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '91', 'type': 'string', 'children': [], 'value': "'rna_cutadapt_1.fastq'"}; {'id': '92', 'type': 'subscript', 'children': ['93', '94']}; {'id': '93', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '94', 'type': 'string', 'children': [], 'value': "'rna_cutadapt_2.fastq'"}; {'id': '95', 'type': 'string', 'children': [], 'value': "'--outSAMattributes'"}; {'id': '96', 'type': 'string', 'children': [], 'value': "'NH'"}; {'id': '97', 'type': 'string', 'children': [], 'value': "'HI'"}; {'id': '98', 'type': 'string', 'children': [], 'value': "'AS'"}; {'id': '99', 'type': 'string', 'children': [], 'value': "'NM'"}; {'id': '100', 'type': 'string', 'children': [], 'value': "'MD'"}; {'id': '101', 'type': 'string', 'children': [], 'value': "'--outSAMtype'"}; {'id': '102', 'type': 'string', 'children': [], 'value': "'BAM'"}; {'id': '103', 'type': 'string', 'children': [], 'value': "'SortedByCoordinate'"}; {'id': '104', 'type': 'string', 'children': [], 'value': "'--quantMode'"}; {'id': '105', 'type': 'string', 'children': [], 'value': "'TranscriptomeSAM'"}; {'id': '106', 'type': 'string', 'children': [], 'value': "'--outSAMunmapped'"}; {'id': '107', 'type': 'string', 'children': [], 'value': "'Within'"}; {'id': '108', 'type': 'if_statement', 'children': ['109', '114', '133']}; {'id': '109', 'type': 'comparison_operator', 'children': ['110', '113'], 'value': '=='}; {'id': '110', 'type': 'subscript', 'children': ['111', '112']}; {'id': '111', 'type': 'identifier', 'children': [], 'value': 'star_options'}; {'id': '112', 'type': 'string', 'children': [], 'value': "'type'"}; {'id': '113', 'type': 'string', 'children': [], 'value': "'star'"}; {'id': '114', 'type': 'block', 'children': ['115']}; {'id': '115', 'type': 'expression_statement', 'children': ['116']}; {'id': '116', 'type': 'call', 'children': ['117', '118']}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'docker_call'}; {'id': '118', 'type': 'argument_list', 'children': ['119', '122', '125', '128']}; {'id': '119', 'type': 'keyword_argument', 'children': ['120', '121']}; {'id': '120', 'type': 'identifier', 'children': [], 'value': 'tool'}; {'id': '121', 'type': 'string', 'children': [], 'value': "'star'"}; {'id': '122', 'type': 'keyword_argument', 'children': ['123', '124']}; {'id': '123', 'type': 'identifier', 'children': [], 'value': 'tool_parameters'}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'parameters'}; {'id': '125', 'type': 'keyword_argument', 'children': ['126', '127']}; {'id': '126', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '127', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '128', 'type': 'keyword_argument', 'children': ['129', '130']}; {'id': '129', 'type': 'identifier', 'children': [], 'value': 'dockerhub'}; {'id': '130', 'type': 'subscript', 'children': ['131', '132']}; {'id': '131', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '132', 'type': 'string', 'children': [], 'value': "'dockerhub'"}; {'id': '133', 'type': 'else_clause', 'children': ['134']}; {'id': '134', 'type': 'block', 'children': ['135']}; {'id': '135', 'type': 'expression_statement', 'children': ['136']}; {'id': '136', 'type': 'call', 'children': ['137', '138']}; {'id': '137', 'type': 'identifier', 'children': [], 'value': 'docker_call'}; {'id': '138', 'type': 'argument_list', 'children': ['139', '142', '145', '148']}; {'id': '139', 'type': 'keyword_argument', 'children': ['140', '141']}; {'id': '140', 'type': 'identifier', 'children': [], 'value': 'tool'}; {'id': '141', 'type': 'string', 'children': [], 'value': "'starlong'"}; {'id': '142', 'type': 'keyword_argument', 'children': ['143', '144']}; {'id': '143', 'type': 'identifier', 'children': [], 'value': 'tool_parameters'}; {'id': '144', 'type': 'identifier', 'children': [], 'value': 'parameters'}; {'id': '145', 'type': 'keyword_argument', 'children': ['146', '147']}; {'id': '146', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '147', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '148', 'type': 'keyword_argument', 'children': ['149', '150']}; {'id': '149', 'type': 'identifier', 'children': [], 'value': 'dockerhub'}; {'id': '150', 'type': 'subscript', 'children': ['151', '152']}; {'id': '151', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '152', 'type': 'string', 'children': [], 'value': "'dockerhub'"}; {'id': '153', 'type': 'expression_statement', 'children': ['154']}; {'id': '154', 'type': 'assignment', 'children': ['155', '156']}; {'id': '155', 'type': 'identifier', 'children': [], 'value': 'output_files'}; {'id': '156', 'type': 'call', 'children': ['157', '158']}; {'id': '157', 'type': 'identifier', 'children': [], 'value': 'defaultdict'}; {'id': '158', 'type': 'argument_list', 'children': []}; {'id': '159', 'type': 'for_statement', 'children': ['160', '161', '164']}; {'id': '160', 'type': 'identifier', 'children': [], 'value': 'bam_file'}; {'id': '161', 'type': 'list', 'children': ['162', '163'], 'value': "['rnaAligned.toTranscriptome.out.bam',\n 'rnaAligned.sortedByCoord.out.bam']"}; {'id': '162', 'type': 'string', 'children': [], 'value': "'rnaAligned.toTranscriptome.out.bam'"}; {'id': '163', 'type': 'string', 'children': [], 'value': "'rnaAligned.sortedByCoord.out.bam'"}; {'id': '164', 'type': 'block', 'children': ['165']}; {'id': '165', 'type': 'expression_statement', 'children': ['166']}; {'id': '166', 'type': 'assignment', 'children': ['167', '170']}; {'id': '167', 'type': 'subscript', 'children': ['168', '169']}; {'id': '168', 'type': 'identifier', 'children': [], 'value': 'output_files'}; {'id': '169', 'type': 'identifier', 'children': [], 'value': 'bam_file'}; {'id': '170', 'type': 'call', 'children': ['171', '176']}; {'id': '171', 'type': 'attribute', 'children': ['172', '175']}; {'id': '172', 'type': 'attribute', 'children': ['173', '174']}; {'id': '173', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '174', 'type': 'identifier', 'children': [], 'value': 'fileStore'}; {'id': '175', 'type': 'identifier', 'children': [], 'value': 'writeGlobalFile'}; {'id': '176', 'type': 'argument_list', 'children': ['177']}; {'id': '177', 'type': 'call', 'children': ['178', '181']}; {'id': '178', 'type': 'attribute', 'children': ['179', '180']}; {'id': '179', 'type': 'string', 'children': [], 'value': "'/'"}; {'id': '180', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '181', 'type': 'argument_list', 'children': ['182']}; {'id': '182', 'type': 'list', 'children': ['183', '184'], 'value': '[\n work_dir, bam_file]'}; {'id': '183', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '184', 'type': 'identifier', 'children': [], 'value': 'bam_file'}; {'id': '185', 'type': 'expression_statement', 'children': ['186']}; {'id': '186', 'type': 'call', 'children': ['187', '192']}; {'id': '187', 'type': 'attribute', 'children': ['188', '191']}; {'id': '188', 'type': 'attribute', 'children': ['189', '190']}; {'id': '189', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '190', 'type': 'identifier', 'children': [], 'value': 'fileStore'}; {'id': '191', 'type': 'identifier', 'children': [], 'value': 'deleteGlobalFile'}; {'id': '192', 'type': 'argument_list', 'children': ['193']}; {'id': '193', 'type': 'subscript', 'children': ['194', '195']}; {'id': '194', 'type': 'identifier', 'children': [], 'value': 'fastqs'}; {'id': '195', 'type': 'string', 'children': [], 'value': "'rna_cutadapt_1.fastq'"}; {'id': '196', 'type': 'expression_statement', 'children': ['197']}; {'id': '197', 'type': 'call', 'children': ['198', '203']}; {'id': '198', 'type': 'attribute', 'children': ['199', '202']}; {'id': '199', 'type': 'attribute', 'children': ['200', '201']}; {'id': '200', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '201', 'type': 'identifier', 'children': [], 'value': 'fileStore'}; {'id': '202', 'type': 'identifier', 'children': [], 'value': 'deleteGlobalFile'}; {'id': '203', 'type': 'argument_list', 'children': ['204']}; {'id': '204', 'type': 'subscript', 'children': ['205', '206']}; {'id': '205', 'type': 'identifier', 'children': [], 'value': 'fastqs'}; {'id': '206', 'type': 'string', 'children': [], 'value': "'rna_cutadapt_2.fastq'"}; {'id': '207', 'type': 'expression_statement', 'children': ['208']}; {'id': '208', 'type': 'assignment', 'children': ['209', '210']}; {'id': '209', 'type': 'identifier', 'children': [], 'value': 'index_star'}; {'id': '210', 'type': 'call', 'children': ['211', '214']}; {'id': '211', 'type': 'attribute', 'children': ['212', '213']}; {'id': '212', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '213', 'type': 'identifier', 'children': [], 'value': 'wrapJobFn'}; {'id': '214', 'type': 'argument_list', 'children': ['215', '216', '219', '220', '221']}; {'id': '215', 'type': 'identifier', 'children': [], 'value': 'index_bamfile'}; {'id': '216', 'type': 'subscript', 'children': ['217', '218']}; {'id': '217', 'type': 'identifier', 'children': [], 'value': 'output_files'}; {'id': '218', 'type': 'string', 'children': [], 'value': "'rnaAligned.sortedByCoord.out.bam'"}; {'id': '219', 'type': 'string', 'children': [], 'value': "'rna'"}; {'id': '220', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '221', 'type': 'keyword_argument', 'children': ['222', '223']}; {'id': '222', 'type': 'identifier', 'children': [], 'value': 'disk'}; {'id': '223', 'type': 'string', 'children': [], 'value': "'120G'"}; {'id': '224', 'type': 'expression_statement', 'children': ['225']}; {'id': '225', 'type': 'call', 'children': ['226', '229']}; {'id': '226', 'type': 'attribute', 'children': ['227', '228']}; {'id': '227', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '228', 'type': 'identifier', 'children': [], 'value': 'addChild'}; {'id': '229', 'type': 'argument_list', 'children': ['230']}; {'id': '230', 'type': 'identifier', 'children': [], 'value': 'index_star'}; {'id': '231', 'type': 'expression_statement', 'children': ['232']}; {'id': '232', 'type': 'assignment', 'children': ['233', '236']}; {'id': '233', 'type': 'subscript', 'children': ['234', '235']}; {'id': '234', 'type': 'identifier', 'children': [], 'value': 'output_files'}; {'id': '235', 'type': 'string', 'children': [], 'value': "'rnaAligned.sortedByCoord.out.bam'"}; {'id': '236', 'type': 'call', 'children': ['237', '240']}; {'id': '237', 'type': 'attribute', 'children': ['238', '239']}; {'id': '238', 'type': 'identifier', 'children': [], 'value': 'index_star'}; {'id': '239', 'type': 'identifier', 'children': [], 'value': 'rv'}; {'id': '240', 'type': 'argument_list', 'children': []}; {'id': '241', 'type': 'return_statement', 'children': ['242']}; {'id': '242', 'type': 'identifier', 'children': [], 'value': 'output_files'} | def run_star(job, fastqs, univ_options, star_options):
assert star_options['type'] in ('star', 'starlong')
job.fileStore.logToMaster('Running STAR on %s' %univ_options['patient'])
work_dir = job.fileStore.getLocalTempDir()
input_files = {
'rna_cutadapt_1.fastq': fastqs['rna_cutadapt_1.fastq'],
'rna_cutadapt_2.fastq': fastqs['rna_cutadapt_2.fastq'],
'star_index.tar.gz': star_options['index_tar']}
input_files = get_files_from_filestore(job, input_files, work_dir,
docker=True)
parameters = ['--runThreadN', str(star_options['n']),
'--genomeDir', input_files['star_index'],
'--outFileNamePrefix', 'rna',
'--readFilesIn',
input_files['rna_cutadapt_1.fastq'],
input_files['rna_cutadapt_2.fastq'],
'--outSAMattributes', 'NH', 'HI', 'AS', 'NM', 'MD',
'--outSAMtype', 'BAM', 'SortedByCoordinate',
'--quantMode', 'TranscriptomeSAM',
'--outSAMunmapped', 'Within']
if star_options['type'] == 'star':
docker_call(tool='star', tool_parameters=parameters, work_dir=work_dir,
dockerhub=univ_options['dockerhub'])
else:
docker_call(tool='starlong', tool_parameters=parameters, work_dir=work_dir,
dockerhub=univ_options['dockerhub'])
output_files = defaultdict()
for bam_file in ['rnaAligned.toTranscriptome.out.bam',
'rnaAligned.sortedByCoord.out.bam']:
output_files[bam_file] = job.fileStore.writeGlobalFile('/'.join([
work_dir, bam_file]))
job.fileStore.deleteGlobalFile(fastqs['rna_cutadapt_1.fastq'])
job.fileStore.deleteGlobalFile(fastqs['rna_cutadapt_2.fastq'])
index_star = job.wrapJobFn(index_bamfile,
output_files['rnaAligned.sortedByCoord.out.bam'],
'rna', univ_options, disk='120G')
job.addChild(index_star)
output_files['rnaAligned.sortedByCoord.out.bam'] = index_star.rv()
return output_files |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '9']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'run_bwa'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '7', '8']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'fastqs'}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'sample_type'}; {'id': '7', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '8', 'type': 'identifier', 'children': [], 'value': 'bwa_options'}; {'id': '9', 'type': 'block', 'children': ['10', '25', '35', '44', '71', '83', '113', '155', '168', '183', '190']}; {'id': '10', 'type': 'expression_statement', 'children': ['11']}; {'id': '11', 'type': 'call', 'children': ['12', '17']}; {'id': '12', 'type': 'attribute', 'children': ['13', '16']}; {'id': '13', 'type': 'attribute', 'children': ['14', '15']}; {'id': '14', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '15', 'type': 'identifier', 'children': [], 'value': 'fileStore'}; {'id': '16', 'type': 'identifier', 'children': [], 'value': 'logToMaster'}; {'id': '17', 'type': 'argument_list', 'children': ['18']}; {'id': '18', 'type': 'binary_operator', 'children': ['19', '20'], 'value': '%'}; {'id': '19', 'type': 'string', 'children': [], 'value': "'Running bwa on %s:%s'"}; {'id': '20', 'type': 'tuple', 'children': ['21', '24']}; {'id': '21', 'type': 'subscript', 'children': ['22', '23']}; {'id': '22', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '23', 'type': 'string', 'children': [], 'value': "'patient'"}; {'id': '24', 'type': 'identifier', 'children': [], 'value': 'sample_type'}; {'id': '25', 'type': 'expression_statement', 'children': ['26']}; {'id': '26', 'type': 'assignment', 'children': ['27', '28']}; {'id': '27', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '28', 'type': 'call', 'children': ['29', '34']}; {'id': '29', 'type': 'attribute', 'children': ['30', '33']}; {'id': '30', 'type': 'attribute', 'children': ['31', '32']}; {'id': '31', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '32', 'type': 'identifier', 'children': [], 'value': 'fileStore'}; {'id': '33', 'type': 'identifier', 'children': [], 'value': 'getLocalTempDir'}; {'id': '34', 'type': 'argument_list', 'children': []}; {'id': '35', 'type': 'expression_statement', 'children': ['36']}; {'id': '36', 'type': 'assignment', 'children': ['37', '38']}; {'id': '37', 'type': 'identifier', 'children': [], 'value': 'fq_extn'}; {'id': '38', 'type': 'conditional_expression', 'children': ['39', '40', '43'], 'value': 'if'}; {'id': '39', 'type': 'string', 'children': [], 'value': "'.gz'"}; {'id': '40', 'type': 'subscript', 'children': ['41', '42']}; {'id': '41', 'type': 'identifier', 'children': [], 'value': 'fastqs'}; {'id': '42', 'type': 'string', 'children': [], 'value': "'gzipped'"}; {'id': '43', 'type': 'string', 'children': [], 'value': "''"}; {'id': '44', 'type': 'expression_statement', 'children': ['45']}; {'id': '45', 'type': 'assignment', 'children': ['46', '47']}; {'id': '46', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '47', 'type': 'dictionary', 'children': ['48', '57', '66']}; {'id': '48', 'type': 'pair', 'children': ['49', '52']}; {'id': '49', 'type': 'binary_operator', 'children': ['50', '51'], 'value': '+'}; {'id': '50', 'type': 'string', 'children': [], 'value': "'dna_1.fastq'"}; {'id': '51', 'type': 'identifier', 'children': [], 'value': 'fq_extn'}; {'id': '52', 'type': 'subscript', 'children': ['53', '56']}; {'id': '53', 'type': 'subscript', 'children': ['54', '55']}; {'id': '54', 'type': 'identifier', 'children': [], 'value': 'fastqs'}; {'id': '55', 'type': 'identifier', 'children': [], 'value': 'sample_type'}; {'id': '56', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '57', 'type': 'pair', 'children': ['58', '61']}; {'id': '58', 'type': 'binary_operator', 'children': ['59', '60'], 'value': '+'}; {'id': '59', 'type': 'string', 'children': [], 'value': "'dna_2.fastq'"}; {'id': '60', 'type': 'identifier', 'children': [], 'value': 'fq_extn'}; {'id': '61', 'type': 'subscript', 'children': ['62', '65']}; {'id': '62', 'type': 'subscript', 'children': ['63', '64']}; {'id': '63', 'type': 'identifier', 'children': [], 'value': 'fastqs'}; {'id': '64', 'type': 'identifier', 'children': [], 'value': 'sample_type'}; {'id': '65', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '66', 'type': 'pair', 'children': ['67', '68']}; {'id': '67', 'type': 'string', 'children': [], 'value': "'bwa_index.tar.gz'"}; {'id': '68', 'type': 'subscript', 'children': ['69', '70']}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'bwa_options'}; {'id': '70', 'type': 'string', 'children': [], 'value': "'index_tar'"}; {'id': '71', 'type': 'expression_statement', 'children': ['72']}; {'id': '72', 'type': 'assignment', 'children': ['73', '74']}; {'id': '73', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '74', 'type': 'call', 'children': ['75', '76']}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'get_files_from_filestore'}; {'id': '76', 'type': 'argument_list', 'children': ['77', '78', '79', '80']}; {'id': '77', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '78', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '79', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '80', 'type': 'keyword_argument', 'children': ['81', '82']}; {'id': '81', 'type': 'identifier', 'children': [], 'value': 'docker'}; {'id': '82', 'type': 'True', 'children': []}; {'id': '83', 'type': 'expression_statement', 'children': ['84']}; {'id': '84', 'type': 'assignment', 'children': ['85', '86']}; {'id': '85', 'type': 'identifier', 'children': [], 'value': 'parameters'}; {'id': '86', 'type': 'list', 'children': ['87', '88', '89', '95', '96', '97', '107', '110'], 'value': "['mem',\n '-t', str(bwa_options['n']),\n '-v', '1',\n '/'.join([input_files['bwa_index'], 'hg19.fa']),\n input_files['dna_1.fastq'],\n input_files['dna_2.fastq']]"}; {'id': '87', 'type': 'string', 'children': [], 'value': "'mem'"}; {'id': '88', 'type': 'string', 'children': [], 'value': "'-t'"}; {'id': '89', 'type': 'call', 'children': ['90', '91']}; {'id': '90', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '91', 'type': 'argument_list', 'children': ['92']}; {'id': '92', 'type': 'subscript', 'children': ['93', '94']}; {'id': '93', 'type': 'identifier', 'children': [], 'value': 'bwa_options'}; {'id': '94', 'type': 'string', 'children': [], 'value': "'n'"}; {'id': '95', 'type': 'string', 'children': [], 'value': "'-v'"}; {'id': '96', 'type': 'string', 'children': [], 'value': "'1'"}; {'id': '97', 'type': 'call', 'children': ['98', '101']}; {'id': '98', 'type': 'attribute', 'children': ['99', '100']}; {'id': '99', 'type': 'string', 'children': [], 'value': "'/'"}; {'id': '100', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '101', 'type': 'argument_list', 'children': ['102']}; {'id': '102', 'type': 'list', 'children': ['103', '106'], 'value': "[input_files['bwa_index'], 'hg19.fa']"}; {'id': '103', 'type': 'subscript', 'children': ['104', '105']}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '105', 'type': 'string', 'children': [], 'value': "'bwa_index'"}; {'id': '106', 'type': 'string', 'children': [], 'value': "'hg19.fa'"}; {'id': '107', 'type': 'subscript', 'children': ['108', '109']}; {'id': '108', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '109', 'type': 'string', 'children': [], 'value': "'dna_1.fastq'"}; {'id': '110', 'type': 'subscript', 'children': ['111', '112']}; {'id': '111', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '112', 'type': 'string', 'children': [], 'value': "'dna_2.fastq'"}; {'id': '113', 'type': 'with_statement', 'children': ['114', '133']}; {'id': '114', 'type': 'with_clause', 'children': ['115']}; {'id': '115', 'type': 'with_item', 'children': ['116']}; {'id': '116', 'type': 'as_pattern', 'children': ['117', '131']}; {'id': '117', 'type': 'call', 'children': ['118', '119']}; {'id': '118', 'type': 'identifier', 'children': [], 'value': 'open'}; {'id': '119', 'type': 'argument_list', 'children': ['120', '130']}; {'id': '120', 'type': 'call', 'children': ['121', '124']}; {'id': '121', 'type': 'attribute', 'children': ['122', '123']}; {'id': '122', 'type': 'string', 'children': [], 'value': "''"}; {'id': '123', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '124', 'type': 'argument_list', 'children': ['125']}; {'id': '125', 'type': 'list', 'children': ['126', '127', '128', '129'], 'value': "[work_dir, '/', sample_type, '_aligned.sam']"}; {'id': '126', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '127', 'type': 'string', 'children': [], 'value': "'/'"}; {'id': '128', 'type': 'identifier', 'children': [], 'value': 'sample_type'}; {'id': '129', 'type': 'string', 'children': [], 'value': "'_aligned.sam'"}; {'id': '130', 'type': 'string', 'children': [], 'value': "'w'"}; {'id': '131', 'type': 'as_pattern_target', 'children': ['132']}; {'id': '132', 'type': 'identifier', 'children': [], 'value': 'samfile'}; {'id': '133', 'type': 'block', 'children': ['134']}; {'id': '134', 'type': 'expression_statement', 'children': ['135']}; {'id': '135', 'type': 'call', 'children': ['136', '137']}; {'id': '136', 'type': 'identifier', 'children': [], 'value': 'docker_call'}; {'id': '137', 'type': 'argument_list', 'children': ['138', '141', '144', '147', '152']}; {'id': '138', 'type': 'keyword_argument', 'children': ['139', '140']}; {'id': '139', 'type': 'identifier', 'children': [], 'value': 'tool'}; {'id': '140', 'type': 'string', 'children': [], 'value': "'bwa'"}; {'id': '141', 'type': 'keyword_argument', 'children': ['142', '143']}; {'id': '142', 'type': 'identifier', 'children': [], 'value': 'tool_parameters'}; {'id': '143', 'type': 'identifier', 'children': [], 'value': 'parameters'}; {'id': '144', 'type': 'keyword_argument', 'children': ['145', '146']}; {'id': '145', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '146', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '147', 'type': 'keyword_argument', 'children': ['148', '149']}; {'id': '148', 'type': 'identifier', 'children': [], 'value': 'dockerhub'}; {'id': '149', 'type': 'subscript', 'children': ['150', '151']}; {'id': '150', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '151', 'type': 'string', 'children': [], 'value': "'dockerhub'"}; {'id': '152', 'type': 'keyword_argument', 'children': ['153', '154']}; {'id': '153', 'type': 'identifier', 'children': [], 'value': 'outfile'}; {'id': '154', 'type': 'identifier', 'children': [], 'value': 'samfile'}; {'id': '155', 'type': 'expression_statement', 'children': ['156']}; {'id': '156', 'type': 'assignment', 'children': ['157', '158']}; {'id': '157', 'type': 'identifier', 'children': [], 'value': 'output_file'}; {'id': '158', 'type': 'call', 'children': ['159', '164']}; {'id': '159', 'type': 'attribute', 'children': ['160', '163']}; {'id': '160', 'type': 'attribute', 'children': ['161', '162']}; {'id': '161', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '162', 'type': 'identifier', 'children': [], 'value': 'fileStore'}; {'id': '163', 'type': 'identifier', 'children': [], 'value': 'writeGlobalFile'}; {'id': '164', 'type': 'argument_list', 'children': ['165']}; {'id': '165', 'type': 'attribute', 'children': ['166', '167']}; {'id': '166', 'type': 'identifier', 'children': [], 'value': 'samfile'}; {'id': '167', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '168', 'type': 'expression_statement', 'children': ['169']}; {'id': '169', 'type': 'assignment', 'children': ['170', '171']}; {'id': '170', 'type': 'identifier', 'children': [], 'value': 'samfile_processing'}; {'id': '171', 'type': 'call', 'children': ['172', '175']}; {'id': '172', 'type': 'attribute', 'children': ['173', '174']}; {'id': '173', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '174', 'type': 'identifier', 'children': [], 'value': 'wrapJobFn'}; {'id': '175', 'type': 'argument_list', 'children': ['176', '177', '178', '179', '180']}; {'id': '176', 'type': 'identifier', 'children': [], 'value': 'bam_conversion'}; {'id': '177', 'type': 'identifier', 'children': [], 'value': 'output_file'}; {'id': '178', 'type': 'identifier', 'children': [], 'value': 'sample_type'}; {'id': '179', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '180', 'type': 'keyword_argument', 'children': ['181', '182']}; {'id': '181', 'type': 'identifier', 'children': [], 'value': 'disk'}; {'id': '182', 'type': 'string', 'children': [], 'value': "'60G'"}; {'id': '183', 'type': 'expression_statement', 'children': ['184']}; {'id': '184', 'type': 'call', 'children': ['185', '188']}; {'id': '185', 'type': 'attribute', 'children': ['186', '187']}; {'id': '186', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '187', 'type': 'identifier', 'children': [], 'value': 'addChild'}; {'id': '188', 'type': 'argument_list', 'children': ['189']}; {'id': '189', 'type': 'identifier', 'children': [], 'value': 'samfile_processing'}; {'id': '190', 'type': 'return_statement', 'children': ['191']}; {'id': '191', 'type': 'call', 'children': ['192', '195']}; {'id': '192', 'type': 'attribute', 'children': ['193', '194']}; {'id': '193', 'type': 'identifier', 'children': [], 'value': 'samfile_processing'}; {'id': '194', 'type': 'identifier', 'children': [], 'value': 'rv'}; {'id': '195', 'type': 'argument_list', 'children': []} | def run_bwa(job, fastqs, sample_type, univ_options, bwa_options):
job.fileStore.logToMaster('Running bwa on %s:%s' % (univ_options['patient'], sample_type))
work_dir = job.fileStore.getLocalTempDir()
fq_extn = '.gz' if fastqs['gzipped'] else ''
input_files = {
'dna_1.fastq' + fq_extn: fastqs[sample_type][0],
'dna_2.fastq' + fq_extn: fastqs[sample_type][1],
'bwa_index.tar.gz': bwa_options['index_tar']}
input_files = get_files_from_filestore(job, input_files, work_dir, docker=True)
parameters = ['mem',
'-t', str(bwa_options['n']),
'-v', '1',
'/'.join([input_files['bwa_index'], 'hg19.fa']),
input_files['dna_1.fastq'],
input_files['dna_2.fastq']]
with open(''.join([work_dir, '/', sample_type, '_aligned.sam']), 'w') as samfile:
docker_call(tool='bwa', tool_parameters=parameters, work_dir=work_dir,
dockerhub=univ_options['dockerhub'], outfile=samfile)
output_file = job.fileStore.writeGlobalFile(samfile.name)
samfile_processing = job.wrapJobFn(bam_conversion, output_file, sample_type, univ_options,
disk='60G')
job.addChild(samfile_processing)
return samfile_processing.rv() |
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{'id': '93', 'type': 'argument_list', 'children': ['94', '102']}; {'id': '94', 'type': 'call', 'children': ['95', '98']}; {'id': '95', 'type': 'attribute', 'children': ['96', '97']}; {'id': '96', 'type': 'string', 'children': [], 'value': "'/'"}; {'id': '97', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '98', 'type': 'argument_list', 'children': ['99']}; {'id': '99', 'type': 'list', 'children': ['100', '101'], 'value': "[work_dir, 'radia_calls.vcf']"}; {'id': '100', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '101', 'type': 'string', 'children': [], 'value': "'radia_calls.vcf'"}; {'id': '102', 'type': 'string', 'children': [], 'value': "'w'"}; {'id': '103', 'type': 'as_pattern_target', 'children': ['104']}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'radfile'}; {'id': '105', 'type': 'line_continuation', 'children': [], 'value': '\\'}; {'id': '106', 'type': 'with_item', 'children': ['107']}; {'id': '107', 'type': 'as_pattern', 'children': ['108', '120']}; 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{'id': '122', 'type': 'block', 'children': ['123']}; {'id': '123', 'type': 'for_statement', 'children': ['124', '125', '126']}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'chrom'}; {'id': '125', 'type': 'identifier', 'children': [], 'value': 'chromosomes'}; {'id': '126', 'type': 'block', 'children': ['127']}; {'id': '127', 'type': 'with_statement', 'children': ['128', '148']}; {'id': '128', 'type': 'with_clause', 'children': ['129']}; {'id': '129', 'type': 'with_item', 'children': ['130']}; {'id': '130', 'type': 'as_pattern', 'children': ['131', '146']}; {'id': '131', 'type': 'call', 'children': ['132', '133']}; {'id': '132', 'type': 'identifier', 'children': [], 'value': 'open'}; {'id': '133', 'type': 'argument_list', 'children': ['134', '145']}; {'id': '134', 'type': 'subscript', 'children': ['135', '136']}; {'id': '135', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '136', 'type': 'call', 'children': ['137', '140']}; {'id': '137', 'type': 'attribute', 'children': ['138', '139']}; {'id': '138', 'type': 'string', 'children': [], 'value': "''"}; {'id': '139', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '140', 'type': 'argument_list', 'children': ['141']}; {'id': '141', 'type': 'list', 'children': ['142', '143', '144'], 'value': "['radia_filtered_', chrom, '.vcf']"}; {'id': '142', 'type': 'string', 'children': [], 'value': "'radia_filtered_'"}; {'id': '143', 'type': 'identifier', 'children': [], 'value': 'chrom'}; {'id': '144', 'type': 'string', 'children': [], 'value': "'.vcf'"}; {'id': '145', 'type': 'string', 'children': [], 'value': "'r'"}; {'id': '146', 'type': 'as_pattern_target', 'children': ['147']}; {'id': '147', 'type': 'identifier', 'children': [], 'value': 'filtradfile'}; {'id': '148', 'type': 'block', 'children': ['149']}; {'id': '149', 'type': 'for_statement', 'children': ['150', '151', '152']}; {'id': '150', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '151', 'type': 'identifier', 'children': [], 'value': 'filtradfile'}; {'id': '152', 'type': 'block', 'children': ['153', '161', '186', '187', '198', '207']}; {'id': '153', 'type': 'expression_statement', 'children': ['154']}; {'id': '154', 'type': 'assignment', 'children': ['155', '156']}; {'id': '155', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '156', 'type': 'call', 'children': ['157', '160']}; {'id': '157', 'type': 'attribute', 'children': ['158', '159']}; {'id': '158', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '159', 'type': 'identifier', 'children': [], 'value': 'strip'}; {'id': '160', 'type': 'argument_list', 'children': []}; {'id': '161', 'type': 'if_statement', 'children': ['162', '165', '169']}; {'id': '162', 'type': 'attribute', 'children': ['163', '164']}; {'id': '163', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '164', 'type': 'identifier', 'children': [], 'value': 'startswith'}; {'id': '165', 'type': 'ERROR', 'children': ['166', '167']}; {'id': '166', 'type': 'string', 'children': [], 'value': "'\n if chrom == '"}; {'id': '167', 'type': 'ERROR', 'children': ['168']}; {'id': '168', 'type': 'identifier', 'children': [], 'value': 'chr1'}; {'id': '169', 'type': 'block', 'children': ['170', '178']}; {'id': '170', 'type': 'expression_statement', 'children': ['171']}; {'id': '171', 'type': 'call', 'children': ['172', '173']}; {'id': '172', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '173', 'type': 'argument_list', 'children': ['174', '175']}; {'id': '174', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '175', 'type': 'keyword_argument', 'children': ['176', '177']}; {'id': '176', 'type': 'identifier', 'children': [], 'value': 'file'}; {'id': '177', 'type': 'identifier', 'children': [], 'value': 'radfile'}; {'id': '178', 'type': 'expression_statement', 'children': ['179']}; {'id': '179', 'type': 'call', 'children': ['180', '181']}; {'id': '180', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '181', 'type': 'argument_list', 'children': ['182', '183']}; {'id': '182', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '183', 'type': 'keyword_argument', 'children': ['184', '185']}; {'id': '184', 'type': 'identifier', 'children': [], 'value': 'file'}; {'id': '185', 'type': 'identifier', 'children': [], 'value': 'radpassfile'}; {'id': '186', 'type': 'continue_statement', 'children': []}; {'id': '187', 'type': 'expression_statement', 'children': ['188']}; {'id': '188', 'type': 'assignment', 'children': ['189', '190']}; {'id': '189', 'type': 'identifier', 'children': [], 'value': 'else'}; {'id': '190', 'type': 'type', 'children': ['191']}; {'id': '191', 'type': 'call', 'children': ['192', '193']}; {'id': '192', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '193', 'type': 'argument_list', 'children': ['194', '195']}; {'id': '194', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '195', 'type': 'keyword_argument', 'children': ['196', '197']}; {'id': '196', 'type': 'identifier', 'children': [], 'value': 'file'}; {'id': '197', 'type': 'identifier', 'children': [], 'value': 'radfile'}; {'id': '198', 'type': 'expression_statement', 'children': ['199']}; {'id': '199', 'type': 'assignment', 'children': ['200', '201']}; {'id': '200', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '201', 'type': 'call', 'children': ['202', '205']}; {'id': '202', 'type': 'attribute', 'children': ['203', '204']}; {'id': '203', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '204', 'type': 'identifier', 'children': [], 'value': 'split'}; {'id': '205', 'type': 'argument_list', 'children': ['206']}; {'id': '206', 'type': 'string', 'children': [], 'value': "'\\t'"}; {'id': '207', 'type': 'if_statement', 'children': ['208', '219']}; {'id': '208', 'type': 'boolean_operator', 'children': ['209', '214'], 'value': 'and'}; {'id': '209', 'type': 'comparison_operator', 'children': ['210', '213'], 'value': '=='}; {'id': '210', 'type': 'subscript', 'children': ['211', '212']}; {'id': '211', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '212', 'type': 'integer', 'children': [], 'value': '6'}; {'id': '213', 'type': 'string', 'children': [], 'value': "'PASS'"}; {'id': '214', 'type': 'comparison_operator', 'children': ['215', '216'], 'value': 'not'}; {'id': '215', 'type': 'string', 'children': [], 'value': "'MT=GERM'"}; {'id': '216', 'type': 'subscript', 'children': ['217', '218']}; {'id': '217', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '218', 'type': 'integer', 'children': [], 'value': '7'}; {'id': '219', 'type': 'block', 'children': ['220']}; {'id': '220', 'type': 'expression_statement', 'children': ['221']}; {'id': '221', 'type': 'call', 'children': ['222', '223']}; {'id': '222', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '223', 'type': 'argument_list', 'children': ['224', '230']}; {'id': '224', 'type': 'call', 'children': ['225', '228']}; {'id': '225', 'type': 'attribute', 'children': ['226', '227']}; {'id': '226', 'type': 'string', 'children': [], 'value': "'\\t'"}; {'id': '227', 'type': 'identifier', 'children': [], 'value': 'join'}; 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{'id': '243', 'type': 'string', 'children': [], 'value': "'r'"}; {'id': '244', 'type': 'as_pattern_target', 'children': ['245']}; {'id': '245', 'type': 'identifier', 'children': [], 'value': 'radpassfile'}; {'id': '246', 'type': 'line_continuation', 'children': [], 'value': '\\'}; {'id': '247', 'type': 'with_item', 'children': ['248']}; {'id': '248', 'type': 'as_pattern', 'children': ['249', '261']}; {'id': '249', 'type': 'call', 'children': ['250', '251']}; {'id': '250', 'type': 'identifier', 'children': [], 'value': 'open'}; {'id': '251', 'type': 'argument_list', 'children': ['252', '260']}; {'id': '252', 'type': 'call', 'children': ['253', '256']}; {'id': '253', 'type': 'attribute', 'children': ['254', '255']}; {'id': '254', 'type': 'string', 'children': [], 'value': "'/'"}; {'id': '255', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '256', 'type': 'argument_list', 'children': ['257']}; {'id': '257', 'type': 'list', 'children': ['258', '259'], 'value': "[work_dir, 'radia_parsed_filter_passing_calls.vcf']"}; {'id': '258', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '259', 'type': 'string', 'children': [], 'value': "'radia_parsed_filter_passing_calls.vcf'"}; {'id': '260', 'type': 'string', 'children': [], 'value': "'w'"}; {'id': '261', 'type': 'as_pattern_target', 'children': ['262']}; {'id': '262', 'type': 'identifier', 'children': [], 'value': 'parsedradfile'}; {'id': '263', 'type': 'block', 'children': ['264']}; {'id': '264', 'type': 'expression_statement', 'children': ['265']}; {'id': '265', 'type': 'call', 'children': ['266', '267']}; {'id': '266', 'type': 'identifier', 'children': [], 'value': 'parse_radia_multi_alt'}; {'id': '267', 'type': 'argument_list', 'children': ['268', '269']}; {'id': '268', 'type': 'identifier', 'children': [], 'value': 'radpassfile'}; {'id': '269', 'type': 'identifier', 'children': [], 'value': 'parsedradfile'}; {'id': '270', 'type': 'expression_statement', 'children': ['271']}; {'id': '271', 'type': 'assignment', 'children': ['272', '273']}; {'id': '272', 'type': 'identifier', 'children': [], 'value': 'output_files'}; {'id': '273', 'type': 'call', 'children': ['274', '275']}; {'id': '274', 'type': 'identifier', 'children': [], 'value': 'defaultdict'}; {'id': '275', 'type': 'argument_list', 'children': []}; {'id': '276', 'type': 'for_statement', 'children': ['277', '278', '285']}; {'id': '277', 'type': 'identifier', 'children': [], 'value': 'radia_file'}; {'id': '278', 'type': 'list', 'children': ['279', '282'], 'value': '[radfile.name, parsedradfile.name]'}; {'id': '279', 'type': 'attribute', 'children': ['280', '281']}; {'id': '280', 'type': 'identifier', 'children': [], 'value': 'radfile'}; {'id': '281', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '282', 'type': 'attribute', 'children': ['283', '284']}; {'id': '283', 'type': 'identifier', 'children': [], 'value': 'parsedradfile'}; {'id': '284', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '285', 'type': 'block', 'children': ['286']}; {'id': '286', 'type': 'expression_statement', 'children': ['287']}; {'id': '287', 'type': 'assignment', 'children': ['288', '298']}; {'id': '288', 'type': 'subscript', 'children': ['289', '290']}; {'id': '289', 'type': 'identifier', 'children': [], 'value': 'output_files'}; {'id': '290', 'type': 'call', 'children': ['291', '296']}; {'id': '291', 'type': 'attribute', 'children': ['292', '295']}; {'id': '292', 'type': 'attribute', 'children': ['293', '294']}; {'id': '293', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '294', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '295', 'type': 'identifier', 'children': [], 'value': 'basename'}; {'id': '296', 'type': 'argument_list', 'children': ['297']}; {'id': '297', 'type': 'identifier', 'children': [], 'value': 'radia_file'}; {'id': '298', 'type': 'call', 'children': ['299', '304']}; {'id': '299', 'type': 'attribute', 'children': ['300', '303']}; {'id': '300', 'type': 'attribute', 'children': ['301', '302']}; {'id': '301', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '302', 'type': 'identifier', 'children': [], 'value': 'fileStore'}; {'id': '303', 'type': 'identifier', 'children': [], 'value': 'writeGlobalFile'}; {'id': '304', 'type': 'argument_list', 'children': ['305']}; {'id': '305', 'type': 'identifier', 'children': [], 'value': 'radia_file'}; {'id': '306', 'type': 'return_statement', 'children': ['307']}; {'id': '307', 'type': 'identifier', 'children': [], 'value': 'output_files'} | def merge_radia(job, perchrom_rvs):
job.fileStore.logToMaster('Running merge_radia')
work_dir = job.fileStore.getLocalTempDir()
input_files = {filename: jsid for perchrom_files in perchrom_rvs.values()
for filename, jsid in perchrom_files.items()}
input_files = get_files_from_filestore(job, input_files, work_dir,
docker=False)
chromosomes = [''.join(['chr', str(x)]) for x in range(1, 23) + ['X', 'Y']]
with open('/'.join([work_dir, 'radia_calls.vcf']), 'w') as radfile, \
open('/'.join([work_dir, 'radia_filter_passing_calls.vcf']), 'w') as radpassfile:
for chrom in chromosomes:
with open(input_files[''.join(['radia_filtered_', chrom, '.vcf'])], 'r') as filtradfile:
for line in filtradfile:
line = line.strip()
if line.startswith('
if chrom == 'chr1':
print(line, file=radfile)
print(line, file=radpassfile)
continue
else:
print(line, file=radfile)
line = line.split('\t')
if line[6] == 'PASS' and 'MT=GERM' not in line[7]:
print('\t'.join(line), file=radpassfile)
with open(radpassfile.name, 'r') as radpassfile, \
open('/'.join([work_dir, 'radia_parsed_filter_passing_calls.vcf']),
'w') as parsedradfile:
parse_radia_multi_alt(radpassfile, parsedradfile)
output_files = defaultdict()
for radia_file in [radfile.name, parsedradfile.name]:
output_files[os.path.basename(radia_file)] = job.fileStore.writeGlobalFile(radia_file)
return output_files |
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{'id': '61', 'type': 'expression_statement', 'children': ['62']}; {'id': '62', 'type': 'assignment', 'children': ['63', '64']}; {'id': '63', 'type': 'identifier', 'children': [], 'value': 'chromosomes'}; {'id': '64', 'type': 'list_comprehension', 'children': ['65', '76']}; {'id': '65', 'type': 'call', 'children': ['66', '69']}; {'id': '66', 'type': 'attribute', 'children': ['67', '68']}; {'id': '67', 'type': 'string', 'children': [], 'value': "''"}; {'id': '68', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '69', 'type': 'argument_list', 'children': ['70']}; {'id': '70', 'type': 'list', 'children': ['71', '72'], 'value': "['chr', str(x)]"}; {'id': '71', 'type': 'string', 'children': [], 'value': "'chr'"}; {'id': '72', 'type': 'call', 'children': ['73', '74']}; {'id': '73', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '74', 'type': 'argument_list', 'children': ['75']}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '76', 'type': 'for_in_clause', 'children': ['77', '78']}; {'id': '77', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '78', 'type': 'binary_operator', 'children': ['79', '84'], 'value': '+'}; {'id': '79', 'type': 'call', 'children': ['80', '81']}; {'id': '80', 'type': 'identifier', 'children': [], 'value': 'range'}; {'id': '81', 'type': 'argument_list', 'children': ['82', '83']}; {'id': '82', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '83', 'type': 'integer', 'children': [], 'value': '23'}; {'id': '84', 'type': 'list', 'children': ['85', '86'], 'value': "['X', 'Y']"}; {'id': '85', 'type': 'string', 'children': [], 'value': "'X'"}; {'id': '86', 'type': 'string', 'children': [], 'value': "'Y'"}; {'id': '87', 'type': 'with_statement', 'children': ['88', '139']}; {'id': '88', 'type': 'with_clause', 'children': ['89', '105', '106', '122', '123']}; {'id': '89', 'type': 'with_item', 'children': ['90']}; {'id': '90', 'type': 'as_pattern', 'children': ['91', '103']}; {'id': '91', 'type': 'call', 'children': ['92', '93']}; {'id': '92', 'type': 'identifier', 'children': [], 'value': 'open'}; {'id': '93', 'type': 'argument_list', 'children': ['94', '102']}; {'id': '94', 'type': 'call', 'children': ['95', '98']}; {'id': '95', 'type': 'attribute', 'children': ['96', '97']}; {'id': '96', 'type': 'string', 'children': [], 'value': "'/'"}; {'id': '97', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '98', 'type': 'argument_list', 'children': ['99']}; {'id': '99', 'type': 'list', 'children': ['100', '101'], 'value': "[work_dir, 'mutect_calls.vcf']"}; {'id': '100', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '101', 'type': 'string', 'children': [], 'value': "'mutect_calls.vcf'"}; {'id': '102', 'type': 'string', 'children': [], 'value': "'w'"}; {'id': '103', 'type': 'as_pattern_target', 'children': ['104']}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'mutvcf'}; {'id': '105', 'type': 'line_continuation', 'children': [], 'value': '\\'}; {'id': '106', 'type': 'with_item', 'children': ['107']}; {'id': '107', 'type': 'as_pattern', 'children': ['108', '120']}; {'id': '108', 'type': 'call', 'children': ['109', '110']}; {'id': '109', 'type': 'identifier', 'children': [], 'value': 'open'}; {'id': '110', 'type': 'argument_list', 'children': ['111', '119']}; {'id': '111', 'type': 'call', 'children': ['112', '115']}; {'id': '112', 'type': 'attribute', 'children': ['113', '114']}; {'id': '113', 'type': 'string', 'children': [], 'value': "'/'"}; {'id': '114', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '115', 'type': 'argument_list', 'children': ['116']}; {'id': '116', 'type': 'list', 'children': ['117', '118'], 'value': "[work_dir, 'mutect_calls.out']"}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '118', 'type': 'string', 'children': [], 'value': "'mutect_calls.out'"}; {'id': '119', 'type': 'string', 'children': [], 'value': "'w'"}; {'id': '120', 'type': 'as_pattern_target', 'children': ['121']}; {'id': '121', 'type': 'identifier', 'children': [], 'value': 'mutout'}; {'id': '122', 'type': 'line_continuation', 'children': [], 'value': '\\'}; {'id': '123', 'type': 'with_item', 'children': ['124']}; {'id': '124', 'type': 'as_pattern', 'children': ['125', '137']}; {'id': '125', 'type': 'call', 'children': ['126', '127']}; {'id': '126', 'type': 'identifier', 'children': [], 'value': 'open'}; {'id': '127', 'type': 'argument_list', 'children': ['128', '136']}; {'id': '128', 'type': 'call', 'children': ['129', '132']}; {'id': '129', 'type': 'attribute', 'children': ['130', '131']}; {'id': '130', 'type': 'string', 'children': [], 'value': "'/'"}; {'id': '131', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '132', 'type': 'argument_list', 'children': ['133']}; {'id': '133', 'type': 'list', 'children': ['134', '135'], 'value': "[work_dir, 'mutect_passing_calls.vcf']"}; {'id': '134', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '135', 'type': 'string', 'children': [], 'value': "'mutect_passing_calls.vcf'"}; {'id': '136', 'type': 'string', 'children': [], 'value': "'w'"}; {'id': '137', 'type': 'as_pattern_target', 'children': ['138']}; {'id': '138', 'type': 'identifier', 'children': [], 'value': 'mutpassvcf'}; {'id': '139', 'type': 'block', 'children': ['140', '144']}; {'id': '140', 'type': 'expression_statement', 'children': ['141']}; {'id': '141', 'type': 'assignment', 'children': ['142', '143']}; {'id': '142', 'type': 'identifier', 'children': [], 'value': 'out_header_not_printed'}; {'id': '143', 'type': 'True', 'children': []}; {'id': '144', 'type': 'for_statement', 'children': ['145', '146', '147']}; {'id': '145', 'type': 'identifier', 'children': [], 'value': 'chrom'}; {'id': '146', 'type': 'identifier', 'children': [], 'value': 'chromosomes'}; {'id': '147', 'type': 'block', 'children': ['148', '248']}; {'id': '148', 'type': 'with_statement', 'children': ['149', '169']}; {'id': '149', 'type': 'with_clause', 'children': ['150']}; {'id': '150', 'type': 'with_item', 'children': ['151']}; {'id': '151', 'type': 'as_pattern', 'children': ['152', '167']}; {'id': '152', 'type': 'call', 'children': ['153', '154']}; {'id': '153', 'type': 'identifier', 'children': [], 'value': 'open'}; {'id': '154', 'type': 'argument_list', 'children': ['155', '166']}; {'id': '155', 'type': 'subscript', 'children': ['156', '157']}; {'id': '156', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '157', 'type': 'call', 'children': ['158', '161']}; {'id': '158', 'type': 'attribute', 'children': ['159', '160']}; {'id': '159', 'type': 'string', 'children': [], 'value': "''"}; {'id': '160', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '161', 'type': 'argument_list', 'children': ['162']}; {'id': '162', 'type': 'list', 'children': ['163', '164', '165'], 'value': "['mutect_', chrom, '.vcf']"}; {'id': '163', 'type': 'string', 'children': [], 'value': "'mutect_'"}; {'id': '164', 'type': 'identifier', 'children': [], 'value': 'chrom'}; {'id': '165', 'type': 'string', 'children': [], 'value': "'.vcf'"}; {'id': '166', 'type': 'string', 'children': [], 'value': "'r'"}; {'id': '167', 'type': 'as_pattern_target', 'children': ['168']}; {'id': '168', 'type': 'identifier', 'children': [], 'value': 'mutfile'}; {'id': '169', 'type': 'block', 'children': ['170']}; {'id': '170', 'type': 'for_statement', 'children': ['171', '172', '173']}; {'id': '171', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '172', 'type': 'identifier', 'children': [], 'value': 'mutfile'}; {'id': '173', 'type': 'block', 'children': ['174', '182', '207', '208', '219', '228']}; {'id': '174', 'type': 'expression_statement', 'children': ['175']}; {'id': '175', 'type': 'assignment', 'children': ['176', '177']}; {'id': '176', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '177', 'type': 'call', 'children': ['178', '181']}; {'id': '178', 'type': 'attribute', 'children': ['179', '180']}; {'id': '179', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '180', 'type': 'identifier', 'children': [], 'value': 'strip'}; {'id': '181', 'type': 'argument_list', 'children': []}; {'id': '182', 'type': 'if_statement', 'children': ['183', '186', '190']}; {'id': '183', 'type': 'attribute', 'children': ['184', '185']}; {'id': '184', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '185', 'type': 'identifier', 'children': [], 'value': 'startswith'}; {'id': '186', 'type': 'ERROR', 'children': ['187', '188']}; {'id': '187', 'type': 'string', 'children': [], 'value': "'\n if chrom == '"}; {'id': '188', 'type': 'ERROR', 'children': ['189']}; {'id': '189', 'type': 'identifier', 'children': [], 'value': 'chr1'}; {'id': '190', 'type': 'block', 'children': ['191', '199']}; {'id': '191', 'type': 'expression_statement', 'children': ['192']}; {'id': '192', 'type': 'call', 'children': ['193', '194']}; {'id': '193', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '194', 'type': 'argument_list', 'children': ['195', '196']}; {'id': '195', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '196', 'type': 'keyword_argument', 'children': ['197', '198']}; {'id': '197', 'type': 'identifier', 'children': [], 'value': 'file'}; {'id': '198', 'type': 'identifier', 'children': [], 'value': 'mutvcf'}; {'id': '199', 'type': 'expression_statement', 'children': ['200']}; {'id': '200', 'type': 'call', 'children': ['201', '202']}; {'id': '201', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '202', 'type': 'argument_list', 'children': ['203', '204']}; {'id': '203', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '204', 'type': 'keyword_argument', 'children': ['205', '206']}; {'id': '205', 'type': 'identifier', 'children': [], 'value': 'file'}; {'id': '206', 'type': 'identifier', 'children': [], 'value': 'mutpassvcf'}; {'id': '207', 'type': 'continue_statement', 'children': []}; {'id': '208', 'type': 'expression_statement', 'children': ['209']}; {'id': '209', 'type': 'assignment', 'children': ['210', '211']}; {'id': '210', 'type': 'identifier', 'children': [], 'value': 'else'}; {'id': '211', 'type': 'type', 'children': ['212']}; {'id': '212', 'type': 'call', 'children': ['213', '214']}; {'id': '213', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '214', 'type': 'argument_list', 'children': ['215', '216']}; {'id': '215', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '216', 'type': 'keyword_argument', 'children': ['217', '218']}; {'id': '217', 'type': 'identifier', 'children': [], 'value': 'file'}; {'id': '218', 'type': 'identifier', 'children': [], 'value': 'mutvcf'}; {'id': '219', 'type': 'expression_statement', 'children': ['220']}; {'id': '220', 'type': 'assignment', 'children': ['221', '222']}; {'id': '221', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '222', 'type': 'call', 'children': ['223', '226']}; {'id': '223', 'type': 'attribute', 'children': ['224', '225']}; {'id': '224', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '225', 'type': 'identifier', 'children': [], 'value': 'split'}; {'id': '226', 'type': 'argument_list', 'children': ['227']}; {'id': '227', 'type': 'string', 'children': [], 'value': "'\\t'"}; {'id': '228', 'type': 'if_statement', 'children': ['229', '234']}; {'id': '229', 'type': 'comparison_operator', 'children': ['230', '233'], 'value': '!='}; {'id': '230', 'type': 'subscript', 'children': ['231', '232']}; {'id': '231', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '232', 'type': 'integer', 'children': [], 'value': '6'}; {'id': '233', 'type': 'string', 'children': [], 'value': "'REJECT'"}; {'id': '234', 'type': 'block', 'children': ['235']}; {'id': '235', 'type': 'expression_statement', 'children': ['236']}; {'id': '236', 'type': 'call', 'children': ['237', '238']}; {'id': '237', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '238', 'type': 'argument_list', 'children': ['239', '245']}; {'id': '239', 'type': 'call', 'children': ['240', '243']}; {'id': '240', 'type': 'attribute', 'children': ['241', '242']}; {'id': '241', 'type': 'string', 'children': [], 'value': "'\\t'"}; {'id': '242', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '243', 'type': 'argument_list', 'children': ['244']}; {'id': '244', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '245', 'type': 'keyword_argument', 'children': ['246', '247']}; {'id': '246', 'type': 'identifier', 'children': [], 'value': 'file'}; {'id': '247', 'type': 'identifier', 'children': [], 'value': 'mutpassvcf'}; {'id': '248', 'type': 'with_statement', 'children': ['249', '269']}; {'id': '249', 'type': 'with_clause', 'children': ['250']}; {'id': '250', 'type': 'with_item', 'children': ['251']}; {'id': '251', 'type': 'as_pattern', 'children': ['252', '267']}; {'id': '252', 'type': 'call', 'children': ['253', '254']}; {'id': '253', 'type': 'identifier', 'children': [], 'value': 'open'}; {'id': '254', 'type': 'argument_list', 'children': ['255', '266']}; {'id': '255', 'type': 'subscript', 'children': ['256', '257']}; {'id': '256', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '257', 'type': 'call', 'children': ['258', '261']}; {'id': '258', 'type': 'attribute', 'children': ['259', '260']}; {'id': '259', 'type': 'string', 'children': [], 'value': "''"}; {'id': '260', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '261', 'type': 'argument_list', 'children': ['262']}; {'id': '262', 'type': 'list', 'children': ['263', '264', '265'], 'value': "['mutect_', chrom,\n '.out']"}; {'id': '263', 'type': 'string', 'children': [], 'value': "'mutect_'"}; {'id': '264', 'type': 'identifier', 'children': [], 'value': 'chrom'}; {'id': '265', 'type': 'string', 'children': [], 'value': "'.out'"}; {'id': '266', 'type': 'string', 'children': [], 'value': "'r'"}; {'id': '267', 'type': 'as_pattern_target', 'children': ['268']}; {'id': '268', 'type': 'identifier', 'children': [], 'value': 'mutfile'}; {'id': '269', 'type': 'block', 'children': ['270']}; {'id': '270', 'type': 'for_statement', 'children': ['271', '272', '273']}; {'id': '271', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '272', 'type': 'identifier', 'children': [], 'value': 'mutfile'}; {'id': '273', 'type': 'block', 'children': ['274', '282', '299', '300', '302', '313', '317']}; {'id': '274', 'type': 'expression_statement', 'children': ['275']}; {'id': '275', 'type': 'assignment', 'children': ['276', '277']}; {'id': '276', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '277', 'type': 'call', 'children': ['278', '281']}; {'id': '278', 'type': 'attribute', 'children': ['279', '280']}; {'id': '279', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '280', 'type': 'identifier', 'children': [], 'value': 'strip'}; {'id': '281', 'type': 'argument_list', 'children': []}; {'id': '282', 'type': 'if_statement', 'children': ['283', '286', '290']}; {'id': '283', 'type': 'attribute', 'children': ['284', '285']}; {'id': '284', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '285', 'type': 'identifier', 'children': [], 'value': 'startswith'}; {'id': '286', 'type': 'ERROR', 'children': ['287', '288']}; {'id': '287', 'type': 'string', 'children': [], 'value': "'\n if chrom == '"}; {'id': '288', 'type': 'ERROR', 'children': ['289']}; {'id': '289', 'type': 'identifier', 'children': [], 'value': 'chr1'}; {'id': '290', 'type': 'block', 'children': ['291']}; {'id': '291', 'type': 'expression_statement', 'children': ['292']}; {'id': '292', 'type': 'call', 'children': ['293', '294']}; {'id': '293', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '294', 'type': 'argument_list', 'children': ['295', '296']}; {'id': '295', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '296', 'type': 'keyword_argument', 'children': ['297', '298']}; {'id': '297', 'type': 'identifier', 'children': [], 'value': 'file'}; {'id': '298', 'type': 'identifier', 'children': [], 'value': 'mutout'}; {'id': '299', 'type': 'continue_statement', 'children': []}; {'id': '300', 'type': 'ERROR', 'children': ['301']}; {'id': '301', 'type': 'identifier', 'children': [], 'value': 'elif'}; {'id': '302', 'type': 'expression_statement', 'children': ['303']}; {'id': '303', 'type': 'assignment', 'children': ['304', '305']}; {'id': '304', 'type': 'identifier', 'children': [], 'value': 'out_header_not_printed'}; {'id': '305', 'type': 'type', 'children': ['306']}; {'id': '306', 'type': 'call', 'children': ['307', '308']}; {'id': '307', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '308', 'type': 'argument_list', 'children': ['309', '310']}; {'id': '309', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '310', 'type': 'keyword_argument', 'children': ['311', '312']}; {'id': '311', 'type': 'identifier', 'children': [], 'value': 'file'}; {'id': '312', 'type': 'identifier', 'children': [], 'value': 'mutout'}; {'id': '313', 'type': 'expression_statement', 'children': ['314']}; {'id': '314', 'type': 'assignment', 'children': ['315', '316']}; {'id': '315', 'type': 'identifier', 'children': [], 'value': 'out_header_not_printed'}; {'id': '316', 'type': 'False', 'children': []}; {'id': '317', 'type': 'expression_statement', 'children': ['318']}; {'id': '318', 'type': 'assignment', 'children': ['319', '320']}; {'id': '319', 'type': 'identifier', 'children': [], 'value': 'else'}; {'id': '320', 'type': 'type', 'children': ['321']}; {'id': '321', 'type': 'call', 'children': ['322', '323']}; {'id': '322', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '323', 'type': 'argument_list', 'children': ['324', '325']}; {'id': '324', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '325', 'type': 'keyword_argument', 'children': ['326', '327']}; {'id': '326', 'type': 'identifier', 'children': [], 'value': 'file'}; {'id': '327', 'type': 'identifier', 'children': [], 'value': 'mutout'}; {'id': '328', 'type': 'expression_statement', 'children': ['329']}; {'id': '329', 'type': 'assignment', 'children': ['330', '331']}; {'id': '330', 'type': 'identifier', 'children': [], 'value': 'output_file'}; {'id': '331', 'type': 'call', 'children': ['332', '337']}; {'id': '332', 'type': 'attribute', 'children': ['333', '336']}; {'id': '333', 'type': 'attribute', 'children': ['334', '335']}; {'id': '334', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '335', 'type': 'identifier', 'children': [], 'value': 'fileStore'}; {'id': '336', 'type': 'identifier', 'children': [], 'value': 'writeGlobalFile'}; {'id': '337', 'type': 'argument_list', 'children': ['338']}; {'id': '338', 'type': 'attribute', 'children': ['339', '340']}; {'id': '339', 'type': 'identifier', 'children': [], 'value': 'mutpassvcf'}; {'id': '340', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '341', 'type': 'return_statement', 'children': ['342']}; {'id': '342', 'type': 'identifier', 'children': [], 'value': 'output_file'} | def merge_mutect(job, perchrom_rvs):
job.fileStore.logToMaster('Running merge_mutect')
work_dir = job.fileStore.getLocalTempDir()
input_files = {filename: jsid for perchrom_files in perchrom_rvs.values()
for filename, jsid in perchrom_files.items()}
input_files = get_files_from_filestore(job, input_files, work_dir, docker=False)
chromosomes = [''.join(['chr', str(x)]) for x in range(1, 23) + ['X', 'Y']]
with open('/'.join([work_dir, 'mutect_calls.vcf']), 'w') as mutvcf, \
open('/'.join([work_dir, 'mutect_calls.out']), 'w') as mutout, \
open('/'.join([work_dir, 'mutect_passing_calls.vcf']), 'w') as mutpassvcf:
out_header_not_printed = True
for chrom in chromosomes:
with open(input_files[''.join(['mutect_', chrom, '.vcf'])], 'r') as mutfile:
for line in mutfile:
line = line.strip()
if line.startswith('
if chrom == 'chr1':
print(line, file=mutvcf)
print(line, file=mutpassvcf)
continue
else:
print(line, file=mutvcf)
line = line.split('\t')
if line[6] != 'REJECT':
print('\t'.join(line), file=mutpassvcf)
with open(input_files[''.join(['mutect_', chrom,
'.out'])], 'r') as mutfile:
for line in mutfile:
line = line.strip()
if line.startswith('
if chrom == 'chr1':
print(line, file=mutout)
continue
elif out_header_not_printed:
print(line, file=mutout)
out_header_not_printed = False
else:
print(line, file=mutout)
output_file = job.fileStore.writeGlobalFile(mutpassvcf.name)
return output_file |
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{'id': '228', 'type': 'attribute', 'children': ['229', '232']}; {'id': '229', 'type': 'attribute', 'children': ['230', '231']}; {'id': '230', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '231', 'type': 'identifier', 'children': [], 'value': 'fileStore'}; {'id': '232', 'type': 'identifier', 'children': [], 'value': 'writeGlobalFile'}; {'id': '233', 'type': 'argument_list', 'children': ['234']}; {'id': '234', 'type': 'attribute', 'children': ['235', '236']}; {'id': '235', 'type': 'identifier', 'children': [], 'value': 'merged_mut_file'}; {'id': '236', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '237', 'type': 'return_statement', 'children': ['238']}; {'id': '238', 'type': 'identifier', 'children': [], 'value': 'output_file'} | def run_mutation_aggregator(job, fusion_output, radia_output, mutect_output, indel_output,
univ_options):
job.fileStore.logToMaster('Aggregating mutations for %s' % univ_options['patient'])
work_dir = job.fileStore.getLocalTempDir()
input_files = {
'mutect.vcf': mutect_output,
'radia.vcf': radia_output['radia_parsed_filter_passing_calls.vcf'],
'indel.vcf': indel_output,
'fusion.vcf': fusion_output}
input_files = get_files_from_filestore(job, input_files, work_dir, docker=False)
input_files.pop('indel.vcf')
input_files.pop('fusion.vcf')
vcf_file = defaultdict()
mutcallers = input_files.keys()
with open(''.join([work_dir, '/', univ_options['patient'], '_merged_mutations.vcf']),
'w') as merged_mut_file:
for mut_caller in mutcallers:
caller = mut_caller.rstrip('.vcf')
vcf_file[caller] = defaultdict()
with open(input_files[mut_caller], 'r') as mutfile:
for line in mutfile:
if line.startswith('
if caller == 'radia':
print(line.strip(), file=merged_mut_file)
continue
line = line.strip().split()
vcf_file[caller][(line[0], line[1], line[3], line[4])] = line
merge_vcfs(vcf_file, merged_mut_file.name)
export_results(merged_mut_file.name, univ_options)
output_file = job.fileStore.writeGlobalFile(merged_mut_file.name)
return output_file |
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{'id': '45', 'type': 'identifier', 'children': [], 'value': 'get_files_from_filestore'}; {'id': '46', 'type': 'argument_list', 'children': ['47', '48', '49']}; {'id': '47', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '50', 'type': 'with_statement', 'children': ['51', '87']}; {'id': '51', 'type': 'with_clause', 'children': ['52', '63', '64', '75', '76']}; {'id': '52', 'type': 'with_item', 'children': ['53']}; {'id': '53', 'type': 'as_pattern', 'children': ['54', '61']}; {'id': '54', 'type': 'call', 'children': ['55', '56']}; {'id': '55', 'type': 'identifier', 'children': [], 'value': 'open'}; {'id': '56', 'type': 'argument_list', 'children': ['57', '60']}; {'id': '57', 'type': 'subscript', 'children': ['58', '59']}; {'id': '58', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '59', 'type': 'string', 'children': [], 'value': "'tumor_dna'"}; {'id': '60', 'type': 'string', 'children': [], 'value': "'r'"}; {'id': '61', 'type': 'as_pattern_target', 'children': ['62']}; {'id': '62', 'type': 'identifier', 'children': [], 'value': 'td_file'}; {'id': '63', 'type': 'line_continuation', 'children': [], 'value': '\\'}; {'id': '64', 'type': 'with_item', 'children': ['65']}; {'id': '65', 'type': 'as_pattern', 'children': ['66', '73']}; {'id': '66', 'type': 'call', 'children': ['67', '68']}; {'id': '67', 'type': 'identifier', 'children': [], 'value': 'open'}; {'id': '68', 'type': 'argument_list', 'children': ['69', '72']}; {'id': '69', 'type': 'subscript', 'children': ['70', '71']}; {'id': '70', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '71', 'type': 'string', 'children': [], 'value': "'normal_dna'"}; {'id': '72', 'type': 'string', 'children': [], 'value': "'r'"}; {'id': '73', 'type': 'as_pattern_target', 'children': ['74']}; {'id': '74', 'type': 'identifier', 'children': [], 'value': 'nd_file'}; {'id': '75', 'type': 'line_continuation', 'children': [], 'value': '\\'}; {'id': '76', 'type': 'with_item', 'children': ['77']}; {'id': '77', 'type': 'as_pattern', 'children': ['78', '85']}; {'id': '78', 'type': 'call', 'children': ['79', '80']}; {'id': '79', 'type': 'identifier', 'children': [], 'value': 'open'}; {'id': '80', 'type': 'argument_list', 'children': ['81', '84']}; {'id': '81', 'type': 'subscript', 'children': ['82', '83']}; {'id': '82', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '83', 'type': 'string', 'children': [], 'value': "'tumor_rna'"}; {'id': '84', 'type': 'string', 'children': [], 'value': "'r'"}; {'id': '85', 'type': 'as_pattern_target', 'children': ['86']}; {'id': '86', 'type': 'identifier', 'children': [], 'value': 'tr_file'}; {'id': '87', 'type': 'block', 'children': ['88', '116']}; {'id': '88', 'type': 'expression_statement', 'children': ['89']}; {'id': '89', 'type': 'assignment', 'children': ['90', '91']}; {'id': '90', 'type': 'identifier', 'children': [], 'value': 'mhc_alleles'}; {'id': '91', 'type': 'dictionary', 'children': ['92', '95', '98', '101', '104', '107', '110', '113']}; {'id': '92', 'type': 'pair', 'children': ['93', '94']}; {'id': '93', 'type': 'string', 'children': [], 'value': "'HLA_A'"}; {'id': '94', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '95', 'type': 'pair', 'children': ['96', '97']}; {'id': '96', 'type': 'string', 'children': [], 'value': "'HLA_B'"}; {'id': '97', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '98', 'type': 'pair', 'children': ['99', '100']}; {'id': '99', 'type': 'string', 'children': [], 'value': "'HLA_C'"}; {'id': '100', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '101', 'type': 'pair', 'children': ['102', '103']}; {'id': '102', 'type': 'string', 'children': [], 'value': "'HLA_DPA'"}; {'id': '103', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '104', 'type': 'pair', 'children': ['105', '106']}; {'id': '105', 'type': 'string', 'children': [], 'value': "'HLA_DQA'"}; {'id': '106', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '107', 'type': 'pair', 'children': ['108', '109']}; {'id': '108', 'type': 'string', 'children': [], 'value': "'HLA_DPB'"}; {'id': '109', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '110', 'type': 'pair', 'children': ['111', '112']}; {'id': '111', 'type': 'string', 'children': [], 'value': "'HLA_DQB'"}; {'id': '112', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '113', 'type': 'pair', 'children': ['114', '115']}; {'id': '114', 'type': 'string', 'children': [], 'value': "'HLA_DRB'"}; {'id': '115', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '116', 'type': 'for_statement', 'children': ['117', '118', '122']}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'phlatfile'}; {'id': '118', 'type': 'expression_list', 'children': ['119', '120', '121']}; {'id': '119', 'type': 'identifier', 'children': [], 'value': 'td_file'}; {'id': '120', 'type': 'identifier', 'children': [], 'value': 'nd_file'}; {'id': '121', 'type': 'identifier', 'children': [], 'value': 'tr_file'}; {'id': '122', 'type': 'block', 'children': ['123']}; {'id': '123', 'type': 'expression_statement', 'children': ['124']}; {'id': '124', 'type': 'assignment', 'children': ['125', '126']}; {'id': '125', 'type': 'identifier', 'children': [], 'value': 'mhc_alleles'}; {'id': '126', 'type': 'call', 'children': ['127', '128']}; {'id': '127', 'type': 'identifier', 'children': [], 'value': 'parse_phlat_file'}; {'id': '128', 'type': 'argument_list', 'children': ['129', '130']}; {'id': '129', 'type': 'identifier', 'children': [], 'value': 'phlatfile'}; {'id': '130', 'type': 'identifier', 'children': [], 'value': 'mhc_alleles'}; {'id': '131', 'type': 'with_statement', 'children': ['132', '168']}; {'id': '132', 'type': 'with_clause', 'children': ['133', '150', '151']}; {'id': '133', 'type': 'with_item', 'children': ['134']}; {'id': '134', 'type': 'as_pattern', 'children': ['135', '148']}; {'id': '135', 'type': 'call', 'children': ['136', '137']}; {'id': '136', 'type': 'identifier', 'children': [], 'value': 'open'}; {'id': '137', 'type': 'argument_list', 'children': ['138', '147']}; {'id': '138', 'type': 'call', 'children': ['139', '144']}; {'id': '139', 'type': 'attribute', 'children': ['140', '143']}; {'id': '140', 'type': 'attribute', 'children': ['141', '142']}; {'id': '141', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '142', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '143', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '144', 'type': 'argument_list', 'children': ['145', '146']}; {'id': '145', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '146', 'type': 'string', 'children': [], 'value': "'mhci_alleles.list'"}; {'id': '147', 'type': 'string', 'children': [], 'value': "'w'"}; {'id': '148', 'type': 'as_pattern_target', 'children': ['149']}; {'id': '149', 'type': 'identifier', 'children': [], 'value': 'mhci_file'}; {'id': '150', 'type': 'line_continuation', 'children': [], 'value': '\\'}; {'id': '151', 'type': 'with_item', 'children': ['152']}; {'id': '152', 'type': 'as_pattern', 'children': ['153', '166']}; {'id': '153', 'type': 'call', 'children': ['154', '155']}; {'id': '154', 'type': 'identifier', 'children': [], 'value': 'open'}; {'id': '155', 'type': 'argument_list', 'children': ['156', '165']}; {'id': '156', 'type': 'call', 'children': ['157', '162']}; {'id': '157', 'type': 'attribute', 'children': ['158', '161']}; {'id': '158', 'type': 'attribute', 'children': ['159', '160']}; {'id': '159', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '160', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '161', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '162', 'type': 'argument_list', 'children': ['163', '164']}; {'id': '163', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '164', 'type': 'string', 'children': [], 'value': "'mhcii_alleles.list'"}; {'id': '165', 'type': 'string', 'children': [], 'value': "'w'"}; {'id': '166', 'type': 'as_pattern_target', 'children': ['167']}; {'id': '167', 'type': 'identifier', 'children': [], 'value': 'mhcii_file'}; {'id': '168', 'type': 'block', 'children': ['169', '209', '218', '242', '251', '260']}; {'id': '169', 'type': 'for_statement', 'children': ['170', '171', '175']}; {'id': '170', 'type': 'identifier', 'children': [], 'value': 'mhci_group'}; {'id': '171', 'type': 'list', 'children': ['172', '173', '174'], 'value': "['HLA_A', 'HLA_B', 'HLA_C']"}; {'id': '172', 'type': 'string', 'children': [], 'value': "'HLA_A'"}; {'id': '173', 'type': 'string', 'children': [], 'value': "'HLA_B'"}; {'id': '174', 'type': 'string', 'children': [], 'value': "'HLA_C'"}; {'id': '175', 'type': 'block', 'children': ['176', '185']}; {'id': '176', 'type': 'expression_statement', 'children': ['177']}; {'id': '177', 'type': 'assignment', 'children': ['178', '179']}; {'id': '178', 'type': 'identifier', 'children': [], 'value': 'mpa'}; {'id': '179', 'type': 'call', 'children': ['180', '181']}; {'id': '180', 'type': 'identifier', 'children': [], 'value': 'most_probable_alleles'}; {'id': '181', 'type': 'argument_list', 'children': ['182']}; {'id': '182', 'type': 'subscript', 'children': ['183', '184']}; {'id': '183', 'type': 'identifier', 'children': [], 'value': 'mhc_alleles'}; {'id': '184', 'type': 'identifier', 'children': [], 'value': 'mhci_group'}; {'id': '185', 'type': 'expression_statement', 'children': ['186']}; {'id': '186', 'type': 'call', 'children': ['187', '188']}; {'id': '187', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '188', 'type': 'argument_list', 'children': ['189', '206']}; {'id': '189', 'type': 'call', 'children': ['190', '193']}; {'id': '190', 'type': 'attribute', 'children': ['191', '192']}; {'id': '191', 'type': 'string', 'children': [], 'value': "'\\n'"}; {'id': '192', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '193', 'type': 'argument_list', 'children': ['194']}; {'id': '194', 'type': 'list_comprehension', 'children': ['195', '203']}; {'id': '195', 'type': 'call', 'children': ['196', '199']}; {'id': '196', 'type': 'attribute', 'children': ['197', '198']}; {'id': '197', 'type': 'string', 'children': [], 'value': "''"}; {'id': '198', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '199', 'type': 'argument_list', 'children': ['200']}; {'id': '200', 'type': 'list', 'children': ['201', '202'], 'value': "['HLA-', x]"}; {'id': '201', 'type': 'string', 'children': [], 'value': "'HLA-'"}; {'id': '202', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '203', 'type': 'for_in_clause', 'children': ['204', '205']}; {'id': '204', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '205', 'type': 'identifier', 'children': [], 'value': 'mpa'}; {'id': '206', 'type': 'keyword_argument', 'children': ['207', '208']}; {'id': '207', 'type': 'identifier', 'children': [], 'value': 'file'}; {'id': '208', 'type': 'identifier', 'children': [], 'value': 'mhci_file'}; {'id': '209', 'type': 'expression_statement', 'children': ['210']}; {'id': '210', 'type': 'assignment', 'children': ['211', '212']}; {'id': '211', 'type': 'identifier', 'children': [], 'value': 'drb_mpa'}; {'id': '212', 'type': 'call', 'children': ['213', '214']}; {'id': '213', 'type': 'identifier', 'children': [], 'value': 'most_probable_alleles'}; {'id': '214', 'type': 'argument_list', 'children': ['215']}; {'id': '215', 'type': 'subscript', 'children': ['216', '217']}; {'id': '216', 'type': 'identifier', 'children': [], 'value': 'mhc_alleles'}; {'id': '217', 'type': 'string', 'children': [], 'value': "'HLA_DRB'"}; {'id': '218', 'type': 'expression_statement', 'children': ['219']}; {'id': '219', 'type': 'call', 'children': ['220', '221']}; {'id': '220', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '221', 'type': 'argument_list', 'children': ['222', '239']}; {'id': '222', 'type': 'call', 'children': ['223', '226']}; {'id': '223', 'type': 'attribute', 'children': ['224', '225']}; {'id': '224', 'type': 'string', 'children': [], 'value': "'\\n'"}; {'id': '225', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '226', 'type': 'argument_list', 'children': ['227']}; {'id': '227', 'type': 'list_comprehension', 'children': ['228', '236']}; {'id': '228', 'type': 'call', 'children': ['229', '232']}; {'id': '229', 'type': 'attribute', 'children': ['230', '231']}; {'id': '230', 'type': 'string', 'children': [], 'value': "''"}; {'id': '231', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '232', 'type': 'argument_list', 'children': ['233']}; {'id': '233', 'type': 'list', 'children': ['234', '235'], 'value': "['HLA-', x]"}; {'id': '234', 'type': 'string', 'children': [], 'value': "'HLA-'"}; {'id': '235', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '236', 'type': 'for_in_clause', 'children': ['237', '238']}; {'id': '237', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '238', 'type': 'identifier', 'children': [], 'value': 'drb_mpa'}; {'id': '239', 'type': 'keyword_argument', 'children': ['240', '241']}; {'id': '240', 'type': 'identifier', 'children': [], 'value': 'file'}; {'id': '241', 'type': 'identifier', 'children': [], 'value': 'mhcii_file'}; {'id': '242', 'type': 'expression_statement', 'children': ['243']}; {'id': '243', 'type': 'assignment', 'children': ['244', '245']}; {'id': '244', 'type': 'identifier', 'children': [], 'value': 'dqa_mpa'}; {'id': '245', 'type': 'call', 'children': ['246', '247']}; {'id': '246', 'type': 'identifier', 'children': [], 'value': 'most_probable_alleles'}; {'id': '247', 'type': 'argument_list', 'children': ['248']}; {'id': '248', 'type': 'subscript', 'children': ['249', '250']}; {'id': '249', 'type': 'identifier', 'children': [], 'value': 'mhc_alleles'}; {'id': '250', 'type': 'string', 'children': [], 'value': "'HLA_DQA'"}; {'id': '251', 'type': 'expression_statement', 'children': ['252']}; {'id': '252', 'type': 'assignment', 'children': ['253', '254']}; {'id': '253', 'type': 'identifier', 'children': [], 'value': 'dqb_mpa'}; {'id': '254', 'type': 'call', 'children': ['255', '256']}; {'id': '255', 'type': 'identifier', 'children': [], 'value': 'most_probable_alleles'}; {'id': '256', 'type': 'argument_list', 'children': ['257']}; {'id': '257', 'type': 'subscript', 'children': ['258', '259']}; {'id': '258', 'type': 'identifier', 'children': [], 'value': 'mhc_alleles'}; {'id': '259', 'type': 'string', 'children': [], 'value': "'HLA_DQB'"}; {'id': '260', 'type': 'for_statement', 'children': ['261', '262', '263']}; {'id': '261', 'type': 'identifier', 'children': [], 'value': 'dqa_allele'}; {'id': '262', 'type': 'identifier', 'children': [], 'value': 'dqa_mpa'}; {'id': '263', 'type': 'block', 'children': ['264']}; {'id': '264', 'type': 'for_statement', 'children': ['265', '266', '267']}; {'id': '265', 'type': 'identifier', 'children': [], 'value': 'dqb_allele'}; {'id': '266', 'type': 'identifier', 'children': [], 'value': 'dqb_mpa'}; {'id': '267', 'type': 'block', 'children': ['268']}; {'id': '268', 'type': 'expression_statement', 'children': ['269']}; {'id': '269', 'type': 'call', 'children': ['270', '271']}; {'id': '270', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '271', 'type': 'argument_list', 'children': ['272', '282']}; {'id': '272', 'type': 'call', 'children': ['273', '276']}; {'id': '273', 'type': 'attribute', 'children': ['274', '275']}; {'id': '274', 'type': 'string', 'children': [], 'value': "''"}; {'id': '275', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '276', 'type': 'argument_list', 'children': ['277']}; {'id': '277', 'type': 'list', 'children': ['278', '279', '280', '281'], 'value': "['HLA-', dqa_allele, '/', dqb_allele]"}; {'id': '278', 'type': 'string', 'children': [], 'value': "'HLA-'"}; {'id': '279', 'type': 'identifier', 'children': [], 'value': 'dqa_allele'}; {'id': '280', 'type': 'string', 'children': [], 'value': "'/'"}; {'id': '281', 'type': 'identifier', 'children': [], 'value': 'dqb_allele'}; {'id': '282', 'type': 'keyword_argument', 'children': ['283', '284']}; {'id': '283', 'type': 'identifier', 'children': [], 'value': 'file'}; {'id': '284', 'type': 'identifier', 'children': [], 'value': 'mhcii_file'}; {'id': '285', 'type': 'expression_statement', 'children': ['286']}; {'id': '286', 'type': 'assignment', 'children': ['287', '288']}; {'id': '287', 'type': 'identifier', 'children': [], 'value': 'output_files'}; {'id': '288', 'type': 'call', 'children': ['289', '290']}; {'id': '289', 'type': 'identifier', 'children': [], 'value': 'defaultdict'}; {'id': '290', 'type': 'argument_list', 'children': []}; {'id': '291', 'type': 'for_statement', 'children': ['292', '293', '296']}; {'id': '292', 'type': 'identifier', 'children': [], 'value': 'allele_file'}; {'id': '293', 'type': 'list', 'children': ['294', '295'], 'value': "['mhci_alleles.list', 'mhcii_alleles.list']"}; {'id': '294', 'type': 'string', 'children': [], 'value': "'mhci_alleles.list'"}; {'id': '295', 'type': 'string', 'children': [], 'value': "'mhcii_alleles.list'"}; {'id': '296', 'type': 'block', 'children': ['297']}; {'id': '297', 'type': 'expression_statement', 'children': ['298']}; {'id': '298', 'type': 'assignment', 'children': ['299', '302']}; {'id': '299', 'type': 'subscript', 'children': ['300', '301']}; {'id': '300', 'type': 'identifier', 'children': [], 'value': 'output_files'}; {'id': '301', 'type': 'identifier', 'children': [], 'value': 'allele_file'}; {'id': '302', 'type': 'call', 'children': ['303', '308']}; {'id': '303', 'type': 'attribute', 'children': ['304', '307']}; {'id': '304', 'type': 'attribute', 'children': ['305', '306']}; {'id': '305', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '306', 'type': 'identifier', 'children': [], 'value': 'fileStore'}; {'id': '307', 'type': 'identifier', 'children': [], 'value': 'writeGlobalFile'}; {'id': '308', 'type': 'argument_list', 'children': ['309']}; {'id': '309', 'type': 'call', 'children': ['310', '315']}; {'id': '310', 'type': 'attribute', 'children': ['311', '314']}; {'id': '311', 'type': 'attribute', 'children': ['312', '313']}; {'id': '312', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '313', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '314', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '315', 'type': 'argument_list', 'children': ['316', '317']}; {'id': '316', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '317', 'type': 'identifier', 'children': [], 'value': 'allele_file'}; {'id': '318', 'type': 'return_statement', 'children': ['319']}; {'id': '319', 'type': 'identifier', 'children': [], 'value': 'output_files'} | def merge_phlat_calls(job, tumor_phlat, normal_phlat, rna_phlat):
job.fileStore.logToMaster('Merging Phlat calls')
work_dir = job.fileStore.getLocalTempDir()
input_files = {
'tumor_dna': tumor_phlat,
'normal_dna': normal_phlat,
'tumor_rna': rna_phlat}
input_files = get_files_from_filestore(job, input_files, work_dir)
with open(input_files['tumor_dna'], 'r') as td_file, \
open(input_files['normal_dna'], 'r') as nd_file, \
open(input_files['tumor_rna'], 'r') as tr_file:
mhc_alleles = {'HLA_A': [], 'HLA_B': [], 'HLA_C': [], 'HLA_DPA': [], 'HLA_DQA': [],
'HLA_DPB': [], 'HLA_DQB': [], 'HLA_DRB': []}
for phlatfile in td_file, nd_file, tr_file:
mhc_alleles = parse_phlat_file(phlatfile, mhc_alleles)
with open(os.path.join(work_dir, 'mhci_alleles.list'), 'w') as mhci_file, \
open(os.path.join(work_dir, 'mhcii_alleles.list'), 'w') as mhcii_file:
for mhci_group in ['HLA_A', 'HLA_B', 'HLA_C']:
mpa = most_probable_alleles(mhc_alleles[mhci_group])
print('\n'.join([''.join(['HLA-', x]) for x in mpa]), file=mhci_file)
drb_mpa = most_probable_alleles(mhc_alleles['HLA_DRB'])
print('\n'.join([''.join(['HLA-', x]) for x in drb_mpa]), file=mhcii_file)
dqa_mpa = most_probable_alleles(mhc_alleles['HLA_DQA'])
dqb_mpa = most_probable_alleles(mhc_alleles['HLA_DQB'])
for dqa_allele in dqa_mpa:
for dqb_allele in dqb_mpa:
print(''.join(['HLA-', dqa_allele, '/', dqb_allele]), file=mhcii_file)
output_files = defaultdict()
for allele_file in ['mhci_alleles.list', 'mhcii_alleles.list']:
output_files[allele_file] = job.fileStore.writeGlobalFile(os.path.join(work_dir,
allele_file))
return output_files |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '19']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'docker_call'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '7', '10', '13', '16']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'tool'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'tool_parameters'}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '7', 'type': 'default_parameter', 'children': ['8', '9']}; {'id': '8', 'type': 'identifier', 'children': [], 'value': 'java_opts'}; {'id': '9', 'type': 'None', 'children': []}; {'id': '10', 'type': 'default_parameter', 'children': ['11', '12']}; {'id': '11', 'type': 'identifier', 'children': [], 'value': 'outfile'}; {'id': '12', 'type': 'None', 'children': []}; {'id': '13', 'type': 'default_parameter', 'children': ['14', '15']}; {'id': '14', 'type': 'identifier', 'children': [], 'value': 'dockerhub'}; {'id': '15', 'type': 'string', 'children': [], 'value': "'aarjunrao'"}; {'id': '16', 'type': 'default_parameter', 'children': ['17', '18']}; {'id': '17', 'type': 'identifier', 'children': [], 'value': 'interactive'}; {'id': '18', 'type': 'False', 'children': []}; {'id': '19', 'type': 'block', 'children': ['20', '47', '60', '91', '97', '106', '139', '207', '245', '258']}; {'id': '20', 'type': 'if_statement', 'children': ['21', '22']}; {'id': '21', 'type': 'identifier', 'children': [], 'value': 'outfile'}; {'id': '22', 'type': 'block', 'children': ['23', '30', '41']}; {'id': '23', 'type': 'assert_statement', 'children': ['24', '29']}; {'id': '24', 'type': 'call', 'children': ['25', '26']}; {'id': '25', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '26', 'type': 'argument_list', 'children': ['27', '28']}; {'id': '27', 'type': 'identifier', 'children': [], 'value': 'outfile'}; {'id': '28', 'type': 'identifier', 'children': [], 'value': 'file'}; {'id': '29', 'type': 'string', 'children': [], 'value': "'outfile was not passsed a file'"}; {'id': '30', 'type': 'assert_statement', 'children': ['31', '40']}; {'id': '31', 'type': 'comparison_operator', 'children': ['32', '35'], 'value': 'in'}; {'id': '32', 'type': 'attribute', 'children': ['33', '34']}; {'id': '33', 'type': 'identifier', 'children': [], 'value': 'outfile'}; {'id': '34', 'type': 'identifier', 'children': [], 'value': 'mode'}; {'id': '35', 'type': 'list', 'children': ['36', '37', '38', '39'], 'value': "['w', 'a', 'wb', 'ab']"}; {'id': '36', 'type': 'string', 'children': [], 'value': "'w'"}; {'id': '37', 'type': 'string', 'children': [], 'value': "'a'"}; {'id': '38', 'type': 'string', 'children': [], 'value': "'wb'"}; {'id': '39', 'type': 'string', 'children': [], 'value': "'ab'"}; {'id': '40', 'type': 'string', 'children': [], 'value': "'outfile not writeable'"}; {'id': '41', 'type': 'assert_statement', 'children': ['42', '46']}; {'id': '42', 'type': 'not_operator', 'children': ['43']}; {'id': '43', 'type': 'attribute', 'children': ['44', '45']}; {'id': '44', 'type': 'identifier', 'children': [], 'value': 'outfile'}; {'id': '45', 'type': 'identifier', 'children': [], 'value': 'closed'}; {'id': '46', 'type': 'string', 'children': [], 'value': "'outfile is closed'"}; {'id': '47', 'type': 'if_statement', 'children': ['48', '49', '54']}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'interactive'}; {'id': '49', 'type': 'block', 'children': ['50']}; {'id': '50', 'type': 'expression_statement', 'children': ['51']}; {'id': '51', 'type': 'assignment', 'children': ['52', '53']}; {'id': '52', 'type': 'identifier', 'children': [], 'value': 'interactive'}; {'id': '53', 'type': 'string', 'children': [], 'value': "'-i'"}; {'id': '54', 'type': 'else_clause', 'children': ['55']}; {'id': '55', 'type': 'block', 'children': ['56']}; {'id': '56', 'type': 'expression_statement', 'children': ['57']}; {'id': '57', 'type': 'assignment', 'children': ['58', '59']}; {'id': '58', 'type': 'identifier', 'children': [], 'value': 'interactive'}; {'id': '59', 'type': 'string', 'children': [], 'value': "''"}; {'id': '60', 'type': 'if_statement', 'children': ['61', '64', '76']}; {'id': '61', 'type': 'comparison_operator', 'children': ['62', '63'], 'value': 'in'}; {'id': '62', 'type': 'string', 'children': [], 'value': "':'"}; {'id': '63', 'type': 'identifier', 'children': [], 'value': 'tool'}; {'id': '64', 'type': 'block', 'children': ['65']}; {'id': '65', 'type': 'expression_statement', 'children': ['66']}; {'id': '66', 'type': 'assignment', 'children': ['67', '68']}; {'id': '67', 'type': 'identifier', 'children': [], 'value': 'docker_tool'}; {'id': '68', 'type': 'call', 'children': ['69', '72']}; {'id': '69', 'type': 'attribute', 'children': ['70', '71']}; {'id': '70', 'type': 'string', 'children': [], 'value': "'/'"}; {'id': '71', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '72', 'type': 'argument_list', 'children': ['73']}; {'id': '73', 'type': 'list', 'children': ['74', '75'], 'value': '[dockerhub, tool]'}; {'id': '74', 'type': 'identifier', 'children': [], 'value': 'dockerhub'}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'tool'}; {'id': '76', 'type': 'else_clause', 'children': ['77']}; {'id': '77', 'type': 'block', 'children': ['78']}; {'id': '78', 'type': 'expression_statement', 'children': ['79']}; {'id': '79', 'type': 'assignment', 'children': ['80', '81']}; {'id': '80', 'type': 'identifier', 'children': [], 'value': 'docker_tool'}; {'id': '81', 'type': 'call', 'children': ['82', '85']}; {'id': '82', 'type': 'attribute', 'children': ['83', '84']}; {'id': '83', 'type': 'string', 'children': [], 'value': "''"}; {'id': '84', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '85', 'type': 'argument_list', 'children': ['86']}; {'id': '86', 'type': 'list', 'children': ['87', '88', '89', '90'], 'value': "[dockerhub, '/', tool, ':latest']"}; {'id': '87', 'type': 'identifier', 'children': [], 'value': 'dockerhub'}; {'id': '88', 'type': 'string', 'children': [], 'value': "'/'"}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'tool'}; {'id': '90', 'type': 'string', 'children': [], 'value': "':latest'"}; {'id': '91', 'type': 'expression_statement', 'children': ['92']}; {'id': '92', 'type': 'assignment', 'children': ['93', '94']}; {'id': '93', 'type': 'identifier', 'children': [], 'value': 'call'}; {'id': '94', 'type': 'list', 'children': ['95', '96'], 'value': "['docker', 'images']"}; {'id': '95', 'type': 'string', 'children': [], 'value': "'docker'"}; {'id': '96', 'type': 'string', 'children': [], 'value': "'images'"}; {'id': '97', 'type': 'expression_statement', 'children': ['98']}; {'id': '98', 'type': 'assignment', 'children': ['99', '100']}; {'id': '99', 'type': 'identifier', 'children': [], 'value': 'dimg_rv'}; {'id': '100', 'type': 'call', 'children': ['101', '104']}; {'id': '101', 'type': 'attribute', 'children': ['102', '103']}; {'id': '102', 'type': 'identifier', 'children': [], 'value': 'subprocess'}; {'id': '103', 'type': 'identifier', 'children': [], 'value': 'check_output'}; {'id': '104', 'type': 'argument_list', 'children': ['105']}; {'id': '105', 'type': 'identifier', 'children': [], 'value': 'call'}; {'id': '106', 'type': 'expression_statement', 'children': ['107']}; {'id': '107', 'type': 'assignment', 'children': ['108', '109']}; {'id': '108', 'type': 'identifier', 'children': [], 'value': 'existing_images'}; {'id': '109', 'type': 'list_comprehension', 'children': ['110', '125', '132']}; {'id': '110', 'type': 'call', 'children': ['111', '114']}; {'id': '111', 'type': 'attribute', 'children': ['112', '113']}; {'id': '112', 'type': 'string', 'children': [], 'value': "':'"}; {'id': '113', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '114', 'type': 'argument_list', 'children': ['115']}; {'id': '115', 'type': 'subscript', 'children': ['116', '121']}; {'id': '116', 'type': 'call', 'children': ['117', '120']}; {'id': '117', 'type': 'attribute', 'children': ['118', '119']}; {'id': '118', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '119', 'type': 'identifier', 'children': [], 'value': 'split'}; {'id': '120', 'type': 'argument_list', 'children': []}; {'id': '121', 'type': 'slice', 'children': ['122', '123', '124']}; {'id': '122', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '123', 'type': 'colon', 'children': []}; {'id': '124', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '125', 'type': 'for_in_clause', 'children': ['126', '127']}; {'id': '126', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '127', 'type': 'call', 'children': ['128', '131']}; {'id': '128', 'type': 'attribute', 'children': ['129', '130']}; {'id': '129', 'type': 'identifier', 'children': [], 'value': 'dimg_rv'}; {'id': '130', 'type': 'identifier', 'children': [], 'value': 'splitlines'}; {'id': '131', 'type': 'argument_list', 'children': []}; {'id': '132', 'type': 'if_clause', 'children': ['133']}; {'id': '133', 'type': 'call', 'children': ['134', '137']}; {'id': '134', 'type': 'attribute', 'children': ['135', '136']}; {'id': '135', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '136', 'type': 'identifier', 'children': [], 'value': 'startswith'}; {'id': '137', 'type': 'argument_list', 'children': ['138']}; {'id': '138', 'type': 'identifier', 'children': [], 'value': 'dockerhub'}; {'id': '139', 'type': 'if_statement', 'children': ['140', '143']}; {'id': '140', 'type': 'comparison_operator', 'children': ['141', '142'], 'value': 'not'}; {'id': '141', 'type': 'identifier', 'children': [], 'value': 'docker_tool'}; {'id': '142', 'type': 'identifier', 'children': [], 'value': 'existing_images'}; {'id': '143', 'type': 'block', 'children': ['144']}; {'id': '144', 'type': 'try_statement', 'children': ['145', '169', '197']}; {'id': '145', 'type': 'block', 'children': ['146', '162']}; {'id': '146', 'type': 'expression_statement', 'children': ['147']}; {'id': '147', 'type': 'assignment', 'children': ['148', '149']}; {'id': '148', 'type': 'identifier', 'children': [], 'value': 'call'}; {'id': '149', 'type': 'call', 'children': ['150', '161']}; {'id': '150', 'type': 'attribute', 'children': ['151', '160']}; {'id': '151', 'type': 'call', 'children': ['152', '155']}; {'id': '152', 'type': 'attribute', 'children': ['153', '154']}; {'id': '153', 'type': 'string', 'children': [], 'value': "' '"}; {'id': '154', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '155', 'type': 'argument_list', 'children': ['156']}; {'id': '156', 'type': 'list', 'children': ['157', '158', '159'], 'value': "['docker', 'pull', docker_tool]"}; {'id': '157', 'type': 'string', 'children': [], 'value': "'docker'"}; {'id': '158', 'type': 'string', 'children': [], 'value': "'pull'"}; {'id': '159', 'type': 'identifier', 'children': [], 'value': 'docker_tool'}; {'id': '160', 'type': 'identifier', 'children': [], 'value': 'split'}; {'id': '161', 'type': 'argument_list', 'children': []}; {'id': '162', 'type': 'expression_statement', 'children': ['163']}; {'id': '163', 'type': 'call', 'children': ['164', '167']}; {'id': '164', 'type': 'attribute', 'children': ['165', '166']}; {'id': '165', 'type': 'identifier', 'children': [], 'value': 'subprocess'}; {'id': '166', 'type': 'identifier', 'children': [], 'value': 'check_call'}; {'id': '167', 'type': 'argument_list', 'children': ['168']}; {'id': '168', 'type': 'identifier', 'children': [], 'value': 'call'}; {'id': '169', 'type': 'except_clause', 'children': ['170', '176']}; {'id': '170', 'type': 'as_pattern', 'children': ['171', '174']}; {'id': '171', 'type': 'attribute', 'children': ['172', '173']}; {'id': '172', 'type': 'identifier', 'children': [], 'value': 'subprocess'}; {'id': '173', 'type': 'identifier', 'children': [], 'value': 'CalledProcessError'}; {'id': '174', 'type': 'as_pattern_target', 'children': ['175']}; {'id': '175', 'type': 'identifier', 'children': [], 'value': 'err'}; {'id': '176', 'type': 'block', 'children': ['177']}; {'id': '177', 'type': 'raise_statement', 'children': ['178']}; {'id': '178', 'type': 'call', 'children': ['179', '180']}; {'id': '179', 'type': 'identifier', 'children': [], 'value': 'RuntimeError'}; {'id': '180', 'type': 'argument_list', 'children': ['181']}; {'id': '181', 'type': 'binary_operator', 'children': ['182', '189'], 'value': '+'}; {'id': '182', 'type': 'binary_operator', 'children': ['183', '184'], 'value': '+'}; {'id': '183', 'type': 'string', 'children': [], 'value': "'docker command returned a non-zero exit status '"}; {'id': '184', 'type': 'binary_operator', 'children': ['185', '186'], 'value': '%'}; {'id': '185', 'type': 'string', 'children': [], 'value': "'(%s)'"}; {'id': '186', 'type': 'attribute', 'children': ['187', '188']}; {'id': '187', 'type': 'identifier', 'children': [], 'value': 'err'}; {'id': '188', 'type': 'identifier', 'children': [], 'value': 'returncode'}; {'id': '189', 'type': 'binary_operator', 'children': ['190', '191'], 'value': '%'}; {'id': '190', 'type': 'string', 'children': [], 'value': '\'for command \\"%s\\"\''}; {'id': '191', 'type': 'call', 'children': ['192', '195']}; {'id': '192', 'type': 'attribute', 'children': ['193', '194']}; {'id': '193', 'type': 'string', 'children': [], 'value': "' '"}; {'id': '194', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '195', 'type': 'argument_list', 'children': ['196']}; {'id': '196', 'type': 'identifier', 'children': [], 'value': 'call'}; {'id': '197', 'type': 'except_clause', 'children': ['198', '199']}; {'id': '198', 'type': 'identifier', 'children': [], 'value': 'OSError'}; {'id': '199', 'type': 'block', 'children': ['200']}; {'id': '200', 'type': 'raise_statement', 'children': ['201']}; {'id': '201', 'type': 'call', 'children': ['202', '203']}; {'id': '202', 'type': 'identifier', 'children': [], 'value': 'RuntimeError'}; {'id': '203', 'type': 'argument_list', 'children': ['204']}; {'id': '204', 'type': 'binary_operator', 'children': ['205', '206'], 'value': '+'}; {'id': '205', 'type': 'string', 'children': [], 'value': "'docker not found on system. Install on all'"}; {'id': '206', 'type': 'string', 'children': [], 'value': "' nodes.'"}; {'id': '207', 'type': 'if_statement', 'children': ['208', '209', '230']}; {'id': '208', 'type': 'identifier', 'children': [], 'value': 'java_opts'}; {'id': '209', 'type': 'block', 'children': ['210']}; {'id': '210', 'type': 'expression_statement', 'children': ['211']}; {'id': '211', 'type': 'assignment', 'children': ['212', '213']}; {'id': '212', 'type': 'identifier', 'children': [], 'value': 'base_docker_call'}; {'id': '213', 'type': 'binary_operator', 'children': ['214', '229'], 'value': '+'}; {'id': '214', 'type': 'binary_operator', 'children': ['215', '223'], 'value': '+'}; {'id': '215', 'type': 'binary_operator', 'children': ['216', '222'], 'value': '+'}; {'id': '216', 'type': 'call', 'children': ['217', '220']}; {'id': '217', 'type': 'attribute', 'children': ['218', '219']}; {'id': '218', 'type': 'string', 'children': [], 'value': "' docker run -e JAVA_OPTS=-Xmx{} '"}; {'id': '219', 'type': 'identifier', 'children': [], 'value': 'format'}; {'id': '220', 'type': 'argument_list', 'children': ['221']}; {'id': '221', 'type': 'identifier', 'children': [], 'value': 'java_opts'}; {'id': '222', 'type': 'string', 'children': [], 'value': "'--rm=true '"}; {'id': '223', 'type': 'call', 'children': ['224', '227']}; {'id': '224', 'type': 'attribute', 'children': ['225', '226']}; {'id': '225', 'type': 'string', 'children': [], 'value': "'-v {}:/data --log-driver=none '"}; {'id': '226', 'type': 'identifier', 'children': [], 'value': 'format'}; {'id': '227', 'type': 'argument_list', 'children': ['228']}; {'id': '228', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '229', 'type': 'identifier', 'children': [], 'value': 'interactive'}; {'id': '230', 'type': 'else_clause', 'children': ['231']}; {'id': '231', 'type': 'block', 'children': ['232']}; {'id': '232', 'type': 'expression_statement', 'children': ['233']}; {'id': '233', 'type': 'assignment', 'children': ['234', '235']}; {'id': '234', 'type': 'identifier', 'children': [], 'value': 'base_docker_call'}; {'id': '235', 'type': 'binary_operator', 'children': ['236', '244'], 'value': '+'}; {'id': '236', 'type': 'binary_operator', 'children': ['237', '243'], 'value': '+'}; {'id': '237', 'type': 'call', 'children': ['238', '241']}; {'id': '238', 'type': 'attribute', 'children': ['239', '240']}; {'id': '239', 'type': 'string', 'children': [], 'value': "' docker run --rm=true -v {}:/data '"}; {'id': '240', 'type': 'identifier', 'children': [], 'value': 'format'}; {'id': '241', 'type': 'argument_list', 'children': ['242']}; {'id': '242', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '243', 'type': 'string', 'children': [], 'value': "'--log-driver=none '"}; {'id': '244', 'type': 'identifier', 'children': [], 'value': 'interactive'}; {'id': '245', 'type': 'expression_statement', 'children': ['246']}; {'id': '246', 'type': 'assignment', 'children': ['247', '248']}; {'id': '247', 'type': 'identifier', 'children': [], 'value': 'call'}; {'id': '248', 'type': 'binary_operator', 'children': ['249', '257'], 'value': '+'}; {'id': '249', 'type': 'binary_operator', 'children': ['250', '255'], 'value': '+'}; {'id': '250', 'type': 'call', 'children': ['251', '254']}; {'id': '251', 'type': 'attribute', 'children': ['252', '253']}; {'id': '252', 'type': 'identifier', 'children': [], 'value': 'base_docker_call'}; {'id': '253', 'type': 'identifier', 'children': [], 'value': 'split'}; {'id': '254', 'type': 'argument_list', 'children': []}; {'id': '255', 'type': 'list', 'children': ['256'], 'value': '[docker_tool]'}; {'id': '256', 'type': 'identifier', 'children': [], 'value': 'docker_tool'}; {'id': '257', 'type': 'identifier', 'children': [], 'value': 'tool_parameters'}; {'id': '258', 'type': 'try_statement', 'children': ['259', '270', '296']}; {'id': '259', 'type': 'block', 'children': ['260']}; {'id': '260', 'type': 'expression_statement', 'children': ['261']}; {'id': '261', 'type': 'call', 'children': ['262', '265']}; {'id': '262', 'type': 'attribute', 'children': ['263', '264']}; {'id': '263', 'type': 'identifier', 'children': [], 'value': 'subprocess'}; {'id': '264', 'type': 'identifier', 'children': [], 'value': 'check_call'}; {'id': '265', 'type': 'argument_list', 'children': ['266', '267']}; {'id': '266', 'type': 'identifier', 'children': [], 'value': 'call'}; {'id': '267', 'type': 'keyword_argument', 'children': ['268', '269']}; {'id': '268', 'type': 'identifier', 'children': [], 'value': 'stdout'}; {'id': '269', 'type': 'identifier', 'children': [], 'value': 'outfile'}; {'id': '270', 'type': 'except_clause', 'children': ['271', '277']}; {'id': '271', 'type': 'as_pattern', 'children': ['272', '275']}; {'id': '272', 'type': 'attribute', 'children': ['273', '274']}; {'id': '273', 'type': 'identifier', 'children': [], 'value': 'subprocess'}; {'id': '274', 'type': 'identifier', 'children': [], 'value': 'CalledProcessError'}; {'id': '275', 'type': 'as_pattern_target', 'children': ['276']}; {'id': '276', 'type': 'identifier', 'children': [], 'value': 'err'}; {'id': '277', 'type': 'block', 'children': ['278']}; {'id': '278', 'type': 'raise_statement', 'children': ['279']}; {'id': '279', 'type': 'call', 'children': ['280', '281']}; {'id': '280', 'type': 'identifier', 'children': [], 'value': 'RuntimeError'}; {'id': '281', 'type': 'argument_list', 'children': ['282']}; {'id': '282', 'type': 'binary_operator', 'children': ['283', '288'], 'value': '+'}; {'id': '283', 'type': 'binary_operator', 'children': ['284', '285'], 'value': '%'}; {'id': '284', 'type': 'string', 'children': [], 'value': "'docker command returned a non-zero exit status (%s)'"}; {'id': '285', 'type': 'attribute', 'children': ['286', '287']}; {'id': '286', 'type': 'identifier', 'children': [], 'value': 'err'}; {'id': '287', 'type': 'identifier', 'children': [], 'value': 'returncode'}; {'id': '288', 'type': 'binary_operator', 'children': ['289', '290'], 'value': '%'}; {'id': '289', 'type': 'string', 'children': [], 'value': '\'for command \\"%s\\"\''}; {'id': '290', 'type': 'call', 'children': ['291', '294']}; {'id': '291', 'type': 'attribute', 'children': ['292', '293']}; {'id': '292', 'type': 'string', 'children': [], 'value': "' '"}; {'id': '293', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '294', 'type': 'argument_list', 'children': ['295']}; {'id': '295', 'type': 'identifier', 'children': [], 'value': 'call'}; {'id': '296', 'type': 'except_clause', 'children': ['297', '298']}; {'id': '297', 'type': 'identifier', 'children': [], 'value': 'OSError'}; {'id': '298', 'type': 'block', 'children': ['299']}; {'id': '299', 'type': 'raise_statement', 'children': ['300']}; {'id': '300', 'type': 'call', 'children': ['301', '302']}; {'id': '301', 'type': 'identifier', 'children': [], 'value': 'RuntimeError'}; {'id': '302', 'type': 'argument_list', 'children': ['303']}; {'id': '303', 'type': 'string', 'children': [], 'value': "'docker not found on system. Install on all nodes.'"} | def docker_call(tool, tool_parameters, work_dir, java_opts=None, outfile=None,
dockerhub='aarjunrao', interactive=False):
if outfile:
assert isinstance(outfile, file), 'outfile was not passsed a file'
assert outfile.mode in ['w', 'a', 'wb', 'ab'], 'outfile not writeable'
assert not outfile.closed, 'outfile is closed'
if interactive:
interactive = '-i'
else:
interactive = ''
if ':' in tool:
docker_tool = '/'.join([dockerhub, tool])
else:
docker_tool = ''.join([dockerhub, '/', tool, ':latest'])
call = ['docker', 'images']
dimg_rv = subprocess.check_output(call)
existing_images = [':'.join(x.split()[0:2]) for x in dimg_rv.splitlines()
if x.startswith(dockerhub)]
if docker_tool not in existing_images:
try:
call = ' '.join(['docker', 'pull', docker_tool]).split()
subprocess.check_call(call)
except subprocess.CalledProcessError as err:
raise RuntimeError('docker command returned a non-zero exit status ' +
'(%s)' % err.returncode + 'for command \"%s\"' % ' '.join(call),)
except OSError:
raise RuntimeError('docker not found on system. Install on all' +
' nodes.')
if java_opts:
base_docker_call = ' docker run -e JAVA_OPTS=-Xmx{} '.format(java_opts) + '--rm=true ' + \
'-v {}:/data --log-driver=none '.format(work_dir) + interactive
else:
base_docker_call = ' docker run --rm=true -v {}:/data '.format(work_dir) + \
'--log-driver=none ' + interactive
call = base_docker_call.split() + [docker_tool] + tool_parameters
try:
subprocess.check_call(call, stdout=outfile)
except subprocess.CalledProcessError as err:
raise RuntimeError('docker command returned a non-zero exit status (%s)' % err.returncode +
'for command \"%s\"' % ' '.join(call),)
except OSError:
raise RuntimeError('docker not found on system. Install on all nodes.') |
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{'id': '60', 'type': 'attribute', 'children': ['61', '62']}; {'id': '61', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '62', 'type': 'identifier', 'children': [], 'value': 'chdir'}; {'id': '63', 'type': 'argument_list', 'children': ['64']}; {'id': '64', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '65', 'type': 'try_statement', 'children': ['66', '85']}; {'id': '66', 'type': 'block', 'children': ['67', '78']}; {'id': '67', 'type': 'expression_statement', 'children': ['68']}; {'id': '68', 'type': 'assignment', 'children': ['69', '70']}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'download_call'}; {'id': '70', 'type': 'list', 'children': ['71', '72', '73', '74', '75'], 'value': "['gdc-client', 'download', '-t', gdc_download_token, parsed_url.netloc]"}; {'id': '71', 'type': 'string', 'children': [], 'value': "'gdc-client'"}; {'id': '72', 'type': 'string', 'children': [], 'value': "'download'"}; {'id': '73', 'type': 'string', 'children': [], 'value': "'-t'"}; {'id': '74', 'type': 'identifier', 'children': [], 'value': 'gdc_download_token'}; {'id': '75', 'type': 'attribute', 'children': ['76', '77']}; {'id': '76', 'type': 'identifier', 'children': [], 'value': 'parsed_url'}; {'id': '77', 'type': 'identifier', 'children': [], 'value': 'netloc'}; {'id': '78', 'type': 'expression_statement', 'children': ['79']}; {'id': '79', 'type': 'call', 'children': ['80', '83']}; {'id': '80', 'type': 'attribute', 'children': ['81', '82']}; {'id': '81', 'type': 'identifier', 'children': [], 'value': 'subprocess'}; {'id': '82', 'type': 'identifier', 'children': [], 'value': 'check_call'}; {'id': '83', 'type': 'argument_list', 'children': ['84']}; {'id': '84', 'type': 'identifier', 'children': [], 'value': 'download_call'}; {'id': '85', 'type': 'finally_clause', 'children': ['86']}; {'id': '86', 'type': 'block', 'children': ['87']}; {'id': '87', 'type': 'expression_statement', 'children': ['88']}; {'id': '88', 'type': 'call', 'children': ['89', '92']}; {'id': '89', 'type': 'attribute', 'children': ['90', '91']}; 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{'id': '106', 'type': 'list_comprehension', 'children': ['107', '116', '124']}; {'id': '107', 'type': 'call', 'children': ['108', '113']}; {'id': '108', 'type': 'attribute', 'children': ['109', '112']}; {'id': '109', 'type': 'attribute', 'children': ['110', '111']}; {'id': '110', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '111', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '112', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '113', 'type': 'argument_list', 'children': ['114', '115']}; {'id': '114', 'type': 'identifier', 'children': [], 'value': 'file_dir'}; {'id': '115', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '116', 'type': 'for_in_clause', 'children': ['117', '118']}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '118', 'type': 'call', 'children': ['119', '122']}; {'id': '119', 'type': 'attribute', 'children': ['120', '121']}; {'id': '120', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '121', 'type': 'identifier', 'children': [], 'value': 'listdir'}; {'id': '122', 'type': 'argument_list', 'children': ['123']}; {'id': '123', 'type': 'identifier', 'children': [], 'value': 'file_dir'}; {'id': '124', 'type': 'if_clause', 'children': ['125']}; {'id': '125', 'type': 'not_operator', 'children': ['126']}; {'id': '126', 'type': 'call', 'children': ['127', '130']}; {'id': '127', 'type': 'attribute', 'children': ['128', '129']}; {'id': '128', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '129', 'type': 'identifier', 'children': [], 'value': 'endswith'}; {'id': '130', 'type': 'argument_list', 'children': ['131']}; {'id': '131', 'type': 'string', 'children': [], 'value': "'logs'"}; {'id': '132', 'type': 'if_statement', 'children': ['133', '139', '149']}; {'id': '133', 'type': 'comparison_operator', 'children': ['134', '138'], 'value': '=='}; {'id': '134', 'type': 'call', 'children': ['135', '136']}; {'id': '135', 'type': 'identifier', 'children': [], 'value': 'len'}; 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{'id': '152', 'type': 'not_operator', 'children': ['153']}; {'id': '153', 'type': 'comparison_operator', 'children': ['154', '168'], 'value': '>='}; {'id': '154', 'type': 'set_comprehension', 'children': ['155', '165']}; {'id': '155', 'type': 'subscript', 'children': ['156', '164']}; {'id': '156', 'type': 'call', 'children': ['157', '162']}; {'id': '157', 'type': 'attribute', 'children': ['158', '161']}; {'id': '158', 'type': 'attribute', 'children': ['159', '160']}; {'id': '159', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '160', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '161', 'type': 'identifier', 'children': [], 'value': 'splitext'}; {'id': '162', 'type': 'argument_list', 'children': ['163']}; {'id': '163', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '164', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '165', 'type': 'for_in_clause', 'children': ['166', '167']}; {'id': '166', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '167', 'type': 'identifier', 'children': [], 'value': 'output_files'}; {'id': '168', 'type': 'set', 'children': ['169', '170']}; {'id': '169', 'type': 'string', 'children': [], 'value': "'.bam'"}; {'id': '170', 'type': 'string', 'children': [], 'value': "'.bai'"}; {'id': '171', 'type': 'block', 'children': ['172']}; {'id': '172', 'type': 'raise_statement', 'children': ['173']}; {'id': '173', 'type': 'call', 'children': ['174', '175']}; {'id': '174', 'type': 'identifier', 'children': [], 'value': 'ParameterError'}; {'id': '175', 'type': 'argument_list', 'children': ['176']}; {'id': '176', 'type': 'string', 'children': [], 'value': "'Can currently only handle pre-indexed GDC bams.'"}; {'id': '177', 'type': 'expression_statement', 'children': ['178']}; {'id': '178', 'type': 'assignment', 'children': ['179', '180']}; {'id': '179', 'type': 'identifier', 'children': [], 'value': 'output_files'}; {'id': '180', 'type': 'list_comprehension', 'children': ['181', '182', '185']}; {'id': '181', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '182', 'type': 'for_in_clause', 'children': ['183', '184']}; {'id': '183', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '184', 'type': 'identifier', 'children': [], 'value': 'output_files'}; {'id': '185', 'type': 'if_clause', 'children': ['186']}; {'id': '186', 'type': 'call', 'children': ['187', '190']}; {'id': '187', 'type': 'attribute', 'children': ['188', '189']}; {'id': '188', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '189', 'type': 'identifier', 'children': [], 'value': 'endswith'}; {'id': '190', 'type': 'argument_list', 'children': ['191']}; {'id': '191', 'type': 'tuple', 'children': ['192', '193']}; {'id': '192', 'type': 'string', 'children': [], 'value': "'bam'"}; {'id': '193', 'type': 'string', 'children': [], 'value': "'bai'"}; {'id': '194', 'type': 'expression_statement', 'children': ['195']}; {'id': '195', 'type': 'assignment', 'children': ['196', '197']}; {'id': '196', 'type': 'identifier', 'children': [], 'value': 'output_files'}; {'id': '197', 'type': 'call', 'children': ['198', '199']}; {'id': '198', 'type': 'identifier', 'children': [], 'value': 'sorted'}; {'id': '199', 'type': 'argument_list', 'children': ['200', '201', '216']}; {'id': '200', 'type': 'identifier', 'children': [], 'value': 'output_files'}; {'id': '201', 'type': 'keyword_argument', 'children': ['202', '203']}; {'id': '202', 'type': 'identifier', 'children': [], 'value': 'key'}; {'id': '203', 'type': 'lambda', 'children': ['204', '206']}; {'id': '204', 'type': 'lambda_parameters', 'children': ['205']}; {'id': '205', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '206', 'type': 'subscript', 'children': ['207', '215']}; {'id': '207', 'type': 'call', 'children': ['208', '213']}; {'id': '208', 'type': 'attribute', 'children': ['209', '212']}; {'id': '209', 'type': 'attribute', 'children': ['210', '211']}; {'id': '210', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '211', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '212', 'type': 'identifier', 'children': [], 'value': 'splitext'}; {'id': '213', 'type': 'argument_list', 'children': ['214']}; {'id': '214', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '215', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '216', 'type': 'keyword_argument', 'children': ['217', '218']}; {'id': '217', 'type': 'identifier', 'children': [], 'value': 'reverse'}; {'id': '218', 'type': 'True', 'children': []}; {'id': '219', 'type': 'if_statement', 'children': ['220', '221']}; {'id': '220', 'type': 'identifier', 'children': [], 'value': 'write_to_jobstore'}; {'id': '221', 'type': 'block', 'children': ['222']}; {'id': '222', 'type': 'expression_statement', 'children': ['223']}; {'id': '223', 'type': 'assignment', 'children': ['224', '225']}; {'id': '224', 'type': 'identifier', 'children': [], 'value': 'output_files'}; {'id': '225', 'type': 'list_comprehension', 'children': ['226', '234']}; {'id': '226', 'type': 'call', 'children': ['227', '232']}; {'id': '227', 'type': 'attribute', 'children': ['228', '231']}; {'id': '228', 'type': 'attribute', 'children': ['229', '230']}; {'id': '229', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '230', 'type': 'identifier', 'children': [], 'value': 'fileStore'}; {'id': '231', 'type': 'identifier', 'children': [], 'value': 'writeGlobalFile'}; {'id': '232', 'type': 'argument_list', 'children': ['233']}; {'id': '233', 'type': 'identifier', 'children': [], 'value': 'f'}; {'id': '234', 'type': 'for_in_clause', 'children': ['235', '236']}; {'id': '235', 'type': 'identifier', 'children': [], 'value': 'f'}; {'id': '236', 'type': 'identifier', 'children': [], 'value': 'output_files'}; {'id': '237', 'type': 'return_statement', 'children': ['238']}; {'id': '238', 'type': 'identifier', 'children': [], 'value': 'output_files'} | def get_file_from_gdc(job, gdc_url, gdc_download_token, write_to_jobstore=True):
work_dir = job.fileStore.getLocalTempDir()
parsed_url = urlparse(gdc_url)
assert parsed_url.scheme == 'gdc', 'Unexpected url scheme: %s' % gdc_url
file_dir = '/'.join([work_dir, parsed_url.netloc])
currwd = os.getcwd()
os.chdir(work_dir)
try:
download_call = ['gdc-client', 'download', '-t', gdc_download_token, parsed_url.netloc]
subprocess.check_call(download_call)
finally:
os.chdir(currwd)
assert os.path.exists(file_dir)
output_files = [os.path.join(file_dir, x) for x in os.listdir(file_dir)
if not x.endswith('logs')]
if len(output_files) == 1:
assert output_files[0].endswith('vcf')
else:
if not {os.path.splitext(x)[1] for x in output_files} >= {'.bam', '.bai'}:
raise ParameterError('Can currently only handle pre-indexed GDC bams.')
output_files = [x for x in output_files if x.endswith(('bam', 'bai'))]
output_files = sorted(output_files, key=lambda x: os.path.splitext(x)[1], reverse=True)
if write_to_jobstore:
output_files = [job.fileStore.writeGlobalFile(f) for f in output_files]
return output_files |
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{'id': '48', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '49', 'type': 'argument_list', 'children': ['50', '51']}; {'id': '50', 'type': 'identifier', 'children': [], 'value': 'obj'}; {'id': '51', 'type': 'tuple', 'children': ['52', '53']}; {'id': '52', 'type': 'identifier', 'children': [], 'value': 'list'}; {'id': '53', 'type': 'identifier', 'children': [], 'value': 'tuple'}; {'id': '54', 'type': 'block', 'children': ['55']}; {'id': '55', 'type': 'return_statement', 'children': ['56']}; {'id': '56', 'type': 'call', 'children': ['57', '58']}; {'id': '57', 'type': 'identifier', 'children': [], 'value': 'tuple'}; {'id': '58', 'type': 'generator_expression', 'children': ['59', '64']}; {'id': '59', 'type': 'call', 'children': ['60', '61']}; {'id': '60', 'type': 'identifier', 'children': [], 'value': 'make_key_hippie'}; {'id': '61', 'type': 'argument_list', 'children': ['62', '63']}; {'id': '62', 'type': 'identifier', 'children': [], 'value': 'e'}; {'id': '63', 'type': 'identifier', 'children': [], 'value': 'typed'}; {'id': '64', 'type': 'for_in_clause', 'children': ['65', '66']}; {'id': '65', 'type': 'identifier', 'children': [], 'value': 'e'}; {'id': '66', 'type': 'identifier', 'children': [], 'value': 'obj'}; {'id': '67', 'type': 'if_statement', 'children': ['68', '73']}; {'id': '68', 'type': 'call', 'children': ['69', '70']}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '70', 'type': 'argument_list', 'children': ['71', '72']}; {'id': '71', 'type': 'identifier', 'children': [], 'value': 'obj'}; {'id': '72', 'type': 'identifier', 'children': [], 'value': 'dict'}; {'id': '73', 'type': 'block', 'children': ['74']}; {'id': '74', 'type': 'return_statement', 'children': ['75']}; {'id': '75', 'type': 'call', 'children': ['76', '77']}; {'id': '76', 'type': 'identifier', 'children': [], 'value': 'tuple'}; {'id': '77', 'type': 'argument_list', 'children': ['78']}; {'id': '78', 'type': 'call', 'children': ['79', '80']}; {'id': '79', 'type': 'identifier', 'children': [], 'value': 'sorted'}; {'id': '80', 'type': 'argument_list', 'children': ['81']}; {'id': '81', 'type': 'generator_expression', 'children': ['82', '93']}; {'id': '82', 'type': 'tuple', 'children': ['83', '88']}; {'id': '83', 'type': 'call', 'children': ['84', '85']}; {'id': '84', 'type': 'identifier', 'children': [], 'value': 'make_key_hippie'}; {'id': '85', 'type': 'argument_list', 'children': ['86', '87']}; {'id': '86', 'type': 'identifier', 'children': [], 'value': 'k'}; {'id': '87', 'type': 'identifier', 'children': [], 'value': 'typed'}; {'id': '88', 'type': 'call', 'children': ['89', '90']}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'make_key_hippie'}; {'id': '90', 'type': 'argument_list', 'children': ['91', '92']}; {'id': '91', 'type': 'identifier', 'children': [], 'value': 'v'}; {'id': '92', 'type': 'identifier', 'children': [], 'value': 'typed'}; {'id': '93', 'type': 'for_in_clause', 'children': ['94', '97']}; {'id': '94', 'type': 'pattern_list', 'children': ['95', '96']}; {'id': '95', 'type': 'identifier', 'children': [], 'value': 'k'}; {'id': '96', 'type': 'identifier', 'children': [], 'value': 'v'}; {'id': '97', 'type': 'call', 'children': ['98', '101']}; {'id': '98', 'type': 'attribute', 'children': ['99', '100']}; {'id': '99', 'type': 'identifier', 'children': [], 'value': 'obj'}; {'id': '100', 'type': 'identifier', 'children': [], 'value': 'items'}; {'id': '101', 'type': 'argument_list', 'children': []}; {'id': '102', 'type': 'raise_statement', 'children': ['103']}; {'id': '103', 'type': 'call', 'children': ['104', '105']}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'ValueError'}; {'id': '105', 'type': 'argument_list', 'children': ['106']}; {'id': '106', 'type': 'binary_operator', 'children': ['107', '108'], 'value': '%'}; {'id': '107', 'type': 'string', 'children': [], 'value': '"%r can not be hashed. Try providing a custom key function."'}; {'id': '108', 'type': 'identifier', 'children': [], 'value': 'obj'} | def make_key_hippie(obj, typed=True):
ftype = type if typed else lambda o: None
if is_hashable(obj):
return obj, ftype(obj)
if isinstance(obj, set):
obj = sorted(obj)
if isinstance(obj, (list, tuple)):
return tuple(make_key_hippie(e, typed) for e in obj)
if isinstance(obj, dict):
return tuple(sorted(((make_key_hippie(k, typed),
make_key_hippie(v, typed))
for k, v in obj.items())))
raise ValueError(
"%r can not be hashed. Try providing a custom key function."
% obj) |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '10']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'run_radia'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '7', '8', '9']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'rna_bam'}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'tumor_bam'}; {'id': '7', 'type': 'identifier', 'children': [], 'value': 'normal_bam'}; {'id': '8', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '9', 'type': 'identifier', 'children': [], 'value': 'radia_options'}; {'id': '10', 'type': 'block', 'children': ['11', '48', '82', '105', '111', '198', '211']}; {'id': '11', 'type': 'if_statement', 'children': ['12', '19', '26', '41']}; {'id': '12', 'type': 'comparison_operator', 'children': ['13', '14'], 'value': 'in'}; {'id': '13', 'type': 'string', 'children': [], 'value': "'rna_genome'"}; {'id': '14', 'type': 'call', 'children': ['15', '18']}; {'id': '15', 'type': 'attribute', 'children': ['16', '17']}; {'id': '16', 'type': 'identifier', 'children': [], 'value': 'rna_bam'}; {'id': '17', 'type': 'identifier', 'children': [], 'value': 'keys'}; {'id': '18', 'type': 'argument_list', 'children': []}; {'id': '19', 'type': 'block', 'children': ['20']}; {'id': '20', 'type': 'expression_statement', 'children': ['21']}; {'id': '21', 'type': 'assignment', 'children': ['22', '23']}; {'id': '22', 'type': 'identifier', 'children': [], 'value': 'rna_bam'}; {'id': '23', 'type': 'subscript', 'children': ['24', '25']}; {'id': '24', 'type': 'identifier', 'children': [], 'value': 'rna_bam'}; {'id': '25', 'type': 'string', 'children': [], 'value': "'rna_genome'"}; {'id': '26', 'type': 'elif_clause', 'children': ['27', '39']}; {'id': '27', 'type': 'comparison_operator', 'children': ['28', '36'], 'value': '=='}; {'id': '28', 'type': 'call', 'children': ['29', '30']}; {'id': '29', 'type': 'identifier', 'children': [], 'value': 'set'}; {'id': '30', 'type': 'argument_list', 'children': ['31']}; {'id': '31', 'type': 'call', 'children': ['32', '35']}; {'id': '32', 'type': 'attribute', 'children': ['33', '34']}; {'id': '33', 'type': 'identifier', 'children': [], 'value': 'rna_bam'}; {'id': '34', 'type': 'identifier', 'children': [], 'value': 'keys'}; {'id': '35', 'type': 'argument_list', 'children': []}; {'id': '36', 'type': 'set', 'children': ['37', '38']}; {'id': '37', 'type': 'string', 'children': [], 'value': "'rna_genome_sorted.bam'"}; {'id': '38', 'type': 'string', 'children': [], 'value': "'rna_genome_sorted.bam.bai'"}; {'id': '39', 'type': 'block', 'children': ['40']}; {'id': '40', 'type': 'pass_statement', 'children': []}; {'id': '41', 'type': 'else_clause', 'children': ['42']}; {'id': '42', 'type': 'block', 'children': ['43']}; {'id': '43', 'type': 'raise_statement', 'children': ['44']}; {'id': '44', 'type': 'call', 'children': ['45', '46']}; {'id': '45', 'type': 'identifier', 'children': [], 'value': 'RuntimeError'}; {'id': '46', 'type': 'argument_list', 'children': ['47']}; {'id': '47', 'type': 'string', 'children': [], 'value': "'An improperly formatted dict was passed to rna_bam.'"}; {'id': '48', 'type': 'expression_statement', 'children': ['49']}; {'id': '49', 'type': 'assignment', 'children': ['50', '51']}; {'id': '50', 'type': 'identifier', 'children': [], 'value': 'bams'}; {'id': '51', 'type': 'dictionary', 'children': ['52', '57', '62', '67', '72', '77']}; {'id': '52', 'type': 'pair', 'children': ['53', '54']}; {'id': '53', 'type': 'string', 'children': [], 'value': "'tumor_rna'"}; {'id': '54', 'type': 'subscript', 'children': ['55', '56']}; {'id': '55', 'type': 'identifier', 'children': [], 'value': 'rna_bam'}; {'id': '56', 'type': 'string', 'children': [], 'value': "'rna_genome_sorted.bam'"}; {'id': '57', 'type': 'pair', 'children': ['58', '59']}; {'id': '58', 'type': 'string', 'children': [], 'value': "'tumor_rnai'"}; {'id': '59', 'type': 'subscript', 'children': ['60', '61']}; {'id': '60', 'type': 'identifier', 'children': [], 'value': 'rna_bam'}; {'id': '61', 'type': 'string', 'children': [], 'value': "'rna_genome_sorted.bam.bai'"}; {'id': '62', 'type': 'pair', 'children': ['63', '64']}; {'id': '63', 'type': 'string', 'children': [], 'value': "'tumor_dna'"}; {'id': '64', 'type': 'subscript', 'children': ['65', '66']}; {'id': '65', 'type': 'identifier', 'children': [], 'value': 'tumor_bam'}; {'id': '66', 'type': 'string', 'children': [], 'value': "'tumor_dna_fix_pg_sorted.bam'"}; {'id': '67', 'type': 'pair', 'children': ['68', '69']}; {'id': '68', 'type': 'string', 'children': [], 'value': "'tumor_dnai'"}; {'id': '69', 'type': 'subscript', 'children': ['70', '71']}; {'id': '70', 'type': 'identifier', 'children': [], 'value': 'tumor_bam'}; {'id': '71', 'type': 'string', 'children': [], 'value': "'tumor_dna_fix_pg_sorted.bam.bai'"}; {'id': '72', 'type': 'pair', 'children': ['73', '74']}; {'id': '73', 'type': 'string', 'children': [], 'value': "'normal_dna'"}; {'id': '74', 'type': 'subscript', 'children': ['75', '76']}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'normal_bam'}; {'id': '76', 'type': 'string', 'children': [], 'value': "'normal_dna_fix_pg_sorted.bam'"}; {'id': '77', 'type': 'pair', 'children': ['78', '79']}; {'id': '78', 'type': 'string', 'children': [], 'value': "'normal_dnai'"}; {'id': '79', 'type': 'subscript', 'children': ['80', '81']}; {'id': '80', 'type': 'identifier', 'children': [], 'value': 'normal_bam'}; {'id': '81', 'type': 'string', 'children': [], 'value': "'normal_dna_fix_pg_sorted.bam.bai'"}; {'id': '82', 'type': 'if_statement', 'children': ['83', '86', '93']}; {'id': '83', 'type': 'subscript', 'children': ['84', '85']}; {'id': '84', 'type': 'identifier', 'children': [], 'value': 'radia_options'}; {'id': '85', 'type': 'string', 'children': [], 'value': "'chromosomes'"}; {'id': '86', 'type': 'block', 'children': ['87']}; {'id': '87', 'type': 'expression_statement', 'children': ['88']}; {'id': '88', 'type': 'assignment', 'children': ['89', '90']}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'chromosomes'}; {'id': '90', 'type': 'subscript', 'children': ['91', '92']}; {'id': '91', 'type': 'identifier', 'children': [], 'value': 'radia_options'}; {'id': '92', 'type': 'string', 'children': [], 'value': "'chromosomes'"}; {'id': '93', 'type': 'else_clause', 'children': ['94']}; {'id': '94', 'type': 'block', 'children': ['95']}; {'id': '95', 'type': 'expression_statement', 'children': ['96']}; {'id': '96', 'type': 'assignment', 'children': ['97', '98']}; {'id': '97', 'type': 'identifier', 'children': [], 'value': 'chromosomes'}; {'id': '98', 'type': 'call', 'children': ['99', '100']}; {'id': '99', 'type': 'identifier', 'children': [], 'value': 'sample_chromosomes'}; {'id': '100', 'type': 'argument_list', 'children': ['101', '102']}; {'id': '101', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '102', 'type': 'subscript', 'children': ['103', '104']}; {'id': '103', 'type': 'identifier', 'children': [], 'value': 'radia_options'}; {'id': '104', 'type': 'string', 'children': [], 'value': "'genome_fai'"}; {'id': '105', 'type': 'expression_statement', 'children': ['106']}; {'id': '106', 'type': 'assignment', 'children': ['107', '108']}; {'id': '107', 'type': 'identifier', 'children': [], 'value': 'perchrom_radia'}; {'id': '108', 'type': 'call', 'children': ['109', '110']}; {'id': '109', 'type': 'identifier', 'children': [], 'value': 'defaultdict'}; {'id': '110', 'type': 'argument_list', 'children': []}; {'id': '111', 'type': 'for_statement', 'children': ['112', '113', '114']}; {'id': '112', 'type': 'identifier', 'children': [], 'value': 'chrom'}; {'id': '113', 'type': 'identifier', 'children': [], 'value': 'chromosomes'}; {'id': '114', 'type': 'block', 'children': ['115', '149', '188']}; {'id': '115', 'type': 'expression_statement', 'children': ['116']}; {'id': '116', 'type': 'assignment', 'children': ['117', '118']}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'radia'}; {'id': '118', 'type': 'call', 'children': ['119', '122']}; {'id': '119', 'type': 'attribute', 'children': ['120', '121']}; {'id': '120', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '121', 'type': 'identifier', 'children': [], 'value': 'addChildJobFn'}; {'id': '122', 'type': 'argument_list', 'children': ['123', '124', '125', '126', '127', '128', '131']}; {'id': '123', 'type': 'identifier', 'children': [], 'value': 'run_radia_perchrom'}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'bams'}; {'id': '125', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '126', 'type': 'identifier', 'children': [], 'value': 'radia_options'}; {'id': '127', 'type': 'identifier', 'children': [], 'value': 'chrom'}; {'id': '128', 'type': 'keyword_argument', 'children': ['129', '130']}; {'id': '129', 'type': 'identifier', 'children': [], 'value': 'memory'}; {'id': '130', 'type': 'string', 'children': [], 'value': "'6G'"}; {'id': '131', 'type': 'keyword_argument', 'children': ['132', '133']}; {'id': '132', 'type': 'identifier', 'children': [], 'value': 'disk'}; {'id': '133', 'type': 'call', 'children': ['134', '135']}; {'id': '134', 'type': 'identifier', 'children': [], 'value': 'PromisedRequirement'}; {'id': '135', 'type': 'argument_list', 'children': ['136', '137', '140', '143', '146']}; {'id': '136', 'type': 'identifier', 'children': [], 'value': 'radia_disk'}; {'id': '137', 'type': 'subscript', 'children': ['138', '139']}; {'id': '138', 'type': 'identifier', 'children': [], 'value': 'tumor_bam'}; {'id': '139', 'type': 'string', 'children': [], 'value': "'tumor_dna_fix_pg_sorted.bam'"}; {'id': '140', 'type': 'subscript', 'children': ['141', '142']}; {'id': '141', 'type': 'identifier', 'children': [], 'value': 'normal_bam'}; {'id': '142', 'type': 'string', 'children': [], 'value': "'normal_dna_fix_pg_sorted.bam'"}; {'id': '143', 'type': 'subscript', 'children': ['144', '145']}; {'id': '144', 'type': 'identifier', 'children': [], 'value': 'rna_bam'}; {'id': '145', 'type': 'string', 'children': [], 'value': "'rna_genome_sorted.bam'"}; {'id': '146', 'type': 'subscript', 'children': ['147', '148']}; {'id': '147', 'type': 'identifier', 'children': [], 'value': 'radia_options'}; {'id': '148', 'type': 'string', 'children': [], 'value': "'genome_fasta'"}; {'id': '149', 'type': 'expression_statement', 'children': ['150']}; {'id': '150', 'type': 'assignment', 'children': ['151', '152']}; {'id': '151', 'type': 'identifier', 'children': [], 'value': 'filter_radia'}; {'id': '152', 'type': 'call', 'children': ['153', '156']}; {'id': '153', 'type': 'attribute', 'children': ['154', '155']}; {'id': '154', 'type': 'identifier', 'children': [], 'value': 'radia'}; {'id': '155', 'type': 'identifier', 'children': [], 'value': 'addChildJobFn'}; {'id': '156', 'type': 'argument_list', 'children': ['157', '158', '159', '164', '165', '166', '167', '170']}; {'id': '157', 'type': 'identifier', 'children': [], 'value': 'run_filter_radia'}; {'id': '158', 'type': 'identifier', 'children': [], 'value': 'bams'}; {'id': '159', 'type': 'call', 'children': ['160', '163']}; {'id': '160', 'type': 'attribute', 'children': ['161', '162']}; {'id': '161', 'type': 'identifier', 'children': [], 'value': 'radia'}; {'id': '162', 'type': 'identifier', 'children': [], 'value': 'rv'}; {'id': '163', 'type': 'argument_list', 'children': []}; {'id': '164', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '165', 'type': 'identifier', 'children': [], 'value': 'radia_options'}; {'id': '166', 'type': 'identifier', 'children': [], 'value': 'chrom'}; {'id': '167', 'type': 'keyword_argument', 'children': ['168', '169']}; {'id': '168', 'type': 'identifier', 'children': [], 'value': 'memory'}; {'id': '169', 'type': 'string', 'children': [], 'value': "'6G'"}; {'id': '170', 'type': 'keyword_argument', 'children': ['171', '172']}; {'id': '171', 'type': 'identifier', 'children': [], 'value': 'disk'}; {'id': '172', 'type': 'call', 'children': ['173', '174']}; {'id': '173', 'type': 'identifier', 'children': [], 'value': 'PromisedRequirement'}; {'id': '174', 'type': 'argument_list', 'children': ['175', '176', '179', '182', '185']}; {'id': '175', 'type': 'identifier', 'children': [], 'value': 'radia_disk'}; {'id': '176', 'type': 'subscript', 'children': ['177', '178']}; {'id': '177', 'type': 'identifier', 'children': [], 'value': 'tumor_bam'}; {'id': '178', 'type': 'string', 'children': [], 'value': "'tumor_dna_fix_pg_sorted.bam'"}; {'id': '179', 'type': 'subscript', 'children': ['180', '181']}; {'id': '180', 'type': 'identifier', 'children': [], 'value': 'normal_bam'}; {'id': '181', 'type': 'string', 'children': [], 'value': "'normal_dna_fix_pg_sorted.bam'"}; {'id': '182', 'type': 'subscript', 'children': ['183', '184']}; {'id': '183', 'type': 'identifier', 'children': [], 'value': 'rna_bam'}; {'id': '184', 'type': 'string', 'children': [], 'value': "'rna_genome_sorted.bam'"}; {'id': '185', 'type': 'subscript', 'children': ['186', '187']}; {'id': '186', 'type': 'identifier', 'children': [], 'value': 'radia_options'}; {'id': '187', 'type': 'string', 'children': [], 'value': "'genome_fasta'"}; {'id': '188', 'type': 'expression_statement', 'children': ['189']}; {'id': '189', 'type': 'assignment', 'children': ['190', '193']}; {'id': '190', 'type': 'subscript', 'children': ['191', '192']}; {'id': '191', 'type': 'identifier', 'children': [], 'value': 'perchrom_radia'}; {'id': '192', 'type': 'identifier', 'children': [], 'value': 'chrom'}; {'id': '193', 'type': 'call', 'children': ['194', '197']}; {'id': '194', 'type': 'attribute', 'children': ['195', '196']}; {'id': '195', 'type': 'identifier', 'children': [], 'value': 'filter_radia'}; {'id': '196', 'type': 'identifier', 'children': [], 'value': 'rv'}; {'id': '197', 'type': 'argument_list', 'children': []}; {'id': '198', 'type': 'expression_statement', 'children': ['199']}; {'id': '199', 'type': 'call', 'children': ['200', '205']}; {'id': '200', 'type': 'attribute', 'children': ['201', '204']}; {'id': '201', 'type': 'attribute', 'children': ['202', '203']}; {'id': '202', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '203', 'type': 'identifier', 'children': [], 'value': 'fileStore'}; {'id': '204', 'type': 'identifier', 'children': [], 'value': 'logToMaster'}; {'id': '205', 'type': 'argument_list', 'children': ['206']}; {'id': '206', 'type': 'binary_operator', 'children': ['207', '208'], 'value': '%'}; {'id': '207', 'type': 'string', 'children': [], 'value': "'Ran spawn_radia on %s successfully'"}; {'id': '208', 'type': 'subscript', 'children': ['209', '210']}; {'id': '209', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '210', 'type': 'string', 'children': [], 'value': "'patient'"}; {'id': '211', 'type': 'return_statement', 'children': ['212']}; {'id': '212', 'type': 'identifier', 'children': [], 'value': 'perchrom_radia'} | def run_radia(job, rna_bam, tumor_bam, normal_bam, univ_options, radia_options):
if 'rna_genome' in rna_bam.keys():
rna_bam = rna_bam['rna_genome']
elif set(rna_bam.keys()) == {'rna_genome_sorted.bam', 'rna_genome_sorted.bam.bai'}:
pass
else:
raise RuntimeError('An improperly formatted dict was passed to rna_bam.')
bams = {'tumor_rna': rna_bam['rna_genome_sorted.bam'],
'tumor_rnai': rna_bam['rna_genome_sorted.bam.bai'],
'tumor_dna': tumor_bam['tumor_dna_fix_pg_sorted.bam'],
'tumor_dnai': tumor_bam['tumor_dna_fix_pg_sorted.bam.bai'],
'normal_dna': normal_bam['normal_dna_fix_pg_sorted.bam'],
'normal_dnai': normal_bam['normal_dna_fix_pg_sorted.bam.bai']}
if radia_options['chromosomes']:
chromosomes = radia_options['chromosomes']
else:
chromosomes = sample_chromosomes(job, radia_options['genome_fai'])
perchrom_radia = defaultdict()
for chrom in chromosomes:
radia = job.addChildJobFn(run_radia_perchrom, bams, univ_options, radia_options, chrom,
memory='6G',
disk=PromisedRequirement(
radia_disk, tumor_bam['tumor_dna_fix_pg_sorted.bam'],
normal_bam['normal_dna_fix_pg_sorted.bam'],
rna_bam['rna_genome_sorted.bam'],
radia_options['genome_fasta']))
filter_radia = radia.addChildJobFn(run_filter_radia, bams, radia.rv(), univ_options,
radia_options, chrom, memory='6G',
disk=PromisedRequirement(
radia_disk, tumor_bam['tumor_dna_fix_pg_sorted.bam'],
normal_bam['normal_dna_fix_pg_sorted.bam'],
rna_bam['rna_genome_sorted.bam'],
radia_options['genome_fasta']))
perchrom_radia[chrom] = filter_radia.rv()
job.fileStore.logToMaster('Ran spawn_radia on %s successfully' % univ_options['patient'])
return perchrom_radia |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '9']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'sort_bamfile'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '7', '8']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'bamfile'}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'sample_type'}; {'id': '7', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '8', 'type': 'identifier', 'children': [], 'value': 'samtools_options'}; {'id': '9', 'type': 'block', 'children': ['10', '18', '29', '40', '47', '59', '83', '106', '115', '130']}; {'id': '10', 'type': 'expression_statement', 'children': ['11']}; {'id': '11', 'type': 'assignment', 'children': ['12', '13']}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '13', 'type': 'call', 'children': ['14', '17']}; {'id': '14', 'type': 'attribute', 'children': ['15', '16']}; {'id': '15', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '16', 'type': 'identifier', 'children': [], 'value': 'getcwd'}; {'id': '17', 'type': 'argument_list', 'children': []}; {'id': '18', 'type': 'expression_statement', 'children': ['19']}; {'id': '19', 'type': 'assignment', 'children': ['20', '21']}; {'id': '20', 'type': 'identifier', 'children': [], 'value': 'in_bamfile'}; {'id': '21', 'type': 'call', 'children': ['22', '25']}; {'id': '22', 'type': 'attribute', 'children': ['23', '24']}; {'id': '23', 'type': 'string', 'children': [], 'value': "''"}; {'id': '24', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '25', 'type': 'argument_list', 'children': ['26']}; {'id': '26', 'type': 'list', 'children': ['27', '28'], 'value': "[sample_type, '.bam']"}; {'id': '27', 'type': 'identifier', 'children': [], 'value': 'sample_type'}; {'id': '28', 'type': 'string', 'children': [], 'value': "'.bam'"}; {'id': '29', 'type': 'expression_statement', 'children': ['30']}; {'id': '30', 'type': 'assignment', 'children': ['31', '32']}; {'id': '31', 'type': 'identifier', 'children': [], 'value': 'out_bamfile'}; {'id': '32', 'type': 'call', 'children': ['33', '36']}; {'id': '33', 'type': 'attribute', 'children': ['34', '35']}; {'id': '34', 'type': 'string', 'children': [], 'value': "'_'"}; {'id': '35', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '36', 'type': 'argument_list', 'children': ['37']}; {'id': '37', 'type': 'list', 'children': ['38', '39'], 'value': "[sample_type, 'sorted.bam']"}; {'id': '38', 'type': 'identifier', 'children': [], 'value': 'sample_type'}; {'id': '39', 'type': 'string', 'children': [], 'value': "'sorted.bam'"}; {'id': '40', 'type': 'expression_statement', 'children': ['41']}; {'id': '41', 'type': 'assignment', 'children': ['42', '43']}; {'id': '42', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '43', 'type': 'dictionary', 'children': ['44']}; {'id': '44', 'type': 'pair', 'children': ['45', '46']}; {'id': '45', 'type': 'identifier', 'children': [], 'value': 'in_bamfile'}; {'id': '46', 'type': 'identifier', 'children': [], 'value': 'bamfile'}; {'id': '47', 'type': 'expression_statement', 'children': ['48']}; {'id': '48', 'type': 'assignment', 'children': ['49', '50']}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '50', 'type': 'call', 'children': ['51', '52']}; {'id': '51', 'type': 'identifier', 'children': [], 'value': 'get_files_from_filestore'}; {'id': '52', 'type': 'argument_list', 'children': ['53', '54', '55', '56']}; {'id': '53', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '54', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '55', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '56', 'type': 'keyword_argument', 'children': ['57', '58']}; {'id': '57', 'type': 'identifier', 'children': [], 'value': 'docker'}; {'id': '58', 'type': 'True', 'children': []}; {'id': '59', 'type': 'expression_statement', 'children': ['60']}; {'id': '60', 'type': 'assignment', 'children': ['61', '62']}; {'id': '61', 'type': 'identifier', 'children': [], 'value': 'parameters'}; {'id': '62', 'type': 'list', 'children': ['63', '64', '65', '69', '70', '71', '72', '73', '74', '80'], 'value': "['sort',\n '-o', docker_path(out_bamfile),\n '-O', 'bam',\n '-T', 'temp_sorted',\n '-@', str(samtools_options['n']),\n input_files[in_bamfile]]"}; {'id': '63', 'type': 'string', 'children': [], 'value': "'sort'"}; {'id': '64', 'type': 'string', 'children': [], 'value': "'-o'"}; {'id': '65', 'type': 'call', 'children': ['66', '67']}; {'id': '66', 'type': 'identifier', 'children': [], 'value': 'docker_path'}; {'id': '67', 'type': 'argument_list', 'children': ['68']}; {'id': '68', 'type': 'identifier', 'children': [], 'value': 'out_bamfile'}; {'id': '69', 'type': 'string', 'children': [], 'value': "'-O'"}; {'id': '70', 'type': 'string', 'children': [], 'value': "'bam'"}; {'id': '71', 'type': 'string', 'children': [], 'value': "'-T'"}; {'id': '72', 'type': 'string', 'children': [], 'value': "'temp_sorted'"}; {'id': '73', 'type': 'string', 'children': [], 'value': "'-@'"}; {'id': '74', 'type': 'call', 'children': ['75', '76']}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '76', 'type': 'argument_list', 'children': ['77']}; {'id': '77', 'type': 'subscript', 'children': ['78', '79']}; {'id': '78', 'type': 'identifier', 'children': [], 'value': 'samtools_options'}; {'id': '79', 'type': 'string', 'children': [], 'value': "'n'"}; {'id': '80', 'type': 'subscript', 'children': ['81', '82']}; {'id': '81', 'type': 'identifier', 'children': [], 'value': 'input_files'}; {'id': '82', 'type': 'identifier', 'children': [], 'value': 'in_bamfile'}; {'id': '83', 'type': 'expression_statement', 'children': ['84']}; {'id': '84', 'type': 'call', 'children': ['85', '86']}; {'id': '85', 'type': 'identifier', 'children': [], 'value': 'docker_call'}; {'id': '86', 'type': 'argument_list', 'children': ['87', '90', '93', '96', '101']}; {'id': '87', 'type': 'keyword_argument', 'children': ['88', '89']}; {'id': '88', 'type': 'identifier', 'children': [], 'value': 'tool'}; {'id': '89', 'type': 'string', 'children': [], 'value': "'samtools'"}; {'id': '90', 'type': 'keyword_argument', 'children': ['91', '92']}; {'id': '91', 'type': 'identifier', 'children': [], 'value': 'tool_parameters'}; {'id': '92', 'type': 'identifier', 'children': [], 'value': 'parameters'}; {'id': '93', 'type': 'keyword_argument', 'children': ['94', '95']}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '95', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '96', 'type': 'keyword_argument', 'children': ['97', '98']}; {'id': '97', 'type': 'identifier', 'children': [], 'value': 'dockerhub'}; {'id': '98', 'type': 'subscript', 'children': ['99', '100']}; {'id': '99', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '100', 'type': 'string', 'children': [], 'value': "'dockerhub'"}; {'id': '101', 'type': 'keyword_argument', 'children': ['102', '103']}; {'id': '102', 'type': 'identifier', 'children': [], 'value': 'tool_version'}; {'id': '103', 'type': 'subscript', 'children': ['104', '105']}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'samtools_options'}; {'id': '105', 'type': 'string', 'children': [], 'value': "'version'"}; {'id': '106', 'type': 'expression_statement', 'children': ['107']}; {'id': '107', 'type': 'call', 'children': ['108', '113']}; {'id': '108', 'type': 'attribute', 'children': ['109', '112']}; {'id': '109', 'type': 'attribute', 'children': ['110', '111']}; {'id': '110', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '111', 'type': 'identifier', 'children': [], 'value': 'fileStore'}; {'id': '112', 'type': 'identifier', 'children': [], 'value': 'deleteGlobalFile'}; {'id': '113', 'type': 'argument_list', 'children': ['114']}; {'id': '114', 'type': 'identifier', 'children': [], 'value': 'bamfile'}; {'id': '115', 'type': 'expression_statement', 'children': ['116']}; {'id': '116', 'type': 'call', 'children': ['117', '122']}; {'id': '117', 'type': 'attribute', 'children': ['118', '121']}; {'id': '118', 'type': 'attribute', 'children': ['119', '120']}; {'id': '119', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '120', 'type': 'identifier', 'children': [], 'value': 'fileStore'}; {'id': '121', 'type': 'identifier', 'children': [], 'value': 'logToMaster'}; {'id': '122', 'type': 'argument_list', 'children': ['123']}; {'id': '123', 'type': 'binary_operator', 'children': ['124', '125'], 'value': '%'}; {'id': '124', 'type': 'string', 'children': [], 'value': "'Ran samtools-sort on %s:%s successfully'"}; {'id': '125', 'type': 'tuple', 'children': ['126', '129']}; {'id': '126', 'type': 'subscript', 'children': ['127', '128']}; {'id': '127', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '128', 'type': 'string', 'children': [], 'value': "'patient'"}; {'id': '129', 'type': 'identifier', 'children': [], 'value': 'sample_type'}; {'id': '130', 'type': 'return_statement', 'children': ['131']}; {'id': '131', 'type': 'call', 'children': ['132', '137']}; {'id': '132', 'type': 'attribute', 'children': ['133', '136']}; {'id': '133', 'type': 'attribute', 'children': ['134', '135']}; {'id': '134', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '135', 'type': 'identifier', 'children': [], 'value': 'fileStore'}; {'id': '136', 'type': 'identifier', 'children': [], 'value': 'writeGlobalFile'}; {'id': '137', 'type': 'argument_list', 'children': ['138']}; {'id': '138', 'type': 'identifier', 'children': [], 'value': 'out_bamfile'} | def sort_bamfile(job, bamfile, sample_type, univ_options, samtools_options):
work_dir = os.getcwd()
in_bamfile = ''.join([sample_type, '.bam'])
out_bamfile = '_'.join([sample_type, 'sorted.bam'])
input_files = {
in_bamfile: bamfile}
input_files = get_files_from_filestore(job, input_files, work_dir, docker=True)
parameters = ['sort',
'-o', docker_path(out_bamfile),
'-O', 'bam',
'-T', 'temp_sorted',
'-@', str(samtools_options['n']),
input_files[in_bamfile]]
docker_call(tool='samtools', tool_parameters=parameters, work_dir=work_dir,
dockerhub=univ_options['dockerhub'], tool_version=samtools_options['version'])
job.fileStore.deleteGlobalFile(bamfile)
job.fileStore.logToMaster('Ran samtools-sort on %s:%s successfully'
% (univ_options['patient'], sample_type))
return job.fileStore.writeGlobalFile(out_bamfile) |
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{'id': '15', 'type': 'assignment', 'children': ['16', '17']}; {'id': '16', 'type': 'identifier', 'children': [], 'value': 'is_meta'}; {'id': '17', 'type': 'call', 'children': ['18', '19']}; {'id': '18', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '19', 'type': 'argument_list', 'children': ['20', '21']}; {'id': '20', 'type': 'identifier', 'children': [], 'value': 'data_structure'}; {'id': '21', 'type': 'identifier', 'children': [], 'value': 'Meta'}; {'id': '22', 'type': 'expression_statement', 'children': ['23']}; {'id': '23', 'type': 'assignment', 'children': ['24', '25']}; {'id': '24', 'type': 'identifier', 'children': [], 'value': 'was_dict'}; {'id': '25', 'type': 'call', 'children': ['26', '27']}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '27', 'type': 'argument_list', 'children': ['28', '29']}; {'id': '28', 'type': 'identifier', 'children': [], 'value': 'data_structure'}; {'id': '29', 'type': 'identifier', 'children': [], 'value': 'WasDict'}; 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{'id': '61', 'type': 'except_clause', 'children': ['62']}; {'id': '62', 'type': 'block', 'children': ['63']}; {'id': '63', 'type': 'pass_statement', 'children': []}; {'id': '64', 'type': 'try_statement', 'children': ['65', '74']}; {'id': '65', 'type': 'block', 'children': ['66']}; {'id': '66', 'type': 'expression_statement', 'children': ['67']}; {'id': '67', 'type': 'assignment', 'children': ['68', '69']}; {'id': '68', 'type': 'identifier', 'children': [], 'value': 'data_structure'}; {'id': '69', 'type': 'call', 'children': ['70', '73']}; {'id': '70', 'type': 'attribute', 'children': ['71', '72']}; {'id': '71', 'type': 'identifier', 'children': [], 'value': 'data_structure'}; {'id': '72', 'type': 'identifier', 'children': [], 'value': 'items'}; {'id': '73', 'type': 'argument_list', 'children': []}; {'id': '74', 'type': 'except_clause', 'children': ['75']}; {'id': '75', 'type': 'block', 'children': ['76']}; {'id': '76', 'type': 'pass_statement', 'children': []}; {'id': '77', 'type': 'expression_statement', 'children': ['78']}; 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{'id': '94', 'type': 'if_statement', 'children': ['95', '99']}; {'id': '95', 'type': 'comparison_operator', 'children': ['96', '97'], 'value': '!='}; {'id': '96', 'type': 'identifier', 'children': [], 'value': 'tlen'}; {'id': '97', 'type': 'unary_operator', 'children': ['98'], 'value': '-'}; {'id': '98', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '99', 'type': 'block', 'children': ['100']}; {'id': '100', 'type': 'try_statement', 'children': ['101', '172']}; {'id': '101', 'type': 'block', 'children': ['102']}; {'id': '102', 'type': 'if_statement', 'children': ['103', '104', '132', '152']}; {'id': '103', 'type': 'identifier', 'children': [], 'value': 'was_dict'}; {'id': '104', 'type': 'block', 'children': ['105']}; {'id': '105', 'type': 'return_statement', 'children': ['106']}; {'id': '106', 'type': 'call', 'children': ['107', '108']}; {'id': '107', 'type': 'identifier', 'children': [], 'value': 'tuple'}; {'id': '108', 'type': 'argument_list', 'children': ['109']}; {'id': '109', 'type': 'call', 'children': ['110', '111']}; {'id': '110', 'type': 'identifier', 'children': [], 'value': 'sorted'}; {'id': '111', 'type': 'argument_list', 'children': ['112', '129']}; {'id': '112', 'type': 'list_comprehension', 'children': ['113', '126']}; {'id': '113', 'type': 'tuple', 'children': ['114', '120']}; {'id': '114', 'type': 'call', 'children': ['115', '116']}; {'id': '115', 'type': 'identifier', 'children': [], 'value': 'recursive_sort'}; {'id': '116', 'type': 'argument_list', 'children': ['117']}; {'id': '117', 'type': 'subscript', 'children': ['118', '119']}; {'id': '118', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '119', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '120', 'type': 'call', 'children': ['121', '122']}; {'id': '121', 'type': 'identifier', 'children': [], 'value': 'recursive_sort'}; {'id': '122', 'type': 'argument_list', 'children': ['123']}; {'id': '123', 'type': 'subscript', 'children': ['124', '125']}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '125', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '126', 'type': 'for_in_clause', 'children': ['127', '128']}; {'id': '127', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '128', 'type': 'identifier', 'children': [], 'value': 'data_structure'}; {'id': '129', 'type': 'keyword_argument', 'children': ['130', '131']}; {'id': '130', 'type': 'identifier', 'children': [], 'value': 'key'}; {'id': '131', 'type': 'identifier', 'children': [], 'value': 'TraversalBasedReprCompare'}; {'id': '132', 'type': 'elif_clause', 'children': ['133', '134']}; {'id': '133', 'type': 'identifier', 'children': [], 'value': 'is_meta'}; {'id': '134', 'type': 'block', 'children': ['135']}; {'id': '135', 'type': 'return_statement', 'children': ['136']}; {'id': '136', 'type': 'binary_operator', 'children': ['137', '144'], 'value': '+'}; {'id': '137', 'type': 'subscript', 'children': ['138', '139']}; {'id': '138', 'type': 'identifier', 'children': [], 'value': 'data_structure'}; {'id': '139', 'type': 'slice', 'children': ['140', '141', '142']}; {'id': '140', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '141', 'type': 'colon', 'children': []}; {'id': '142', 'type': 'unary_operator', 'children': ['143'], 'value': '-'}; {'id': '143', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '144', 'type': 'list', 'children': ['145'], 'value': '[\n recursive_sort(\n data_structure[-1]\n )\n ]'}; {'id': '145', 'type': 'call', 'children': ['146', '147']}; {'id': '146', 'type': 'identifier', 'children': [], 'value': 'recursive_sort'}; {'id': '147', 'type': 'argument_list', 'children': ['148']}; {'id': '148', 'type': 'subscript', 'children': ['149', '150']}; {'id': '149', 'type': 'identifier', 'children': [], 'value': 'data_structure'}; {'id': '150', 'type': 'unary_operator', 'children': ['151'], 'value': '-'}; {'id': '151', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '152', 'type': 'else_clause', 'children': ['153']}; {'id': '153', 'type': 'block', 'children': ['154']}; {'id': '154', 'type': 'return_statement', 'children': ['155']}; {'id': '155', 'type': 'call', 'children': ['156', '157']}; {'id': '156', 'type': 'identifier', 'children': [], 'value': 'tuple'}; {'id': '157', 'type': 'argument_list', 'children': ['158']}; {'id': '158', 'type': 'call', 'children': ['159', '160']}; {'id': '159', 'type': 'identifier', 'children': [], 'value': 'sorted'}; {'id': '160', 'type': 'argument_list', 'children': ['161', '169']}; {'id': '161', 'type': 'list_comprehension', 'children': ['162', '166']}; {'id': '162', 'type': 'call', 'children': ['163', '164']}; {'id': '163', 'type': 'identifier', 'children': [], 'value': 'recursive_sort'}; {'id': '164', 'type': 'argument_list', 'children': ['165']}; {'id': '165', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '166', 'type': 'for_in_clause', 'children': ['167', '168']}; {'id': '167', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '168', 'type': 'identifier', 'children': [], 'value': 'data_structure'}; {'id': '169', 'type': 'keyword_argument', 'children': ['170', '171']}; {'id': '170', 'type': 'identifier', 'children': [], 'value': 'key'}; {'id': '171', 'type': 'identifier', 'children': [], 'value': 'TraversalBasedReprCompare'}; {'id': '172', 'type': 'except_clause', 'children': ['173']}; {'id': '173', 'type': 'block', 'children': ['174']}; {'id': '174', 'type': 'pass_statement', 'children': []}; {'id': '175', 'type': 'return_statement', 'children': ['176']}; {'id': '176', 'type': 'identifier', 'children': [], 'value': 'data_structure'} | def recursive_sort(data_structure):
if not isinstance(data_structure, _primitive_types):
is_meta = isinstance(data_structure, Meta)
was_dict = isinstance(data_structure, WasDict)
if not (is_meta or was_dict):
was_dict = isinstance(data_structure, dict)
if not was_dict:
try:
data_structure = data_structure.__dict__
was_dict = True
except:
pass
try:
data_structure = data_structure.items()
except:
pass
tlen = -1
try:
tlen = len(data_structure)
except:
pass
if tlen != -1:
try:
if was_dict:
return tuple(sorted(
[
(
recursive_sort(x[0]),
recursive_sort(x[1]),
)
for x in data_structure
],
key=TraversalBasedReprCompare
))
elif is_meta:
return data_structure[0:-1] + [
recursive_sort(
data_structure[-1]
)
]
else:
return tuple(sorted(
[recursive_sort(
x,
) for x in data_structure],
key=TraversalBasedReprCompare,
))
except:
pass
return data_structure |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '12']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'tree_diff'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '9']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'a'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'b'}; {'id': '6', 'type': 'default_parameter', 'children': ['7', '8']}; {'id': '7', 'type': 'identifier', 'children': [], 'value': 'n'}; {'id': '8', 'type': 'integer', 'children': [], 'value': '5'}; {'id': '9', 'type': 'default_parameter', 'children': ['10', '11']}; {'id': '10', 'type': 'identifier', 'children': [], 'value': 'sort'}; {'id': '11', 'type': 'False', 'children': []}; {'id': '12', 'type': 'block', 'children': ['13', '20', '27', '87']}; {'id': '13', 'type': 'expression_statement', 'children': ['14']}; {'id': '14', 'type': 'assignment', 'children': ['15', '16']}; {'id': '15', 'type': 'identifier', 'children': [], 'value': 'a'}; {'id': '16', 'type': 'call', 'children': ['17', '18']}; {'id': '17', 'type': 'identifier', 'children': [], 'value': 'dump'}; {'id': '18', 'type': 'argument_list', 'children': ['19']}; {'id': '19', 'type': 'identifier', 'children': [], 'value': 'a'}; {'id': '20', 'type': 'expression_statement', 'children': ['21']}; {'id': '21', 'type': 'assignment', 'children': ['22', '23']}; {'id': '22', 'type': 'identifier', 'children': [], 'value': 'b'}; {'id': '23', 'type': 'call', 'children': ['24', '25']}; {'id': '24', 'type': 'identifier', 'children': [], 'value': 'dump'}; {'id': '25', 'type': 'argument_list', 'children': ['26']}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'b'}; {'id': '27', 'type': 'if_statement', 'children': ['28', '30', '55']}; {'id': '28', 'type': 'not_operator', 'children': ['29']}; {'id': '29', 'type': 'identifier', 'children': [], 'value': 'sort'}; {'id': '30', 'type': 'block', 'children': ['31', '43']}; {'id': '31', 'type': 'expression_statement', 'children': ['32']}; {'id': '32', 'type': 'assignment', 'children': ['33', '34']}; {'id': '33', 'type': 'identifier', 'children': [], 'value': 'a'}; {'id': '34', 'type': 'call', 'children': ['35', '41']}; {'id': '35', 'type': 'attribute', 'children': ['36', '40']}; {'id': '36', 'type': 'call', 'children': ['37', '38']}; {'id': '37', 'type': 'identifier', 'children': [], 'value': 'vformat'}; {'id': '38', 'type': 'argument_list', 'children': ['39']}; {'id': '39', 'type': 'identifier', 'children': [], 'value': 'a'}; {'id': '40', 'type': 'identifier', 'children': [], 'value': 'split'}; {'id': '41', 'type': 'argument_list', 'children': ['42']}; {'id': '42', 'type': 'string', 'children': [], 'value': '"\\n"'}; {'id': '43', 'type': 'expression_statement', 'children': ['44']}; {'id': '44', 'type': 'assignment', 'children': ['45', '46']}; {'id': '45', 'type': 'identifier', 'children': [], 'value': 'b'}; {'id': '46', 'type': 'call', 'children': ['47', '53']}; {'id': '47', 'type': 'attribute', 'children': ['48', '52']}; {'id': '48', 'type': 'call', 'children': ['49', '50']}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'vformat'}; {'id': '50', 'type': 'argument_list', 'children': ['51']}; {'id': '51', 'type': 'identifier', 'children': [], 'value': 'b'}; {'id': '52', 'type': 'identifier', 'children': [], 'value': 'split'}; {'id': '53', 'type': 'argument_list', 'children': ['54']}; {'id': '54', 'type': 'string', 'children': [], 'value': '"\\n"'}; {'id': '55', 'type': 'else_clause', 'children': ['56']}; {'id': '56', 'type': 'block', 'children': ['57', '72']}; {'id': '57', 'type': 'expression_statement', 'children': ['58']}; {'id': '58', 'type': 'assignment', 'children': ['59', '60']}; {'id': '59', 'type': 'identifier', 'children': [], 'value': 'a'}; {'id': '60', 'type': 'call', 'children': ['61', '70']}; {'id': '61', 'type': 'attribute', 'children': ['62', '69']}; {'id': '62', 'type': 'call', 'children': ['63', '64']}; {'id': '63', 'type': 'identifier', 'children': [], 'value': 'vformat'}; {'id': '64', 'type': 'argument_list', 'children': ['65']}; {'id': '65', 'type': 'call', 'children': ['66', '67']}; {'id': '66', 'type': 'identifier', 'children': [], 'value': 'recursive_sort'}; {'id': '67', 'type': 'argument_list', 'children': ['68']}; {'id': '68', 'type': 'identifier', 'children': [], 'value': 'a'}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'split'}; {'id': '70', 'type': 'argument_list', 'children': ['71']}; {'id': '71', 'type': 'string', 'children': [], 'value': '"\\n"'}; {'id': '72', 'type': 'expression_statement', 'children': ['73']}; {'id': '73', 'type': 'assignment', 'children': ['74', '75']}; {'id': '74', 'type': 'identifier', 'children': [], 'value': 'b'}; {'id': '75', 'type': 'call', 'children': ['76', '85']}; {'id': '76', 'type': 'attribute', 'children': ['77', '84']}; {'id': '77', 'type': 'call', 'children': ['78', '79']}; {'id': '78', 'type': 'identifier', 'children': [], 'value': 'vformat'}; {'id': '79', 'type': 'argument_list', 'children': ['80']}; {'id': '80', 'type': 'call', 'children': ['81', '82']}; {'id': '81', 'type': 'identifier', 'children': [], 'value': 'recursive_sort'}; {'id': '82', 'type': 'argument_list', 'children': ['83']}; {'id': '83', 'type': 'identifier', 'children': [], 'value': 'b'}; {'id': '84', 'type': 'identifier', 'children': [], 'value': 'split'}; {'id': '85', 'type': 'argument_list', 'children': ['86']}; {'id': '86', 'type': 'string', 'children': [], 'value': '"\\n"'}; {'id': '87', 'type': 'return_statement', 'children': ['88']}; {'id': '88', 'type': 'call', 'children': ['89', '92']}; {'id': '89', 'type': 'attribute', 'children': ['90', '91']}; {'id': '90', 'type': 'string', 'children': [], 'value': '"\\n"'}; {'id': '91', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '92', 'type': 'argument_list', 'children': ['93']}; {'id': '93', 'type': 'call', 'children': ['94', '97']}; {'id': '94', 'type': 'attribute', 'children': ['95', '96']}; {'id': '95', 'type': 'identifier', 'children': [], 'value': 'difflib'}; {'id': '96', 'type': 'identifier', 'children': [], 'value': 'unified_diff'}; {'id': '97', 'type': 'argument_list', 'children': ['98', '99', '100', '103']}; {'id': '98', 'type': 'identifier', 'children': [], 'value': 'a'}; {'id': '99', 'type': 'identifier', 'children': [], 'value': 'b'}; {'id': '100', 'type': 'keyword_argument', 'children': ['101', '102']}; {'id': '101', 'type': 'identifier', 'children': [], 'value': 'n'}; {'id': '102', 'type': 'identifier', 'children': [], 'value': 'n'}; {'id': '103', 'type': 'keyword_argument', 'children': ['104', '105']}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'lineterm'}; {'id': '105', 'type': 'string', 'children': [], 'value': '""'} | def tree_diff(a, b, n=5, sort=False):
a = dump(a)
b = dump(b)
if not sort:
a = vformat(a).split("\n")
b = vformat(b).split("\n")
else:
a = vformat(recursive_sort(a)).split("\n")
b = vformat(recursive_sort(b)).split("\n")
return "\n".join(difflib.unified_diff(a, b, n=n, lineterm="")) |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '8']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'merge_perchrom_mutations'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '7']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'chrom'}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'mutations'}; {'id': '7', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '8', 'type': 'block', 'children': ['9', '17', '24', '31', '38', '45', '52', '59', '69', '79', '107', '117', '124', '305', '401', '414', '427']}; {'id': '9', 'type': 'expression_statement', 'children': ['10']}; {'id': '10', 'type': 'assignment', 'children': ['11', '12']}; {'id': '11', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '12', 'type': 'call', 'children': ['13', '16']}; {'id': '13', 'type': 'attribute', 'children': ['14', '15']}; {'id': '14', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '15', 'type': 'identifier', 'children': [], 'value': 'getcwd'}; {'id': '16', 'type': 'argument_list', 'children': []}; {'id': '17', 'type': 'import_from_statement', 'children': ['18', '22']}; {'id': '18', 'type': 'dotted_name', 'children': ['19', '20', '21']}; {'id': '19', 'type': 'identifier', 'children': [], 'value': 'protect'}; {'id': '20', 'type': 'identifier', 'children': [], 'value': 'mutation_calling'}; {'id': '21', 'type': 'identifier', 'children': [], 'value': 'muse'}; {'id': '22', 'type': 'dotted_name', 'children': ['23']}; {'id': '23', 'type': 'identifier', 'children': [], 'value': 'process_muse_vcf'}; {'id': '24', 'type': 'import_from_statement', 'children': ['25', '29']}; {'id': '25', 'type': 'dotted_name', 'children': ['26', '27', '28']}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'protect'}; {'id': '27', 'type': 'identifier', 'children': [], 'value': 'mutation_calling'}; {'id': '28', 'type': 'identifier', 'children': [], 'value': 'mutect'}; {'id': '29', 'type': 'dotted_name', 'children': ['30']}; {'id': '30', 'type': 'identifier', 'children': [], 'value': 'process_mutect_vcf'}; {'id': '31', 'type': 'import_from_statement', 'children': ['32', '36']}; {'id': '32', 'type': 'dotted_name', 'children': ['33', '34', '35']}; {'id': '33', 'type': 'identifier', 'children': [], 'value': 'protect'}; {'id': '34', 'type': 'identifier', 'children': [], 'value': 'mutation_calling'}; {'id': '35', 'type': 'identifier', 'children': [], 'value': 'radia'}; {'id': '36', 'type': 'dotted_name', 'children': ['37']}; {'id': '37', 'type': 'identifier', 'children': [], 'value': 'process_radia_vcf'}; {'id': '38', 'type': 'import_from_statement', 'children': ['39', '43']}; {'id': '39', 'type': 'dotted_name', 'children': ['40', '41', '42']}; {'id': '40', 'type': 'identifier', 'children': [], 'value': 'protect'}; {'id': '41', 'type': 'identifier', 'children': [], 'value': 'mutation_calling'}; {'id': '42', 'type': 'identifier', 'children': [], 'value': 'somaticsniper'}; {'id': '43', 'type': 'dotted_name', 'children': ['44']}; {'id': '44', 'type': 'identifier', 'children': [], 'value': 'process_somaticsniper_vcf'}; {'id': '45', 'type': 'import_from_statement', 'children': ['46', '50']}; {'id': '46', 'type': 'dotted_name', 'children': ['47', '48', '49']}; {'id': '47', 'type': 'identifier', 'children': [], 'value': 'protect'}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'mutation_calling'}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'strelka'}; {'id': '50', 'type': 'dotted_name', 'children': ['51']}; {'id': '51', 'type': 'identifier', 'children': [], 'value': 'process_strelka_vcf'}; {'id': '52', 'type': 'expression_statement', 'children': ['53']}; {'id': '53', 'type': 'call', 'children': ['54', '57']}; {'id': '54', 'type': 'attribute', 'children': ['55', '56']}; {'id': '55', 'type': 'identifier', 'children': [], 'value': 'mutations'}; {'id': '56', 'type': 'identifier', 'children': [], 'value': 'pop'}; {'id': '57', 'type': 'argument_list', 'children': ['58']}; {'id': '58', 'type': 'string', 'children': [], 'value': "'indels'"}; {'id': '59', 'type': 'expression_statement', 'children': ['60']}; {'id': '60', 'type': 'assignment', 'children': ['61', '64']}; {'id': '61', 'type': 'subscript', 'children': ['62', '63']}; {'id': '62', 'type': 'identifier', 'children': [], 'value': 'mutations'}; {'id': '63', 'type': 'string', 'children': [], 'value': "'strelka_indels'"}; {'id': '64', 'type': 'subscript', 'children': ['65', '68']}; {'id': '65', 'type': 'subscript', 'children': ['66', '67']}; {'id': '66', 'type': 'identifier', 'children': [], 'value': 'mutations'}; {'id': '67', 'type': 'string', 'children': [], 'value': "'strelka'"}; {'id': '68', 'type': 'string', 'children': [], 'value': "'indels'"}; {'id': '69', 'type': 'expression_statement', 'children': ['70']}; {'id': '70', 'type': 'assignment', 'children': ['71', '74']}; {'id': '71', 'type': 'subscript', 'children': ['72', '73']}; {'id': '72', 'type': 'identifier', 'children': [], 'value': 'mutations'}; {'id': '73', 'type': 'string', 'children': [], 'value': "'strelka_snvs'"}; {'id': '74', 'type': 'subscript', 'children': ['75', '78']}; {'id': '75', 'type': 'subscript', 'children': ['76', '77']}; {'id': '76', 'type': 'identifier', 'children': [], 'value': 'mutations'}; {'id': '77', 'type': 'string', 'children': [], 'value': "'strelka'"}; {'id': '78', 'type': 'string', 'children': [], 'value': "'snvs'"}; {'id': '79', 'type': 'expression_statement', 'children': ['80']}; {'id': '80', 'type': 'assignment', 'children': ['81', '82']}; {'id': '81', 'type': 'identifier', 'children': [], 'value': 'vcf_processor'}; {'id': '82', 'type': 'dictionary', 'children': ['83', '101']}; {'id': '83', 'type': 'pair', 'children': ['84', '85']}; {'id': '84', 'type': 'string', 'children': [], 'value': "'snvs'"}; {'id': '85', 'type': 'dictionary', 'children': ['86', '89', '92', '95', '98']}; {'id': '86', 'type': 'pair', 'children': ['87', '88']}; {'id': '87', 'type': 'string', 'children': [], 'value': "'mutect'"}; {'id': '88', 'type': 'identifier', 'children': [], 'value': 'process_mutect_vcf'}; {'id': '89', 'type': 'pair', 'children': ['90', '91']}; {'id': '90', 'type': 'string', 'children': [], 'value': "'muse'"}; {'id': '91', 'type': 'identifier', 'children': [], 'value': 'process_muse_vcf'}; {'id': '92', 'type': 'pair', 'children': ['93', '94']}; {'id': '93', 'type': 'string', 'children': [], 'value': "'radia'"}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'process_radia_vcf'}; {'id': '95', 'type': 'pair', 'children': ['96', '97']}; {'id': '96', 'type': 'string', 'children': [], 'value': "'somaticsniper'"}; {'id': '97', 'type': 'identifier', 'children': [], 'value': 'process_somaticsniper_vcf'}; {'id': '98', 'type': 'pair', 'children': ['99', '100']}; {'id': '99', 'type': 'string', 'children': [], 'value': "'strelka_snvs'"}; {'id': '100', 'type': 'identifier', 'children': [], 'value': 'process_strelka_vcf'}; {'id': '101', 'type': 'pair', 'children': ['102', '103']}; {'id': '102', 'type': 'string', 'children': [], 'value': "'indels'"}; {'id': '103', 'type': 'dictionary', 'children': ['104']}; {'id': '104', 'type': 'pair', 'children': ['105', '106']}; {'id': '105', 'type': 'string', 'children': [], 'value': "'strelka_indels'"}; {'id': '106', 'type': 'identifier', 'children': [], 'value': 'process_strelka_vcf'}; {'id': '107', 'type': 'expression_statement', 'children': ['108']}; {'id': '108', 'type': 'assignment', 'children': ['109', '110']}; {'id': '109', 'type': 'identifier', 'children': [], 'value': 'majority'}; {'id': '110', 'type': 'dictionary', 'children': ['111', '114']}; {'id': '111', 'type': 'pair', 'children': ['112', '113']}; {'id': '112', 'type': 'string', 'children': [], 'value': "'snvs'"}; {'id': '113', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '114', 'type': 'pair', 'children': ['115', '116']}; {'id': '115', 'type': 'string', 'children': [], 'value': "'indels'"}; {'id': '116', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '117', 'type': 'expression_statement', 'children': ['118']}; {'id': '118', 'type': 'assignment', 'children': ['119', '120']}; {'id': '119', 'type': 'identifier', 'children': [], 'value': 'accepted_hits'}; {'id': '120', 'type': 'call', 'children': ['121', '122']}; {'id': '121', 'type': 'identifier', 'children': [], 'value': 'defaultdict'}; {'id': '122', 'type': 'argument_list', 'children': ['123']}; {'id': '123', 'type': 'identifier', 'children': [], 'value': 'dict'}; {'id': '124', 'type': 'for_statement', 'children': ['125', '126', '131']}; {'id': '125', 'type': 'identifier', 'children': [], 'value': 'mut_type'}; {'id': '126', 'type': 'call', 'children': ['127', '130']}; {'id': '127', 'type': 'attribute', 'children': ['128', '129']}; {'id': '128', 'type': 'identifier', 'children': [], 'value': 'vcf_processor'}; {'id': '129', 'type': 'identifier', 'children': [], 'value': 'keys'}; {'id': '130', 'type': 'argument_list', 'children': []}; {'id': '131', 'type': 'block', 'children': ['132', '158', '168', '177', '196', '216']}; {'id': '132', 'type': 'expression_statement', 'children': ['133']}; {'id': '133', 'type': 'assignment', 'children': ['134', '135']}; {'id': '134', 'type': 'identifier', 'children': [], 'value': 'perchrom_mutations'}; {'id': '135', 'type': 'dictionary_comprehension', 'children': ['136', '153']}; {'id': '136', 'type': 'pair', 'children': ['137', '138']}; {'id': '137', 'type': 'identifier', 'children': [], 'value': 'caller'}; {'id': '138', 'type': 'call', 'children': ['139', '144']}; {'id': '139', 'type': 'subscript', 'children': ['140', '143']}; {'id': '140', 'type': 'subscript', 'children': ['141', '142']}; {'id': '141', 'type': 'identifier', 'children': [], 'value': 'vcf_processor'}; {'id': '142', 'type': 'identifier', 'children': [], 'value': 'mut_type'}; {'id': '143', 'type': 'identifier', 'children': [], 'value': 'caller'}; {'id': '144', 'type': 'argument_list', 'children': ['145', '146', '151', '152']}; {'id': '145', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '146', 'type': 'subscript', 'children': ['147', '150']}; {'id': '147', 'type': 'subscript', 'children': ['148', '149']}; {'id': '148', 'type': 'identifier', 'children': [], 'value': 'mutations'}; {'id': '149', 'type': 'identifier', 'children': [], 'value': 'caller'}; {'id': '150', 'type': 'identifier', 'children': [], 'value': 'chrom'}; {'id': '151', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '152', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '153', 'type': 'for_in_clause', 'children': ['154', '155']}; {'id': '154', 'type': 'identifier', 'children': [], 'value': 'caller'}; {'id': '155', 'type': 'subscript', 'children': ['156', '157']}; {'id': '156', 'type': 'identifier', 'children': [], 'value': 'vcf_processor'}; {'id': '157', 'type': 'identifier', 'children': [], 'value': 'mut_type'}; {'id': '158', 'type': 'expression_statement', 'children': ['159']}; {'id': '159', 'type': 'assignment', 'children': ['160', '163']}; {'id': '160', 'type': 'subscript', 'children': ['161', '162']}; {'id': '161', 'type': 'identifier', 'children': [], 'value': 'perchrom_mutations'}; {'id': '162', 'type': 'string', 'children': [], 'value': "'strelka'"}; {'id': '163', 'type': 'subscript', 'children': ['164', '165']}; {'id': '164', 'type': 'identifier', 'children': [], 'value': 'perchrom_mutations'}; {'id': '165', 'type': 'binary_operator', 'children': ['166', '167'], 'value': '+'}; {'id': '166', 'type': 'string', 'children': [], 'value': "'strelka_'"}; {'id': '167', 'type': 'identifier', 'children': [], 'value': 'mut_type'}; {'id': '168', 'type': 'expression_statement', 'children': ['169']}; {'id': '169', 'type': 'call', 'children': ['170', '173']}; {'id': '170', 'type': 'attribute', 'children': ['171', '172']}; {'id': '171', 'type': 'identifier', 'children': [], 'value': 'perchrom_mutations'}; {'id': '172', 'type': 'identifier', 'children': [], 'value': 'pop'}; {'id': '173', 'type': 'argument_list', 'children': ['174']}; {'id': '174', 'type': 'binary_operator', 'children': ['175', '176'], 'value': '+'}; {'id': '175', 'type': 'string', 'children': [], 'value': "'strelka_'"}; {'id': '176', 'type': 'identifier', 'children': [], 'value': 'mut_type'}; {'id': '177', 'type': 'expression_statement', 'children': ['178']}; {'id': '178', 'type': 'assignment', 'children': ['179', '180']}; {'id': '179', 'type': 'identifier', 'children': [], 'value': 'vcf_lists'}; {'id': '180', 'type': 'dictionary_comprehension', 'children': ['181', '187']}; {'id': '181', 'type': 'pair', 'children': ['182', '183']}; {'id': '182', 'type': 'identifier', 'children': [], 'value': 'caller'}; {'id': '183', 'type': 'call', 'children': ['184', '185']}; {'id': '184', 'type': 'identifier', 'children': [], 'value': 'read_vcf'}; {'id': '185', 'type': 'argument_list', 'children': ['186']}; {'id': '186', 'type': 'identifier', 'children': [], 'value': 'vcf_file'}; {'id': '187', 'type': 'for_in_clause', 'children': ['188', '191']}; {'id': '188', 'type': 'pattern_list', 'children': ['189', '190']}; {'id': '189', 'type': 'identifier', 'children': [], 'value': 'caller'}; {'id': '190', 'type': 'identifier', 'children': [], 'value': 'vcf_file'}; {'id': '191', 'type': 'call', 'children': ['192', '195']}; {'id': '192', 'type': 'attribute', 'children': ['193', '194']}; {'id': '193', 'type': 'identifier', 'children': [], 'value': 'perchrom_mutations'}; {'id': '194', 'type': 'identifier', 'children': [], 'value': 'items'}; {'id': '195', 'type': 'argument_list', 'children': []}; {'id': '196', 'type': 'expression_statement', 'children': ['197']}; {'id': '197', 'type': 'assignment', 'children': ['198', '199']}; {'id': '198', 'type': 'identifier', 'children': [], 'value': 'all_positions'}; {'id': '199', 'type': 'call', 'children': ['200', '201']}; {'id': '200', 'type': 'identifier', 'children': [], 'value': 'list'}; {'id': '201', 'type': 'argument_list', 'children': ['202']}; {'id': '202', 'type': 'call', 'children': ['203', '204']}; {'id': '203', 'type': 'identifier', 'children': [], 'value': 'set'}; {'id': '204', 'type': 'argument_list', 'children': ['205']}; {'id': '205', 'type': 'call', 'children': ['206', '209']}; {'id': '206', 'type': 'attribute', 'children': ['207', '208']}; {'id': '207', 'type': 'identifier', 'children': [], 'value': 'itertools'}; {'id': '208', 'type': 'identifier', 'children': [], 'value': 'chain'}; {'id': '209', 'type': 'argument_list', 'children': ['210']}; {'id': '210', 'type': 'list_splat', 'children': ['211']}; {'id': '211', 'type': 'call', 'children': ['212', '215']}; {'id': '212', 'type': 'attribute', 'children': ['213', '214']}; {'id': '213', 'type': 'identifier', 'children': [], 'value': 'vcf_lists'}; {'id': '214', 'type': 'identifier', 'children': [], 'value': 'values'}; {'id': '215', 'type': 'argument_list', 'children': []}; {'id': '216', 'type': 'for_statement', 'children': ['217', '218', '222']}; {'id': '217', 'type': 'identifier', 'children': [], 'value': 'position'}; {'id': '218', 'type': 'call', 'children': ['219', '220']}; {'id': '219', 'type': 'identifier', 'children': [], 'value': 'sorted'}; {'id': '220', 'type': 'argument_list', 'children': ['221']}; {'id': '221', 'type': 'identifier', 'children': [], 'value': 'all_positions'}; {'id': '222', 'type': 'block', 'children': ['223', '241']}; {'id': '223', 'type': 'expression_statement', 'children': ['224']}; {'id': '224', 'type': 'assignment', 'children': ['225', '226']}; {'id': '225', 'type': 'identifier', 'children': [], 'value': 'hits'}; {'id': '226', 'type': 'dictionary_comprehension', 'children': ['227', '234']}; {'id': '227', 'type': 'pair', 'children': ['228', '229']}; {'id': '228', 'type': 'identifier', 'children': [], 'value': 'caller'}; {'id': '229', 'type': 'comparison_operator', 'children': ['230', '231'], 'value': 'in'}; {'id': '230', 'type': 'identifier', 'children': [], 'value': 'position'}; {'id': '231', 'type': 'subscript', 'children': ['232', '233']}; {'id': '232', 'type': 'identifier', 'children': [], 'value': 'vcf_lists'}; {'id': '233', 'type': 'identifier', 'children': [], 'value': 'caller'}; {'id': '234', 'type': 'for_in_clause', 'children': ['235', '236']}; {'id': '235', 'type': 'identifier', 'children': [], 'value': 'caller'}; {'id': '236', 'type': 'call', 'children': ['237', '240']}; {'id': '237', 'type': 'attribute', 'children': ['238', '239']}; {'id': '238', 'type': 'identifier', 'children': [], 'value': 'perchrom_mutations'}; {'id': '239', 'type': 'identifier', 'children': [], 'value': 'keys'}; {'id': '240', 'type': 'argument_list', 'children': []}; {'id': '241', 'type': 'if_statement', 'children': ['242', '254']}; {'id': '242', 'type': 'comparison_operator', 'children': ['243', '251'], 'value': '>='}; {'id': '243', 'type': 'call', 'children': ['244', '245']}; {'id': '244', 'type': 'identifier', 'children': [], 'value': 'sum'}; {'id': '245', 'type': 'argument_list', 'children': ['246']}; {'id': '246', 'type': 'call', 'children': ['247', '250']}; {'id': '247', 'type': 'attribute', 'children': ['248', '249']}; {'id': '248', 'type': 'identifier', 'children': [], 'value': 'hits'}; {'id': '249', 'type': 'identifier', 'children': [], 'value': 'values'}; {'id': '250', 'type': 'argument_list', 'children': []}; {'id': '251', 'type': 'subscript', 'children': ['252', '253']}; {'id': '252', 'type': 'identifier', 'children': [], 'value': 'majority'}; {'id': '253', 'type': 'identifier', 'children': [], 'value': 'mut_type'}; {'id': '254', 'type': 'block', 'children': ['255', '276', '286']}; {'id': '255', 'type': 'expression_statement', 'children': ['256']}; {'id': '256', 'type': 'assignment', 'children': ['257', '258']}; {'id': '257', 'type': 'identifier', 'children': [], 'value': 'callers'}; {'id': '258', 'type': 'call', 'children': ['259', '262']}; {'id': '259', 'type': 'attribute', 'children': ['260', '261']}; {'id': '260', 'type': 'string', 'children': [], 'value': "','"}; {'id': '261', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '262', 'type': 'argument_list', 'children': ['263']}; {'id': '263', 'type': 'list_comprehension', 'children': ['264', '265', '274']}; {'id': '264', 'type': 'identifier', 'children': [], 'value': 'caller'}; {'id': '265', 'type': 'for_in_clause', 'children': ['266', '269']}; {'id': '266', 'type': 'pattern_list', 'children': ['267', '268']}; {'id': '267', 'type': 'identifier', 'children': [], 'value': 'caller'}; {'id': '268', 'type': 'identifier', 'children': [], 'value': 'hit'}; {'id': '269', 'type': 'call', 'children': ['270', '273']}; {'id': '270', 'type': 'attribute', 'children': ['271', '272']}; {'id': '271', 'type': 'identifier', 'children': [], 'value': 'hits'}; {'id': '272', 'type': 'identifier', 'children': [], 'value': 'items'}; {'id': '273', 'type': 'argument_list', 'children': []}; {'id': '274', 'type': 'if_clause', 'children': ['275']}; {'id': '275', 'type': 'identifier', 'children': [], 'value': 'hit'}; {'id': '276', 'type': 'assert_statement', 'children': ['277']}; {'id': '277', 'type': 'comparison_operator', 'children': ['278', '281'], 'value': 'not'}; {'id': '278', 'type': 'subscript', 'children': ['279', '280']}; {'id': '279', 'type': 'identifier', 'children': [], 'value': 'position'}; {'id': '280', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '281', 'type': 'subscript', 'children': ['282', '283']}; {'id': '282', 'type': 'identifier', 'children': [], 'value': 'accepted_hits'}; {'id': '283', 'type': 'subscript', 'children': ['284', '285']}; {'id': '284', 'type': 'identifier', 'children': [], 'value': 'position'}; {'id': '285', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '286', 'type': 'expression_statement', 'children': ['287']}; {'id': '287', 'type': 'assignment', 'children': ['288', '297']}; {'id': '288', 'type': 'subscript', 'children': ['289', '294']}; {'id': '289', 'type': 'subscript', 'children': ['290', '291']}; {'id': '290', 'type': 'identifier', 'children': [], 'value': 'accepted_hits'}; {'id': '291', 'type': 'subscript', 'children': ['292', '293']}; {'id': '292', 'type': 'identifier', 'children': [], 'value': 'position'}; {'id': '293', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '294', 'type': 'subscript', 'children': ['295', '296']}; {'id': '295', 'type': 'identifier', 'children': [], 'value': 'position'}; {'id': '296', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '297', 'type': 'tuple', 'children': ['298', '301', '304']}; {'id': '298', 'type': 'subscript', 'children': ['299', '300']}; {'id': '299', 'type': 'identifier', 'children': [], 'value': 'position'}; {'id': '300', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '301', 'type': 'subscript', 'children': ['302', '303']}; {'id': '302', 'type': 'identifier', 'children': [], 'value': 'position'}; {'id': '303', 'type': 'integer', 'children': [], 'value': '3'}; {'id': '304', 'type': 'identifier', 'children': [], 'value': 'callers'}; {'id': '305', 'type': 'with_statement', 'children': ['306', '325']}; {'id': '306', 'type': 'with_clause', 'children': ['307']}; {'id': '307', 'type': 'with_item', 'children': ['308']}; {'id': '308', 'type': 'as_pattern', 'children': ['309', '323']}; {'id': '309', 'type': 'call', 'children': ['310', '311']}; {'id': '310', 'type': 'identifier', 'children': [], 'value': 'open'}; {'id': '311', 'type': 'argument_list', 'children': ['312', '322']}; {'id': '312', 'type': 'call', 'children': ['313', '316']}; {'id': '313', 'type': 'attribute', 'children': ['314', '315']}; {'id': '314', 'type': 'string', 'children': [], 'value': "''"}; {'id': '315', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '316', 'type': 'argument_list', 'children': ['317']}; {'id': '317', 'type': 'list', 'children': ['318', '319', '320', '321'], 'value': "[work_dir, '/', chrom, '.vcf']"}; {'id': '318', 'type': 'identifier', 'children': [], 'value': 'work_dir'}; {'id': '319', 'type': 'string', 'children': [], 'value': "'/'"}; {'id': '320', 'type': 'identifier', 'children': [], 'value': 'chrom'}; {'id': '321', 'type': 'string', 'children': [], 'value': "'.vcf'"}; {'id': '322', 'type': 'string', 'children': [], 'value': "'w'"}; {'id': '323', 'type': 'as_pattern_target', 'children': ['324']}; {'id': '324', 'type': 'identifier', 'children': [], 'value': 'outfile'}; {'id': '325', 'type': 'block', 'children': ['326', '334']}; {'id': '326', 'type': 'expression_statement', 'children': ['327']}; {'id': '327', 'type': 'call', 'children': ['328', '329']}; {'id': '328', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '329', 'type': 'argument_list', 'children': ['330', '331']}; {'id': '330', 'type': 'string', 'children': [], 'value': "'\n print('"}; {'id': '331', 'type': 'ERROR', 'children': ['332', '333']}; {'id': '332', 'type': 'identifier', 'children': [], 'value': 'file'}; {'id': '333', 'type': 'identifier', 'children': [], 'value': 'outfile'}; {'id': '334', 'type': 'expression_statement', 'children': ['335']}; {'id': '335', 'type': 'assignment', 'children': ['336', '337', '350', '352']}; {'id': '336', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '337', 'type': 'ERROR', 'children': ['338', '340']}; {'id': '338', 'type': 'ERROR', 'children': ['339']}; {'id': '339', 'type': 'identifier', 'children': [], 'value': 'for'}; {'id': '340', 'type': 'comparison_operator', 'children': ['341', '342'], 'value': 'in'}; {'id': '341', 'type': 'identifier', 'children': [], 'value': 'chrom'}; {'id': '342', 'type': 'call', 'children': ['343', '344']}; {'id': '343', 'type': 'identifier', 'children': [], 'value': 'chrom_sorted'}; {'id': '344', 'type': 'argument_list', 'children': ['345']}; {'id': '345', 'type': 'call', 'children': ['346', '349']}; {'id': '346', 'type': 'attribute', 'children': ['347', '348']}; {'id': '347', 'type': 'identifier', 'children': [], 'value': 'accepted_hits'}; {'id': '348', 'type': 'identifier', 'children': [], 'value': 'keys'}; {'id': '349', 'type': 'argument_list', 'children': []}; {'id': '350', 'type': 'ERROR', 'children': ['351']}; {'id': '351', 'type': 'identifier', 'children': [], 'value': 'for'}; {'id': '352', 'type': 'type', 'children': ['353']}; {'id': '353', 'type': 'constrained_type', 'children': ['354', '363']}; {'id': '354', 'type': 'type', 'children': ['355']}; {'id': '355', 'type': 'comparison_operator', 'children': ['356', '357'], 'value': 'in'}; {'id': '356', 'type': 'identifier', 'children': [], 'value': 'position'}; {'id': '357', 'type': 'call', 'children': ['358', '359']}; {'id': '358', 'type': 'identifier', 'children': [], 'value': 'sorted'}; {'id': '359', 'type': 'argument_list', 'children': ['360']}; {'id': '360', 'type': 'subscript', 'children': ['361', '362']}; {'id': '361', 'type': 'identifier', 'children': [], 'value': 'accepted_hits'}; {'id': '362', 'type': 'identifier', 'children': [], 'value': 'chrom'}; {'id': '363', 'type': 'type', 'children': ['364']}; {'id': '364', 'type': 'call', 'children': ['365', '366']}; {'id': '365', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '366', 'type': 'argument_list', 'children': ['367', '368', '369', '370', '377', '384', '385', '386', '395', '398']}; {'id': '367', 'type': 'identifier', 'children': [], 'value': 'chrom'}; {'id': '368', 'type': 'identifier', 'children': [], 'value': 'position'}; {'id': '369', 'type': 'string', 'children': [], 'value': "'.'"}; {'id': '370', 'type': 'subscript', 'children': ['371', '376']}; {'id': '371', 'type': 'subscript', 'children': ['372', '375']}; {'id': '372', 'type': 'subscript', 'children': ['373', '374']}; {'id': '373', 'type': 'identifier', 'children': [], 'value': 'accepted_hits'}; {'id': '374', 'type': 'identifier', 'children': [], 'value': 'chrom'}; {'id': '375', 'type': 'identifier', 'children': [], 'value': 'position'}; {'id': '376', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '377', 'type': 'subscript', 'children': ['378', '383']}; {'id': '378', 'type': 'subscript', 'children': ['379', '382']}; {'id': '379', 'type': 'subscript', 'children': ['380', '381']}; {'id': '380', 'type': 'identifier', 'children': [], 'value': 'accepted_hits'}; {'id': '381', 'type': 'identifier', 'children': [], 'value': 'chrom'}; {'id': '382', 'type': 'identifier', 'children': [], 'value': 'position'}; {'id': '383', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '384', 'type': 'string', 'children': [], 'value': "'.'"}; {'id': '385', 'type': 'string', 'children': [], 'value': "'PASS'"}; {'id': '386', 'type': 'binary_operator', 'children': ['387', '388'], 'value': '+'}; {'id': '387', 'type': 'string', 'children': [], 'value': "'callers='"}; {'id': '388', 'type': 'subscript', 'children': ['389', '394']}; {'id': '389', 'type': 'subscript', 'children': ['390', '393']}; {'id': '390', 'type': 'subscript', 'children': ['391', '392']}; {'id': '391', 'type': 'identifier', 'children': [], 'value': 'accepted_hits'}; {'id': '392', 'type': 'identifier', 'children': [], 'value': 'chrom'}; {'id': '393', 'type': 'identifier', 'children': [], 'value': 'position'}; {'id': '394', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '395', 'type': 'keyword_argument', 'children': ['396', '397']}; {'id': '396', 'type': 'identifier', 'children': [], 'value': 'sep'}; {'id': '397', 'type': 'string', 'children': [], 'value': "'\\t'"}; {'id': '398', 'type': 'keyword_argument', 'children': ['399', '400']}; {'id': '399', 'type': 'identifier', 'children': [], 'value': 'file'}; {'id': '400', 'type': 'identifier', 'children': [], 'value': 'outfile'}; {'id': '401', 'type': 'expression_statement', 'children': ['402']}; {'id': '402', 'type': 'assignment', 'children': ['403', '404']}; {'id': '403', 'type': 'identifier', 'children': [], 'value': 'fsid'}; {'id': '404', 'type': 'call', 'children': ['405', '410']}; {'id': '405', 'type': 'attribute', 'children': ['406', '409']}; {'id': '406', 'type': 'attribute', 'children': ['407', '408']}; {'id': '407', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '408', 'type': 'identifier', 'children': [], 'value': 'fileStore'}; {'id': '409', 'type': 'identifier', 'children': [], 'value': 'writeGlobalFile'}; {'id': '410', 'type': 'argument_list', 'children': ['411']}; {'id': '411', 'type': 'attribute', 'children': ['412', '413']}; {'id': '412', 'type': 'identifier', 'children': [], 'value': 'outfile'}; {'id': '413', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '414', 'type': 'expression_statement', 'children': ['415']}; {'id': '415', 'type': 'call', 'children': ['416', '417']}; {'id': '416', 'type': 'identifier', 'children': [], 'value': 'export_results'}; {'id': '417', 'type': 'argument_list', 'children': ['418', '419', '420', '423', '424']}; {'id': '418', 'type': 'identifier', 'children': [], 'value': 'job'}; {'id': '419', 'type': 'identifier', 'children': [], 'value': 'fsid'}; {'id': '420', 'type': 'attribute', 'children': ['421', '422']}; {'id': '421', 'type': 'identifier', 'children': [], 'value': 'outfile'}; {'id': '422', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '423', 'type': 'identifier', 'children': [], 'value': 'univ_options'}; {'id': '424', 'type': 'keyword_argument', 'children': ['425', '426']}; {'id': '425', 'type': 'identifier', 'children': [], 'value': 'subfolder'}; {'id': '426', 'type': 'string', 'children': [], 'value': "'mutations/merged'"}; {'id': '427', 'type': 'return_statement', 'children': ['428']}; {'id': '428', 'type': 'identifier', 'children': [], 'value': 'fsid'} | def merge_perchrom_mutations(job, chrom, mutations, univ_options):
work_dir = os.getcwd()
from protect.mutation_calling.muse import process_muse_vcf
from protect.mutation_calling.mutect import process_mutect_vcf
from protect.mutation_calling.radia import process_radia_vcf
from protect.mutation_calling.somaticsniper import process_somaticsniper_vcf
from protect.mutation_calling.strelka import process_strelka_vcf
mutations.pop('indels')
mutations['strelka_indels'] = mutations['strelka']['indels']
mutations['strelka_snvs'] = mutations['strelka']['snvs']
vcf_processor = {'snvs': {'mutect': process_mutect_vcf,
'muse': process_muse_vcf,
'radia': process_radia_vcf,
'somaticsniper': process_somaticsniper_vcf,
'strelka_snvs': process_strelka_vcf
},
'indels': {'strelka_indels': process_strelka_vcf
}
}
majority = {'snvs': 2,
'indels': 1}
accepted_hits = defaultdict(dict)
for mut_type in vcf_processor.keys():
perchrom_mutations = {caller: vcf_processor[mut_type][caller](job, mutations[caller][chrom],
work_dir, univ_options)
for caller in vcf_processor[mut_type]}
perchrom_mutations['strelka'] = perchrom_mutations['strelka_' + mut_type]
perchrom_mutations.pop('strelka_' + mut_type)
vcf_lists = {caller: read_vcf(vcf_file) for caller, vcf_file in perchrom_mutations.items()}
all_positions = list(set(itertools.chain(*vcf_lists.values())))
for position in sorted(all_positions):
hits = {caller: position in vcf_lists[caller] for caller in perchrom_mutations.keys()}
if sum(hits.values()) >= majority[mut_type]:
callers = ','.join([caller for caller, hit in hits.items() if hit])
assert position[1] not in accepted_hits[position[0]]
accepted_hits[position[0]][position[1]] = (position[2], position[3], callers)
with open(''.join([work_dir, '/', chrom, '.vcf']), 'w') as outfile:
print('
print('
file=outfile)
print('
for chrom in chrom_sorted(accepted_hits.keys()):
for position in sorted(accepted_hits[chrom]):
print(chrom, position, '.', accepted_hits[chrom][position][0],
accepted_hits[chrom][position][1], '.', 'PASS',
'callers=' + accepted_hits[chrom][position][2], sep='\t', file=outfile)
fsid = job.fileStore.writeGlobalFile(outfile.name)
export_results(job, fsid, outfile.name, univ_options, subfolder='mutations/merged')
return fsid |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '10']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'check'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '7']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'domain'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'prefix'}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'code'}; {'id': '7', 'type': 'default_parameter', 'children': ['8', '9']}; {'id': '8', 'type': 'identifier', 'children': [], 'value': 'strategies'}; {'id': '9', 'type': 'string', 'children': [], 'value': "'*'"}; {'id': '10', 'type': 'block', 'children': ['11', '30', '49', '68', '87']}; {'id': '11', 'type': 'if_statement', 'children': ['12', '19']}; {'id': '12', 'type': 'boolean_operator', 'children': ['13', '16'], 'value': 'or'}; {'id': '13', 'type': 'comparison_operator', 'children': ['14', '15'], 'value': '=='}; {'id': '14', 'type': 'identifier', 'children': [], 'value': 'strategies'}; {'id': '15', 'type': 'string', 'children': [], 'value': "'*'"}; {'id': '16', 'type': 'comparison_operator', 'children': ['17', '18'], 'value': 'in'}; {'id': '17', 'type': 'string', 'children': [], 'value': "'dns_txt'"}; {'id': '18', 'type': 'identifier', 'children': [], 'value': 'strategies'}; {'id': '19', 'type': 'block', 'children': ['20']}; {'id': '20', 'type': 'if_statement', 'children': ['21', '27']}; {'id': '21', 'type': 'call', 'children': ['22', '23']}; {'id': '22', 'type': 'identifier', 'children': [], 'value': 'check_dns_txt'}; {'id': '23', 'type': 'argument_list', 'children': ['24', '25', '26']}; {'id': '24', 'type': 'identifier', 'children': [], 'value': 'domain'}; {'id': '25', 'type': 'identifier', 'children': [], 'value': 'prefix'}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'code'}; {'id': '27', 'type': 'block', 'children': ['28']}; {'id': '28', 'type': 'return_statement', 'children': ['29']}; {'id': '29', 'type': 'True', 'children': []}; {'id': '30', 'type': 'if_statement', 'children': ['31', '38']}; {'id': '31', 'type': 'boolean_operator', 'children': ['32', '35'], 'value': 'or'}; {'id': '32', 'type': 'comparison_operator', 'children': ['33', '34'], 'value': '=='}; {'id': '33', 'type': 'identifier', 'children': [], 'value': 'strategies'}; {'id': '34', 'type': 'string', 'children': [], 'value': "'*'"}; {'id': '35', 'type': 'comparison_operator', 'children': ['36', '37'], 'value': 'in'}; {'id': '36', 'type': 'string', 'children': [], 'value': "'dns_cname'"}; {'id': '37', 'type': 'identifier', 'children': [], 'value': 'strategies'}; {'id': '38', 'type': 'block', 'children': ['39']}; {'id': '39', 'type': 'if_statement', 'children': ['40', '46']}; {'id': '40', 'type': 'call', 'children': ['41', '42']}; {'id': '41', 'type': 'identifier', 'children': [], 'value': 'check_dns_cname'}; {'id': '42', 'type': 'argument_list', 'children': ['43', '44', '45']}; {'id': '43', 'type': 'identifier', 'children': [], 'value': 'domain'}; {'id': '44', 'type': 'identifier', 'children': [], 'value': 'prefix'}; {'id': '45', 'type': 'identifier', 'children': [], 'value': 'code'}; {'id': '46', 'type': 'block', 'children': ['47']}; {'id': '47', 'type': 'return_statement', 'children': ['48']}; {'id': '48', 'type': 'True', 'children': []}; {'id': '49', 'type': 'if_statement', 'children': ['50', '57']}; {'id': '50', 'type': 'boolean_operator', 'children': ['51', '54'], 'value': 'or'}; {'id': '51', 'type': 'comparison_operator', 'children': ['52', '53'], 'value': '=='}; {'id': '52', 'type': 'identifier', 'children': [], 'value': 'strategies'}; {'id': '53', 'type': 'string', 'children': [], 'value': "'*'"}; {'id': '54', 'type': 'comparison_operator', 'children': ['55', '56'], 'value': 'in'}; {'id': '55', 'type': 'string', 'children': [], 'value': "'meta_tag'"}; {'id': '56', 'type': 'identifier', 'children': [], 'value': 'strategies'}; {'id': '57', 'type': 'block', 'children': ['58']}; {'id': '58', 'type': 'if_statement', 'children': ['59', '65']}; {'id': '59', 'type': 'call', 'children': ['60', '61']}; {'id': '60', 'type': 'identifier', 'children': [], 'value': 'check_meta_tag'}; {'id': '61', 'type': 'argument_list', 'children': ['62', '63', '64']}; {'id': '62', 'type': 'identifier', 'children': [], 'value': 'domain'}; {'id': '63', 'type': 'identifier', 'children': [], 'value': 'prefix'}; {'id': '64', 'type': 'identifier', 'children': [], 'value': 'code'}; {'id': '65', 'type': 'block', 'children': ['66']}; {'id': '66', 'type': 'return_statement', 'children': ['67']}; {'id': '67', 'type': 'True', 'children': []}; {'id': '68', 'type': 'if_statement', 'children': ['69', '76']}; {'id': '69', 'type': 'boolean_operator', 'children': ['70', '73'], 'value': 'or'}; {'id': '70', 'type': 'comparison_operator', 'children': ['71', '72'], 'value': '=='}; {'id': '71', 'type': 'identifier', 'children': [], 'value': 'strategies'}; {'id': '72', 'type': 'string', 'children': [], 'value': "'*'"}; {'id': '73', 'type': 'comparison_operator', 'children': ['74', '75'], 'value': 'in'}; {'id': '74', 'type': 'string', 'children': [], 'value': "'html_file'"}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'strategies'}; {'id': '76', 'type': 'block', 'children': ['77']}; {'id': '77', 'type': 'if_statement', 'children': ['78', '84']}; {'id': '78', 'type': 'call', 'children': ['79', '80']}; {'id': '79', 'type': 'identifier', 'children': [], 'value': 'check_html_file'}; {'id': '80', 'type': 'argument_list', 'children': ['81', '82', '83']}; {'id': '81', 'type': 'identifier', 'children': [], 'value': 'domain'}; {'id': '82', 'type': 'identifier', 'children': [], 'value': 'prefix'}; {'id': '83', 'type': 'identifier', 'children': [], 'value': 'code'}; {'id': '84', 'type': 'block', 'children': ['85']}; {'id': '85', 'type': 'return_statement', 'children': ['86']}; {'id': '86', 'type': 'True', 'children': []}; {'id': '87', 'type': 'return_statement', 'children': ['88']}; {'id': '88', 'type': 'False', 'children': []} | def check(domain, prefix, code, strategies='*'):
if strategies == '*' or 'dns_txt' in strategies:
if check_dns_txt(domain, prefix, code):
return True
if strategies == '*' or 'dns_cname' in strategies:
if check_dns_cname(domain, prefix, code):
return True
if strategies == '*' or 'meta_tag' in strategies:
if check_meta_tag(domain, prefix, code):
return True
if strategies == '*' or 'html_file' in strategies:
if check_html_file(domain, prefix, code):
return True
return False |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '9']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'register_cache_buster'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '6']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'app'}; {'id': '6', 'type': 'default_parameter', 'children': ['7', '8']}; {'id': '7', 'type': 'identifier', 'children': [], 'value': 'config'}; {'id': '8', 'type': 'None', 'children': []}; {'id': '9', 'type': 'block', 'children': ['10', '28', '32', '36', '45', '159', '168', '181', '194', '221', '251', '259']}; {'id': '10', 'type': 'if_statement', 'children': ['11', '22']}; {'id': '11', 'type': 'not_operator', 'children': ['12']}; {'id': '12', 'type': '()', 'children': ['13']}; {'id': '13', 'type': 'boolean_operator', 'children': ['14', '17'], 'value': 'or'}; {'id': '14', 'type': 'comparison_operator', 'children': ['15', '16'], 'value': 'is'}; {'id': '15', 'type': 'identifier', 'children': [], 'value': 'config'}; {'id': '16', 'type': 'None', 'children': []}; {'id': '17', 'type': 'call', 'children': ['18', '19']}; {'id': '18', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '19', 'type': 'argument_list', 'children': ['20', '21']}; {'id': '20', 'type': 'identifier', 'children': [], 'value': 'config'}; {'id': '21', 'type': 'identifier', 'children': [], 'value': 'dict'}; {'id': '22', 'type': 'block', 'children': ['23']}; {'id': '23', 'type': 'raise_statement', 'children': ['24']}; {'id': '24', 'type': 'call', 'children': ['25', '26']}; {'id': '25', 'type': 'identifier', 'children': [], 'value': 'ValueError'}; {'id': '26', 'type': 'argument_list', 'children': ['27']}; {'id': '27', 'type': 'string', 'children': [], 'value': '"`config` must be an instance of dict or None"'}; {'id': '28', 'type': 'expression_statement', 'children': ['29']}; {'id': '29', 'type': 'assignment', 'children': ['30', '31']}; {'id': '30', 'type': 'identifier', 'children': [], 'value': 'bust_map'}; {'id': '31', 'type': 'dictionary', 'children': []}; {'id': '32', 'type': 'expression_statement', 'children': ['33']}; {'id': '33', 'type': 'assignment', 'children': ['34', '35']}; {'id': '34', 'type': 'identifier', 'children': [], 'value': 'unbust_map'}; {'id': '35', 'type': 'dictionary', 'children': []}; {'id': '36', 'type': 'expression_statement', 'children': ['37']}; {'id': '37', 'type': 'call', 'children': ['38', '43']}; {'id': '38', 'type': 'attribute', 'children': ['39', '42']}; {'id': '39', 'type': 'attribute', 'children': ['40', '41']}; {'id': '40', 'type': 'identifier', 'children': [], 'value': 'app'}; {'id': '41', 'type': 'identifier', 'children': [], 'value': 'logger'}; {'id': '42', 'type': 'identifier', 'children': [], 'value': 'debug'}; {'id': '43', 'type': 'argument_list', 'children': ['44']}; {'id': '44', 'type': 'string', 'children': [], 'value': "'Starting computing hashes for static assets'"}; {'id': '45', 'type': 'for_statement', 'children': ['46', '50', '58']}; {'id': '46', 'type': 'pattern_list', 'children': ['47', '48', '49']}; {'id': '47', 'type': 'identifier', 'children': [], 'value': 'dirpath'}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'dirnames'}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'filenames'}; {'id': '50', 'type': 'call', 'children': ['51', '54']}; {'id': '51', 'type': 'attribute', 'children': ['52', '53']}; {'id': '52', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '53', 'type': 'identifier', 'children': [], 'value': 'walk'}; {'id': '54', 'type': 'argument_list', 'children': ['55']}; {'id': '55', 'type': 'attribute', 'children': ['56', '57']}; {'id': '56', 'type': 'identifier', 'children': [], 'value': 'app'}; {'id': '57', 'type': 'identifier', 'children': [], 'value': 'static_folder'}; {'id': '58', 'type': 'block', 'children': ['59']}; {'id': '59', 'type': 'for_statement', 'children': ['60', '61', '62']}; {'id': '60', 'type': 'identifier', 'children': [], 'value': 'filename'}; {'id': '61', 'type': 'identifier', 'children': [], 'value': 'filenames'}; {'id': '62', 'type': 'block', 'children': ['63', '75', '85', '94', '129', '143', '147', '153']}; {'id': '63', 'type': 'expression_statement', 'children': ['64']}; {'id': '64', 'type': 'assignment', 'children': ['65', '66']}; {'id': '65', 'type': 'identifier', 'children': [], 'value': 'rooted_filename'}; {'id': '66', 'type': 'call', 'children': ['67', '72']}; {'id': '67', 'type': 'attribute', 'children': ['68', '71']}; {'id': '68', 'type': 'attribute', 'children': ['69', '70']}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '70', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '71', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '72', 'type': 'argument_list', 'children': ['73', '74']}; {'id': '73', 'type': 'identifier', 'children': [], 'value': 'dirpath'}; {'id': '74', 'type': 'identifier', 'children': [], 'value': 'filename'}; {'id': '75', 'type': 'if_statement', 'children': ['76', '83']}; {'id': '76', 'type': 'not_operator', 'children': ['77']}; {'id': '77', 'type': 'call', 'children': ['78', '81']}; {'id': '78', 'type': 'attribute', 'children': ['79', '80']}; {'id': '79', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '80', 'type': 'identifier', 'children': [], 'value': '__is_file_to_be_busted'}; {'id': '81', 'type': 'argument_list', 'children': ['82']}; {'id': '82', 'type': 'identifier', 'children': [], 'value': 'rooted_filename'}; {'id': '83', 'type': 'block', 'children': ['84']}; {'id': '84', 'type': 'continue_statement', 'children': []}; {'id': '85', 'type': 'expression_statement', 'children': ['86']}; {'id': '86', 'type': 'call', 'children': ['87', '92']}; {'id': '87', 'type': 'attribute', 'children': ['88', '91']}; {'id': '88', 'type': 'attribute', 'children': ['89', '90']}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'app'}; {'id': '90', 'type': 'identifier', 'children': [], 'value': 'logger'}; {'id': '91', 'type': 'identifier', 'children': [], 'value': 'debug'}; {'id': '92', 'type': 'argument_list', 'children': ['93']}; {'id': '93', 'type': 'string', 'children': [], 'value': "f'Computing hashes for {rooted_filename}'"}; {'id': '94', 'type': 'with_statement', 'children': ['95', '105']}; {'id': '95', 'type': 'with_clause', 'children': ['96']}; {'id': '96', 'type': 'with_item', 'children': ['97']}; {'id': '97', 'type': 'as_pattern', 'children': ['98', '103']}; {'id': '98', 'type': 'call', 'children': ['99', '100']}; {'id': '99', 'type': 'identifier', 'children': [], 'value': 'open'}; {'id': '100', 'type': 'argument_list', 'children': ['101', '102']}; {'id': '101', 'type': 'identifier', 'children': [], 'value': 'rooted_filename'}; {'id': '102', 'type': 'string', 'children': [], 'value': "'rb'"}; {'id': '103', 'type': 'as_pattern_target', 'children': ['104']}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'f'}; {'id': '105', 'type': 'block', 'children': ['106']}; {'id': '106', 'type': 'expression_statement', 'children': ['107']}; {'id': '107', 'type': 'assignment', 'children': ['108', '109']}; {'id': '108', 'type': 'identifier', 'children': [], 'value': 'version'}; {'id': '109', 'type': 'subscript', 'children': ['110', '124']}; {'id': '110', 'type': 'call', 'children': ['111', '123']}; {'id': '111', 'type': 'attribute', 'children': ['112', '122']}; {'id': '112', 'type': 'call', 'children': ['113', '116']}; {'id': '113', 'type': 'attribute', 'children': ['114', '115']}; {'id': '114', 'type': 'identifier', 'children': [], 'value': 'hashlib'}; {'id': '115', 'type': 'identifier', 'children': [], 'value': 'md5'}; {'id': '116', 'type': 'argument_list', 'children': ['117']}; {'id': '117', 'type': 'call', 'children': ['118', '121']}; {'id': '118', 'type': 'attribute', 'children': ['119', '120']}; {'id': '119', 'type': 'identifier', 'children': [], 'value': 'f'}; {'id': '120', 'type': 'identifier', 'children': [], 'value': 'read'}; {'id': '121', 'type': 'argument_list', 'children': []}; {'id': '122', 'type': 'identifier', 'children': [], 'value': 'hexdigest'}; {'id': '123', 'type': 'argument_list', 'children': []}; {'id': '124', 'type': 'slice', 'children': ['125', '126']}; {'id': '125', 'type': 'colon', 'children': []}; {'id': '126', 'type': 'attribute', 'children': ['127', '128']}; {'id': '127', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '128', 'type': 'identifier', 'children': [], 'value': 'hash_size'}; {'id': '129', 'type': 'expression_statement', 'children': ['130']}; {'id': '130', 'type': 'assignment', 'children': ['131', '132']}; {'id': '131', 'type': 'identifier', 'children': [], 'value': 'unbusted'}; {'id': '132', 'type': 'call', 'children': ['133', '138']}; {'id': '133', 'type': 'attribute', 'children': ['134', '137']}; {'id': '134', 'type': 'attribute', 'children': ['135', '136']}; {'id': '135', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '136', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '137', 'type': 'identifier', 'children': [], 'value': 'relpath'}; {'id': '138', 'type': 'argument_list', 'children': ['139', '140']}; {'id': '139', 'type': 'identifier', 'children': [], 'value': 'rooted_filename'}; {'id': '140', 'type': 'attribute', 'children': ['141', '142']}; {'id': '141', 'type': 'identifier', 'children': [], 'value': 'app'}; {'id': '142', 'type': 'identifier', 'children': [], 'value': 'static_folder'}; {'id': '143', 'type': 'expression_statement', 'children': ['144']}; {'id': '144', 'type': 'assignment', 'children': ['145', '146']}; {'id': '145', 'type': 'identifier', 'children': [], 'value': 'busted'}; {'id': '146', 'type': 'string', 'children': [], 'value': 'f"{unbusted}?q={version}"'}; {'id': '147', 'type': 'expression_statement', 'children': ['148']}; {'id': '148', 'type': 'assignment', 'children': ['149', '152']}; {'id': '149', 'type': 'subscript', 'children': ['150', '151']}; {'id': '150', 'type': 'identifier', 'children': [], 'value': 'bust_map'}; {'id': '151', 'type': 'identifier', 'children': [], 'value': 'unbusted'}; {'id': '152', 'type': 'identifier', 'children': [], 'value': 'busted'}; {'id': '153', 'type': 'expression_statement', 'children': ['154']}; {'id': '154', 'type': 'assignment', 'children': ['155', '158']}; {'id': '155', 'type': 'subscript', 'children': ['156', '157']}; {'id': '156', 'type': 'identifier', 'children': [], 'value': 'unbust_map'}; {'id': '157', 'type': 'identifier', 'children': [], 'value': 'busted'}; {'id': '158', 'type': 'identifier', 'children': [], 'value': 'unbusted'}; {'id': '159', 'type': 'expression_statement', 'children': ['160']}; {'id': '160', 'type': 'call', 'children': ['161', '166']}; {'id': '161', 'type': 'attribute', 'children': ['162', '165']}; {'id': '162', 'type': 'attribute', 'children': ['163', '164']}; {'id': '163', 'type': 'identifier', 'children': [], 'value': 'app'}; {'id': '164', 'type': 'identifier', 'children': [], 'value': 'logger'}; {'id': '165', 'type': 'identifier', 'children': [], 'value': 'debug'}; {'id': '166', 'type': 'argument_list', 'children': ['167']}; {'id': '167', 'type': 'string', 'children': [], 'value': "'Finished Starting computing hashes for static assets'"}; {'id': '168', 'type': 'function_definition', 'children': ['169', '170', '172']}; {'id': '169', 'type': 'function_name', 'children': [], 'value': 'bust_filename'}; {'id': '170', 'type': 'parameters', 'children': ['171']}; {'id': '171', 'type': 'identifier', 'children': [], 'value': 'file'}; {'id': '172', 'type': 'block', 'children': ['173']}; {'id': '173', 'type': 'return_statement', 'children': ['174']}; {'id': '174', 'type': 'call', 'children': ['175', '178']}; {'id': '175', 'type': 'attribute', 'children': ['176', '177']}; {'id': '176', 'type': 'identifier', 'children': [], 'value': 'bust_map'}; {'id': '177', 'type': 'identifier', 'children': [], 'value': 'get'}; {'id': '178', 'type': 'argument_list', 'children': ['179', '180']}; {'id': '179', 'type': 'identifier', 'children': [], 'value': 'file'}; {'id': '180', 'type': 'identifier', 'children': [], 'value': 'file'}; {'id': '181', 'type': 'function_definition', 'children': ['182', '183', '185']}; {'id': '182', 'type': 'function_name', 'children': [], 'value': 'unbust_filename'}; {'id': '183', 'type': 'parameters', 'children': ['184']}; {'id': '184', 'type': 'identifier', 'children': [], 'value': 'file'}; {'id': '185', 'type': 'block', 'children': ['186']}; {'id': '186', 'type': 'return_statement', 'children': ['187']}; {'id': '187', 'type': 'call', 'children': ['188', '191']}; {'id': '188', 'type': 'attribute', 'children': ['189', '190']}; {'id': '189', 'type': 'identifier', 'children': [], 'value': 'unbust_map'}; {'id': '190', 'type': 'identifier', 'children': [], 'value': 'get'}; {'id': '191', 'type': 'argument_list', 'children': ['192', '193']}; {'id': '192', 'type': 'identifier', 'children': [], 'value': 'file'}; {'id': '193', 'type': 'identifier', 'children': [], 'value': 'file'}; {'id': '194', 'type': 'decorated_definition', 'children': ['195', '199']}; {'id': '195', 'type': 'decorator', 'children': ['196']}; {'id': '196', 'type': 'attribute', 'children': ['197', '198']}; {'id': '197', 'type': 'identifier', 'children': [], 'value': 'app'}; {'id': '198', 'type': 'identifier', 'children': [], 'value': 'url_defaults'}; {'id': '199', 'type': 'function_definition', 'children': ['200', '201', '204']}; {'id': '200', 'type': 'function_name', 'children': [], 'value': 'reverse_to_cache_busted_url'}; {'id': '201', 'type': 'parameters', 'children': ['202', '203']}; {'id': '202', 'type': 'identifier', 'children': [], 'value': 'endpoint'}; {'id': '203', 'type': 'identifier', 'children': [], 'value': 'values'}; {'id': '204', 'type': 'block', 'children': ['205']}; {'id': '205', 'type': 'if_statement', 'children': ['206', '209']}; {'id': '206', 'type': 'comparison_operator', 'children': ['207', '208'], 'value': '=='}; {'id': '207', 'type': 'identifier', 'children': [], 'value': 'endpoint'}; {'id': '208', 'type': 'string', 'children': [], 'value': "'static'"}; {'id': '209', 'type': 'block', 'children': ['210']}; {'id': '210', 'type': 'expression_statement', 'children': ['211']}; {'id': '211', 'type': 'assignment', 'children': ['212', '215']}; {'id': '212', 'type': 'subscript', 'children': ['213', '214']}; {'id': '213', 'type': 'identifier', 'children': [], 'value': 'values'}; {'id': '214', 'type': 'string', 'children': [], 'value': "'filename'"}; {'id': '215', 'type': 'call', 'children': ['216', '217']}; {'id': '216', 'type': 'identifier', 'children': [], 'value': 'bust_filename'}; {'id': '217', 'type': 'argument_list', 'children': ['218']}; {'id': '218', 'type': 'subscript', 'children': ['219', '220']}; {'id': '219', 'type': 'identifier', 'children': [], 'value': 'values'}; {'id': '220', 'type': 'string', 'children': [], 'value': "'filename'"}; {'id': '221', 'type': 'function_definition', 'children': ['222', '223', '228']}; {'id': '222', 'type': 'function_name', 'children': [], 'value': 'debusting_static_view'}; {'id': '223', 'type': 'parameters', 'children': ['224', '226']}; {'id': '224', 'type': 'list_splat_pattern', 'children': ['225']}; {'id': '225', 'type': 'identifier', 'children': [], 'value': 'args'}; {'id': '226', 'type': 'dictionary_splat_pattern', 'children': ['227']}; {'id': '227', 'type': 'identifier', 'children': [], 'value': 'kwargs'}; {'id': '228', 'type': 'block', 'children': ['229', '243']}; {'id': '229', 'type': 'expression_statement', 'children': ['230']}; {'id': '230', 'type': 'assignment', 'children': ['231', '234']}; {'id': '231', 'type': 'subscript', 'children': ['232', '233']}; {'id': '232', 'type': 'identifier', 'children': [], 'value': 'kwargs'}; {'id': '233', 'type': 'string', 'children': [], 'value': "'filename'"}; {'id': '234', 'type': 'call', 'children': ['235', '236']}; {'id': '235', 'type': 'identifier', 'children': [], 'value': 'unbust_filename'}; {'id': '236', 'type': 'argument_list', 'children': ['237']}; {'id': '237', 'type': 'call', 'children': ['238', '241']}; {'id': '238', 'type': 'attribute', 'children': ['239', '240']}; {'id': '239', 'type': 'identifier', 'children': [], 'value': 'kwargs'}; {'id': '240', 'type': 'identifier', 'children': [], 'value': 'get'}; {'id': '241', 'type': 'argument_list', 'children': ['242']}; {'id': '242', 'type': 'string', 'children': [], 'value': "'filename'"}; {'id': '243', 'type': 'return_statement', 'children': ['244']}; {'id': '244', 'type': 'call', 'children': ['245', '246']}; {'id': '245', 'type': 'identifier', 'children': [], 'value': 'original_static_view'}; {'id': '246', 'type': 'argument_list', 'children': ['247', '249']}; {'id': '247', 'type': 'list_splat', 'children': ['248']}; {'id': '248', 'type': 'identifier', 'children': [], 'value': 'args'}; {'id': '249', 'type': 'dictionary_splat', 'children': ['250']}; {'id': '250', 'type': 'identifier', 'children': [], 'value': 'kwargs'}; {'id': '251', 'type': 'expression_statement', 'children': ['252']}; {'id': '252', 'type': 'assignment', 'children': ['253', '254']}; {'id': '253', 'type': 'identifier', 'children': [], 'value': 'original_static_view'}; {'id': '254', 'type': 'subscript', 'children': ['255', '258']}; {'id': '255', 'type': 'attribute', 'children': ['256', '257']}; {'id': '256', 'type': 'identifier', 'children': [], 'value': 'app'}; {'id': '257', 'type': 'identifier', 'children': [], 'value': 'view_functions'}; {'id': '258', 'type': 'string', 'children': [], 'value': "'static'"}; {'id': '259', 'type': 'expression_statement', 'children': ['260']}; {'id': '260', 'type': 'assignment', 'children': ['261', '266']}; {'id': '261', 'type': 'subscript', 'children': ['262', '265']}; {'id': '262', 'type': 'attribute', 'children': ['263', '264']}; {'id': '263', 'type': 'identifier', 'children': [], 'value': 'app'}; {'id': '264', 'type': 'identifier', 'children': [], 'value': 'view_functions'}; {'id': '265', 'type': 'string', 'children': [], 'value': "'static'"}; {'id': '266', 'type': 'identifier', 'children': [], 'value': 'debusting_static_view'} | def register_cache_buster(self, app, config=None):
if not (config is None or isinstance(config, dict)):
raise ValueError("`config` must be an instance of dict or None")
bust_map = {}
unbust_map = {}
app.logger.debug('Starting computing hashes for static assets')
for dirpath, dirnames, filenames in os.walk(app.static_folder):
for filename in filenames:
rooted_filename = os.path.join(dirpath, filename)
if not self.__is_file_to_be_busted(rooted_filename):
continue
app.logger.debug(f'Computing hashes for {rooted_filename}')
with open(rooted_filename, 'rb') as f:
version = hashlib.md5(
f.read()
).hexdigest()[:self.hash_size]
unbusted = os.path.relpath(rooted_filename, app.static_folder)
busted = f"{unbusted}?q={version}"
bust_map[unbusted] = busted
unbust_map[busted] = unbusted
app.logger.debug('Finished Starting computing hashes for static assets')
def bust_filename(file):
return bust_map.get(file, file)
def unbust_filename(file):
return unbust_map.get(file, file)
@app.url_defaults
def reverse_to_cache_busted_url(endpoint, values):
if endpoint == 'static':
values['filename'] = bust_filename(values['filename'])
def debusting_static_view(*args, **kwargs):
kwargs['filename'] = unbust_filename(kwargs.get('filename'))
return original_static_view(*args, **kwargs)
original_static_view = app.view_functions['static']
app.view_functions['static'] = debusting_static_view |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '7']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'parse_inventory'}; {'id': '3', 'type': 'parameters', 'children': ['4']}; {'id': '4', 'type': 'default_parameter', 'children': ['5', '6']}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'inventory_output'}; {'id': '6', 'type': 'None', 'children': []}; {'id': '7', 'type': 'block', 'children': ['8', '27', '34', '38', '42', '100', '113', '132', '145', '164', '177', '191', '204', '218', '231', '249']}; {'id': '8', 'type': 'expression_statement', 'children': ['9']}; {'id': '9', 'type': 'assignment', 'children': ['10', '11']}; {'id': '10', 'type': 'identifier', 'children': [], 'value': 'udi'}; {'id': '11', 'type': 'dictionary', 'children': ['12', '15', '18', '21', '24']}; {'id': '12', 'type': 'pair', 'children': ['13', '14']}; {'id': '13', 'type': 'string', 'children': [], 'value': '"name"'}; {'id': '14', 'type': 'string', 'children': [], 'value': '""'}; {'id': '15', 'type': 'pair', 'children': ['16', '17']}; {'id': '16', 'type': 'string', 'children': [], 'value': '"description"'}; {'id': '17', 'type': 'string', 'children': [], 'value': '""'}; {'id': '18', 'type': 'pair', 'children': ['19', '20']}; {'id': '19', 'type': 'string', 'children': [], 'value': '"pid"'}; {'id': '20', 'type': 'string', 'children': [], 'value': '""'}; {'id': '21', 'type': 'pair', 'children': ['22', '23']}; {'id': '22', 'type': 'string', 'children': [], 'value': '"vid"'}; {'id': '23', 'type': 'string', 'children': [], 'value': '""'}; {'id': '24', 'type': 'pair', 'children': ['25', '26']}; {'id': '25', 'type': 'string', 'children': [], 'value': '"sn"'}; {'id': '26', 'type': 'string', 'children': [], 'value': '""'}; {'id': '27', 'type': 'if_statement', 'children': ['28', '31']}; {'id': '28', 'type': 'comparison_operator', 'children': ['29', '30'], 'value': 'is'}; {'id': '29', 'type': 'identifier', 'children': [], 'value': 'inventory_output'}; {'id': '30', 'type': 'None', 'children': []}; {'id': '31', 'type': 'block', 'children': ['32']}; {'id': '32', 'type': 'return_statement', 'children': ['33']}; {'id': '33', 'type': 'identifier', 'children': [], 'value': 'udi'}; {'id': '34', 'type': 'expression_statement', 'children': ['35']}; {'id': '35', 'type': 'assignment', 'children': ['36', '37']}; {'id': '36', 'type': 'identifier', 'children': [], 'value': 'capture_next'}; {'id': '37', 'type': 'False', 'children': []}; {'id': '38', 'type': 'expression_statement', 'children': ['39']}; {'id': '39', 'type': 'assignment', 'children': ['40', '41']}; {'id': '40', 'type': 'identifier', 'children': [], 'value': 'chassis_udi_text'}; {'id': '41', 'type': 'None', 'children': []}; {'id': '42', 'type': 'for_statement', 'children': ['43', '44', '50']}; {'id': '43', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '44', 'type': 'call', 'children': ['45', '48']}; {'id': '45', 'type': 'attribute', 'children': ['46', '47']}; {'id': '46', 'type': 'identifier', 'children': [], 'value': 'inventory_output'}; {'id': '47', 'type': 'identifier', 'children': [], 'value': 'split'}; {'id': '48', 'type': 'argument_list', 'children': ['49']}; {'id': '49', 'type': 'string', 'children': [], 'value': "'\\n'"}; {'id': '50', 'type': 'block', 'children': ['51', '59', '88']}; {'id': '51', 'type': 'expression_statement', 'children': ['52']}; {'id': '52', 'type': 'assignment', 'children': ['53', '54']}; {'id': '53', 'type': 'identifier', 'children': [], 'value': 'lc_line'}; {'id': '54', 'type': 'call', 'children': ['55', '58']}; {'id': '55', 'type': 'attribute', 'children': ['56', '57']}; {'id': '56', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '57', 'type': 'identifier', 'children': [], 'value': 'lower'}; {'id': '58', 'type': 'argument_list', 'children': []}; {'id': '59', 'type': 'if_statement', 'children': ['60', '78']}; {'id': '60', 'type': 'boolean_operator', 'children': ['61', '77'], 'value': 'and'}; {'id': '61', 'type': 'boolean_operator', 'children': ['62', '74'], 'value': 'and'}; {'id': '62', 'type': '()', 'children': ['63']}; {'id': '63', 'type': 'boolean_operator', 'children': ['64', '71'], 'value': 'or'}; {'id': '64', 'type': 'boolean_operator', 'children': ['65', '68'], 'value': 'or'}; {'id': '65', 'type': 'comparison_operator', 'children': ['66', '67'], 'value': 'in'}; {'id': '66', 'type': 'string', 'children': [], 'value': "'chassis'"}; {'id': '67', 'type': 'identifier', 'children': [], 'value': 'lc_line'}; {'id': '68', 'type': 'comparison_operator', 'children': ['69', '70'], 'value': 'in'}; {'id': '69', 'type': 'string', 'children': [], 'value': "'switch system'"}; {'id': '70', 'type': 'identifier', 'children': [], 'value': 'lc_line'}; {'id': '71', 'type': 'comparison_operator', 'children': ['72', '73'], 'value': 'in'}; {'id': '72', 'type': 'string', 'children': [], 'value': "'rack'"}; {'id': '73', 'type': 'identifier', 'children': [], 'value': 'lc_line'}; {'id': '74', 'type': 'comparison_operator', 'children': ['75', '76'], 'value': 'in'}; {'id': '75', 'type': 'string', 'children': [], 'value': "'name'"}; {'id': '76', 'type': 'identifier', 'children': [], 'value': 'lc_line'}; {'id': '77', 'type': 'string', 'children': [], 'value': "'descr'"}; {'id': '78', 'type': 'block', 'children': ['79', '83', '87']}; {'id': '79', 'type': 'expression_statement', 'children': ['80']}; {'id': '80', 'type': 'assignment', 'children': ['81', '82']}; {'id': '81', 'type': 'identifier', 'children': [], 'value': 'capture_next'}; {'id': '82', 'type': 'True', 'children': []}; {'id': '83', 'type': 'expression_statement', 'children': ['84']}; {'id': '84', 'type': 'assignment', 'children': ['85', '86']}; {'id': '85', 'type': 'identifier', 'children': [], 'value': 'chassis_udi_text'}; {'id': '86', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '87', 'type': 'continue_statement', 'children': []}; {'id': '88', 'type': 'if_statement', 'children': ['89', '90']}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'capture_next'}; {'id': '90', 'type': 'block', 'children': ['91', '99']}; {'id': '91', 'type': 'expression_statement', 'children': ['92']}; {'id': '92', 'type': 'assignment', 'children': ['93', '94']}; {'id': '93', 'type': 'identifier', 'children': [], 'value': 'inventory_output'}; {'id': '94', 'type': 'binary_operator', 'children': ['95', '98'], 'value': '+'}; {'id': '95', 'type': 'binary_operator', 'children': ['96', '97'], 'value': '+'}; {'id': '96', 'type': 'identifier', 'children': [], 'value': 'chassis_udi_text'}; {'id': '97', 'type': 'string', 'children': [], 'value': '"\\n"'}; {'id': '98', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '99', 'type': 'break_statement', 'children': []}; {'id': '100', 'type': 'expression_statement', 'children': ['101']}; {'id': '101', 'type': 'assignment', 'children': ['102', '103']}; {'id': '102', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '103', 'type': 'call', 'children': ['104', '107']}; {'id': '104', 'type': 'attribute', 'children': ['105', '106']}; {'id': '105', 'type': 'identifier', 'children': [], 'value': 're'}; {'id': '106', 'type': 'identifier', 'children': [], 'value': 'search'}; {'id': '107', 'type': 'argument_list', 'children': ['108', '109', '110']}; {'id': '108', 'type': 'string', 'children': [], 'value': 'r"(?i)NAME: (?P<name>.*?),? (?i)DESCR"'}; {'id': '109', 'type': 'identifier', 'children': [], 'value': 'inventory_output'}; {'id': '110', 'type': 'attribute', 'children': ['111', '112']}; {'id': '111', 'type': 'identifier', 'children': [], 'value': 're'}; {'id': '112', 'type': 'identifier', 'children': [], 'value': 'MULTILINE'}; {'id': '113', 'type': 'if_statement', 'children': ['114', '115']}; {'id': '114', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '115', 'type': 'block', 'children': ['116']}; {'id': '116', 'type': 'expression_statement', 'children': ['117']}; {'id': '117', 'type': 'assignment', 'children': ['118', '121']}; {'id': '118', 'type': 'subscript', 'children': ['119', '120']}; {'id': '119', 'type': 'identifier', 'children': [], 'value': 'udi'}; {'id': '120', 'type': 'string', 'children': [], 'value': "'name'"}; {'id': '121', 'type': 'call', 'children': ['122', '130']}; {'id': '122', 'type': 'attribute', 'children': ['123', '129']}; {'id': '123', 'type': 'call', 'children': ['124', '127']}; {'id': '124', 'type': 'attribute', 'children': ['125', '126']}; {'id': '125', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '126', 'type': 'identifier', 'children': [], 'value': 'group'}; {'id': '127', 'type': 'argument_list', 'children': ['128']}; {'id': '128', 'type': 'string', 'children': [], 'value': "'name'"}; {'id': '129', 'type': 'identifier', 'children': [], 'value': 'strip'}; {'id': '130', 'type': 'argument_list', 'children': ['131']}; {'id': '131', 'type': 'string', 'children': [], 'value': '\'" ,\''}; {'id': '132', 'type': 'expression_statement', 'children': ['133']}; {'id': '133', 'type': 'assignment', 'children': ['134', '135']}; {'id': '134', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '135', 'type': 'call', 'children': ['136', '139']}; {'id': '136', 'type': 'attribute', 'children': ['137', '138']}; {'id': '137', 'type': 'identifier', 'children': [], 'value': 're'}; {'id': '138', 'type': 'identifier', 'children': [], 'value': 'search'}; {'id': '139', 'type': 'argument_list', 'children': ['140', '141', '142']}; {'id': '140', 'type': 'string', 'children': [], 'value': 'r"(?i)DESCR: (?P<description>.*)"'}; {'id': '141', 'type': 'identifier', 'children': [], 'value': 'inventory_output'}; {'id': '142', 'type': 'attribute', 'children': ['143', '144']}; {'id': '143', 'type': 'identifier', 'children': [], 'value': 're'}; {'id': '144', 'type': 'identifier', 'children': [], 'value': 'MULTILINE'}; {'id': '145', 'type': 'if_statement', 'children': ['146', '147']}; {'id': '146', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '147', 'type': 'block', 'children': ['148']}; {'id': '148', 'type': 'expression_statement', 'children': ['149']}; {'id': '149', 'type': 'assignment', 'children': ['150', '153']}; {'id': '150', 'type': 'subscript', 'children': ['151', '152']}; {'id': '151', 'type': 'identifier', 'children': [], 'value': 'udi'}; {'id': '152', 'type': 'string', 'children': [], 'value': "'description'"}; {'id': '153', 'type': 'call', 'children': ['154', '162']}; {'id': '154', 'type': 'attribute', 'children': ['155', '161']}; {'id': '155', 'type': 'call', 'children': ['156', '159']}; {'id': '156', 'type': 'attribute', 'children': ['157', '158']}; {'id': '157', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '158', 'type': 'identifier', 'children': [], 'value': 'group'}; {'id': '159', 'type': 'argument_list', 'children': ['160']}; {'id': '160', 'type': 'string', 'children': [], 'value': "'description'"}; {'id': '161', 'type': 'identifier', 'children': [], 'value': 'strip'}; {'id': '162', 'type': 'argument_list', 'children': ['163']}; {'id': '163', 'type': 'string', 'children': [], 'value': '\'" \''}; {'id': '164', 'type': 'expression_statement', 'children': ['165']}; {'id': '165', 'type': 'assignment', 'children': ['166', '167']}; {'id': '166', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '167', 'type': 'call', 'children': ['168', '171']}; {'id': '168', 'type': 'attribute', 'children': ['169', '170']}; {'id': '169', 'type': 'identifier', 'children': [], 'value': 're'}; {'id': '170', 'type': 'identifier', 'children': [], 'value': 'search'}; {'id': '171', 'type': 'argument_list', 'children': ['172', '173', '174']}; {'id': '172', 'type': 'string', 'children': [], 'value': 'r"(?i)PID: (?P<pid>.*?),? "'}; {'id': '173', 'type': 'identifier', 'children': [], 'value': 'inventory_output'}; {'id': '174', 'type': 'attribute', 'children': ['175', '176']}; {'id': '175', 'type': 'identifier', 'children': [], 'value': 're'}; {'id': '176', 'type': 'identifier', 'children': [], 'value': 'MULTILINE'}; {'id': '177', 'type': 'if_statement', 'children': ['178', '179']}; {'id': '178', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '179', 'type': 'block', 'children': ['180']}; {'id': '180', 'type': 'expression_statement', 'children': ['181']}; {'id': '181', 'type': 'assignment', 'children': ['182', '185']}; {'id': '182', 'type': 'subscript', 'children': ['183', '184']}; {'id': '183', 'type': 'identifier', 'children': [], 'value': 'udi'}; {'id': '184', 'type': 'string', 'children': [], 'value': "'pid'"}; {'id': '185', 'type': 'call', 'children': ['186', '189']}; {'id': '186', 'type': 'attribute', 'children': ['187', '188']}; {'id': '187', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '188', 'type': 'identifier', 'children': [], 'value': 'group'}; {'id': '189', 'type': 'argument_list', 'children': ['190']}; {'id': '190', 'type': 'string', 'children': [], 'value': "'pid'"}; {'id': '191', 'type': 'expression_statement', 'children': ['192']}; {'id': '192', 'type': 'assignment', 'children': ['193', '194']}; {'id': '193', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '194', 'type': 'call', 'children': ['195', '198']}; {'id': '195', 'type': 'attribute', 'children': ['196', '197']}; {'id': '196', 'type': 'identifier', 'children': [], 'value': 're'}; {'id': '197', 'type': 'identifier', 'children': [], 'value': 'search'}; {'id': '198', 'type': 'argument_list', 'children': ['199', '200', '201']}; {'id': '199', 'type': 'string', 'children': [], 'value': 'r"(?i)VID: (?P<vid>.*?),? "'}; {'id': '200', 'type': 'identifier', 'children': [], 'value': 'inventory_output'}; {'id': '201', 'type': 'attribute', 'children': ['202', '203']}; {'id': '202', 'type': 'identifier', 'children': [], 'value': 're'}; {'id': '203', 'type': 'identifier', 'children': [], 'value': 'MULTILINE'}; {'id': '204', 'type': 'if_statement', 'children': ['205', '206']}; {'id': '205', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '206', 'type': 'block', 'children': ['207']}; {'id': '207', 'type': 'expression_statement', 'children': ['208']}; {'id': '208', 'type': 'assignment', 'children': ['209', '212']}; {'id': '209', 'type': 'subscript', 'children': ['210', '211']}; {'id': '210', 'type': 'identifier', 'children': [], 'value': 'udi'}; {'id': '211', 'type': 'string', 'children': [], 'value': "'vid'"}; {'id': '212', 'type': 'call', 'children': ['213', '216']}; {'id': '213', 'type': 'attribute', 'children': ['214', '215']}; {'id': '214', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '215', 'type': 'identifier', 'children': [], 'value': 'group'}; {'id': '216', 'type': 'argument_list', 'children': ['217']}; {'id': '217', 'type': 'string', 'children': [], 'value': "'vid'"}; {'id': '218', 'type': 'expression_statement', 'children': ['219']}; {'id': '219', 'type': 'assignment', 'children': ['220', '221']}; {'id': '220', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '221', 'type': 'call', 'children': ['222', '225']}; {'id': '222', 'type': 'attribute', 'children': ['223', '224']}; {'id': '223', 'type': 'identifier', 'children': [], 'value': 're'}; {'id': '224', 'type': 'identifier', 'children': [], 'value': 'search'}; {'id': '225', 'type': 'argument_list', 'children': ['226', '227', '228']}; {'id': '226', 'type': 'string', 'children': [], 'value': 'r"(?i)SN: (?P<sn>.*)"'}; {'id': '227', 'type': 'identifier', 'children': [], 'value': 'inventory_output'}; {'id': '228', 'type': 'attribute', 'children': ['229', '230']}; {'id': '229', 'type': 'identifier', 'children': [], 'value': 're'}; {'id': '230', 'type': 'identifier', 'children': [], 'value': 'MULTILINE'}; {'id': '231', 'type': 'if_statement', 'children': ['232', '233']}; {'id': '232', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '233', 'type': 'block', 'children': ['234']}; {'id': '234', 'type': 'expression_statement', 'children': ['235']}; {'id': '235', 'type': 'assignment', 'children': ['236', '239']}; {'id': '236', 'type': 'subscript', 'children': ['237', '238']}; {'id': '237', 'type': 'identifier', 'children': [], 'value': 'udi'}; {'id': '238', 'type': 'string', 'children': [], 'value': "'sn'"}; {'id': '239', 'type': 'call', 'children': ['240', '248']}; {'id': '240', 'type': 'attribute', 'children': ['241', '247']}; {'id': '241', 'type': 'call', 'children': ['242', '245']}; {'id': '242', 'type': 'attribute', 'children': ['243', '244']}; {'id': '243', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '244', 'type': 'identifier', 'children': [], 'value': 'group'}; {'id': '245', 'type': 'argument_list', 'children': ['246']}; {'id': '246', 'type': 'string', 'children': [], 'value': "'sn'"}; {'id': '247', 'type': 'identifier', 'children': [], 'value': 'strip'}; {'id': '248', 'type': 'argument_list', 'children': []}; {'id': '249', 'type': 'return_statement', 'children': ['250']}; {'id': '250', 'type': 'identifier', 'children': [], 'value': 'udi'} | def parse_inventory(inventory_output=None):
udi = {
"name": "",
"description": "",
"pid": "",
"vid": "",
"sn": ""
}
if inventory_output is None:
return udi
capture_next = False
chassis_udi_text = None
for line in inventory_output.split('\n'):
lc_line = line.lower()
if ('chassis' in lc_line or 'switch system' in lc_line or 'rack' in lc_line) and 'name' in lc_line and 'descr':
capture_next = True
chassis_udi_text = line
continue
if capture_next:
inventory_output = chassis_udi_text + "\n" + line
break
match = re.search(r"(?i)NAME: (?P<name>.*?),? (?i)DESCR", inventory_output, re.MULTILINE)
if match:
udi['name'] = match.group('name').strip('" ,')
match = re.search(r"(?i)DESCR: (?P<description>.*)", inventory_output, re.MULTILINE)
if match:
udi['description'] = match.group('description').strip('" ')
match = re.search(r"(?i)PID: (?P<pid>.*?),? ", inventory_output, re.MULTILINE)
if match:
udi['pid'] = match.group('pid')
match = re.search(r"(?i)VID: (?P<vid>.*?),? ", inventory_output, re.MULTILINE)
if match:
udi['vid'] = match.group('vid')
match = re.search(r"(?i)SN: (?P<sn>.*)", inventory_output, re.MULTILINE)
if match:
udi['sn'] = match.group('sn').strip()
return udi |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '8']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'yaml_file_to_dict'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'script_name'}; {'id': '5', 'type': 'default_parameter', 'children': ['6', '7']}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '7', 'type': 'None', 'children': []}; {'id': '8', 'type': 'block', 'children': ['9', '46', '102', '118', '132', '153', '160', '189', '212', '240']}; {'id': '9', 'type': 'function_definition', 'children': ['10', '11', '13']}; {'id': '10', 'type': 'function_name', 'children': [], 'value': 'load_yaml'}; {'id': '11', 'type': 'parameters', 'children': ['12']}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'file_path'}; {'id': '13', 'type': 'block', 'children': ['14', '44']}; {'id': '14', 'type': 'with_statement', 'children': ['15', '25']}; {'id': '15', 'type': 'with_clause', 'children': ['16']}; {'id': '16', 'type': 'with_item', 'children': ['17']}; {'id': '17', 'type': 'as_pattern', 'children': ['18', '23']}; {'id': '18', 'type': 'call', 'children': ['19', '20']}; {'id': '19', 'type': 'identifier', 'children': [], 'value': 'open'}; {'id': '20', 'type': 'argument_list', 'children': ['21', '22']}; {'id': '21', 'type': 'identifier', 'children': [], 'value': 'file_path'}; {'id': '22', 'type': 'string', 'children': [], 'value': "'r'"}; {'id': '23', 'type': 'as_pattern_target', 'children': ['24']}; {'id': '24', 'type': 'identifier', 'children': [], 'value': 'yamlfile'}; {'id': '25', 'type': 'block', 'children': ['26']}; {'id': '26', 'type': 'try_statement', 'children': ['27', '37']}; {'id': '27', 'type': 'block', 'children': ['28']}; {'id': '28', 'type': 'expression_statement', 'children': ['29']}; {'id': '29', 'type': 'assignment', 'children': ['30', '31']}; {'id': '30', 'type': 'identifier', 'children': [], 'value': 'dictionary'}; {'id': '31', 'type': 'call', 'children': ['32', '35']}; {'id': '32', 'type': 'attribute', 'children': ['33', '34']}; {'id': '33', 'type': 'identifier', 'children': [], 'value': 'yaml'}; {'id': '34', 'type': 'identifier', 'children': [], 'value': 'load'}; {'id': '35', 'type': 'argument_list', 'children': ['36']}; {'id': '36', 'type': 'identifier', 'children': [], 'value': 'yamlfile'}; {'id': '37', 'type': 'except_clause', 'children': ['38', '41']}; {'id': '38', 'type': 'attribute', 'children': ['39', '40']}; {'id': '39', 'type': 'identifier', 'children': [], 'value': 'yaml'}; {'id': '40', 'type': 'identifier', 'children': [], 'value': 'YAMLError'}; {'id': '41', 'type': 'block', 'children': ['42']}; {'id': '42', 'type': 'return_statement', 'children': ['43']}; {'id': '43', 'type': 'dictionary', 'children': []}; {'id': '44', 'type': 'return_statement', 'children': ['45']}; {'id': '45', 'type': 'identifier', 'children': [], 'value': 'dictionary'}; {'id': '46', 'type': 'function_definition', 'children': ['47', '48', '51']}; {'id': '47', 'type': 'function_name', 'children': [], 'value': 'merge'}; {'id': '48', 'type': 'parameters', 'children': ['49', '50']}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'user'}; {'id': '50', 'type': 'identifier', 'children': [], 'value': 'default'}; {'id': '51', 'type': 'block', 'children': ['52', '100']}; {'id': '52', 'type': 'if_statement', 'children': ['53', '64']}; {'id': '53', 'type': 'boolean_operator', 'children': ['54', '59'], 'value': 'and'}; {'id': '54', 'type': 'call', 'children': ['55', '56']}; {'id': '55', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '56', 'type': 'argument_list', 'children': ['57', '58']}; {'id': '57', 'type': 'identifier', 'children': [], 'value': 'user'}; {'id': '58', 'type': 'identifier', 'children': [], 'value': 'dict'}; {'id': '59', 'type': 'call', 'children': ['60', '61']}; {'id': '60', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '61', 'type': 'argument_list', 'children': ['62', '63']}; {'id': '62', 'type': 'identifier', 'children': [], 'value': 'default'}; {'id': '63', 'type': 'identifier', 'children': [], 'value': 'dict'}; {'id': '64', 'type': 'block', 'children': ['65']}; {'id': '65', 'type': 'for_statement', 'children': ['66', '69', '74']}; {'id': '66', 'type': 'pattern_list', 'children': ['67', '68']}; {'id': '67', 'type': 'identifier', 'children': [], 'value': 'k'}; {'id': '68', 'type': 'identifier', 'children': [], 'value': 'v'}; {'id': '69', 'type': 'call', 'children': ['70', '73']}; {'id': '70', 'type': 'attribute', 'children': ['71', '72']}; {'id': '71', 'type': 'identifier', 'children': [], 'value': 'default'}; {'id': '72', 'type': 'identifier', 'children': [], 'value': 'iteritems'}; {'id': '73', 'type': 'argument_list', 'children': []}; {'id': '74', 'type': 'block', 'children': ['75']}; {'id': '75', 'type': 'if_statement', 'children': ['76', '79', '86']}; {'id': '76', 'type': 'comparison_operator', 'children': ['77', '78'], 'value': 'not'}; {'id': '77', 'type': 'identifier', 'children': [], 'value': 'k'}; {'id': '78', 'type': 'identifier', 'children': [], 'value': 'user'}; {'id': '79', 'type': 'block', 'children': ['80']}; {'id': '80', 'type': 'expression_statement', 'children': ['81']}; {'id': '81', 'type': 'assignment', 'children': ['82', '85']}; {'id': '82', 'type': 'subscript', 'children': ['83', '84']}; {'id': '83', 'type': 'identifier', 'children': [], 'value': 'user'}; {'id': '84', 'type': 'identifier', 'children': [], 'value': 'k'}; {'id': '85', 'type': 'identifier', 'children': [], 'value': 'v'}; {'id': '86', 'type': 'else_clause', 'children': ['87']}; {'id': '87', 'type': 'block', 'children': ['88']}; {'id': '88', 'type': 'expression_statement', 'children': ['89']}; {'id': '89', 'type': 'assignment', 'children': ['90', '93']}; {'id': '90', 'type': 'subscript', 'children': ['91', '92']}; {'id': '91', 'type': 'identifier', 'children': [], 'value': 'user'}; {'id': '92', 'type': 'identifier', 'children': [], 'value': 'k'}; {'id': '93', 'type': 'call', 'children': ['94', '95']}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'merge'}; {'id': '95', 'type': 'argument_list', 'children': ['96', '99']}; {'id': '96', 'type': 'subscript', 'children': ['97', '98']}; {'id': '97', 'type': 'identifier', 'children': [], 'value': 'user'}; {'id': '98', 'type': 'identifier', 'children': [], 'value': 'k'}; {'id': '99', 'type': 'identifier', 'children': [], 'value': 'v'}; {'id': '100', 'type': 'return_statement', 'children': ['101']}; {'id': '101', 'type': 'identifier', 'children': [], 'value': 'user'}; {'id': '102', 'type': 'if_statement', 'children': ['103', '106']}; {'id': '103', 'type': 'comparison_operator', 'children': ['104', '105'], 'value': 'is'}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '105', 'type': 'None', 'children': []}; {'id': '106', 'type': 'block', 'children': ['107']}; {'id': '107', 'type': 'expression_statement', 'children': ['108']}; {'id': '108', 'type': 'assignment', 'children': ['109', '110']}; {'id': '109', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '110', 'type': 'call', 'children': ['111', '116']}; {'id': '111', 'type': 'attribute', 'children': ['112', '115']}; {'id': '112', 'type': 'attribute', 'children': ['113', '114']}; {'id': '113', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '114', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '115', 'type': 'identifier', 'children': [], 'value': 'abspath'}; {'id': '116', 'type': 'argument_list', 'children': ['117']}; {'id': '117', 'type': 'string', 'children': [], 'value': "'.'"}; {'id': '118', 'type': 'expression_statement', 'children': ['119']}; {'id': '119', 'type': 'assignment', 'children': ['120', '121']}; {'id': '120', 'type': 'identifier', 'children': [], 'value': 'config_file_path'}; {'id': '121', 'type': 'call', 'children': ['122', '127']}; {'id': '122', 'type': 'attribute', 'children': ['123', '126']}; {'id': '123', 'type': 'attribute', 'children': ['124', '125']}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '125', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '126', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '127', 'type': 'argument_list', 'children': ['128', '129']}; {'id': '128', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '129', 'type': 'binary_operator', 'children': ['130', '131'], 'value': '+'}; {'id': '130', 'type': 'identifier', 'children': [], 'value': 'script_name'}; {'id': '131', 'type': 'string', 'children': [], 'value': "'.yaml'"}; {'id': '132', 'type': 'if_statement', 'children': ['133', '142']}; {'id': '133', 'type': 'not_operator', 'children': ['134']}; {'id': '134', 'type': 'call', 'children': ['135', '140']}; {'id': '135', 'type': 'attribute', 'children': ['136', '139']}; {'id': '136', 'type': 'attribute', 'children': ['137', '138']}; {'id': '137', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '138', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '139', 'type': 'identifier', 'children': [], 'value': 'exists'}; {'id': '140', 'type': 'argument_list', 'children': ['141']}; {'id': '141', 'type': 'identifier', 'children': [], 'value': 'config_file_path'}; {'id': '142', 'type': 'block', 'children': ['143']}; {'id': '143', 'type': 'raise_statement', 'children': ['144']}; {'id': '144', 'type': 'call', 'children': ['145', '146']}; {'id': '145', 'type': 'identifier', 'children': [], 'value': 'RuntimeError'}; {'id': '146', 'type': 'argument_list', 'children': ['147']}; {'id': '147', 'type': 'call', 'children': ['148', '151']}; {'id': '148', 'type': 'attribute', 'children': ['149', '150']}; {'id': '149', 'type': 'string', 'children': [], 'value': "'Config file does not exist: {}'"}; {'id': '150', 'type': 'identifier', 'children': [], 'value': 'format'}; {'id': '151', 'type': 'argument_list', 'children': ['152']}; {'id': '152', 'type': 'identifier', 'children': [], 'value': 'config_file_path'}; {'id': '153', 'type': 'expression_statement', 'children': ['154']}; {'id': '154', 'type': 'assignment', 'children': ['155', '156']}; {'id': '155', 'type': 'identifier', 'children': [], 'value': 'default_dict'}; {'id': '156', 'type': 'call', 'children': ['157', '158']}; {'id': '157', 'type': 'identifier', 'children': [], 'value': 'load_yaml'}; {'id': '158', 'type': 'argument_list', 'children': ['159']}; {'id': '159', 'type': 'identifier', 'children': [], 'value': 'config_file_path'}; {'id': '160', 'type': 'expression_statement', 'children': ['161']}; {'id': '161', 'type': 'assignment', 'children': ['162', '163']}; {'id': '162', 'type': 'identifier', 'children': [], 'value': 'user_config_file_path'}; {'id': '163', 'type': 'call', 'children': ['164', '169']}; {'id': '164', 'type': 'attribute', 'children': ['165', '168']}; {'id': '165', 'type': 'attribute', 'children': ['166', '167']}; {'id': '166', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '167', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '168', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '169', 'type': 'argument_list', 'children': ['170', '178', '179']}; {'id': '170', 'type': 'call', 'children': ['171', '176']}; {'id': '171', 'type': 'attribute', 'children': ['172', '175']}; {'id': '172', 'type': 'attribute', 'children': ['173', '174']}; {'id': '173', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '174', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '175', 'type': 'identifier', 'children': [], 'value': 'expanduser'}; {'id': '176', 'type': 'argument_list', 'children': ['177']}; {'id': '177', 'type': 'string', 'children': [], 'value': "'~'"}; {'id': '178', 'type': 'string', 'children': [], 'value': "'.condoor'"}; {'id': '179', 'type': 'binary_operator', 'children': ['180', '188'], 'value': '+'}; {'id': '180', 'type': 'call', 'children': ['181', '186']}; {'id': '181', 'type': 'attribute', 'children': ['182', '185']}; {'id': '182', 'type': 'attribute', 'children': ['183', '184']}; {'id': '183', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '184', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '185', 'type': 'identifier', 'children': [], 'value': 'basename'}; {'id': '186', 'type': 'argument_list', 'children': ['187']}; {'id': '187', 'type': 'identifier', 'children': [], 'value': 'script_name'}; {'id': '188', 'type': 'string', 'children': [], 'value': "'.yaml'"}; {'id': '189', 'type': 'expression_statement', 'children': ['190']}; {'id': '190', 'type': 'assignment', 'children': ['191', '192']}; {'id': '191', 'type': 'identifier', 'children': [], 'value': 'user_config_file_path'}; {'id': '192', 'type': 'call', 'children': ['193', '196']}; {'id': '193', 'type': 'attribute', 'children': ['194', '195']}; {'id': '194', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '195', 'type': 'identifier', 'children': [], 'value': 'getenv'}; {'id': '196', 'type': 'argument_list', 'children': ['197', '211']}; {'id': '197', 'type': 'binary_operator', 'children': ['198', '199'], 'value': '+'}; {'id': '198', 'type': 'string', 'children': [], 'value': "'CONDOOR_'"}; {'id': '199', 'type': 'call', 'children': ['200', '210']}; {'id': '200', 'type': 'attribute', 'children': ['201', '209']}; {'id': '201', 'type': 'call', 'children': ['202', '207']}; {'id': '202', 'type': 'attribute', 'children': ['203', '206']}; {'id': '203', 'type': 'attribute', 'children': ['204', '205']}; {'id': '204', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '205', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '206', 'type': 'identifier', 'children': [], 'value': 'basename'}; {'id': '207', 'type': 'argument_list', 'children': ['208']}; {'id': '208', 'type': 'identifier', 'children': [], 'value': 'script_name'}; {'id': '209', 'type': 'identifier', 'children': [], 'value': 'upper'}; {'id': '210', 'type': 'argument_list', 'children': []}; {'id': '211', 'type': 'identifier', 'children': [], 'value': 'user_config_file_path'}; {'id': '212', 'type': 'if_statement', 'children': ['213', '221']}; {'id': '213', 'type': 'call', 'children': ['214', '219']}; {'id': '214', 'type': 'attribute', 'children': ['215', '218']}; {'id': '215', 'type': 'attribute', 'children': ['216', '217']}; {'id': '216', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '217', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '218', 'type': 'identifier', 'children': [], 'value': 'exists'}; {'id': '219', 'type': 'argument_list', 'children': ['220']}; {'id': '220', 'type': 'identifier', 'children': [], 'value': 'user_config_file_path'}; {'id': '221', 'type': 'block', 'children': ['222', '229']}; {'id': '222', 'type': 'expression_statement', 'children': ['223']}; {'id': '223', 'type': 'assignment', 'children': ['224', '225']}; {'id': '224', 'type': 'identifier', 'children': [], 'value': 'user_dict'}; {'id': '225', 'type': 'call', 'children': ['226', '227']}; {'id': '226', 'type': 'identifier', 'children': [], 'value': 'load_yaml'}; {'id': '227', 'type': 'argument_list', 'children': ['228']}; {'id': '228', 'type': 'identifier', 'children': [], 'value': 'user_config_file_path'}; {'id': '229', 'type': 'if_statement', 'children': ['230', '231']}; {'id': '230', 'type': 'identifier', 'children': [], 'value': 'user_dict'}; {'id': '231', 'type': 'block', 'children': ['232']}; {'id': '232', 'type': 'expression_statement', 'children': ['233']}; {'id': '233', 'type': 'assignment', 'children': ['234', '235']}; {'id': '234', 'type': 'identifier', 'children': [], 'value': 'default_dict'}; {'id': '235', 'type': 'call', 'children': ['236', '237']}; {'id': '236', 'type': 'identifier', 'children': [], 'value': 'merge'}; {'id': '237', 'type': 'argument_list', 'children': ['238', '239']}; {'id': '238', 'type': 'identifier', 'children': [], 'value': 'user_dict'}; {'id': '239', 'type': 'identifier', 'children': [], 'value': 'default_dict'}; {'id': '240', 'type': 'return_statement', 'children': ['241']}; {'id': '241', 'type': 'identifier', 'children': [], 'value': 'default_dict'} | def yaml_file_to_dict(script_name, path=None):
def load_yaml(file_path):
with open(file_path, 'r') as yamlfile:
try:
dictionary = yaml.load(yamlfile)
except yaml.YAMLError:
return {}
return dictionary
def merge(user, default):
if isinstance(user, dict) and isinstance(default, dict):
for k, v in default.iteritems():
if k not in user:
user[k] = v
else:
user[k] = merge(user[k], v)
return user
if path is None:
path = os.path.abspath('.')
config_file_path = os.path.join(path, script_name + '.yaml')
if not os.path.exists(config_file_path):
raise RuntimeError('Config file does not exist: {}'.format(config_file_path))
default_dict = load_yaml(config_file_path)
user_config_file_path = os.path.join(os.path.expanduser('~'), '.condoor', os.path.basename(script_name) + '.yaml')
user_config_file_path = os.getenv('CONDOOR_' + os.path.basename(script_name).upper(), user_config_file_path)
if os.path.exists(user_config_file_path):
user_dict = load_yaml(user_config_file_path)
if user_dict:
default_dict = merge(user_dict, default_dict)
return default_dict |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '8']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'make_hop_info_from_url'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'url'}; {'id': '5', 'type': 'default_parameter', 'children': ['6', '7']}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'verify_reachability'}; {'id': '7', 'type': 'None', 'children': []}; {'id': '8', 'type': 'block', 'children': ['9', '16', '32', '48', '70', '91', '100']}; {'id': '9', 'type': 'expression_statement', 'children': ['10']}; {'id': '10', 'type': 'assignment', 'children': ['11', '12']}; {'id': '11', 'type': 'identifier', 'children': [], 'value': 'parsed'}; {'id': '12', 'type': 'call', 'children': ['13', '14']}; {'id': '13', 'type': 'identifier', 'children': [], 'value': 'urlparse'}; {'id': '14', 'type': 'argument_list', 'children': ['15']}; {'id': '15', 'type': 'identifier', 'children': [], 'value': 'url'}; {'id': '16', 'type': 'expression_statement', 'children': ['17']}; {'id': '17', 'type': 'assignment', 'children': ['18', '19']}; {'id': '18', 'type': 'identifier', 'children': [], 'value': 'username'}; {'id': '19', 'type': 'conditional_expression', 'children': ['20', '21', '26'], 'value': 'if'}; {'id': '20', 'type': 'None', 'children': []}; {'id': '21', 'type': 'comparison_operator', 'children': ['22', '25'], 'value': 'is'}; {'id': '22', 'type': 'attribute', 'children': ['23', '24']}; {'id': '23', 'type': 'identifier', 'children': [], 'value': 'parsed'}; {'id': '24', 'type': 'identifier', 'children': [], 'value': 'username'}; {'id': '25', 'type': 'None', 'children': []}; {'id': '26', 'type': 'call', 'children': ['27', '28']}; {'id': '27', 'type': 'identifier', 'children': [], 'value': 'unquote'}; {'id': '28', 'type': 'argument_list', 'children': ['29']}; {'id': '29', 'type': 'attribute', 'children': ['30', '31']}; {'id': '30', 'type': 'identifier', 'children': [], 'value': 'parsed'}; {'id': '31', 'type': 'identifier', 'children': [], 'value': 'username'}; {'id': '32', 'type': 'expression_statement', 'children': ['33']}; {'id': '33', 'type': 'assignment', 'children': ['34', '35']}; {'id': '34', 'type': 'identifier', 'children': [], 'value': 'password'}; {'id': '35', 'type': 'conditional_expression', 'children': ['36', '37', '42'], 'value': 'if'}; {'id': '36', 'type': 'None', 'children': []}; {'id': '37', 'type': 'comparison_operator', 'children': ['38', '41'], 'value': 'is'}; {'id': '38', 'type': 'attribute', 'children': ['39', '40']}; {'id': '39', 'type': 'identifier', 'children': [], 'value': 'parsed'}; {'id': '40', 'type': 'identifier', 'children': [], 'value': 'password'}; {'id': '41', 'type': 'None', 'children': []}; {'id': '42', 'type': 'call', 'children': ['43', '44']}; {'id': '43', 'type': 'identifier', 'children': [], 'value': 'unquote'}; {'id': '44', 'type': 'argument_list', 'children': ['45']}; {'id': '45', 'type': 'attribute', 'children': ['46', '47']}; {'id': '46', 'type': 'identifier', 'children': [], 'value': 'parsed'}; {'id': '47', 'type': 'identifier', 'children': [], 'value': 'password'}; {'id': '48', 'type': 'try_statement', 'children': ['49', '63']}; {'id': '49', 'type': 'block', 'children': ['50']}; {'id': '50', 'type': 'expression_statement', 'children': ['51']}; {'id': '51', 'type': 'assignment', 'children': ['52', '53']}; {'id': '52', 'type': 'identifier', 'children': [], 'value': 'enable_password'}; {'id': '53', 'type': 'subscript', 'children': ['54', '62']}; {'id': '54', 'type': 'subscript', 'children': ['55', '61']}; {'id': '55', 'type': 'call', 'children': ['56', '57']}; {'id': '56', 'type': 'identifier', 'children': [], 'value': 'parse_qs'}; {'id': '57', 'type': 'argument_list', 'children': ['58']}; {'id': '58', 'type': 'attribute', 'children': ['59', '60']}; {'id': '59', 'type': 'identifier', 'children': [], 'value': 'parsed'}; {'id': '60', 'type': 'identifier', 'children': [], 'value': 'query'}; {'id': '61', 'type': 'string', 'children': [], 'value': '"enable_password"'}; {'id': '62', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '63', 'type': 'except_clause', 'children': ['64', '65']}; {'id': '64', 'type': 'identifier', 'children': [], 'value': 'KeyError'}; {'id': '65', 'type': 'block', 'children': ['66']}; {'id': '66', 'type': 'expression_statement', 'children': ['67']}; {'id': '67', 'type': 'assignment', 'children': ['68', '69']}; {'id': '68', 'type': 'identifier', 'children': [], 'value': 'enable_password'}; {'id': '69', 'type': 'None', 'children': []}; {'id': '70', 'type': 'expression_statement', 'children': ['71']}; {'id': '71', 'type': 'assignment', 'children': ['72', '73']}; {'id': '72', 'type': 'identifier', 'children': [], 'value': 'hop_info'}; {'id': '73', 'type': 'call', 'children': ['74', '75']}; {'id': '74', 'type': 'identifier', 'children': [], 'value': 'HopInfo'}; {'id': '75', 'type': 'argument_list', 'children': ['76', '79', '82', '83', '84', '87', '88']}; {'id': '76', 'type': 'attribute', 'children': ['77', '78']}; {'id': '77', 'type': 'identifier', 'children': [], 'value': 'parsed'}; {'id': '78', 'type': 'identifier', 'children': [], 'value': 'scheme'}; {'id': '79', 'type': 'attribute', 'children': ['80', '81']}; {'id': '80', 'type': 'identifier', 'children': [], 'value': 'parsed'}; {'id': '81', 'type': 'identifier', 'children': [], 'value': 'hostname'}; {'id': '82', 'type': 'identifier', 'children': [], 'value': 'username'}; {'id': '83', 'type': 'identifier', 'children': [], 'value': 'password'}; {'id': '84', 'type': 'attribute', 'children': ['85', '86']}; {'id': '85', 'type': 'identifier', 'children': [], 'value': 'parsed'}; {'id': '86', 'type': 'identifier', 'children': [], 'value': 'port'}; {'id': '87', 'type': 'identifier', 'children': [], 'value': 'enable_password'}; {'id': '88', 'type': 'keyword_argument', 'children': ['89', '90']}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'verify_reachability'}; {'id': '90', 'type': 'identifier', 'children': [], 'value': 'verify_reachability'}; {'id': '91', 'type': 'if_statement', 'children': ['92', '97']}; {'id': '92', 'type': 'call', 'children': ['93', '96']}; {'id': '93', 'type': 'attribute', 'children': ['94', '95']}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'hop_info'}; {'id': '95', 'type': 'identifier', 'children': [], 'value': 'is_valid'}; {'id': '96', 'type': 'argument_list', 'children': []}; {'id': '97', 'type': 'block', 'children': ['98']}; {'id': '98', 'type': 'return_statement', 'children': ['99']}; {'id': '99', 'type': 'identifier', 'children': [], 'value': 'hop_info'}; {'id': '100', 'type': 'raise_statement', 'children': ['101']}; {'id': '101', 'type': 'identifier', 'children': [], 'value': 'InvalidHopInfoError'} | def make_hop_info_from_url(url, verify_reachability=None):
parsed = urlparse(url)
username = None if parsed.username is None else unquote(parsed.username)
password = None if parsed.password is None else unquote(parsed.password)
try:
enable_password = parse_qs(parsed.query)["enable_password"][0]
except KeyError:
enable_password = None
hop_info = HopInfo(
parsed.scheme,
parsed.hostname,
username,
password,
parsed.port,
enable_password,
verify_reachability=verify_reachability
)
if hop_info.is_valid():
return hop_info
raise InvalidHopInfoError |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '14']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'sendmail'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '7', '8', '11']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'sender'}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'recipients'}; {'id': '7', 'type': 'identifier', 'children': [], 'value': 'message'}; {'id': '8', 'type': 'default_parameter', 'children': ['9', '10']}; {'id': '9', 'type': 'identifier', 'children': [], 'value': 'mail_options'}; {'id': '10', 'type': 'None', 'children': []}; {'id': '11', 'type': 'default_parameter', 'children': ['12', '13']}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'rcpt_options'}; {'id': '13', 'type': 'None', 'children': []}; {'id': '14', 'type': 'block', 'children': ['15', '27', '36', '45', '52', '79', '88', '92', '120', '136', '144']}; {'id': '15', 'type': 'if_statement', 'children': ['16', '21']}; {'id': '16', 'type': 'call', 'children': ['17', '18']}; {'id': '17', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '18', 'type': 'argument_list', 'children': ['19', '20']}; {'id': '19', 'type': 'identifier', 'children': [], 'value': 'recipients'}; {'id': '20', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '21', 'type': 'block', 'children': ['22']}; {'id': '22', 'type': 'expression_statement', 'children': ['23']}; {'id': '23', 'type': 'assignment', 'children': ['24', '25']}; {'id': '24', 'type': 'identifier', 'children': [], 'value': 'recipients'}; {'id': '25', 'type': 'list', 'children': ['26'], 'value': '[recipients]'}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'recipients'}; {'id': '27', 'type': 'if_statement', 'children': ['28', '31']}; {'id': '28', 'type': 'comparison_operator', 'children': ['29', '30'], 'value': 'is'}; {'id': '29', 'type': 'identifier', 'children': [], 'value': 'mail_options'}; {'id': '30', 'type': 'None', 'children': []}; {'id': '31', 'type': 'block', 'children': ['32']}; {'id': '32', 'type': 'expression_statement', 'children': ['33']}; {'id': '33', 'type': 'assignment', 'children': ['34', '35']}; {'id': '34', 'type': 'identifier', 'children': [], 'value': 'mail_options'}; {'id': '35', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '36', 'type': 'if_statement', 'children': ['37', '40']}; {'id': '37', 'type': 'comparison_operator', 'children': ['38', '39'], 'value': 'is'}; {'id': '38', 'type': 'identifier', 'children': [], 'value': 'rcpt_options'}; {'id': '39', 'type': 'None', 'children': []}; {'id': '40', 'type': 'block', 'children': ['41']}; {'id': '41', 'type': 'expression_statement', 'children': ['42']}; {'id': '42', 'type': 'assignment', 'children': ['43', '44']}; {'id': '43', 'type': 'identifier', 'children': [], 'value': 'rcpt_options'}; {'id': '44', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '45', 'type': 'expression_statement', 'children': ['46']}; {'id': '46', 'type': 'await', 'children': ['47']}; {'id': '47', 'type': 'call', 'children': ['48', '51']}; {'id': '48', 'type': 'attribute', 'children': ['49', '50']}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '50', 'type': 'identifier', 'children': [], 'value': 'ehlo_or_helo_if_needed'}; {'id': '51', 'type': 'argument_list', 'children': []}; {'id': '52', 'type': 'if_statement', 'children': ['53', '56']}; {'id': '53', 'type': 'attribute', 'children': ['54', '55']}; {'id': '54', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '55', 'type': 'identifier', 'children': [], 'value': 'supports_esmtp'}; {'id': '56', 'type': 'block', 'children': ['57']}; {'id': '57', 'type': 'if_statement', 'children': ['58', '63']}; {'id': '58', 'type': 'comparison_operator', 'children': ['59', '60'], 'value': 'in'}; {'id': '59', 'type': 'string', 'children': [], 'value': '"size"'}; {'id': '60', 'type': 'attribute', 'children': ['61', '62']}; {'id': '61', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '62', 'type': 'identifier', 'children': [], 'value': 'esmtp_extensions'}; {'id': '63', 'type': 'block', 'children': ['64']}; {'id': '64', 'type': 'expression_statement', 'children': ['65']}; {'id': '65', 'type': 'call', 'children': ['66', '69']}; {'id': '66', 'type': 'attribute', 'children': ['67', '68']}; {'id': '67', 'type': 'identifier', 'children': [], 'value': 'mail_options'}; {'id': '68', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '69', 'type': 'argument_list', 'children': ['70']}; {'id': '70', 'type': 'call', 'children': ['71', '74']}; {'id': '71', 'type': 'attribute', 'children': ['72', '73']}; {'id': '72', 'type': 'string', 'children': [], 'value': '"size={}"'}; {'id': '73', 'type': 'identifier', 'children': [], 'value': 'format'}; {'id': '74', 'type': 'argument_list', 'children': ['75']}; {'id': '75', 'type': 'call', 'children': ['76', '77']}; {'id': '76', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '77', 'type': 'argument_list', 'children': ['78']}; {'id': '78', 'type': 'identifier', 'children': [], 'value': 'message'}; {'id': '79', 'type': 'expression_statement', 'children': ['80']}; {'id': '80', 'type': 'await', 'children': ['81']}; {'id': '81', 'type': 'call', 'children': ['82', '85']}; {'id': '82', 'type': 'attribute', 'children': ['83', '84']}; {'id': '83', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '84', 'type': 'identifier', 'children': [], 'value': 'mail'}; {'id': '85', 'type': 'argument_list', 'children': ['86', '87']}; {'id': '86', 'type': 'identifier', 'children': [], 'value': 'sender'}; {'id': '87', 'type': 'identifier', 'children': [], 'value': 'mail_options'}; {'id': '88', 'type': 'expression_statement', 'children': ['89']}; {'id': '89', 'type': 'assignment', 'children': ['90', '91']}; {'id': '90', 'type': 'identifier', 'children': [], 'value': 'errors'}; {'id': '91', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '92', 'type': 'for_statement', 'children': ['93', '94', '95']}; {'id': '93', 'type': 'identifier', 'children': [], 'value': 'recipient'}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'recipients'}; {'id': '95', 'type': 'block', 'children': ['96']}; {'id': '96', 'type': 'try_statement', 'children': ['97', '107']}; {'id': '97', 'type': 'block', 'children': ['98']}; {'id': '98', 'type': 'expression_statement', 'children': ['99']}; {'id': '99', 'type': 'await', 'children': ['100']}; {'id': '100', 'type': 'call', 'children': ['101', '104']}; {'id': '101', 'type': 'attribute', 'children': ['102', '103']}; {'id': '102', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '103', 'type': 'identifier', 'children': [], 'value': 'rcpt'}; {'id': '104', 'type': 'argument_list', 'children': ['105', '106']}; {'id': '105', 'type': 'identifier', 'children': [], 'value': 'recipient'}; {'id': '106', 'type': 'identifier', 'children': [], 'value': 'rcpt_options'}; {'id': '107', 'type': 'except_clause', 'children': ['108', '112']}; {'id': '108', 'type': 'as_pattern', 'children': ['109', '110']}; {'id': '109', 'type': 'identifier', 'children': [], 'value': 'SMTPCommandFailedError'}; {'id': '110', 'type': 'as_pattern_target', 'children': ['111']}; {'id': '111', 'type': 'identifier', 'children': [], 'value': 'e'}; {'id': '112', 'type': 'block', 'children': ['113']}; {'id': '113', 'type': 'expression_statement', 'children': ['114']}; {'id': '114', 'type': 'call', 'children': ['115', '118']}; {'id': '115', 'type': 'attribute', 'children': ['116', '117']}; {'id': '116', 'type': 'identifier', 'children': [], 'value': 'errors'}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '118', 'type': 'argument_list', 'children': ['119']}; {'id': '119', 'type': 'identifier', 'children': [], 'value': 'e'}; {'id': '120', 'type': 'if_statement', 'children': ['121', '130']}; {'id': '121', 'type': 'comparison_operator', 'children': ['122', '126'], 'value': '=='}; {'id': '122', 'type': 'call', 'children': ['123', '124']}; {'id': '123', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '124', 'type': 'argument_list', 'children': ['125']}; {'id': '125', 'type': 'identifier', 'children': [], 'value': 'recipients'}; {'id': '126', 'type': 'call', 'children': ['127', '128']}; {'id': '127', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '128', 'type': 'argument_list', 'children': ['129']}; {'id': '129', 'type': 'identifier', 'children': [], 'value': 'errors'}; {'id': '130', 'type': 'block', 'children': ['131']}; {'id': '131', 'type': 'raise_statement', 'children': ['132']}; {'id': '132', 'type': 'call', 'children': ['133', '134']}; {'id': '133', 'type': 'identifier', 'children': [], 'value': 'SMTPNoRecipientError'}; {'id': '134', 'type': 'argument_list', 'children': ['135']}; {'id': '135', 'type': 'identifier', 'children': [], 'value': 'errors'}; {'id': '136', 'type': 'expression_statement', 'children': ['137']}; {'id': '137', 'type': 'await', 'children': ['138']}; {'id': '138', 'type': 'call', 'children': ['139', '142']}; {'id': '139', 'type': 'attribute', 'children': ['140', '141']}; {'id': '140', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '141', 'type': 'identifier', 'children': [], 'value': 'data'}; {'id': '142', 'type': 'argument_list', 'children': ['143']}; {'id': '143', 'type': 'identifier', 'children': [], 'value': 'message'}; {'id': '144', 'type': 'return_statement', 'children': ['145']}; {'id': '145', 'type': 'identifier', 'children': [], 'value': 'errors'} | async def sendmail(
self, sender, recipients, message, mail_options=None, rcpt_options=None
):
if isinstance(recipients, str):
recipients = [recipients]
if mail_options is None:
mail_options = []
if rcpt_options is None:
rcpt_options = []
await self.ehlo_or_helo_if_needed()
if self.supports_esmtp:
if "size" in self.esmtp_extensions:
mail_options.append("size={}".format(len(message)))
await self.mail(sender, mail_options)
errors = []
for recipient in recipients:
try:
await self.rcpt(recipient, rcpt_options)
except SMTPCommandFailedError as e:
errors.append(e)
if len(recipients) == len(errors):
raise SMTPNoRecipientError(errors)
await self.data(message)
return errors |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '13']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'run_fsm'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '7', '8', '9', '10']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'command'}; {'id': '7', 'type': 'identifier', 'children': [], 'value': 'events'}; {'id': '8', 'type': 'identifier', 'children': [], 'value': 'transitions'}; {'id': '9', 'type': 'identifier', 'children': [], 'value': 'timeout'}; {'id': '10', 'type': 'default_parameter', 'children': ['11', '12']}; {'id': '11', 'type': 'identifier', 'children': [], 'value': 'max_transitions'}; {'id': '12', 'type': 'integer', 'children': [], 'value': '20'}; {'id': '13', 'type': 'block', 'children': ['14']}; {'id': '14', 'type': 'return_statement', 'children': ['15']}; {'id': '15', 'type': 'call', 'children': ['16', '23']}; {'id': '16', 'type': 'attribute', 'children': ['17', '22']}; {'id': '17', 'type': 'attribute', 'children': ['18', '21']}; {'id': '18', 'type': 'attribute', 'children': ['19', '20']}; {'id': '19', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '20', 'type': 'identifier', 'children': [], 'value': '_chain'}; {'id': '21', 'type': 'identifier', 'children': [], 'value': 'target_device'}; {'id': '22', 'type': 'identifier', 'children': [], 'value': 'run_fsm'}; {'id': '23', 'type': 'argument_list', 'children': ['24', '25', '26', '27', '28', '29']}; {'id': '24', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '25', 'type': 'identifier', 'children': [], 'value': 'command'}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'events'}; {'id': '27', 'type': 'identifier', 'children': [], 'value': 'transitions'}; {'id': '28', 'type': 'identifier', 'children': [], 'value': 'timeout'}; {'id': '29', 'type': 'identifier', 'children': [], 'value': 'max_transitions'} | def run_fsm(self, name, command, events, transitions, timeout, max_transitions=20):
return self._chain.target_device.run_fsm(name, command, events, transitions, timeout, max_transitions) |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '9']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': '_get_view_details'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '6']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'urlpatterns'}; {'id': '6', 'type': 'default_parameter', 'children': ['7', '8']}; {'id': '7', 'type': 'identifier', 'children': [], 'value': 'parent'}; {'id': '8', 'type': 'string', 'children': [], 'value': "''"}; {'id': '9', 'type': 'block', 'children': ['10']}; {'id': '10', 'type': 'for_statement', 'children': ['11', '12', '13']}; {'id': '11', 'type': 'identifier', 'children': [], 'value': 'pattern'}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'urlpatterns'}; {'id': '13', 'type': 'block', 'children': ['14']}; {'id': '14', 'type': 'if_statement', 'children': ['15', '22', '218']}; {'id': '15', 'type': 'call', 'children': ['16', '17']}; {'id': '16', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '17', 'type': 'argument_list', 'children': ['18', '19']}; {'id': '18', 'type': 'identifier', 'children': [], 'value': 'pattern'}; {'id': '19', 'type': 'tuple', 'children': ['20', '21']}; {'id': '20', 'type': 'identifier', 'children': [], 'value': 'URLPattern'}; {'id': '21', 'type': 'identifier', 'children': [], 'value': 'RegexURLPattern'}; {'id': '22', 'type': 'block', 'children': ['23']}; {'id': '23', 'type': 'try_statement', 'children': ['24', '214']}; {'id': '24', 'type': 'block', 'children': ['25', '32', '40', '44', '48', '52', '79', '90', '109']}; {'id': '25', 'type': 'expression_statement', 'children': ['26']}; {'id': '26', 'type': 'assignment', 'children': ['27', '28']}; {'id': '27', 'type': 'identifier', 'children': [], 'value': 'd'}; {'id': '28', 'type': 'call', 'children': ['29', '30']}; {'id': '29', 'type': 'identifier', 'children': [], 'value': 'describe_pattern'}; {'id': '30', 'type': 'argument_list', 'children': ['31']}; {'id': '31', 'type': 'identifier', 'children': [], 'value': 'pattern'}; {'id': '32', 'type': 'expression_statement', 'children': ['33']}; {'id': '33', 'type': 'assignment', 'children': ['34', '35']}; {'id': '34', 'type': 'identifier', 'children': [], 'value': 'docstr'}; {'id': '35', 'type': 'attribute', 'children': ['36', '39']}; {'id': '36', 'type': 'attribute', 'children': ['37', '38']}; {'id': '37', 'type': 'identifier', 'children': [], 'value': 'pattern'}; {'id': '38', 'type': 'identifier', 'children': [], 'value': 'callback'}; {'id': '39', 'type': 'identifier', 'children': [], 'value': '__doc__'}; {'id': '40', 'type': 'expression_statement', 'children': ['41']}; {'id': '41', 'type': 'assignment', 'children': ['42', '43']}; {'id': '42', 'type': 'identifier', 'children': [], 'value': 'method'}; {'id': '43', 'type': 'None', 'children': []}; {'id': '44', 'type': 'expression_statement', 'children': ['45']}; {'id': '45', 'type': 'assignment', 'children': ['46', '47']}; {'id': '46', 'type': 'identifier', 'children': [], 'value': 'expected_json_response'}; {'id': '47', 'type': 'string', 'children': [], 'value': "''"}; {'id': '48', 'type': 'expression_statement', 'children': ['49']}; {'id': '49', 'type': 'assignment', 'children': ['50', '51']}; {'id': '50', 'type': 'identifier', 'children': [], 'value': 'expected_url'}; {'id': '51', 'type': 'string', 'children': [], 'value': "''"}; {'id': '52', 'type': 'if_statement', 'children': ['53', '54']}; {'id': '53', 'type': 'identifier', 'children': [], 'value': 'docstr'}; {'id': '54', 'type': 'block', 'children': ['55', '70']}; {'id': '55', 'type': 'expression_statement', 'children': ['56']}; {'id': '56', 'type': 'assignment', 'children': ['57', '58']}; {'id': '57', 'type': 'identifier', 'children': [], 'value': 'u'}; {'id': '58', 'type': 'call', 'children': ['59', '62']}; {'id': '59', 'type': 'attribute', 'children': ['60', '61']}; {'id': '60', 'type': 'identifier', 'children': [], 'value': 're'}; {'id': '61', 'type': 'identifier', 'children': [], 'value': 'findall'}; {'id': '62', 'type': 'argument_list', 'children': ['63', '64', '65']}; {'id': '63', 'type': 'string', 'children': [], 'value': "r'URL: (.*)'"}; {'id': '64', 'type': 'identifier', 'children': [], 'value': 'docstr'}; {'id': '65', 'type': 'keyword_argument', 'children': ['66', '67']}; {'id': '66', 'type': 'identifier', 'children': [], 'value': 'flags'}; {'id': '67', 'type': 'attribute', 'children': ['68', '69']}; {'id': '68', 'type': 'identifier', 'children': [], 'value': 're'}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'DOTALL'}; {'id': '70', 'type': 'if_statement', 'children': ['71', '72']}; {'id': '71', 'type': 'identifier', 'children': [], 'value': 'u'}; {'id': '72', 'type': 'block', 'children': ['73']}; {'id': '73', 'type': 'expression_statement', 'children': ['74']}; {'id': '74', 'type': 'assignment', 'children': ['75', '76']}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'expected_url'}; {'id': '76', 'type': 'subscript', 'children': ['77', '78']}; {'id': '77', 'type': 'identifier', 'children': [], 'value': 'u'}; {'id': '78', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '79', 'type': 'if_statement', 'children': ['80', '88']}; {'id': '80', 'type': 'comparison_operator', 'children': ['81', '82'], 'value': 'not'}; {'id': '81', 'type': 'string', 'children': [], 'value': "'view_class'"}; {'id': '82', 'type': 'call', 'children': ['83', '84']}; {'id': '83', 'type': 'identifier', 'children': [], 'value': 'dir'}; {'id': '84', 'type': 'argument_list', 'children': ['85']}; {'id': '85', 'type': 'attribute', 'children': ['86', '87']}; {'id': '86', 'type': 'identifier', 'children': [], 'value': 'pattern'}; {'id': '87', 'type': 'identifier', 'children': [], 'value': 'callback'}; {'id': '88', 'type': 'block', 'children': ['89']}; {'id': '89', 'type': 'continue_statement', 'children': []}; {'id': '90', 'type': 'expression_statement', 'children': ['91']}; {'id': '91', 'type': 'assignment', 'children': ['92', '93']}; {'id': '92', 'type': 'identifier', 'children': [], 'value': 'possible_methods'}; {'id': '93', 'type': 'list_comprehension', 'children': ['94', '95', '105']}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'm'}; {'id': '95', 'type': 'for_in_clause', 'children': ['96', '97']}; {'id': '96', 'type': 'identifier', 'children': [], 'value': 'm'}; {'id': '97', 'type': 'call', 'children': ['98', '99']}; {'id': '98', 'type': 'identifier', 'children': [], 'value': 'dir'}; {'id': '99', 'type': 'argument_list', 'children': ['100']}; {'id': '100', 'type': 'attribute', 'children': ['101', '104']}; {'id': '101', 'type': 'attribute', 'children': ['102', '103']}; {'id': '102', 'type': 'identifier', 'children': [], 'value': 'pattern'}; {'id': '103', 'type': 'identifier', 'children': [], 'value': 'callback'}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'view_class'}; {'id': '105', 'type': 'if_clause', 'children': ['106']}; {'id': '106', 'type': 'comparison_operator', 'children': ['107', '108'], 'value': 'in'}; {'id': '107', 'type': 'identifier', 'children': [], 'value': 'm'}; {'id': '108', 'type': 'identifier', 'children': [], 'value': 'METHODS'}; {'id': '109', 'type': 'for_statement', 'children': ['110', '111', '112']}; {'id': '110', 'type': 'identifier', 'children': [], 'value': 'method'}; {'id': '111', 'type': 'identifier', 'children': [], 'value': 'possible_methods'}; {'id': '112', 'type': 'block', 'children': ['113', '127']}; {'id': '113', 'type': 'expression_statement', 'children': ['114']}; {'id': '114', 'type': 'assignment', 'children': ['115', '116']}; {'id': '115', 'type': 'identifier', 'children': [], 'value': 'view_method_docstr'}; {'id': '116', 'type': 'attribute', 'children': ['117', '126']}; {'id': '117', 'type': 'call', 'children': ['118', '119']}; {'id': '118', 'type': 'identifier', 'children': [], 'value': 'getattr'}; {'id': '119', 'type': 'argument_list', 'children': ['120', '125']}; {'id': '120', 'type': 'attribute', 'children': ['121', '124']}; {'id': '121', 'type': 'attribute', 'children': ['122', '123']}; {'id': '122', 'type': 'identifier', 'children': [], 'value': 'pattern'}; {'id': '123', 'type': 'identifier', 'children': [], 'value': 'callback'}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'view_class'}; {'id': '125', 'type': 'identifier', 'children': [], 'value': 'method'}; {'id': '126', 'type': 'identifier', 'children': [], 'value': '__doc__'}; {'id': '127', 'type': 'if_statement', 'children': ['128', '129']}; {'id': '128', 'type': 'identifier', 'children': [], 'value': 'view_method_docstr'}; {'id': '129', 'type': 'block', 'children': ['130', '154', '169']}; {'id': '130', 'type': 'if_statement', 'children': ['131', '137']}; {'id': '131', 'type': 'comparison_operator', 'children': ['132', '133'], 'value': 'in'}; {'id': '132', 'type': 'identifier', 'children': [], 'value': 'method'}; {'id': '133', 'type': 'list', 'children': ['134', '135', '136'], 'value': "['put', 'patch', 'delete']"}; {'id': '134', 'type': 'string', 'children': [], 'value': "'put'"}; {'id': '135', 'type': 'string', 'children': [], 'value': "'patch'"}; {'id': '136', 'type': 'string', 'children': [], 'value': "'delete'"}; {'id': '137', 'type': 'block', 'children': ['138', '153']}; {'id': '138', 'type': 'expression_statement', 'children': ['139']}; {'id': '139', 'type': 'call', 'children': ['140', '145']}; {'id': '140', 'type': 'attribute', 'children': ['141', '144']}; {'id': '141', 'type': 'attribute', 'children': ['142', '143']}; {'id': '142', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '143', 'type': 'identifier', 'children': [], 'value': 'url_details'}; {'id': '144', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '145', 'type': 'argument_list', 'children': ['146']}; {'id': '146', 'type': 'dictionary', 'children': ['147', '150']}; {'id': '147', 'type': 'pair', 'children': ['148', '149']}; {'id': '148', 'type': 'string', 'children': [], 'value': "'url'"}; {'id': '149', 'type': 'identifier', 'children': [], 'value': 'expected_url'}; {'id': '150', 'type': 'pair', 'children': ['151', '152']}; {'id': '151', 'type': 'string', 'children': [], 'value': "'method'"}; {'id': '152', 'type': 'identifier', 'children': [], 'value': 'method'}; {'id': '153', 'type': 'continue_statement', 'children': []}; {'id': '154', 'type': 'expression_statement', 'children': ['155']}; {'id': '155', 'type': 'assignment', 'children': ['156', '157']}; {'id': '156', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '157', 'type': 'call', 'children': ['158', '161']}; {'id': '158', 'type': 'attribute', 'children': ['159', '160']}; {'id': '159', 'type': 'identifier', 'children': [], 'value': 're'}; {'id': '160', 'type': 'identifier', 'children': [], 'value': 'findall'}; {'id': '161', 'type': 'argument_list', 'children': ['162', '163', '164']}; {'id': '162', 'type': 'string', 'children': [], 'value': "r'```(.*)```'"}; {'id': '163', 'type': 'identifier', 'children': [], 'value': 'view_method_docstr'}; {'id': '164', 'type': 'keyword_argument', 'children': ['165', '166']}; {'id': '165', 'type': 'identifier', 'children': [], 'value': 'flags'}; {'id': '166', 'type': 'attribute', 'children': ['167', '168']}; {'id': '167', 'type': 'identifier', 'children': [], 'value': 're'}; {'id': '168', 'type': 'identifier', 'children': [], 'value': 'DOTALL'}; {'id': '169', 'type': 'if_statement', 'children': ['170', '173']}; {'id': '170', 'type': 'comparison_operator', 'children': ['171', '172'], 'value': 'is'}; {'id': '171', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '172', 'type': 'None', 'children': []}; {'id': '173', 'type': 'block', 'children': ['174']}; {'id': '174', 'type': 'for_statement', 'children': ['175', '176', '177']}; {'id': '175', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '176', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '177', 'type': 'block', 'children': ['178', '186']}; {'id': '178', 'type': 'expression_statement', 'children': ['179']}; {'id': '179', 'type': 'assignment', 'children': ['180', '181']}; {'id': '180', 'type': 'identifier', 'children': [], 'value': 'expected_json_response'}; {'id': '181', 'type': 'call', 'children': ['182', '185']}; {'id': '182', 'type': 'attribute', 'children': ['183', '184']}; {'id': '183', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '184', 'type': 'identifier', 'children': [], 'value': 'strip'}; {'id': '185', 'type': 'argument_list', 'children': []}; {'id': '186', 'type': 'if_statement', 'children': ['187', '194']}; {'id': '187', 'type': 'boolean_operator', 'children': ['188', '193'], 'value': 'and'}; {'id': '188', 'type': 'boolean_operator', 'children': ['189', '192'], 'value': 'and'}; {'id': '189', 'type': 'comparison_operator', 'children': ['190', '191'], 'value': 'is'}; {'id': '190', 'type': 'identifier', 'children': [], 'value': 'method'}; {'id': '191', 'type': 'None', 'children': []}; {'id': '192', 'type': 'identifier', 'children': [], 'value': 'expected_json_response'}; {'id': '193', 'type': 'identifier', 'children': [], 'value': 'expected_url'}; {'id': '194', 'type': 'block', 'children': ['195', '213']}; {'id': '195', 'type': 'expression_statement', 'children': ['196']}; {'id': '196', 'type': 'call', 'children': ['197', '202']}; {'id': '197', 'type': 'attribute', 'children': ['198', '201']}; {'id': '198', 'type': 'attribute', 'children': ['199', '200']}; {'id': '199', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '200', 'type': 'identifier', 'children': [], 'value': 'url_details'}; {'id': '201', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '202', 'type': 'argument_list', 'children': ['203']}; {'id': '203', 'type': 'dictionary', 'children': ['204', '207', '210']}; {'id': '204', 'type': 'pair', 'children': ['205', '206']}; {'id': '205', 'type': 'string', 'children': [], 'value': "'url'"}; {'id': '206', 'type': 'identifier', 'children': [], 'value': 'expected_url'}; {'id': '207', 'type': 'pair', 'children': ['208', '209']}; {'id': '208', 'type': 'string', 'children': [], 'value': "'method'"}; {'id': '209', 'type': 'identifier', 'children': [], 'value': 'method'}; {'id': '210', 'type': 'pair', 'children': ['211', '212']}; {'id': '211', 'type': 'string', 'children': [], 'value': "'response'"}; {'id': '212', 'type': 'identifier', 'children': [], 'value': 'expected_json_response'}; {'id': '213', 'type': 'continue_statement', 'children': []}; {'id': '214', 'type': 'except_clause', 'children': ['215', '216']}; {'id': '215', 'type': 'identifier', 'children': [], 'value': 'ViewDoesNotExist'}; {'id': '216', 'type': 'block', 'children': ['217']}; {'id': '217', 'type': 'pass_statement', 'children': []}; {'id': '218', 'type': 'elif_clause', 'children': ['219', '226']}; {'id': '219', 'type': 'call', 'children': ['220', '221']}; {'id': '220', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '221', 'type': 'argument_list', 'children': ['222', '223']}; {'id': '222', 'type': 'identifier', 'children': [], 'value': 'pattern'}; {'id': '223', 'type': 'tuple', 'children': ['224', '225']}; {'id': '224', 'type': 'identifier', 'children': [], 'value': 'URLResolver'}; {'id': '225', 'type': 'identifier', 'children': [], 'value': 'RegexURLResolver'}; {'id': '226', 'type': 'block', 'children': ['227', '239', '246', '252']}; {'id': '227', 'type': 'try_statement', 'children': ['228', '235']}; {'id': '228', 'type': 'block', 'children': ['229']}; {'id': '229', 'type': 'expression_statement', 'children': ['230']}; {'id': '230', 'type': 'assignment', 'children': ['231', '232']}; {'id': '231', 'type': 'identifier', 'children': [], 'value': 'patterns'}; {'id': '232', 'type': 'attribute', 'children': ['233', '234']}; {'id': '233', 'type': 'identifier', 'children': [], 'value': 'pattern'}; {'id': '234', 'type': 'identifier', 'children': [], 'value': 'url_patterns'}; {'id': '235', 'type': 'except_clause', 'children': ['236', '237']}; {'id': '236', 'type': 'identifier', 'children': [], 'value': 'ImportError'}; {'id': '237', 'type': 'block', 'children': ['238']}; {'id': '238', 'type': 'continue_statement', 'children': []}; {'id': '239', 'type': 'expression_statement', 'children': ['240']}; {'id': '240', 'type': 'assignment', 'children': ['241', '242']}; {'id': '241', 'type': 'identifier', 'children': [], 'value': 'd'}; {'id': '242', 'type': 'call', 'children': ['243', '244']}; {'id': '243', 'type': 'identifier', 'children': [], 'value': 'describe_pattern'}; {'id': '244', 'type': 'argument_list', 'children': ['245']}; {'id': '245', 'type': 'identifier', 'children': [], 'value': 'pattern'}; {'id': '246', 'type': 'expression_statement', 'children': ['247']}; {'id': '247', 'type': 'assignment', 'children': ['248', '249']}; {'id': '248', 'type': 'identifier', 'children': [], 'value': 'current_full_url'}; {'id': '249', 'type': 'binary_operator', 'children': ['250', '251'], 'value': '+'}; {'id': '250', 'type': 'identifier', 'children': [], 'value': 'parent'}; {'id': '251', 'type': 'identifier', 'children': [], 'value': 'd'}; {'id': '252', 'type': 'expression_statement', 'children': ['253']}; {'id': '253', 'type': 'call', 'children': ['254', '257']}; {'id': '254', 'type': 'attribute', 'children': ['255', '256']}; {'id': '255', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '256', 'type': 'identifier', 'children': [], 'value': '_get_view_details'}; {'id': '257', 'type': 'argument_list', 'children': ['258', '259']}; {'id': '258', 'type': 'identifier', 'children': [], 'value': 'patterns'}; {'id': '259', 'type': 'identifier', 'children': [], 'value': 'current_full_url'} | def _get_view_details(self, urlpatterns, parent=''):
for pattern in urlpatterns:
if isinstance(pattern, (URLPattern, RegexURLPattern)):
try:
d = describe_pattern(pattern)
docstr = pattern.callback.__doc__
method = None
expected_json_response = ''
expected_url = ''
if docstr:
u = re.findall(r'URL: (.*)', docstr, flags=re.DOTALL)
if u:
expected_url = u[0]
if 'view_class' not in dir(pattern.callback):
continue
possible_methods = [m for m in dir(pattern.callback.view_class) if m in METHODS]
for method in possible_methods:
view_method_docstr = getattr(pattern.callback.view_class, method).__doc__
if view_method_docstr:
if method in ['put', 'patch', 'delete']:
self.url_details.append({
'url': expected_url,
'method': method
})
continue
j = re.findall(r'```(.*)```', view_method_docstr, flags=re.DOTALL)
if j is not None:
for match in j:
expected_json_response = match.strip()
if method is not None and expected_json_response and expected_url:
self.url_details.append({
'url': expected_url,
'method': method,
'response': expected_json_response
})
continue
except ViewDoesNotExist:
pass
elif isinstance(pattern, (URLResolver, RegexURLResolver)):
try:
patterns = pattern.url_patterns
except ImportError:
continue
d = describe_pattern(pattern)
current_full_url = parent + d
self._get_view_details(patterns, current_full_url) |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '7']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'scan_module'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '6']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'modpath'}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'node'}; {'id': '7', 'type': 'block', 'children': ['8', '22', '89', '184', '230', '261', '267', '273', '313']}; {'id': '8', 'type': 'expression_statement', 'children': ['9']}; {'id': '9', 'type': 'assignment', 'children': ['10', '11']}; {'id': '10', 'type': 'identifier', 'children': [], 'value': 'used_origins'}; {'id': '11', 'type': 'call', 'children': ['12', '17']}; {'id': '12', 'type': 'attribute', 'children': ['13', '16']}; {'id': '13', 'type': 'attribute', 'children': ['14', '15']}; {'id': '14', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '15', 'type': 'identifier', 'children': [], 'value': 'map'}; {'id': '16', 'type': 'identifier', 'children': [], 'value': 'setdefault'}; {'id': '17', 'type': 'argument_list', 'children': ['18', '19']}; {'id': '18', 'type': 'identifier', 'children': [], 'value': 'modpath'}; {'id': '19', 'type': 'call', 'children': ['20', '21']}; {'id': '20', 'type': 'identifier', 'children': [], 'value': 'set'}; {'id': '21', 'type': 'argument_list', 'children': []}; {'id': '22', 'type': 'function_definition', 'children': ['23', '24', '27']}; {'id': '23', 'type': 'function_name', 'children': [], 'value': 'get_origins'}; {'id': '24', 'type': 'parameters', 'children': ['25', '26']}; {'id': '25', 'type': 'identifier', 'children': [], 'value': 'modpath'}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '27', 'type': 'block', 'children': ['28', '34', '81', '87']}; {'id': '28', 'type': 'expression_statement', 'children': ['29']}; {'id': '29', 'type': 'assignment', 'children': ['30', '31']}; {'id': '30', 'type': 'identifier', 'children': [], 'value': 'origins'}; {'id': '31', 'type': 'call', 'children': ['32', '33']}; {'id': '32', 'type': 'identifier', 'children': [], 'value': 'set'}; {'id': '33', 'type': 'argument_list', 'children': []}; {'id': '34', 'type': 'function_definition', 'children': ['35', '36', '39']}; {'id': '35', 'type': 'function_name', 'children': [], 'value': 'walk_origins'}; {'id': '36', 'type': 'parameters', 'children': ['37', '38']}; {'id': '37', 'type': 'identifier', 'children': [], 'value': 'modpath'}; {'id': '38', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '39', 'type': 'block', 'children': ['40']}; {'id': '40', 'type': 'for_statement', 'children': ['41', '42', '51']}; {'id': '41', 'type': 'identifier', 'children': [], 'value': 'origin'}; {'id': '42', 'type': 'call', 'children': ['43', '48']}; {'id': '43', 'type': 'attribute', 'children': ['44', '47']}; {'id': '44', 'type': 'attribute', 'children': ['45', '46']}; {'id': '45', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '46', 'type': 'identifier', 'children': [], 'value': 'import_map'}; {'id': '47', 'type': 'identifier', 'children': [], 'value': 'get_origins'}; {'id': '48', 'type': 'argument_list', 'children': ['49', '50']}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'modpath'}; {'id': '50', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '51', 'type': 'block', 'children': ['52']}; {'id': '52', 'type': 'if_statement', 'children': ['53', '56']}; {'id': '53', 'type': 'comparison_operator', 'children': ['54', '55'], 'value': 'not'}; {'id': '54', 'type': 'identifier', 'children': [], 'value': 'origin'}; {'id': '55', 'type': 'identifier', 'children': [], 'value': 'origins'}; {'id': '56', 'type': 'block', 'children': ['57', '64']}; {'id': '57', 'type': 'expression_statement', 'children': ['58']}; {'id': '58', 'type': 'call', 'children': ['59', '62']}; {'id': '59', 'type': 'attribute', 'children': ['60', '61']}; {'id': '60', 'type': 'identifier', 'children': [], 'value': 'origins'}; {'id': '61', 'type': 'identifier', 'children': [], 'value': 'add'}; {'id': '62', 'type': 'argument_list', 'children': ['63']}; {'id': '63', 'type': 'identifier', 'children': [], 'value': 'origin'}; {'id': '64', 'type': 'if_statement', 'children': ['65', '68']}; {'id': '65', 'type': 'comparison_operator', 'children': ['66', '67'], 'value': 'in'}; {'id': '66', 'type': 'string', 'children': [], 'value': "'.'"}; {'id': '67', 'type': 'identifier', 'children': [], 'value': 'origin'}; {'id': '68', 'type': 'block', 'children': ['69']}; {'id': '69', 'type': 'expression_statement', 'children': ['70']}; {'id': '70', 'type': 'call', 'children': ['71', '72']}; {'id': '71', 'type': 'identifier', 'children': [], 'value': 'walk_origins'}; {'id': '72', 'type': 'argument_list', 'children': ['73']}; {'id': '73', 'type': 'list_splat', 'children': ['74']}; {'id': '74', 'type': 'call', 'children': ['75', '78']}; {'id': '75', 'type': 'attribute', 'children': ['76', '77']}; {'id': '76', 'type': 'identifier', 'children': [], 'value': 'origin'}; {'id': '77', 'type': 'identifier', 'children': [], 'value': 'rsplit'}; {'id': '78', 'type': 'argument_list', 'children': ['79', '80']}; {'id': '79', 'type': 'string', 'children': [], 'value': "'.'"}; {'id': '80', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '81', 'type': 'expression_statement', 'children': ['82']}; {'id': '82', 'type': 'call', 'children': ['83', '84']}; {'id': '83', 'type': 'identifier', 'children': [], 'value': 'walk_origins'}; {'id': '84', 'type': 'argument_list', 'children': ['85', '86']}; {'id': '85', 'type': 'identifier', 'children': [], 'value': 'modpath'}; {'id': '86', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '87', 'type': 'return_statement', 'children': ['88']}; {'id': '88', 'type': 'identifier', 'children': [], 'value': 'origins'}; {'id': '89', 'type': 'function_definition', 'children': ['90', '91', '93']}; {'id': '90', 'type': 'function_name', 'children': [], 'value': 'get_origins_for_node'}; {'id': '91', 'type': 'parameters', 'children': ['92']}; {'id': '92', 'type': 'identifier', 'children': [], 'value': 'node'}; {'id': '93', 'type': 'block', 'children': ['94', '128', '180']}; {'id': '94', 'type': 'if_statement', 'children': ['95', '110']}; {'id': '95', 'type': 'boolean_operator', 'children': ['96', '102'], 'value': 'and'}; {'id': '96', 'type': 'comparison_operator', 'children': ['97', '101'], 'value': '=='}; {'id': '97', 'type': 'call', 'children': ['98', '99']}; {'id': '98', 'type': 'identifier', 'children': [], 'value': 'node_type'}; {'id': '99', 'type': 'argument_list', 'children': ['100']}; {'id': '100', 'type': 'identifier', 'children': [], 'value': 'node'}; {'id': '101', 'type': 'string', 'children': [], 'value': "'Name'"}; {'id': '102', 'type': 'comparison_operator', 'children': ['103', '109'], 'value': '=='}; {'id': '103', 'type': 'call', 'children': ['104', '105']}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'node_type'}; {'id': '105', 'type': 'argument_list', 'children': ['106']}; {'id': '106', 'type': 'attribute', 'children': ['107', '108']}; {'id': '107', 'type': 'identifier', 'children': [], 'value': 'node'}; {'id': '108', 'type': 'identifier', 'children': [], 'value': 'ctx'}; {'id': '109', 'type': 'string', 'children': [], 'value': "'Load'"}; {'id': '110', 'type': 'block', 'children': ['111']}; {'id': '111', 'type': 'return_statement', 'children': ['112']}; {'id': '112', 'type': 'binary_operator', 'children': ['113', '121'], 'value': '|'}; {'id': '113', 'type': 'set', 'children': ['114']}; {'id': '114', 'type': 'binary_operator', 'children': ['115', '118'], 'value': '+'}; {'id': '115', 'type': 'binary_operator', 'children': ['116', '117'], 'value': '+'}; {'id': '116', 'type': 'identifier', 'children': [], 'value': 'modpath'}; {'id': '117', 'type': 'string', 'children': [], 'value': "'.'"}; {'id': '118', 'type': 'attribute', 'children': ['119', '120']}; {'id': '119', 'type': 'identifier', 'children': [], 'value': 'node'}; {'id': '120', 'type': 'identifier', 'children': [], 'value': 'id'}; {'id': '121', 'type': 'call', 'children': ['122', '123']}; {'id': '122', 'type': 'identifier', 'children': [], 'value': 'get_origins'}; {'id': '123', 'type': 'argument_list', 'children': ['124', '125']}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'modpath'}; {'id': '125', 'type': 'attribute', 'children': ['126', '127']}; {'id': '126', 'type': 'identifier', 'children': [], 'value': 'node'}; {'id': '127', 'type': 'identifier', 'children': [], 'value': 'id'}; {'id': '128', 'type': 'if_statement', 'children': ['129', '144']}; {'id': '129', 'type': 'boolean_operator', 'children': ['130', '136'], 'value': 'and'}; {'id': '130', 'type': 'comparison_operator', 'children': ['131', '135'], 'value': '=='}; {'id': '131', 'type': 'call', 'children': ['132', '133']}; {'id': '132', 'type': 'identifier', 'children': [], 'value': 'node_type'}; {'id': '133', 'type': 'argument_list', 'children': ['134']}; {'id': '134', 'type': 'identifier', 'children': [], 'value': 'node'}; {'id': '135', 'type': 'string', 'children': [], 'value': "'Attribute'"}; {'id': '136', 'type': 'comparison_operator', 'children': ['137', '143'], 'value': '=='}; {'id': '137', 'type': 'call', 'children': ['138', '139']}; {'id': '138', 'type': 'identifier', 'children': [], 'value': 'node_type'}; {'id': '139', 'type': 'argument_list', 'children': ['140']}; {'id': '140', 'type': 'attribute', 'children': ['141', '142']}; {'id': '141', 'type': 'identifier', 'children': [], 'value': 'node'}; {'id': '142', 'type': 'identifier', 'children': [], 'value': 'ctx'}; {'id': '143', 'type': 'string', 'children': [], 'value': "'Load'"}; {'id': '144', 'type': 'block', 'children': ['145']}; {'id': '145', 'type': 'return_statement', 'children': ['146']}; {'id': '146', 'type': 'call', 'children': ['147', '150']}; {'id': '147', 'type': 'attribute', 'children': ['148', '149']}; {'id': '148', 'type': 'identifier', 'children': [], 'value': 'set'}; {'id': '149', 'type': 'identifier', 'children': [], 'value': 'union'}; {'id': '150', 'type': 'argument_list', 'children': ['151', '154']}; {'id': '151', 'type': 'call', 'children': ['152', '153']}; {'id': '152', 'type': 'identifier', 'children': [], 'value': 'set'}; {'id': '153', 'type': 'argument_list', 'children': []}; {'id': '154', 'type': 'list_splat', 'children': ['155']}; {'id': '155', 'type': 'list_comprehension', 'children': ['156', '172']}; {'id': '156', 'type': 'binary_operator', 'children': ['157', '165'], 'value': '|'}; {'id': '157', 'type': 'set', 'children': ['158']}; {'id': '158', 'type': 'binary_operator', 'children': ['159', '162'], 'value': '+'}; {'id': '159', 'type': 'binary_operator', 'children': ['160', '161'], 'value': '+'}; {'id': '160', 'type': 'identifier', 'children': [], 'value': 'parent'}; {'id': '161', 'type': 'string', 'children': [], 'value': "'.'"}; {'id': '162', 'type': 'attribute', 'children': ['163', '164']}; {'id': '163', 'type': 'identifier', 'children': [], 'value': 'node'}; {'id': '164', 'type': 'identifier', 'children': [], 'value': 'attr'}; {'id': '165', 'type': 'call', 'children': ['166', '167']}; {'id': '166', 'type': 'identifier', 'children': [], 'value': 'get_origins'}; {'id': '167', 'type': 'argument_list', 'children': ['168', '169']}; {'id': '168', 'type': 'identifier', 'children': [], 'value': 'parent'}; {'id': '169', 'type': 'attribute', 'children': ['170', '171']}; {'id': '170', 'type': 'identifier', 'children': [], 'value': 'node'}; {'id': '171', 'type': 'identifier', 'children': [], 'value': 'attr'}; {'id': '172', 'type': 'for_in_clause', 'children': ['173', '174']}; {'id': '173', 'type': 'identifier', 'children': [], 'value': 'parent'}; {'id': '174', 'type': 'call', 'children': ['175', '176']}; {'id': '175', 'type': 'identifier', 'children': [], 'value': 'get_origins_for_node'}; {'id': '176', 'type': 'argument_list', 'children': ['177']}; {'id': '177', 'type': 'attribute', 'children': ['178', '179']}; {'id': '178', 'type': 'identifier', 'children': [], 'value': 'node'}; {'id': '179', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '180', 'type': 'return_statement', 'children': ['181']}; {'id': '181', 'type': 'call', 'children': ['182', '183']}; {'id': '182', 'type': 'identifier', 'children': [], 'value': 'set'}; {'id': '183', 'type': 'argument_list', 'children': []}; {'id': '184', 'type': 'function_definition', 'children': ['185', '186', '188']}; {'id': '185', 'type': 'function_name', 'children': [], 'value': 'get_origins_used_by_node'}; {'id': '186', 'type': 'parameters', 'children': ['187']}; {'id': '187', 'type': 'identifier', 'children': [], 'value': 'node'}; {'id': '188', 'type': 'block', 'children': ['189', '202', '226']}; {'id': '189', 'type': 'if_statement', 'children': ['190', '196']}; {'id': '190', 'type': 'comparison_operator', 'children': ['191', '195'], 'value': '=='}; {'id': '191', 'type': 'call', 'children': ['192', '193']}; {'id': '192', 'type': 'identifier', 'children': [], 'value': 'node_type'}; {'id': '193', 'type': 'argument_list', 'children': ['194']}; {'id': '194', 'type': 'identifier', 'children': [], 'value': 'node'}; {'id': '195', 'type': 'string', 'children': [], 'value': "'Name'"}; {'id': '196', 'type': 'block', 'children': ['197']}; {'id': '197', 'type': 'return_statement', 'children': ['198']}; {'id': '198', 'type': 'call', 'children': ['199', '200']}; {'id': '199', 'type': 'identifier', 'children': [], 'value': 'get_origins_for_node'}; {'id': '200', 'type': 'argument_list', 'children': ['201']}; {'id': '201', 'type': 'identifier', 'children': [], 'value': 'node'}; {'id': '202', 'type': 'if_statement', 'children': ['203', '209']}; {'id': '203', 'type': 'comparison_operator', 'children': ['204', '208'], 'value': '=='}; {'id': '204', 'type': 'call', 'children': ['205', '206']}; {'id': '205', 'type': 'identifier', 'children': [], 'value': 'node_type'}; {'id': '206', 'type': 'argument_list', 'children': ['207']}; {'id': '207', 'type': 'identifier', 'children': [], 'value': 'node'}; {'id': '208', 'type': 'string', 'children': [], 'value': "'Attribute'"}; {'id': '209', 'type': 'block', 'children': ['210']}; {'id': '210', 'type': 'return_statement', 'children': ['211']}; {'id': '211', 'type': 'call', 'children': ['212', '215']}; {'id': '212', 'type': 'attribute', 'children': ['213', '214']}; {'id': '213', 'type': 'identifier', 'children': [], 'value': 'set'}; {'id': '214', 'type': 'identifier', 'children': [], 'value': 'union'}; {'id': '215', 'type': 'argument_list', 'children': ['216', '222']}; {'id': '216', 'type': 'call', 'children': ['217', '218']}; {'id': '217', 'type': 'identifier', 'children': [], 'value': 'get_origins_used_by_node'}; {'id': '218', 'type': 'argument_list', 'children': ['219']}; {'id': '219', 'type': 'attribute', 'children': ['220', '221']}; {'id': '220', 'type': 'identifier', 'children': [], 'value': 'node'}; {'id': '221', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '222', 'type': 'call', 'children': ['223', '224']}; {'id': '223', 'type': 'identifier', 'children': [], 'value': 'get_origins_for_node'}; {'id': '224', 'type': 'argument_list', 'children': ['225']}; {'id': '225', 'type': 'identifier', 'children': [], 'value': 'node'}; {'id': '226', 'type': 'return_statement', 'children': ['227']}; {'id': '227', 'type': 'call', 'children': ['228', '229']}; {'id': '228', 'type': 'identifier', 'children': [], 'value': 'set'}; {'id': '229', 'type': 'argument_list', 'children': []}; {'id': '230', 'type': 'function_definition', 'children': ['231', '232', '234']}; {'id': '231', 'type': 'function_name', 'children': [], 'value': 'scan_loads'}; {'id': '232', 'type': 'parameters', 'children': ['233']}; {'id': '233', 'type': 'identifier', 'children': [], 'value': 'node'}; {'id': '234', 'type': 'block', 'children': ['235', '255']}; {'id': '235', 'type': 'if_statement', 'children': ['236', '244']}; {'id': '236', 'type': 'comparison_operator', 'children': ['237', '241'], 'value': 'in'}; {'id': '237', 'type': 'call', 'children': ['238', '239']}; {'id': '238', 'type': 'identifier', 'children': [], 'value': 'node_type'}; {'id': '239', 'type': 'argument_list', 'children': ['240']}; {'id': '240', 'type': 'identifier', 'children': [], 'value': 'node'}; {'id': '241', 'type': 'list', 'children': ['242', '243'], 'value': "['Name', 'Attribute']"}; {'id': '242', 'type': 'string', 'children': [], 'value': "'Name'"}; {'id': '243', 'type': 'string', 'children': [], 'value': "'Attribute'"}; {'id': '244', 'type': 'block', 'children': ['245']}; {'id': '245', 'type': 'expression_statement', 'children': ['246']}; {'id': '246', 'type': 'call', 'children': ['247', '250']}; {'id': '247', 'type': 'attribute', 'children': ['248', '249']}; {'id': '248', 'type': 'identifier', 'children': [], 'value': 'used_origins'}; {'id': '249', 'type': 'identifier', 'children': [], 'value': 'update'}; {'id': '250', 'type': 'argument_list', 'children': ['251']}; {'id': '251', 'type': 'call', 'children': ['252', '253']}; {'id': '252', 'type': 'identifier', 'children': [], 'value': 'get_origins_used_by_node'}; {'id': '253', 'type': 'argument_list', 'children': ['254']}; {'id': '254', 'type': 'identifier', 'children': [], 'value': 'node'}; {'id': '255', 'type': 'expression_statement', 'children': ['256']}; {'id': '256', 'type': 'call', 'children': ['257', '258']}; {'id': '257', 'type': 'identifier', 'children': [], 'value': 'for_each_child'}; {'id': '258', 'type': 'argument_list', 'children': ['259', '260']}; {'id': '259', 'type': 'identifier', 'children': [], 'value': 'node'}; {'id': '260', 'type': 'identifier', 'children': [], 'value': 'scan_loads'}; {'id': '261', 'type': 'expression_statement', 'children': ['262']}; {'id': '262', 'type': 'call', 'children': ['263', '264']}; {'id': '263', 'type': 'identifier', 'children': [], 'value': 'for_each_child'}; {'id': '264', 'type': 'argument_list', 'children': ['265', '266']}; {'id': '265', 'type': 'identifier', 'children': [], 'value': 'node'}; {'id': '266', 'type': 'identifier', 'children': [], 'value': 'scan_loads'}; {'id': '267', 'type': 'expression_statement', 'children': ['268']}; {'id': '268', 'type': 'assignment', 'children': ['269', '270']}; {'id': '269', 'type': 'identifier', 'children': [], 'value': 'intermediate_origins'}; {'id': '270', 'type': 'call', 'children': ['271', '272']}; {'id': '271', 'type': 'identifier', 'children': [], 'value': 'set'}; {'id': '272', 'type': 'argument_list', 'children': []}; {'id': '273', 'type': 'for_statement', 'children': ['274', '275', '276']}; {'id': '274', 'type': 'identifier', 'children': [], 'value': 'origin'}; {'id': '275', 'type': 'identifier', 'children': [], 'value': 'used_origins'}; {'id': '276', 'type': 'block', 'children': ['277', '286']}; {'id': '277', 'type': 'expression_statement', 'children': ['278']}; {'id': '278', 'type': 'assignment', 'children': ['279', '280']}; {'id': '279', 'type': 'identifier', 'children': [], 'value': 'parts'}; {'id': '280', 'type': 'call', 'children': ['281', '284']}; {'id': '281', 'type': 'attribute', 'children': ['282', '283']}; {'id': '282', 'type': 'identifier', 'children': [], 'value': 'origin'}; {'id': '283', 'type': 'identifier', 'children': [], 'value': 'split'}; {'id': '284', 'type': 'argument_list', 'children': ['285']}; {'id': '285', 'type': 'string', 'children': [], 'value': "'.'"}; {'id': '286', 'type': 'for_statement', 'children': ['287', '288', '296']}; {'id': '287', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '288', 'type': 'call', 'children': ['289', '290']}; {'id': '289', 'type': 'identifier', 'children': [], 'value': 'range'}; {'id': '290', 'type': 'argument_list', 'children': ['291', '292']}; {'id': '291', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '292', 'type': 'call', 'children': ['293', '294']}; {'id': '293', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '294', 'type': 'argument_list', 'children': ['295']}; {'id': '295', 'type': 'identifier', 'children': [], 'value': 'parts'}; {'id': '296', 'type': 'block', 'children': ['297']}; {'id': '297', 'type': 'expression_statement', 'children': ['298']}; {'id': '298', 'type': 'call', 'children': ['299', '302']}; {'id': '299', 'type': 'attribute', 'children': ['300', '301']}; {'id': '300', 'type': 'identifier', 'children': [], 'value': 'intermediate_origins'}; {'id': '301', 'type': 'identifier', 'children': [], 'value': 'add'}; {'id': '302', 'type': 'argument_list', 'children': ['303']}; {'id': '303', 'type': 'call', 'children': ['304', '307']}; {'id': '304', 'type': 'attribute', 'children': ['305', '306']}; {'id': '305', 'type': 'string', 'children': [], 'value': "'.'"}; {'id': '306', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '307', 'type': 'argument_list', 'children': ['308']}; {'id': '308', 'type': 'subscript', 'children': ['309', '310']}; {'id': '309', 'type': 'identifier', 'children': [], 'value': 'parts'}; {'id': '310', 'type': 'slice', 'children': ['311', '312']}; {'id': '311', 'type': 'colon', 'children': []}; {'id': '312', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '313', 'type': 'expression_statement', 'children': ['314']}; {'id': '314', 'type': 'call', 'children': ['315', '318']}; {'id': '315', 'type': 'attribute', 'children': ['316', '317']}; {'id': '316', 'type': 'identifier', 'children': [], 'value': 'used_origins'}; {'id': '317', 'type': 'identifier', 'children': [], 'value': 'update'}; {'id': '318', 'type': 'argument_list', 'children': ['319']}; {'id': '319', 'type': 'identifier', 'children': [], 'value': 'intermediate_origins'} | def scan_module(self, modpath, node):
used_origins = self.map.setdefault(modpath, set())
def get_origins(modpath, name):
origins = set()
def walk_origins(modpath, name):
for origin in self.import_map.get_origins(modpath, name):
if origin not in origins:
origins.add(origin)
if '.' in origin:
walk_origins(*origin.rsplit('.', 1))
walk_origins(modpath, name)
return origins
def get_origins_for_node(node):
if node_type(node) == 'Name' and node_type(node.ctx) == 'Load':
return {modpath + '.' + node.id} | get_origins(modpath, node.id)
if node_type(node) == 'Attribute' and node_type(node.ctx) == 'Load':
return set.union(set(), *[
{parent + '.' + node.attr} | get_origins(parent, node.attr)
for parent in get_origins_for_node(node.value)])
return set()
def get_origins_used_by_node(node):
if node_type(node) == 'Name':
return get_origins_for_node(node)
if node_type(node) == 'Attribute':
return set.union(get_origins_used_by_node(node.value),
get_origins_for_node(node))
return set()
def scan_loads(node):
if node_type(node) in ['Name', 'Attribute']:
used_origins.update(get_origins_used_by_node(node))
for_each_child(node, scan_loads)
for_each_child(node, scan_loads)
intermediate_origins = set()
for origin in used_origins:
parts = origin.split('.')
for i in range(1, len(parts)):
intermediate_origins.add('.'.join(parts[:i]))
used_origins.update(intermediate_origins) |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '8']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'operations'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '5', 'type': 'default_parameter', 'children': ['6', '7']}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'op_types'}; {'id': '7', 'type': 'None', 'children': []}; {'id': '8', 'type': 'block', 'children': ['9', '22']}; {'id': '9', 'type': 'if_statement', 'children': ['10', '12']}; {'id': '10', 'type': 'not_operator', 'children': ['11']}; {'id': '11', 'type': 'identifier', 'children': [], 'value': 'op_types'}; {'id': '12', 'type': 'block', 'children': ['13']}; {'id': '13', 'type': 'expression_statement', 'children': ['14']}; {'id': '14', 'type': 'assignment', 'children': ['15', '16']}; {'id': '15', 'type': 'identifier', 'children': [], 'value': 'op_types'}; {'id': '16', 'type': 'list', 'children': ['17', '18', '19', '20', '21'], 'value': "['message', 'action', 'sync', 'viewlock', 'savedchapter']"}; {'id': '17', 'type': 'string', 'children': [], 'value': "'message'"}; {'id': '18', 'type': 'string', 'children': [], 'value': "'action'"}; {'id': '19', 'type': 'string', 'children': [], 'value': "'sync'"}; {'id': '20', 'type': 'string', 'children': [], 'value': "'viewlock'"}; {'id': '21', 'type': 'string', 'children': [], 'value': "'savedchapter'"}; {'id': '22', 'type': 'while_statement', 'children': ['23', '34']}; {'id': '23', 'type': 'comparison_operator', 'children': ['24', '31'], 'value': '<'}; {'id': '24', 'type': 'call', 'children': ['25', '30']}; {'id': '25', 'type': 'attribute', 'children': ['26', '29']}; {'id': '26', 'type': 'attribute', 'children': ['27', '28']}; {'id': '27', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '28', 'type': 'identifier', 'children': [], 'value': '_handle'}; {'id': '29', 'type': 'identifier', 'children': [], 'value': 'tell'}; {'id': '30', 'type': 'argument_list', 'children': []}; {'id': '31', 'type': 'attribute', 'children': ['32', '33']}; {'id': '32', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '33', 'type': 'identifier', 'children': [], 'value': '_eof'}; {'id': '34', 'type': 'block', 'children': ['35', '50', '77', '133', '157', '172', '193', '216', '236']}; {'id': '35', 'type': 'expression_statement', 'children': ['36']}; {'id': '36', 'type': 'assignment', 'children': ['37', '38']}; {'id': '37', 'type': 'identifier', 'children': [], 'value': 'current_time'}; {'id': '38', 'type': 'call', 'children': ['39', '44']}; {'id': '39', 'type': 'attribute', 'children': ['40', '43']}; {'id': '40', 'type': 'attribute', 'children': ['41', '42']}; {'id': '41', 'type': 'identifier', 'children': [], 'value': 'mgz'}; {'id': '42', 'type': 'identifier', 'children': [], 'value': 'util'}; {'id': '43', 'type': 'identifier', 'children': [], 'value': 'convert_to_timestamp'}; {'id': '44', 'type': 'argument_list', 'children': ['45']}; {'id': '45', 'type': 'binary_operator', 'children': ['46', '49'], 'value': '/'}; {'id': '46', 'type': 'attribute', 'children': ['47', '48']}; {'id': '47', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '48', 'type': 'identifier', 'children': [], 'value': '_time'}; {'id': '49', 'type': 'integer', 'children': [], 'value': '1000'}; {'id': '50', 'type': 'try_statement', 'children': ['51', '67']}; {'id': '51', 'type': 'block', 'children': ['52']}; {'id': '52', 'type': 'expression_statement', 'children': ['53']}; {'id': '53', 'type': 'assignment', 'children': ['54', '55']}; {'id': '54', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '55', 'type': 'call', 'children': ['56', '63']}; {'id': '56', 'type': 'attribute', 'children': ['57', '62']}; {'id': '57', 'type': 'attribute', 'children': ['58', '61']}; {'id': '58', 'type': 'attribute', 'children': ['59', '60']}; {'id': '59', 'type': 'identifier', 'children': [], 'value': 'mgz'}; {'id': '60', 'type': 'identifier', 'children': [], 'value': 'body'}; {'id': '61', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '62', 'type': 'identifier', 'children': [], 'value': 'parse_stream'}; {'id': '63', 'type': 'argument_list', 'children': ['64']}; {'id': '64', 'type': 'attribute', 'children': ['65', '66']}; {'id': '65', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '66', 'type': 'identifier', 'children': [], 'value': '_handle'}; {'id': '67', 'type': 'except_clause', 'children': ['68', '71']}; {'id': '68', 'type': 'tuple', 'children': ['69', '70']}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'ConstructError'}; {'id': '70', 'type': 'identifier', 'children': [], 'value': 'ValueError'}; {'id': '71', 'type': 'block', 'children': ['72']}; {'id': '72', 'type': 'raise_statement', 'children': ['73']}; {'id': '73', 'type': 'call', 'children': ['74', '75']}; {'id': '74', 'type': 'identifier', 'children': [], 'value': 'MgzError'}; {'id': '75', 'type': 'argument_list', 'children': ['76']}; {'id': '76', 'type': 'string', 'children': [], 'value': "'failed to parse body operation'"}; {'id': '77', 'type': 'if_statement', 'children': ['78', '83']}; {'id': '78', 'type': 'comparison_operator', 'children': ['79', '82'], 'value': '=='}; {'id': '79', 'type': 'attribute', 'children': ['80', '81']}; {'id': '80', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '81', 'type': 'identifier', 'children': [], 'value': 'type'}; {'id': '82', 'type': 'string', 'children': [], 'value': "'action'"}; {'id': '83', 'type': 'block', 'children': ['84']}; {'id': '84', 'type': 'if_statement', 'children': ['85', '92', '117']}; {'id': '85', 'type': 'comparison_operator', 'children': ['86', '91'], 'value': 'in'}; {'id': '86', 'type': 'attribute', 'children': ['87', '90']}; {'id': '87', 'type': 'attribute', 'children': ['88', '89']}; {'id': '88', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'action'}; {'id': '90', 'type': 'identifier', 'children': [], 'value': 'type'}; {'id': '91', 'type': 'identifier', 'children': [], 'value': 'ACTIONS_WITH_PLAYER_ID'}; {'id': '92', 'type': 'block', 'children': ['93', '105']}; {'id': '93', 'type': 'expression_statement', 'children': ['94']}; {'id': '94', 'type': 'assignment', 'children': ['95', '96']}; {'id': '95', 'type': 'identifier', 'children': [], 'value': 'counter'}; {'id': '96', 'type': 'subscript', 'children': ['97', '100']}; {'id': '97', 'type': 'attribute', 'children': ['98', '99']}; {'id': '98', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '99', 'type': 'identifier', 'children': [], 'value': '_actions_by_player'}; {'id': '100', 'type': 'attribute', 'children': ['101', '104']}; {'id': '101', 'type': 'attribute', 'children': ['102', '103']}; {'id': '102', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '103', 'type': 'identifier', 'children': [], 'value': 'action'}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'player_id'}; {'id': '105', 'type': 'expression_statement', 'children': ['106']}; {'id': '106', 'type': 'call', 'children': ['107', '110']}; {'id': '107', 'type': 'attribute', 'children': ['108', '109']}; {'id': '108', 'type': 'identifier', 'children': [], 'value': 'counter'}; {'id': '109', 'type': 'identifier', 'children': [], 'value': 'update'}; {'id': '110', 'type': 'argument_list', 'children': ['111']}; {'id': '111', 'type': 'list', 'children': ['112'], 'value': '[operation.action.type]'}; {'id': '112', 'type': 'attribute', 'children': ['113', '116']}; {'id': '113', 'type': 'attribute', 'children': ['114', '115']}; {'id': '114', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '115', 'type': 'identifier', 'children': [], 'value': 'action'}; {'id': '116', 'type': 'identifier', 'children': [], 'value': 'type'}; {'id': '117', 'type': 'else_clause', 'children': ['118']}; {'id': '118', 'type': 'block', 'children': ['119']}; {'id': '119', 'type': 'expression_statement', 'children': ['120']}; {'id': '120', 'type': 'call', 'children': ['121', '126']}; {'id': '121', 'type': 'attribute', 'children': ['122', '125']}; {'id': '122', 'type': 'attribute', 'children': ['123', '124']}; {'id': '123', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '124', 'type': 'identifier', 'children': [], 'value': '_actions_without_player'}; {'id': '125', 'type': 'identifier', 'children': [], 'value': 'update'}; {'id': '126', 'type': 'argument_list', 'children': ['127']}; {'id': '127', 'type': 'list', 'children': ['128'], 'value': '[operation.action.type]'}; {'id': '128', 'type': 'attribute', 'children': ['129', '132']}; {'id': '129', 'type': 'attribute', 'children': ['130', '131']}; {'id': '130', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '131', 'type': 'identifier', 'children': [], 'value': 'action'}; {'id': '132', 'type': 'identifier', 'children': [], 'value': 'type'}; {'id': '133', 'type': 'if_statement', 'children': ['134', '149']}; {'id': '134', 'type': 'boolean_operator', 'children': ['135', '140'], 'value': 'and'}; {'id': '135', 'type': 'comparison_operator', 'children': ['136', '139'], 'value': '=='}; {'id': '136', 'type': 'attribute', 'children': ['137', '138']}; {'id': '137', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '138', 'type': 'identifier', 'children': [], 'value': 'type'}; {'id': '139', 'type': 'string', 'children': [], 'value': "'action'"}; {'id': '140', 'type': 'call', 'children': ['141', '142']}; {'id': '141', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '142', 'type': 'argument_list', 'children': ['143', '148']}; {'id': '143', 'type': 'attribute', 'children': ['144', '147']}; {'id': '144', 'type': 'attribute', 'children': ['145', '146']}; {'id': '145', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '146', 'type': 'identifier', 'children': [], 'value': 'action'}; {'id': '147', 'type': 'identifier', 'children': [], 'value': 'type'}; {'id': '148', 'type': 'identifier', 'children': [], 'value': 'int'}; {'id': '149', 'type': 'block', 'children': ['150']}; {'id': '150', 'type': 'expression_statement', 'children': ['151']}; {'id': '151', 'type': 'call', 'children': ['152', '153']}; {'id': '152', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '153', 'type': 'argument_list', 'children': ['154']}; {'id': '154', 'type': 'attribute', 'children': ['155', '156']}; {'id': '155', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '156', 'type': 'identifier', 'children': [], 'value': 'action'}; {'id': '157', 'type': 'if_statement', 'children': ['158', '163']}; {'id': '158', 'type': 'comparison_operator', 'children': ['159', '162'], 'value': '=='}; {'id': '159', 'type': 'attribute', 'children': ['160', '161']}; {'id': '160', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '161', 'type': 'identifier', 'children': [], 'value': 'type'}; {'id': '162', 'type': 'string', 'children': [], 'value': "'sync'"}; {'id': '163', 'type': 'block', 'children': ['164']}; {'id': '164', 'type': 'expression_statement', 'children': ['165']}; {'id': '165', 'type': 'augmented_assignment', 'children': ['166', '169'], 'value': '+='}; {'id': '166', 'type': 'attribute', 'children': ['167', '168']}; {'id': '167', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '168', 'type': 'identifier', 'children': [], 'value': '_time'}; {'id': '169', 'type': 'attribute', 'children': ['170', '171']}; {'id': '170', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '171', 'type': 'identifier', 'children': [], 'value': 'time_increment'}; {'id': '172', 'type': 'if_statement', 'children': ['173', '186']}; {'id': '173', 'type': 'boolean_operator', 'children': ['174', '179'], 'value': 'and'}; {'id': '174', 'type': 'comparison_operator', 'children': ['175', '178'], 'value': '=='}; {'id': '175', 'type': 'attribute', 'children': ['176', '177']}; {'id': '176', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '177', 'type': 'identifier', 'children': [], 'value': 'type'}; {'id': '178', 'type': 'string', 'children': [], 'value': "'action'"}; {'id': '179', 'type': 'comparison_operator', 'children': ['180', '185'], 'value': '=='}; {'id': '180', 'type': 'attribute', 'children': ['181', '184']}; {'id': '181', 'type': 'attribute', 'children': ['182', '183']}; {'id': '182', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '183', 'type': 'identifier', 'children': [], 'value': 'action'}; {'id': '184', 'type': 'identifier', 'children': [], 'value': 'type'}; {'id': '185', 'type': 'string', 'children': [], 'value': "'postgame'"}; {'id': '186', 'type': 'block', 'children': ['187']}; {'id': '187', 'type': 'expression_statement', 'children': ['188']}; {'id': '188', 'type': 'assignment', 'children': ['189', '192']}; {'id': '189', 'type': 'attribute', 'children': ['190', '191']}; {'id': '190', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '191', 'type': 'identifier', 'children': [], 'value': '_postgame'}; {'id': '192', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '193', 'type': 'if_statement', 'children': ['194', '199']}; {'id': '194', 'type': 'comparison_operator', 'children': ['195', '198'], 'value': '=='}; {'id': '195', 'type': 'attribute', 'children': ['196', '197']}; {'id': '196', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '197', 'type': 'identifier', 'children': [], 'value': 'type'}; {'id': '198', 'type': 'string', 'children': [], 'value': "'action'"}; {'id': '199', 'type': 'block', 'children': ['200', '208']}; {'id': '200', 'type': 'expression_statement', 'children': ['201']}; {'id': '201', 'type': 'assignment', 'children': ['202', '203']}; {'id': '202', 'type': 'identifier', 'children': [], 'value': 'action'}; {'id': '203', 'type': 'call', 'children': ['204', '205']}; {'id': '204', 'type': 'identifier', 'children': [], 'value': 'Action'}; {'id': '205', 'type': 'argument_list', 'children': ['206', '207']}; {'id': '206', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '207', 'type': 'identifier', 'children': [], 'value': 'current_time'}; {'id': '208', 'type': 'expression_statement', 'children': ['209']}; {'id': '209', 'type': 'call', 'children': ['210', '213']}; {'id': '210', 'type': 'attribute', 'children': ['211', '212']}; {'id': '211', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '212', 'type': 'identifier', 'children': [], 'value': '_parse_action'}; {'id': '213', 'type': 'argument_list', 'children': ['214', '215']}; {'id': '214', 'type': 'identifier', 'children': [], 'value': 'action'}; {'id': '215', 'type': 'identifier', 'children': [], 'value': 'current_time'}; {'id': '216', 'type': 'if_statement', 'children': ['217', '222']}; {'id': '217', 'type': 'comparison_operator', 'children': ['218', '221'], 'value': '=='}; {'id': '218', 'type': 'attribute', 'children': ['219', '220']}; {'id': '219', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '220', 'type': 'identifier', 'children': [], 'value': 'type'}; {'id': '221', 'type': 'string', 'children': [], 'value': "'savedchapter'"}; {'id': '222', 'type': 'block', 'children': ['223']}; {'id': '223', 'type': 'expression_statement', 'children': ['224']}; {'id': '224', 'type': 'call', 'children': ['225', '228']}; {'id': '225', 'type': 'attribute', 'children': ['226', '227']}; {'id': '226', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '227', 'type': 'identifier', 'children': [], 'value': '_parse_lobby_chat'}; {'id': '228', 'type': 'argument_list', 'children': ['229', '234', '235']}; {'id': '229', 'type': 'attribute', 'children': ['230', '233']}; {'id': '230', 'type': 'attribute', 'children': ['231', '232']}; {'id': '231', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '232', 'type': 'identifier', 'children': [], 'value': 'lobby'}; {'id': '233', 'type': 'identifier', 'children': [], 'value': 'messages'}; {'id': '234', 'type': 'string', 'children': [], 'value': "'save'"}; {'id': '235', 'type': 'identifier', 'children': [], 'value': 'current_time'}; {'id': '236', 'type': 'if_statement', 'children': ['237', '242', '256', '285']}; {'id': '237', 'type': 'comparison_operator', 'children': ['238', '241'], 'value': '=='}; {'id': '238', 'type': 'attribute', 'children': ['239', '240']}; {'id': '239', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '240', 'type': 'identifier', 'children': [], 'value': 'type'}; {'id': '241', 'type': 'string', 'children': [], 'value': "'viewlock'"}; {'id': '242', 'type': 'block', 'children': ['243']}; {'id': '243', 'type': 'if_statement', 'children': ['244', '249']}; {'id': '244', 'type': 'comparison_operator', 'children': ['245', '248'], 'value': 'in'}; {'id': '245', 'type': 'attribute', 'children': ['246', '247']}; {'id': '246', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '247', 'type': 'identifier', 'children': [], 'value': 'type'}; {'id': '248', 'type': 'identifier', 'children': [], 'value': 'op_types'}; {'id': '249', 'type': 'block', 'children': ['250']}; {'id': '250', 'type': 'expression_statement', 'children': ['251']}; {'id': '251', 'type': 'yield', 'children': ['252']}; {'id': '252', 'type': 'call', 'children': ['253', '254']}; {'id': '253', 'type': 'identifier', 'children': [], 'value': 'Viewlock'}; {'id': '254', 'type': 'argument_list', 'children': ['255']}; {'id': '255', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '256', 'type': 'elif_clause', 'children': ['257', '270']}; {'id': '257', 'type': 'boolean_operator', 'children': ['258', '263'], 'value': 'and'}; {'id': '258', 'type': 'comparison_operator', 'children': ['259', '262'], 'value': '=='}; {'id': '259', 'type': 'attribute', 'children': ['260', '261']}; {'id': '260', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '261', 'type': 'identifier', 'children': [], 'value': 'type'}; {'id': '262', 'type': 'string', 'children': [], 'value': "'action'"}; {'id': '263', 'type': 'comparison_operator', 'children': ['264', '269'], 'value': '!='}; {'id': '264', 'type': 'attribute', 'children': ['265', '268']}; {'id': '265', 'type': 'attribute', 'children': ['266', '267']}; {'id': '266', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '267', 'type': 'identifier', 'children': [], 'value': 'action'}; {'id': '268', 'type': 'identifier', 'children': [], 'value': 'type'}; {'id': '269', 'type': 'string', 'children': [], 'value': "'postgame'"}; {'id': '270', 'type': 'block', 'children': ['271']}; {'id': '271', 'type': 'if_statement', 'children': ['272', '277']}; {'id': '272', 'type': 'comparison_operator', 'children': ['273', '276'], 'value': 'in'}; {'id': '273', 'type': 'attribute', 'children': ['274', '275']}; {'id': '274', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '275', 'type': 'identifier', 'children': [], 'value': 'type'}; {'id': '276', 'type': 'identifier', 'children': [], 'value': 'op_types'}; {'id': '277', 'type': 'block', 'children': ['278']}; {'id': '278', 'type': 'expression_statement', 'children': ['279']}; {'id': '279', 'type': 'yield', 'children': ['280']}; {'id': '280', 'type': 'call', 'children': ['281', '282']}; {'id': '281', 'type': 'identifier', 'children': [], 'value': 'Action'}; {'id': '282', 'type': 'argument_list', 'children': ['283', '284']}; {'id': '283', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '284', 'type': 'identifier', 'children': [], 'value': 'current_time'}; {'id': '285', 'type': 'elif_clause', 'children': ['286', '305']}; {'id': '286', 'type': '()', 'children': ['287']}; {'id': '287', 'type': 'boolean_operator', 'children': ['288', '300'], 'value': 'and'}; {'id': '288', 'type': '()', 'children': ['289']}; {'id': '289', 'type': 'boolean_operator', 'children': ['290', '295'], 'value': 'or'}; {'id': '290', 'type': 'comparison_operator', 'children': ['291', '294'], 'value': '=='}; {'id': '291', 'type': 'attribute', 'children': ['292', '293']}; {'id': '292', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '293', 'type': 'identifier', 'children': [], 'value': 'type'}; {'id': '294', 'type': 'string', 'children': [], 'value': "'message'"}; {'id': '295', 'type': 'comparison_operator', 'children': ['296', '299'], 'value': '=='}; {'id': '296', 'type': 'attribute', 'children': ['297', '298']}; {'id': '297', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '298', 'type': 'identifier', 'children': [], 'value': 'type'}; {'id': '299', 'type': 'string', 'children': [], 'value': "'embedded'"}; {'id': '300', 'type': 'comparison_operator', 'children': ['301', '304'], 'value': '=='}; {'id': '301', 'type': 'attribute', 'children': ['302', '303']}; {'id': '302', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '303', 'type': 'identifier', 'children': [], 'value': 'subtype'}; {'id': '304', 'type': 'string', 'children': [], 'value': "'chat'"}; {'id': '305', 'type': 'block', 'children': ['306', '329', '336']}; {'id': '306', 'type': 'expression_statement', 'children': ['307']}; {'id': '307', 'type': 'assignment', 'children': ['308', '309']}; {'id': '308', 'type': 'identifier', 'children': [], 'value': 'chat'}; {'id': '309', 'type': 'call', 'children': ['310', '311']}; {'id': '310', 'type': 'identifier', 'children': [], 'value': 'ChatMessage'}; {'id': '311', 'type': 'argument_list', 'children': ['312', '317', '318', '323', '328']}; {'id': '312', 'type': 'attribute', 'children': ['313', '316']}; {'id': '313', 'type': 'attribute', 'children': ['314', '315']}; {'id': '314', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '315', 'type': 'identifier', 'children': [], 'value': 'data'}; {'id': '316', 'type': 'identifier', 'children': [], 'value': 'text'}; {'id': '317', 'type': 'identifier', 'children': [], 'value': 'current_time'}; {'id': '318', 'type': 'call', 'children': ['319', '322']}; {'id': '319', 'type': 'attribute', 'children': ['320', '321']}; {'id': '320', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '321', 'type': 'identifier', 'children': [], 'value': '_players'}; {'id': '322', 'type': 'argument_list', 'children': []}; {'id': '323', 'type': 'subscript', 'children': ['324', '327']}; {'id': '324', 'type': 'attribute', 'children': ['325', '326']}; {'id': '325', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '326', 'type': 'identifier', 'children': [], 'value': '_diplomacy'}; {'id': '327', 'type': 'string', 'children': [], 'value': "'type'"}; {'id': '328', 'type': 'string', 'children': [], 'value': "'game'"}; {'id': '329', 'type': 'expression_statement', 'children': ['330']}; {'id': '330', 'type': 'call', 'children': ['331', '334']}; {'id': '331', 'type': 'attribute', 'children': ['332', '333']}; {'id': '332', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '333', 'type': 'identifier', 'children': [], 'value': '_parse_chat'}; {'id': '334', 'type': 'argument_list', 'children': ['335']}; {'id': '335', 'type': 'identifier', 'children': [], 'value': 'chat'}; {'id': '336', 'type': 'if_statement', 'children': ['337', '342']}; {'id': '337', 'type': 'comparison_operator', 'children': ['338', '341'], 'value': 'in'}; {'id': '338', 'type': 'attribute', 'children': ['339', '340']}; {'id': '339', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '340', 'type': 'identifier', 'children': [], 'value': 'type'}; {'id': '341', 'type': 'identifier', 'children': [], 'value': 'op_types'}; {'id': '342', 'type': 'block', 'children': ['343']}; {'id': '343', 'type': 'expression_statement', 'children': ['344']}; {'id': '344', 'type': 'yield', 'children': ['345']}; {'id': '345', 'type': 'identifier', 'children': [], 'value': 'chat'} | def operations(self, op_types=None):
if not op_types:
op_types = ['message', 'action', 'sync', 'viewlock', 'savedchapter']
while self._handle.tell() < self._eof:
current_time = mgz.util.convert_to_timestamp(self._time / 1000)
try:
operation = mgz.body.operation.parse_stream(self._handle)
except (ConstructError, ValueError):
raise MgzError('failed to parse body operation')
if operation.type == 'action':
if operation.action.type in ACTIONS_WITH_PLAYER_ID:
counter = self._actions_by_player[operation.action.player_id]
counter.update([operation.action.type])
else:
self._actions_without_player.update([operation.action.type])
if operation.type == 'action' and isinstance(operation.action.type, int):
print(operation.action)
if operation.type == 'sync':
self._time += operation.time_increment
if operation.type == 'action' and operation.action.type == 'postgame':
self._postgame = operation
if operation.type == 'action':
action = Action(operation, current_time)
self._parse_action(action, current_time)
if operation.type == 'savedchapter':
self._parse_lobby_chat(operation.lobby.messages, 'save', current_time)
if operation.type == 'viewlock':
if operation.type in op_types:
yield Viewlock(operation)
elif operation.type == 'action' and operation.action.type != 'postgame':
if operation.type in op_types:
yield Action(operation, current_time)
elif ((operation.type == 'message' or operation.type == 'embedded')
and operation.subtype == 'chat'):
chat = ChatMessage(operation.data.text, current_time,
self._players(), self._diplomacy['type'], 'game')
self._parse_chat(chat)
if operation.type in op_types:
yield chat |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'run'}; {'id': '3', 'type': 'parameters', 'children': ['4']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '5', 'type': 'block', 'children': ['6', '20', '24', '30', '44', '402', '409']}; {'id': '6', 'type': 'expression_statement', 'children': ['7']}; {'id': '7', 'type': 'assignment', 'children': ['8', '9']}; {'id': '8', 'type': 'identifier', 'children': [], 'value': 'ctx'}; {'id': '9', 'type': 'call', 'children': ['10', '13']}; {'id': '10', 'type': 'attribute', 'children': ['11', '12']}; {'id': '11', 'type': 'identifier', 'children': [], 'value': 'FSM'}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'Context'}; {'id': '13', 'type': 'argument_list', 'children': ['14', '17']}; {'id': '14', 'type': 'attribute', 'children': ['15', '16']}; {'id': '15', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '16', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '17', 'type': 'attribute', 'children': ['18', '19']}; {'id': '18', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '19', 'type': 'identifier', 'children': [], 'value': 'device'}; {'id': '20', 'type': 'expression_statement', 'children': ['21']}; {'id': '21', 'type': 'assignment', 'children': ['22', '23']}; {'id': '22', 'type': 'identifier', 'children': [], 'value': 'transition_counter'}; {'id': '23', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '24', 'type': 'expression_statement', 'children': ['25']}; {'id': '25', 'type': 'assignment', 'children': ['26', '27']}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'timeout'}; {'id': '27', 'type': 'attribute', 'children': ['28', '29']}; {'id': '28', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '29', 'type': 'identifier', 'children': [], 'value': 'timeout'}; {'id': '30', 'type': 'expression_statement', 'children': ['31']}; {'id': '31', 'type': 'call', 'children': ['32', '35']}; {'id': '32', 'type': 'attribute', 'children': ['33', '34']}; {'id': '33', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '34', 'type': 'identifier', 'children': [], 'value': 'log'}; {'id': '35', 'type': 'argument_list', 'children': ['36']}; {'id': '36', 'type': 'call', 'children': ['37', '40']}; {'id': '37', 'type': 'attribute', 'children': ['38', '39']}; {'id': '38', 'type': 'string', 'children': [], 'value': '"{} Start"'}; {'id': '39', 'type': 'identifier', 'children': [], 'value': 'format'}; {'id': '40', 'type': 'argument_list', 'children': ['41']}; {'id': '41', 'type': 'attribute', 'children': ['42', '43']}; {'id': '42', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '43', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '44', 'type': 'while_statement', 'children': ['45', '50']}; {'id': '45', 'type': 'comparison_operator', 'children': ['46', '47'], 'value': '<'}; {'id': '46', 'type': 'identifier', 'children': [], 'value': 'transition_counter'}; {'id': '47', 'type': 'attribute', 'children': ['48', '49']}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'max_transitions'}; {'id': '50', 'type': 'block', 'children': ['51', '55', '370']}; {'id': '51', 'type': 'expression_statement', 'children': ['52']}; {'id': '52', 'type': 'augmented_assignment', 'children': ['53', '54'], 'value': '+='}; {'id': '53', 'type': 'identifier', 'children': [], 'value': 'transition_counter'}; {'id': '54', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '55', 'type': 'try_statement', 'children': ['56', '357']}; {'id': '56', 'type': 'block', 'children': ['57', '63', '148', '156', '166', '178']}; {'id': '57', 'type': 'expression_statement', 'children': ['58']}; {'id': '58', 'type': 'assignment', 'children': ['59', '60']}; {'id': '59', 'type': 'identifier', 'children': [], 'value': 'start_time'}; {'id': '60', 'type': 'call', 'children': ['61', '62']}; {'id': '61', 'type': 'identifier', 'children': [], 'value': 'time'}; {'id': '62', 'type': 'argument_list', 'children': []}; {'id': '63', 'type': 'if_statement', 'children': ['64', '69', '93']}; {'id': '64', 'type': 'comparison_operator', 'children': ['65', '68'], 'value': 'is'}; {'id': '65', 'type': 'attribute', 'children': ['66', '67']}; {'id': '66', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '67', 'type': 'identifier', 'children': [], 'value': 'init_pattern'}; {'id': '68', 'type': 'None', 'children': []}; {'id': '69', 'type': 'block', 'children': ['70']}; {'id': '70', 'type': 'expression_statement', 'children': ['71']}; {'id': '71', 'type': 'assignment', 'children': ['72', '75']}; {'id': '72', 'type': 'attribute', 'children': ['73', '74']}; {'id': '73', 'type': 'identifier', 'children': [], 'value': 'ctx'}; {'id': '74', 'type': 'identifier', 'children': [], 'value': 'event'}; {'id': '75', 'type': 'call', 'children': ['76', '81']}; {'id': '76', 'type': 'attribute', 'children': ['77', '80']}; {'id': '77', 'type': 'attribute', 'children': ['78', '79']}; {'id': '78', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '79', 'type': 'identifier', 'children': [], 'value': 'ctrl'}; {'id': '80', 'type': 'identifier', 'children': [], 'value': 'expect'}; {'id': '81', 'type': 'argument_list', 'children': ['82', '85', '90']}; {'id': '82', 'type': 'attribute', 'children': ['83', '84']}; {'id': '83', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '84', 'type': 'identifier', 'children': [], 'value': 'events'}; {'id': '85', 'type': 'keyword_argument', 'children': ['86', '87']}; {'id': '86', 'type': 'identifier', 'children': [], 'value': 'searchwindowsize'}; {'id': '87', 'type': 'attribute', 'children': ['88', '89']}; {'id': '88', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'searchwindowsize'}; {'id': '90', 'type': 'keyword_argument', 'children': ['91', '92']}; {'id': '91', 'type': 'identifier', 'children': [], 'value': 'timeout'}; {'id': '92', 'type': 'identifier', 'children': [], 'value': 'timeout'}; {'id': '93', 'type': 'else_clause', 'children': ['94']}; {'id': '94', 'type': 'block', 'children': ['95', '112']}; {'id': '95', 'type': 'expression_statement', 'children': ['96']}; {'id': '96', 'type': 'call', 'children': ['97', '100']}; {'id': '97', 'type': 'attribute', 'children': ['98', '99']}; {'id': '98', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '99', 'type': 'identifier', 'children': [], 'value': 'log'}; {'id': '100', 'type': 'argument_list', 'children': ['101']}; {'id': '101', 'type': 'call', 'children': ['102', '105']}; {'id': '102', 'type': 'attribute', 'children': ['103', '104']}; {'id': '103', 'type': 'string', 'children': [], 'value': '"INIT_PATTERN={}"'}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'format'}; {'id': '105', 'type': 'argument_list', 'children': ['106']}; {'id': '106', 'type': 'call', 'children': ['107', '108']}; {'id': '107', 'type': 'identifier', 'children': [], 'value': 'pattern_to_str'}; {'id': '108', 'type': 'argument_list', 'children': ['109']}; {'id': '109', 'type': 'attribute', 'children': ['110', '111']}; {'id': '110', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '111', 'type': 'identifier', 'children': [], 'value': 'init_pattern'}; {'id': '112', 'type': 'try_statement', 'children': ['113', '129', '140']}; {'id': '113', 'type': 'block', 'children': ['114']}; {'id': '114', 'type': 'expression_statement', 'children': ['115']}; {'id': '115', 'type': 'assignment', 'children': ['116', '119']}; {'id': '116', 'type': 'attribute', 'children': ['117', '118']}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'ctx'}; {'id': '118', 'type': 'identifier', 'children': [], 'value': 'event'}; {'id': '119', 'type': 'call', 'children': ['120', '125']}; {'id': '120', 'type': 'attribute', 'children': ['121', '124']}; {'id': '121', 'type': 'attribute', 'children': ['122', '123']}; {'id': '122', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '123', 'type': 'identifier', 'children': [], 'value': 'events'}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'index'}; {'id': '125', 'type': 'argument_list', 'children': ['126']}; {'id': '126', 'type': 'attribute', 'children': ['127', '128']}; {'id': '127', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '128', 'type': 'identifier', 'children': [], 'value': 'init_pattern'}; {'id': '129', 'type': 'except_clause', 'children': ['130', '131']}; {'id': '130', 'type': 'identifier', 'children': [], 'value': 'ValueError'}; {'id': '131', 'type': 'block', 'children': ['132', '139']}; {'id': '132', 'type': 'expression_statement', 'children': ['133']}; {'id': '133', 'type': 'call', 'children': ['134', '137']}; {'id': '134', 'type': 'attribute', 'children': ['135', '136']}; {'id': '135', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '136', 'type': 'identifier', 'children': [], 'value': 'log'}; {'id': '137', 'type': 'argument_list', 'children': ['138']}; {'id': '138', 'type': 'string', 'children': [], 'value': '"INIT_PATTERN unknown."'}; {'id': '139', 'type': 'continue_statement', 'children': []}; {'id': '140', 'type': 'finally_clause', 'children': ['141']}; {'id': '141', 'type': 'block', 'children': ['142']}; {'id': '142', 'type': 'expression_statement', 'children': ['143']}; {'id': '143', 'type': 'assignment', 'children': ['144', '147']}; {'id': '144', 'type': 'attribute', 'children': ['145', '146']}; {'id': '145', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '146', 'type': 'identifier', 'children': [], 'value': 'init_pattern'}; {'id': '147', 'type': 'None', 'children': []}; {'id': '148', 'type': 'expression_statement', 'children': ['149']}; {'id': '149', 'type': 'assignment', 'children': ['150', '151']}; {'id': '150', 'type': 'identifier', 'children': [], 'value': 'finish_time'}; {'id': '151', 'type': 'binary_operator', 'children': ['152', '155'], 'value': '-'}; {'id': '152', 'type': 'call', 'children': ['153', '154']}; {'id': '153', 'type': 'identifier', 'children': [], 'value': 'time'}; {'id': '154', 'type': 'argument_list', 'children': []}; {'id': '155', 'type': 'identifier', 'children': [], 'value': 'start_time'}; {'id': '156', 'type': 'expression_statement', 'children': ['157']}; {'id': '157', 'type': 'assignment', 'children': ['158', '159']}; {'id': '158', 'type': 'identifier', 'children': [], 'value': 'key'}; {'id': '159', 'type': 'tuple', 'children': ['160', '163']}; {'id': '160', 'type': 'attribute', 'children': ['161', '162']}; {'id': '161', 'type': 'identifier', 'children': [], 'value': 'ctx'}; {'id': '162', 'type': 'identifier', 'children': [], 'value': 'event'}; {'id': '163', 'type': 'attribute', 'children': ['164', '165']}; {'id': '164', 'type': 'identifier', 'children': [], 'value': 'ctx'}; {'id': '165', 'type': 'identifier', 'children': [], 'value': 'state'}; {'id': '166', 'type': 'expression_statement', 'children': ['167']}; {'id': '167', 'type': 'assignment', 'children': ['168', '171']}; {'id': '168', 'type': 'attribute', 'children': ['169', '170']}; {'id': '169', 'type': 'identifier', 'children': [], 'value': 'ctx'}; {'id': '170', 'type': 'identifier', 'children': [], 'value': 'pattern'}; {'id': '171', 'type': 'subscript', 'children': ['172', '175']}; {'id': '172', 'type': 'attribute', 'children': ['173', '174']}; {'id': '173', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '174', 'type': 'identifier', 'children': [], 'value': 'events'}; {'id': '175', 'type': 'attribute', 'children': ['176', '177']}; {'id': '176', 'type': 'identifier', 'children': [], 'value': 'ctx'}; {'id': '177', 'type': 'identifier', 'children': [], 'value': 'event'}; {'id': '178', 'type': 'if_statement', 'children': ['179', '184', '337']}; {'id': '179', 'type': 'comparison_operator', 'children': ['180', '181'], 'value': 'in'}; {'id': '180', 'type': 'identifier', 'children': [], 'value': 'key'}; {'id': '181', 'type': 'attribute', 'children': ['182', '183']}; {'id': '182', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '183', 'type': 'identifier', 'children': [], 'value': 'transition_table'}; {'id': '184', 'type': 'block', 'children': ['185', '193', '200', '219', '309', '318', '324']}; {'id': '185', 'type': 'expression_statement', 'children': ['186']}; {'id': '186', 'type': 'assignment', 'children': ['187', '188']}; {'id': '187', 'type': 'identifier', 'children': [], 'value': 'transition'}; {'id': '188', 'type': 'subscript', 'children': ['189', '192']}; {'id': '189', 'type': 'attribute', 'children': ['190', '191']}; {'id': '190', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '191', 'type': 'identifier', 'children': [], 'value': 'transition_table'}; {'id': '192', 'type': 'identifier', 'children': [], 'value': 'key'}; {'id': '193', 'type': 'expression_statement', 'children': ['194']}; {'id': '194', 'type': 'assignment', 'children': ['195', '199']}; {'id': '195', 'type': 'pattern_list', 'children': ['196', '197', '198']}; {'id': '196', 'type': 'identifier', 'children': [], 'value': 'next_state'}; {'id': '197', 'type': 'identifier', 'children': [], 'value': 'action_instance'}; {'id': '198', 'type': 'identifier', 'children': [], 'value': 'next_timeout'}; {'id': '199', 'type': 'identifier', 'children': [], 'value': 'transition'}; {'id': '200', 'type': 'expression_statement', 'children': ['201']}; {'id': '201', 'type': 'call', 'children': ['202', '205']}; {'id': '202', 'type': 'attribute', 'children': ['203', '204']}; {'id': '203', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '204', 'type': 'identifier', 'children': [], 'value': 'log'}; {'id': '205', 'type': 'argument_list', 'children': ['206']}; {'id': '206', 'type': 'call', 'children': ['207', '210']}; {'id': '207', 'type': 'attribute', 'children': ['208', '209']}; {'id': '208', 'type': 'string', 'children': [], 'value': '"E={},S={},T={},RT={:.2f}"'}; {'id': '209', 'type': 'identifier', 'children': [], 'value': 'format'}; {'id': '210', 'type': 'argument_list', 'children': ['211', '214', '217', '218']}; {'id': '211', 'type': 'attribute', 'children': ['212', '213']}; {'id': '212', 'type': 'identifier', 'children': [], 'value': 'ctx'}; {'id': '213', 'type': 'identifier', 'children': [], 'value': 'event'}; {'id': '214', 'type': 'attribute', 'children': ['215', '216']}; {'id': '215', 'type': 'identifier', 'children': [], 'value': 'ctx'}; {'id': '216', 'type': 'identifier', 'children': [], 'value': 'state'}; {'id': '217', 'type': 'identifier', 'children': [], 'value': 'timeout'}; {'id': '218', 'type': 'identifier', 'children': [], 'value': 'finish_time'}; {'id': '219', 'type': 'if_statement', 'children': ['220', '230', '254', '275', '287']}; {'id': '220', 'type': 'boolean_operator', 'children': ['221', '225'], 'value': 'and'}; {'id': '221', 'type': 'call', 'children': ['222', '223']}; {'id': '222', 'type': 'identifier', 'children': [], 'value': 'callable'}; {'id': '223', 'type': 'argument_list', 'children': ['224']}; {'id': '224', 'type': 'identifier', 'children': [], 'value': 'action_instance'}; {'id': '225', 'type': 'not_operator', 'children': ['226']}; {'id': '226', 'type': 'call', 'children': ['227', '228']}; {'id': '227', 'type': 'identifier', 'children': [], 'value': 'isclass'}; {'id': '228', 'type': 'argument_list', 'children': ['229']}; {'id': '229', 'type': 'identifier', 'children': [], 'value': 'action_instance'}; {'id': '230', 'type': 'block', 'children': ['231']}; {'id': '231', 'type': 'if_statement', 'children': ['232', '237']}; {'id': '232', 'type': 'not_operator', 'children': ['233']}; {'id': '233', 'type': 'call', 'children': ['234', '235']}; {'id': '234', 'type': 'identifier', 'children': [], 'value': 'action_instance'}; {'id': '235', 'type': 'argument_list', 'children': ['236']}; {'id': '236', 'type': 'identifier', 'children': [], 'value': 'ctx'}; {'id': '237', 'type': 'block', 'children': ['238', '252']}; {'id': '238', 'type': 'expression_statement', 'children': ['239']}; {'id': '239', 'type': 'call', 'children': ['240', '243']}; {'id': '240', 'type': 'attribute', 'children': ['241', '242']}; {'id': '241', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '242', 'type': 'identifier', 'children': [], 'value': 'log'}; {'id': '243', 'type': 'argument_list', 'children': ['244']}; {'id': '244', 'type': 'call', 'children': ['245', '248']}; {'id': '245', 'type': 'attribute', 'children': ['246', '247']}; {'id': '246', 'type': 'string', 'children': [], 'value': '"Error: {}"'}; {'id': '247', 'type': 'identifier', 'children': [], 'value': 'format'}; {'id': '248', 'type': 'argument_list', 'children': ['249']}; {'id': '249', 'type': 'attribute', 'children': ['250', '251']}; {'id': '250', 'type': 'identifier', 'children': [], 'value': 'ctx'}; {'id': '251', 'type': 'identifier', 'children': [], 'value': 'msg'}; {'id': '252', 'type': 'return_statement', 'children': ['253']}; {'id': '253', 'type': 'False', 'children': []}; {'id': '254', 'type': 'elif_clause', 'children': ['255', '260']}; {'id': '255', 'type': 'call', 'children': ['256', '257']}; {'id': '256', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '257', 'type': 'argument_list', 'children': ['258', '259']}; {'id': '258', 'type': 'identifier', 'children': [], 'value': 'action_instance'}; {'id': '259', 'type': 'identifier', 'children': [], 'value': 'Exception'}; {'id': '260', 'type': 'block', 'children': ['261', '273']}; {'id': '261', 'type': 'expression_statement', 'children': ['262']}; {'id': '262', 'type': 'call', 'children': ['263', '266']}; {'id': '263', 'type': 'attribute', 'children': ['264', '265']}; {'id': '264', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '265', 'type': 'identifier', 'children': [], 'value': 'log'}; {'id': '266', 'type': 'argument_list', 'children': ['267']}; {'id': '267', 'type': 'call', 'children': ['268', '271']}; {'id': '268', 'type': 'attribute', 'children': ['269', '270']}; {'id': '269', 'type': 'string', 'children': [], 'value': '"A=Exception {}"'}; {'id': '270', 'type': 'identifier', 'children': [], 'value': 'format'}; {'id': '271', 'type': 'argument_list', 'children': ['272']}; {'id': '272', 'type': 'identifier', 'children': [], 'value': 'action_instance'}; {'id': '273', 'type': 'raise_statement', 'children': ['274']}; {'id': '274', 'type': 'identifier', 'children': [], 'value': 'action_instance'}; {'id': '275', 'type': 'elif_clause', 'children': ['276', '279']}; {'id': '276', 'type': 'comparison_operator', 'children': ['277', '278'], 'value': 'is'}; {'id': '277', 'type': 'identifier', 'children': [], 'value': 'action_instance'}; {'id': '278', 'type': 'None', 'children': []}; {'id': '279', 'type': 'block', 'children': ['280']}; {'id': '280', 'type': 'expression_statement', 'children': ['281']}; {'id': '281', 'type': 'call', 'children': ['282', '285']}; {'id': '282', 'type': 'attribute', 'children': ['283', '284']}; {'id': '283', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '284', 'type': 'identifier', 'children': [], 'value': 'log'}; {'id': '285', 'type': 'argument_list', 'children': ['286']}; {'id': '286', 'type': 'string', 'children': [], 'value': '"A=None"'}; {'id': '287', 'type': 'else_clause', 'children': ['288']}; {'id': '288', 'type': 'block', 'children': ['289', '304']}; {'id': '289', 'type': 'expression_statement', 'children': ['290']}; {'id': '290', 'type': 'call', 'children': ['291', '294']}; {'id': '291', 'type': 'attribute', 'children': ['292', '293']}; {'id': '292', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '293', 'type': 'identifier', 'children': [], 'value': 'log'}; {'id': '294', 'type': 'argument_list', 'children': ['295']}; {'id': '295', 'type': 'call', 'children': ['296', '299']}; {'id': '296', 'type': 'attribute', 'children': ['297', '298']}; {'id': '297', 'type': 'string', 'children': [], 'value': '"FSM Action is not callable: {}"'}; {'id': '298', 'type': 'identifier', 'children': [], 'value': 'format'}; {'id': '299', 'type': 'argument_list', 'children': ['300']}; {'id': '300', 'type': 'call', 'children': ['301', '302']}; {'id': '301', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '302', 'type': 'argument_list', 'children': ['303']}; {'id': '303', 'type': 'identifier', 'children': [], 'value': 'action_instance'}; {'id': '304', 'type': 'raise_statement', 'children': ['305']}; {'id': '305', 'type': 'call', 'children': ['306', '307']}; {'id': '306', 'type': 'identifier', 'children': [], 'value': 'RuntimeWarning'}; {'id': '307', 'type': 'argument_list', 'children': ['308']}; {'id': '308', 'type': 'string', 'children': [], 'value': '"FSM Action is not callable"'}; {'id': '309', 'type': 'if_statement', 'children': ['310', '313']}; {'id': '310', 'type': 'comparison_operator', 'children': ['311', '312'], 'value': '!='}; {'id': '311', 'type': 'identifier', 'children': [], 'value': 'next_timeout'}; {'id': '312', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '313', 'type': 'block', 'children': ['314']}; {'id': '314', 'type': 'expression_statement', 'children': ['315']}; {'id': '315', 'type': 'assignment', 'children': ['316', '317']}; {'id': '316', 'type': 'identifier', 'children': [], 'value': 'timeout'}; {'id': '317', 'type': 'identifier', 'children': [], 'value': 'next_timeout'}; {'id': '318', 'type': 'expression_statement', 'children': ['319']}; {'id': '319', 'type': 'assignment', 'children': ['320', '323']}; {'id': '320', 'type': 'attribute', 'children': ['321', '322']}; {'id': '321', 'type': 'identifier', 'children': [], 'value': 'ctx'}; {'id': '322', 'type': 'identifier', 'children': [], 'value': 'state'}; {'id': '323', 'type': 'identifier', 'children': [], 'value': 'next_state'}; {'id': '324', 'type': 'expression_statement', 'children': ['325']}; {'id': '325', 'type': 'call', 'children': ['326', '329']}; {'id': '326', 'type': 'attribute', 'children': ['327', '328']}; {'id': '327', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '328', 'type': 'identifier', 'children': [], 'value': 'log'}; {'id': '329', 'type': 'argument_list', 'children': ['330']}; {'id': '330', 'type': 'call', 'children': ['331', '334']}; {'id': '331', 'type': 'attribute', 'children': ['332', '333']}; {'id': '332', 'type': 'string', 'children': [], 'value': '"NS={},NT={}"'}; {'id': '333', 'type': 'identifier', 'children': [], 'value': 'format'}; {'id': '334', 'type': 'argument_list', 'children': ['335', '336']}; {'id': '335', 'type': 'identifier', 'children': [], 'value': 'next_state'}; {'id': '336', 'type': 'identifier', 'children': [], 'value': 'timeout'}; {'id': '337', 'type': 'else_clause', 'children': ['338']}; {'id': '338', 'type': 'block', 'children': ['339', '356']}; {'id': '339', 'type': 'expression_statement', 'children': ['340']}; {'id': '340', 'type': 'call', 'children': ['341', '344']}; {'id': '341', 'type': 'attribute', 'children': ['342', '343']}; {'id': '342', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '343', 'type': 'identifier', 'children': [], 'value': 'log'}; {'id': '344', 'type': 'argument_list', 'children': ['345']}; {'id': '345', 'type': 'call', 'children': ['346', '349']}; {'id': '346', 'type': 'attribute', 'children': ['347', '348']}; {'id': '347', 'type': 'string', 'children': [], 'value': '"Unknown transition: EVENT={},STATE={}"'}; {'id': '348', 'type': 'identifier', 'children': [], 'value': 'format'}; {'id': '349', 'type': 'argument_list', 'children': ['350', '353']}; {'id': '350', 'type': 'attribute', 'children': ['351', '352']}; {'id': '351', 'type': 'identifier', 'children': [], 'value': 'ctx'}; {'id': '352', 'type': 'identifier', 'children': [], 'value': 'event'}; {'id': '353', 'type': 'attribute', 'children': ['354', '355']}; {'id': '354', 'type': 'identifier', 'children': [], 'value': 'ctx'}; {'id': '355', 'type': 'identifier', 'children': [], 'value': 'state'}; {'id': '356', 'type': 'continue_statement', 'children': []}; {'id': '357', 'type': 'except_clause', 'children': ['358', '359']}; {'id': '358', 'type': 'identifier', 'children': [], 'value': 'EOF'}; {'id': '359', 'type': 'block', 'children': ['360']}; {'id': '360', 'type': 'raise_statement', 'children': ['361']}; {'id': '361', 'type': 'call', 'children': ['362', '363']}; {'id': '362', 'type': 'identifier', 'children': [], 'value': 'ConnectionError'}; {'id': '363', 'type': 'argument_list', 'children': ['364', '365']}; {'id': '364', 'type': 'string', 'children': [], 'value': '"Session closed unexpectedly"'}; {'id': '365', 'type': 'attribute', 'children': ['366', '369']}; {'id': '366', 'type': 'attribute', 'children': ['367', '368']}; {'id': '367', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '368', 'type': 'identifier', 'children': [], 'value': 'ctrl'}; {'id': '369', 'type': 'identifier', 'children': [], 'value': 'hostname'}; {'id': '370', 'type': 'if_statement', 'children': ['371', '379']}; {'id': '371', 'type': 'boolean_operator', 'children': ['372', '375'], 'value': 'or'}; {'id': '372', 'type': 'attribute', 'children': ['373', '374']}; {'id': '373', 'type': 'identifier', 'children': [], 'value': 'ctx'}; {'id': '374', 'type': 'identifier', 'children': [], 'value': 'finished'}; {'id': '375', 'type': 'comparison_operator', 'children': ['376', '377'], 'value': '=='}; {'id': '376', 'type': 'identifier', 'children': [], 'value': 'next_state'}; {'id': '377', 'type': 'unary_operator', 'children': ['378'], 'value': '-'}; {'id': '378', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '379', 'type': 'block', 'children': ['380', '400']}; {'id': '380', 'type': 'expression_statement', 'children': ['381']}; {'id': '381', 'type': 'call', 'children': ['382', '385']}; {'id': '382', 'type': 'attribute', 'children': ['383', '384']}; {'id': '383', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '384', 'type': 'identifier', 'children': [], 'value': 'log'}; {'id': '385', 'type': 'argument_list', 'children': ['386']}; {'id': '386', 'type': 'call', 'children': ['387', '390']}; {'id': '387', 'type': 'attribute', 'children': ['388', '389']}; {'id': '388', 'type': 'string', 'children': [], 'value': '"{} Stop at E={},S={}"'}; {'id': '389', 'type': 'identifier', 'children': [], 'value': 'format'}; {'id': '390', 'type': 'argument_list', 'children': ['391', '394', '397']}; {'id': '391', 'type': 'attribute', 'children': ['392', '393']}; {'id': '392', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '393', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '394', 'type': 'attribute', 'children': ['395', '396']}; {'id': '395', 'type': 'identifier', 'children': [], 'value': 'ctx'}; {'id': '396', 'type': 'identifier', 'children': [], 'value': 'event'}; {'id': '397', 'type': 'attribute', 'children': ['398', '399']}; {'id': '398', 'type': 'identifier', 'children': [], 'value': 'ctx'}; {'id': '399', 'type': 'identifier', 'children': [], 'value': 'state'}; {'id': '400', 'type': 'return_statement', 'children': ['401']}; {'id': '401', 'type': 'True', 'children': []}; {'id': '402', 'type': 'expression_statement', 'children': ['403']}; {'id': '403', 'type': 'call', 'children': ['404', '407']}; {'id': '404', 'type': 'attribute', 'children': ['405', '406']}; {'id': '405', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '406', 'type': 'identifier', 'children': [], 'value': 'log'}; {'id': '407', 'type': 'argument_list', 'children': ['408']}; {'id': '408', 'type': 'string', 'children': [], 'value': '"FSM looped. Exiting"'}; {'id': '409', 'type': 'return_statement', 'children': ['410']}; {'id': '410', 'type': 'False', 'children': []} | def run(self):
ctx = FSM.Context(self.name, self.device)
transition_counter = 0
timeout = self.timeout
self.log("{} Start".format(self.name))
while transition_counter < self.max_transitions:
transition_counter += 1
try:
start_time = time()
if self.init_pattern is None:
ctx.event = self.ctrl.expect(self.events, searchwindowsize=self.searchwindowsize, timeout=timeout)
else:
self.log("INIT_PATTERN={}".format(pattern_to_str(self.init_pattern)))
try:
ctx.event = self.events.index(self.init_pattern)
except ValueError:
self.log("INIT_PATTERN unknown.")
continue
finally:
self.init_pattern = None
finish_time = time() - start_time
key = (ctx.event, ctx.state)
ctx.pattern = self.events[ctx.event]
if key in self.transition_table:
transition = self.transition_table[key]
next_state, action_instance, next_timeout = transition
self.log("E={},S={},T={},RT={:.2f}".format(ctx.event, ctx.state, timeout, finish_time))
if callable(action_instance) and not isclass(action_instance):
if not action_instance(ctx):
self.log("Error: {}".format(ctx.msg))
return False
elif isinstance(action_instance, Exception):
self.log("A=Exception {}".format(action_instance))
raise action_instance
elif action_instance is None:
self.log("A=None")
else:
self.log("FSM Action is not callable: {}".format(str(action_instance)))
raise RuntimeWarning("FSM Action is not callable")
if next_timeout != 0:
timeout = next_timeout
ctx.state = next_state
self.log("NS={},NT={}".format(next_state, timeout))
else:
self.log("Unknown transition: EVENT={},STATE={}".format(ctx.event, ctx.state))
continue
except EOF:
raise ConnectionError("Session closed unexpectedly", self.ctrl.hostname)
if ctx.finished or next_state == -1:
self.log("{} Stop at E={},S={}".format(self.name, ctx.event, ctx.state))
return True
self.log("FSM looped. Exiting")
return False |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '10']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'build'}; {'id': '3', 'type': 'parameters', 'children': ['4', '7']}; {'id': '4', 'type': 'default_parameter', 'children': ['5', '6']}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'port'}; {'id': '6', 'type': 'integer', 'children': [], 'value': '8000'}; {'id': '7', 'type': 'default_parameter', 'children': ['8', '9']}; {'id': '8', 'type': 'identifier', 'children': [], 'value': 'fixtures'}; {'id': '9', 'type': 'None', 'children': []}; {'id': '10', 'type': 'block', 'children': ['11', '17', '27', '33', '39', '46', '55', '67', '77', '81', '85', '447', '456', '462', '472']}; {'id': '11', 'type': 'expression_statement', 'children': ['12']}; {'id': '12', 'type': 'assignment', 'children': ['13', '14']}; {'id': '13', 'type': 'identifier', 'children': [], 'value': 'extractor'}; {'id': '14', 'type': 'call', 'children': ['15', '16']}; {'id': '15', 'type': 'identifier', 'children': [], 'value': 'Extractor'}; {'id': '16', 'type': 'argument_list', 'children': []}; {'id': '17', 'type': 'expression_statement', 'children': ['18']}; {'id': '18', 'type': 'assignment', 'children': ['19', '20']}; {'id': '19', 'type': 'identifier', 'children': [], 'value': 'parser'}; {'id': '20', 'type': 'call', 'children': ['21', '22']}; {'id': '21', 'type': 'identifier', 'children': [], 'value': 'Parser'}; {'id': '22', 'type': 'argument_list', 'children': ['23', '26']}; {'id': '23', 'type': 'attribute', 'children': ['24', '25']}; {'id': '24', 'type': 'identifier', 'children': [], 'value': 'extractor'}; {'id': '25', 'type': 'identifier', 'children': [], 'value': 'url_details'}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'fixtures'}; {'id': '27', 'type': 'expression_statement', 'children': ['28']}; {'id': '28', 'type': 'call', 'children': ['29', '32']}; {'id': '29', 'type': 'attribute', 'children': ['30', '31']}; {'id': '30', 'type': 'identifier', 'children': [], 'value': 'parser'}; {'id': '31', 'type': 'identifier', 'children': [], 'value': 'parse'}; {'id': '32', 'type': 'argument_list', 'children': []}; {'id': '33', 'type': 'expression_statement', 'children': ['34']}; {'id': '34', 'type': 'assignment', 'children': ['35', '36']}; {'id': '35', 'type': 'identifier', 'children': [], 'value': 'url_details'}; {'id': '36', 'type': 'attribute', 'children': ['37', '38']}; {'id': '37', 'type': 'identifier', 'children': [], 'value': 'parser'}; {'id': '38', 'type': 'identifier', 'children': [], 'value': 'results'}; {'id': '39', 'type': 'expression_statement', 'children': ['40']}; {'id': '40', 'type': 'assignment', 'children': ['41', '42']}; {'id': '41', 'type': 'identifier', 'children': [], 'value': '_store'}; {'id': '42', 'type': 'call', 'children': ['43', '44']}; {'id': '43', 'type': 'identifier', 'children': [], 'value': 'get_store'}; {'id': '44', 'type': 'argument_list', 'children': ['45']}; {'id': '45', 'type': 'identifier', 'children': [], 'value': 'url_details'}; {'id': '46', 'type': 'expression_statement', 'children': ['47']}; {'id': '47', 'type': 'assignment', 'children': ['48', '49']}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'store'}; {'id': '49', 'type': 'call', 'children': ['50', '53']}; {'id': '50', 'type': 'attribute', 'children': ['51', '52']}; {'id': '51', 'type': 'identifier', 'children': [], 'value': 'json'}; {'id': '52', 'type': 'identifier', 'children': [], 'value': 'dumps'}; {'id': '53', 'type': 'argument_list', 'children': ['54']}; {'id': '54', 'type': 'identifier', 'children': [], 'value': '_store'}; {'id': '55', 'type': 'expression_statement', 'children': ['56']}; {'id': '56', 'type': 'assignment', 'children': ['57', '58']}; {'id': '57', 'type': 'identifier', 'children': [], 'value': 'variables'}; {'id': '58', 'type': 'call', 'children': ['59', '60']}; {'id': '59', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '60', 'type': 'argument_list', 'children': ['61']}; {'id': '61', 'type': 'call', 'children': ['62', '63']}; {'id': '62', 'type': 'identifier', 'children': [], 'value': 'Variable'}; {'id': '63', 'type': 'argument_list', 'children': ['64', '65', '66']}; {'id': '64', 'type': 'string', 'children': [], 'value': "'let'"}; {'id': '65', 'type': 'string', 'children': [], 'value': "'store'"}; {'id': '66', 'type': 'identifier', 'children': [], 'value': 'store'}; {'id': '67', 'type': 'expression_statement', 'children': ['68']}; {'id': '68', 'type': 'assignment', 'children': ['69', '70']}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'functions'}; {'id': '70', 'type': 'binary_operator', 'children': ['71', '76'], 'value': '+'}; {'id': '71', 'type': 'binary_operator', 'children': ['72', '75'], 'value': '+'}; {'id': '72', 'type': 'binary_operator', 'children': ['73', '74'], 'value': '+'}; {'id': '73', 'type': 'identifier', 'children': [], 'value': 'DATA_FINDER'}; {'id': '74', 'type': 'identifier', 'children': [], 'value': 'GET_HANDLER'}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'MODIFY_HANDLER'}; {'id': '76', 'type': 'identifier', 'children': [], 'value': 'POST_HANDLER'}; {'id': '77', 'type': 'expression_statement', 'children': ['78']}; {'id': '78', 'type': 'assignment', 'children': ['79', '80']}; {'id': '79', 'type': 'identifier', 'children': [], 'value': 'endpoints'}; {'id': '80', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '81', 'type': 'expression_statement', 'children': ['82']}; {'id': '82', 'type': 'assignment', 'children': ['83', '84']}; {'id': '83', 'type': 'identifier', 'children': [], 'value': 'endpoint_uris'}; {'id': '84', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '85', 'type': 'for_statement', 'children': ['86', '87', '90']}; {'id': '86', 'type': 'identifier', 'children': [], 'value': 'u'}; {'id': '87', 'type': 'attribute', 'children': ['88', '89']}; {'id': '88', 'type': 'identifier', 'children': [], 'value': 'parser'}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'results'}; {'id': '90', 'type': 'block', 'children': ['91', '97', '126', '136', '157', '221']}; {'id': '91', 'type': 'expression_statement', 'children': ['92']}; {'id': '92', 'type': 'assignment', 'children': ['93', '94']}; {'id': '93', 'type': 'identifier', 'children': [], 'value': 'endpoint'}; {'id': '94', 'type': 'call', 'children': ['95', '96']}; {'id': '95', 'type': 'identifier', 'children': [], 'value': 'Endpoint'}; {'id': '96', 'type': 'argument_list', 'children': []}; {'id': '97', 'type': 'if_statement', 'children': ['98', '109', '120']}; {'id': '98', 'type': 'comparison_operator', 'children': ['99', '106'], 'value': 'in'}; {'id': '99', 'type': 'call', 'children': ['100', '105']}; {'id': '100', 'type': 'attribute', 'children': ['101', '104']}; {'id': '101', 'type': 'subscript', 'children': ['102', '103']}; {'id': '102', 'type': 'identifier', 'children': [], 'value': 'u'}; {'id': '103', 'type': 'string', 'children': [], 'value': "'method'"}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'lower'}; {'id': '105', 'type': 'argument_list', 'children': []}; {'id': '106', 'type': 'list', 'children': ['107', '108'], 'value': "['get', 'post']"}; {'id': '107', 'type': 'string', 'children': [], 'value': "'get'"}; {'id': '108', 'type': 'string', 'children': [], 'value': "'post'"}; {'id': '109', 'type': 'block', 'children': ['110']}; {'id': '110', 'type': 'expression_statement', 'children': ['111']}; {'id': '111', 'type': 'assignment', 'children': ['112', '113']}; {'id': '112', 'type': 'identifier', 'children': [], 'value': 'method'}; {'id': '113', 'type': 'call', 'children': ['114', '119']}; {'id': '114', 'type': 'attribute', 'children': ['115', '118']}; {'id': '115', 'type': 'subscript', 'children': ['116', '117']}; {'id': '116', 'type': 'identifier', 'children': [], 'value': 'u'}; {'id': '117', 'type': 'string', 'children': [], 'value': "'method'"}; {'id': '118', 'type': 'identifier', 'children': [], 'value': 'lower'}; {'id': '119', 'type': 'argument_list', 'children': []}; {'id': '120', 'type': 'else_clause', 'children': ['121']}; {'id': '121', 'type': 'block', 'children': ['122']}; {'id': '122', 'type': 'expression_statement', 'children': ['123']}; {'id': '123', 'type': 'assignment', 'children': ['124', '125']}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'method'}; {'id': '125', 'type': 'string', 'children': [], 'value': "'modify'"}; {'id': '126', 'type': 'expression_statement', 'children': ['127']}; {'id': '127', 'type': 'assignment', 'children': ['128', '129']}; {'id': '128', 'type': 'identifier', 'children': [], 'value': 'response'}; {'id': '129', 'type': 'call', 'children': ['130', '131']}; {'id': '130', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '131', 'type': 'argument_list', 'children': ['132']}; {'id': '132', 'type': 'call', 'children': ['133', '134']}; {'id': '133', 'type': 'identifier', 'children': [], 'value': 'ResponseBody'}; {'id': '134', 'type': 'argument_list', 'children': ['135']}; {'id': '135', 'type': 'identifier', 'children': [], 'value': 'method'}; {'id': '136', 'type': 'expression_statement', 'children': ['137']}; {'id': '137', 'type': 'assignment', 'children': ['138', '143']}; {'id': '138', 'type': 'pattern_list', 'children': ['139', '142']}; {'id': '139', 'type': 'subscript', 'children': ['140', '141']}; {'id': '140', 'type': 'identifier', 'children': [], 'value': 'u'}; {'id': '141', 'type': 'string', 'children': [], 'value': "'url'"}; {'id': '142', 'type': 'identifier', 'children': [], 'value': 'list_url'}; {'id': '143', 'type': 'call', 'children': ['144', '145']}; {'id': '144', 'type': 'identifier', 'children': [], 'value': 'clean_url'}; {'id': '145', 'type': 'argument_list', 'children': ['146', '149', '150']}; {'id': '146', 'type': 'subscript', 'children': ['147', '148']}; {'id': '147', 'type': 'identifier', 'children': [], 'value': 'u'}; {'id': '148', 'type': 'string', 'children': [], 'value': "'full_url'"}; {'id': '149', 'type': 'identifier', 'children': [], 'value': '_store'}; {'id': '150', 'type': 'call', 'children': ['151', '156']}; {'id': '151', 'type': 'attribute', 'children': ['152', '155']}; {'id': '152', 'type': 'subscript', 'children': ['153', '154']}; {'id': '153', 'type': 'identifier', 'children': [], 'value': 'u'}; {'id': '154', 'type': 'string', 'children': [], 'value': "'method'"}; {'id': '155', 'type': 'identifier', 'children': [], 'value': 'lower'}; {'id': '156', 'type': 'argument_list', 'children': []}; {'id': '157', 'type': 'if_statement', 'children': ['158', '171']}; {'id': '158', 'type': 'boolean_operator', 'children': ['159', '162'], 'value': 'and'}; {'id': '159', 'type': 'comparison_operator', 'children': ['160', '161'], 'value': 'is'}; {'id': '160', 'type': 'identifier', 'children': [], 'value': 'list_url'}; {'id': '161', 'type': 'None', 'children': []}; {'id': '162', 'type': 'comparison_operator', 'children': ['163', '170'], 'value': '=='}; {'id': '163', 'type': 'call', 'children': ['164', '169']}; {'id': '164', 'type': 'attribute', 'children': ['165', '168']}; {'id': '165', 'type': 'subscript', 'children': ['166', '167']}; {'id': '166', 'type': 'identifier', 'children': [], 'value': 'u'}; {'id': '167', 'type': 'string', 'children': [], 'value': "'method'"}; {'id': '168', 'type': 'identifier', 'children': [], 'value': 'lower'}; {'id': '169', 'type': 'argument_list', 'children': []}; {'id': '170', 'type': 'string', 'children': [], 'value': "'get'"}; {'id': '171', 'type': 'block', 'children': ['172', '178', '187', '205']}; {'id': '172', 'type': 'expression_statement', 'children': ['173']}; {'id': '173', 'type': 'assignment', 'children': ['174', '175']}; {'id': '174', 'type': 'identifier', 'children': [], 'value': 'list_endpoint'}; {'id': '175', 'type': 'call', 'children': ['176', '177']}; {'id': '176', 'type': 'identifier', 'children': [], 'value': 'Endpoint'}; {'id': '177', 'type': 'argument_list', 'children': []}; {'id': '178', 'type': 'expression_statement', 'children': ['179']}; {'id': '179', 'type': 'call', 'children': ['180', '183']}; {'id': '180', 'type': 'attribute', 'children': ['181', '182']}; {'id': '181', 'type': 'identifier', 'children': [], 'value': 'list_endpoint'}; {'id': '182', 'type': 'identifier', 'children': [], 'value': 'construct'}; {'id': '183', 'type': 'argument_list', 'children': ['184', '185', '186']}; {'id': '184', 'type': 'string', 'children': [], 'value': "'get'"}; {'id': '185', 'type': 'identifier', 'children': [], 'value': 'list_url'}; {'id': '186', 'type': 'identifier', 'children': [], 'value': 'response'}; {'id': '187', 'type': 'if_statement', 'children': ['188', '194']}; {'id': '188', 'type': 'comparison_operator', 'children': ['189', '193'], 'value': 'not'}; {'id': '189', 'type': 'call', 'children': ['190', '191']}; {'id': '190', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '191', 'type': 'argument_list', 'children': ['192']}; {'id': '192', 'type': 'identifier', 'children': [], 'value': 'list_endpoint'}; {'id': '193', 'type': 'identifier', 'children': [], 'value': 'endpoints'}; {'id': '194', 'type': 'block', 'children': ['195']}; {'id': '195', 'type': 'expression_statement', 'children': ['196']}; {'id': '196', 'type': 'call', 'children': ['197', '200']}; {'id': '197', 'type': 'attribute', 'children': ['198', '199']}; {'id': '198', 'type': 'identifier', 'children': [], 'value': 'endpoints'}; {'id': '199', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '200', 'type': 'argument_list', 'children': ['201']}; {'id': '201', 'type': 'call', 'children': ['202', '203']}; {'id': '202', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '203', 'type': 'argument_list', 'children': ['204']}; {'id': '204', 'type': 'identifier', 'children': [], 'value': 'list_endpoint'}; {'id': '205', 'type': 'if_statement', 'children': ['206', '211']}; {'id': '206', 'type': 'comparison_operator', 'children': ['207', '210'], 'value': 'not'}; {'id': '207', 'type': 'attribute', 'children': ['208', '209']}; {'id': '208', 'type': 'identifier', 'children': [], 'value': 'list_endpoint'}; {'id': '209', 'type': 'identifier', 'children': [], 'value': 'uri'}; {'id': '210', 'type': 'identifier', 'children': [], 'value': 'endpoint_uris'}; {'id': '211', 'type': 'block', 'children': ['212']}; {'id': '212', 'type': 'expression_statement', 'children': ['213']}; {'id': '213', 'type': 'call', 'children': ['214', '217']}; {'id': '214', 'type': 'attribute', 'children': ['215', '216']}; {'id': '215', 'type': 'identifier', 'children': [], 'value': 'endpoint_uris'}; {'id': '216', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '217', 'type': 'argument_list', 'children': ['218']}; {'id': '218', 'type': 'attribute', 'children': ['219', '220']}; {'id': '219', 'type': 'identifier', 'children': [], 'value': 'list_endpoint'}; {'id': '220', 'type': 'identifier', 'children': [], 'value': 'uri'}; {'id': '221', 'type': 'if_statement', 'children': ['222', '225', '398']}; {'id': '222', 'type': 'comparison_operator', 'children': ['223', '224'], 'value': '=='}; {'id': '223', 'type': 'identifier', 'children': [], 'value': 'method'}; {'id': '224', 'type': 'string', 'children': [], 'value': "'modify'"}; {'id': '225', 'type': 'block', 'children': ['226', '239']}; {'id': '226', 'type': 'expression_statement', 'children': ['227']}; {'id': '227', 'type': 'assignment', 'children': ['228', '229']}; {'id': '228', 'type': 'identifier', 'children': [], 'value': 'without_prefix'}; {'id': '229', 'type': 'call', 'children': ['230', '233']}; {'id': '230', 'type': 'attribute', 'children': ['231', '232']}; {'id': '231', 'type': 'identifier', 'children': [], 'value': 're'}; {'id': '232', 'type': 'identifier', 'children': [], 'value': 'sub'}; {'id': '233', 'type': 'argument_list', 'children': ['234', '235', '236']}; {'id': '234', 'type': 'string', 'children': [], 'value': "r'\\/(\\w+)\\_\\_'"}; {'id': '235', 'type': 'string', 'children': [], 'value': "''"}; {'id': '236', 'type': 'subscript', 'children': ['237', '238']}; {'id': '237', 'type': 'identifier', 'children': [], 'value': 'u'}; {'id': '238', 'type': 'string', 'children': [], 'value': "'url'"}; {'id': '239', 'type': 'for_statement', 'children': ['240', '243', '248']}; {'id': '240', 'type': 'pattern_list', 'children': ['241', '242']}; {'id': '241', 'type': 'identifier', 'children': [], 'value': 'k'}; {'id': '242', 'type': 'identifier', 'children': [], 'value': 'v'}; {'id': '243', 'type': 'call', 'children': ['244', '247']}; {'id': '244', 'type': 'attribute', 'children': ['245', '246']}; {'id': '245', 'type': 'identifier', 'children': [], 'value': '_store'}; {'id': '246', 'type': 'identifier', 'children': [], 'value': 'items'}; {'id': '247', 'type': 'argument_list', 'children': []}; {'id': '248', 'type': 'block', 'children': ['249']}; {'id': '249', 'type': 'if_statement', 'children': ['250', '253']}; {'id': '250', 'type': 'comparison_operator', 'children': ['251', '252'], 'value': 'in'}; {'id': '251', 'type': 'identifier', 'children': [], 'value': 'without_prefix'}; {'id': '252', 'type': 'identifier', 'children': [], 'value': 'k'}; {'id': '253', 'type': 'block', 'children': ['254', '264', '273', '277', '292']}; {'id': '254', 'type': 'expression_statement', 'children': ['255']}; {'id': '255', 'type': 'assignment', 'children': ['256', '257']}; {'id': '256', 'type': 'identifier', 'children': [], 'value': 'options'}; {'id': '257', 'type': 'call', 'children': ['258', '261']}; {'id': '258', 'type': 'attribute', 'children': ['259', '260']}; {'id': '259', 'type': 'identifier', 'children': [], 'value': 'v'}; {'id': '260', 'type': 'identifier', 'children': [], 'value': 'get'}; {'id': '261', 'type': 'argument_list', 'children': ['262', '263']}; {'id': '262', 'type': 'string', 'children': [], 'value': "'options'"}; {'id': '263', 'type': 'string', 'children': [], 'value': "'{}'"}; {'id': '264', 'type': 'expression_statement', 'children': ['265']}; {'id': '265', 'type': 'assignment', 'children': ['266', '267']}; {'id': '266', 'type': 'identifier', 'children': [], 'value': 'options'}; {'id': '267', 'type': 'call', 'children': ['268', '271']}; {'id': '268', 'type': 'attribute', 'children': ['269', '270']}; {'id': '269', 'type': 'identifier', 'children': [], 'value': 'ast'}; {'id': '270', 'type': 'identifier', 'children': [], 'value': 'literal_eval'}; {'id': '271', 'type': 'argument_list', 'children': ['272']}; {'id': '272', 'type': 'identifier', 'children': [], 'value': 'options'}; {'id': '273', 'type': 'expression_statement', 'children': ['274']}; {'id': '274', 'type': 'assignment', 'children': ['275', '276']}; {'id': '275', 'type': 'identifier', 'children': [], 'value': 'modifiers'}; {'id': '276', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '277', 'type': 'if_statement', 'children': ['278', '281']}; {'id': '278', 'type': 'comparison_operator', 'children': ['279', '280'], 'value': 'is'}; {'id': '279', 'type': 'identifier', 'children': [], 'value': 'options'}; {'id': '280', 'type': 'None', 'children': []}; {'id': '281', 'type': 'block', 'children': ['282']}; {'id': '282', 'type': 'expression_statement', 'children': ['283']}; {'id': '283', 'type': 'assignment', 'children': ['284', '285']}; {'id': '284', 'type': 'identifier', 'children': [], 'value': 'modifiers'}; {'id': '285', 'type': 'call', 'children': ['286', '289']}; {'id': '286', 'type': 'attribute', 'children': ['287', '288']}; {'id': '287', 'type': 'identifier', 'children': [], 'value': 'options'}; {'id': '288', 'type': 'identifier', 'children': [], 'value': 'get'}; {'id': '289', 'type': 'argument_list', 'children': ['290', '291']}; {'id': '290', 'type': 'string', 'children': [], 'value': "'modifiers'"}; {'id': '291', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '292', 'type': 'if_statement', 'children': ['293', '294']}; {'id': '293', 'type': 'identifier', 'children': [], 'value': 'modifiers'}; {'id': '294', 'type': 'block', 'children': ['295']}; {'id': '295', 'type': 'for_statement', 'children': ['296', '297', '298']}; {'id': '296', 'type': 'identifier', 'children': [], 'value': 'mod'}; {'id': '297', 'type': 'identifier', 'children': [], 'value': 'modifiers'}; {'id': '298', 'type': 'block', 'children': ['299']}; {'id': '299', 'type': 'if_statement', 'children': ['300', '309']}; {'id': '300', 'type': 'comparison_operator', 'children': ['301', '308'], 'value': '=='}; {'id': '301', 'type': 'call', 'children': ['302', '307']}; {'id': '302', 'type': 'attribute', 'children': ['303', '306']}; {'id': '303', 'type': 'subscript', 'children': ['304', '305']}; {'id': '304', 'type': 'identifier', 'children': [], 'value': 'u'}; {'id': '305', 'type': 'string', 'children': [], 'value': "'method'"}; {'id': '306', 'type': 'identifier', 'children': [], 'value': 'lower'}; {'id': '307', 'type': 'argument_list', 'children': []}; {'id': '308', 'type': 'identifier', 'children': [], 'value': 'mod'}; {'id': '309', 'type': 'block', 'children': ['310', '316', '320', '349', '364', '382']}; {'id': '310', 'type': 'expression_statement', 'children': ['311']}; {'id': '311', 'type': 'assignment', 'children': ['312', '313']}; {'id': '312', 'type': 'identifier', 'children': [], 'value': 'mod_endpoint'}; {'id': '313', 'type': 'call', 'children': ['314', '315']}; {'id': '314', 'type': 'identifier', 'children': [], 'value': 'Endpoint'}; {'id': '315', 'type': 'argument_list', 'children': []}; {'id': '316', 'type': 'expression_statement', 'children': ['317']}; {'id': '317', 'type': 'assignment', 'children': ['318', '319']}; {'id': '318', 'type': 'identifier', 'children': [], 'value': 'uri'}; {'id': '319', 'type': 'identifier', 'children': [], 'value': 'without_prefix'}; {'id': '320', 'type': 'if_statement', 'children': ['321', '335']}; {'id': '321', 'type': 'boolean_operator', 'children': ['322', '330'], 'value': 'and'}; {'id': '322', 'type': 'comparison_operator', 'children': ['323', '329'], 'value': 'is'}; {'id': '323', 'type': 'call', 'children': ['324', '327']}; {'id': '324', 'type': 'attribute', 'children': ['325', '326']}; {'id': '325', 'type': 'identifier', 'children': [], 'value': 'v'}; {'id': '326', 'type': 'identifier', 'children': [], 'value': 'get'}; {'id': '327', 'type': 'argument_list', 'children': ['328']}; {'id': '328', 'type': 'string', 'children': [], 'value': "'position'"}; {'id': '329', 'type': 'None', 'children': []}; {'id': '330', 'type': 'comparison_operator', 'children': ['331', '334'], 'value': '=='}; {'id': '331', 'type': 'subscript', 'children': ['332', '333']}; {'id': '332', 'type': 'identifier', 'children': [], 'value': 'v'}; {'id': '333', 'type': 'string', 'children': [], 'value': "'position'"}; {'id': '334', 'type': 'string', 'children': [], 'value': "'url'"}; {'id': '335', 'type': 'block', 'children': ['336']}; {'id': '336', 'type': 'expression_statement', 'children': ['337']}; {'id': '337', 'type': 'assignment', 'children': ['338', '339']}; {'id': '338', 'type': 'identifier', 'children': [], 'value': 'uri'}; {'id': '339', 'type': 'call', 'children': ['340', '343']}; {'id': '340', 'type': 'attribute', 'children': ['341', '342']}; {'id': '341', 'type': 'identifier', 'children': [], 'value': 're'}; {'id': '342', 'type': 'identifier', 'children': [], 'value': 'sub'}; {'id': '343', 'type': 'argument_list', 'children': ['344', '345', '346']}; {'id': '344', 'type': 'string', 'children': [], 'value': "r'\\/?\\_\\_key'"}; {'id': '345', 'type': 'string', 'children': [], 'value': "'/:id'"}; {'id': '346', 'type': 'subscript', 'children': ['347', '348']}; {'id': '347', 'type': 'identifier', 'children': [], 'value': 'u'}; {'id': '348', 'type': 'string', 'children': [], 'value': "'full_url'"}; {'id': '349', 'type': 'expression_statement', 'children': ['350']}; {'id': '350', 'type': 'call', 'children': ['351', '354']}; {'id': '351', 'type': 'attribute', 'children': ['352', '353']}; {'id': '352', 'type': 'identifier', 'children': [], 'value': 'mod_endpoint'}; {'id': '353', 'type': 'identifier', 'children': [], 'value': 'construct'}; {'id': '354', 'type': 'argument_list', 'children': ['355', '362', '363']}; {'id': '355', 'type': 'call', 'children': ['356', '361']}; {'id': '356', 'type': 'attribute', 'children': ['357', '360']}; {'id': '357', 'type': 'subscript', 'children': ['358', '359']}; {'id': '358', 'type': 'identifier', 'children': [], 'value': 'u'}; {'id': '359', 'type': 'string', 'children': [], 'value': "'method'"}; {'id': '360', 'type': 'identifier', 'children': [], 'value': 'lower'}; {'id': '361', 'type': 'argument_list', 'children': []}; {'id': '362', 'type': 'identifier', 'children': [], 'value': 'uri'}; {'id': '363', 'type': 'identifier', 'children': [], 'value': 'response'}; {'id': '364', 'type': 'if_statement', 'children': ['365', '371']}; {'id': '365', 'type': 'comparison_operator', 'children': ['366', '370'], 'value': 'not'}; {'id': '366', 'type': 'call', 'children': ['367', '368']}; {'id': '367', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '368', 'type': 'argument_list', 'children': ['369']}; {'id': '369', 'type': 'identifier', 'children': [], 'value': 'mod_endpoint'}; {'id': '370', 'type': 'identifier', 'children': [], 'value': 'endpoints'}; {'id': '371', 'type': 'block', 'children': ['372']}; {'id': '372', 'type': 'expression_statement', 'children': ['373']}; {'id': '373', 'type': 'call', 'children': ['374', '377']}; {'id': '374', 'type': 'attribute', 'children': ['375', '376']}; {'id': '375', 'type': 'identifier', 'children': [], 'value': 'endpoints'}; {'id': '376', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '377', 'type': 'argument_list', 'children': ['378']}; {'id': '378', 'type': 'call', 'children': ['379', '380']}; {'id': '379', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '380', 'type': 'argument_list', 'children': ['381']}; {'id': '381', 'type': 'identifier', 'children': [], 'value': 'mod_endpoint'}; {'id': '382', 'type': 'if_statement', 'children': ['383', '388']}; {'id': '383', 'type': 'comparison_operator', 'children': ['384', '387'], 'value': 'not'}; {'id': '384', 'type': 'attribute', 'children': ['385', '386']}; {'id': '385', 'type': 'identifier', 'children': [], 'value': 'mod_endpoint'}; {'id': '386', 'type': 'identifier', 'children': [], 'value': 'uri'}; {'id': '387', 'type': 'identifier', 'children': [], 'value': 'endpoint_uris'}; {'id': '388', 'type': 'block', 'children': ['389']}; {'id': '389', 'type': 'expression_statement', 'children': ['390']}; {'id': '390', 'type': 'call', 'children': ['391', '394']}; {'id': '391', 'type': 'attribute', 'children': ['392', '393']}; {'id': '392', 'type': 'identifier', 'children': [], 'value': 'endpoint_uris'}; {'id': '393', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '394', 'type': 'argument_list', 'children': ['395']}; {'id': '395', 'type': 'attribute', 'children': ['396', '397']}; {'id': '396', 'type': 'identifier', 'children': [], 'value': 'mod_endpoint'}; {'id': '397', 'type': 'identifier', 'children': [], 'value': 'uri'}; {'id': '398', 'type': 'else_clause', 'children': ['399']}; {'id': '399', 'type': 'block', 'children': ['400', '413', '431']}; {'id': '400', 'type': 'expression_statement', 'children': ['401']}; {'id': '401', 'type': 'call', 'children': ['402', '405']}; {'id': '402', 'type': 'attribute', 'children': ['403', '404']}; {'id': '403', 'type': 'identifier', 'children': [], 'value': 'endpoint'}; {'id': '404', 'type': 'identifier', 'children': [], 'value': 'construct'}; {'id': '405', 'type': 'argument_list', 'children': ['406', '409', '412']}; {'id': '406', 'type': 'subscript', 'children': ['407', '408']}; {'id': '407', 'type': 'identifier', 'children': [], 'value': 'u'}; {'id': '408', 'type': 'string', 'children': [], 'value': "'method'"}; {'id': '409', 'type': 'subscript', 'children': ['410', '411']}; {'id': '410', 'type': 'identifier', 'children': [], 'value': 'u'}; {'id': '411', 'type': 'string', 'children': [], 'value': "'url'"}; {'id': '412', 'type': 'identifier', 'children': [], 'value': 'response'}; {'id': '413', 'type': 'if_statement', 'children': ['414', '420']}; {'id': '414', 'type': 'comparison_operator', 'children': ['415', '419'], 'value': 'not'}; {'id': '415', 'type': 'call', 'children': ['416', '417']}; {'id': '416', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '417', 'type': 'argument_list', 'children': ['418']}; {'id': '418', 'type': 'identifier', 'children': [], 'value': 'endpoint'}; {'id': '419', 'type': 'identifier', 'children': [], 'value': 'endpoints'}; {'id': '420', 'type': 'block', 'children': ['421']}; {'id': '421', 'type': 'expression_statement', 'children': ['422']}; {'id': '422', 'type': 'call', 'children': ['423', '426']}; {'id': '423', 'type': 'attribute', 'children': ['424', '425']}; {'id': '424', 'type': 'identifier', 'children': [], 'value': 'endpoints'}; {'id': '425', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '426', 'type': 'argument_list', 'children': ['427']}; {'id': '427', 'type': 'call', 'children': ['428', '429']}; {'id': '428', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '429', 'type': 'argument_list', 'children': ['430']}; {'id': '430', 'type': 'identifier', 'children': [], 'value': 'endpoint'}; {'id': '431', 'type': 'if_statement', 'children': ['432', '437']}; {'id': '432', 'type': 'comparison_operator', 'children': ['433', '436'], 'value': 'not'}; {'id': '433', 'type': 'attribute', 'children': ['434', '435']}; {'id': '434', 'type': 'identifier', 'children': [], 'value': 'endpoint'}; {'id': '435', 'type': 'identifier', 'children': [], 'value': 'uri'}; {'id': '436', 'type': 'identifier', 'children': [], 'value': 'endpoint_uris'}; {'id': '437', 'type': 'block', 'children': ['438']}; {'id': '438', 'type': 'expression_statement', 'children': ['439']}; {'id': '439', 'type': 'call', 'children': ['440', '443']}; {'id': '440', 'type': 'attribute', 'children': ['441', '442']}; {'id': '441', 'type': 'identifier', 'children': [], 'value': 'endpoint_uris'}; {'id': '442', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '443', 'type': 'argument_list', 'children': ['444']}; {'id': '444', 'type': 'attribute', 'children': ['445', '446']}; {'id': '445', 'type': 'identifier', 'children': [], 'value': 'endpoint'}; {'id': '446', 'type': 'identifier', 'children': [], 'value': 'uri'}; {'id': '447', 'type': 'expression_statement', 'children': ['448']}; {'id': '448', 'type': 'assignment', 'children': ['449', '450']}; {'id': '449', 'type': 'identifier', 'children': [], 'value': 'endpoints'}; {'id': '450', 'type': 'call', 'children': ['451', '454']}; {'id': '451', 'type': 'attribute', 'children': ['452', '453']}; {'id': '452', 'type': 'string', 'children': [], 'value': "''"}; {'id': '453', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '454', 'type': 'argument_list', 'children': ['455']}; {'id': '455', 'type': 'identifier', 'children': [], 'value': 'endpoints'}; {'id': '456', 'type': 'expression_statement', 'children': ['457']}; {'id': '457', 'type': 'assignment', 'children': ['458', '459']}; {'id': '458', 'type': 'identifier', 'children': [], 'value': 'express'}; {'id': '459', 'type': 'call', 'children': ['460', '461']}; {'id': '460', 'type': 'identifier', 'children': [], 'value': 'ExpressServer'}; {'id': '461', 'type': 'argument_list', 'children': []}; {'id': '462', 'type': 'expression_statement', 'children': ['463']}; {'id': '463', 'type': 'call', 'children': ['464', '467']}; {'id': '464', 'type': 'attribute', 'children': ['465', '466']}; {'id': '465', 'type': 'identifier', 'children': [], 'value': 'express'}; {'id': '466', 'type': 'identifier', 'children': [], 'value': 'construct'}; {'id': '467', 'type': 'argument_list', 'children': ['468', '469', '470', '471']}; {'id': '468', 'type': 'identifier', 'children': [], 'value': 'variables'}; {'id': '469', 'type': 'identifier', 'children': [], 'value': 'functions'}; {'id': '470', 'type': 'identifier', 'children': [], 'value': 'endpoints'}; {'id': '471', 'type': 'identifier', 'children': [], 'value': 'port'}; {'id': '472', 'type': 'return_statement', 'children': ['473']}; {'id': '473', 'type': 'identifier', 'children': [], 'value': 'express'} | def build(port=8000, fixtures=None):
extractor = Extractor()
parser = Parser(extractor.url_details, fixtures)
parser.parse()
url_details = parser.results
_store = get_store(url_details)
store = json.dumps(_store)
variables = str(Variable('let', 'store', store))
functions = DATA_FINDER + GET_HANDLER + MODIFY_HANDLER + POST_HANDLER
endpoints = []
endpoint_uris = []
for u in parser.results:
endpoint = Endpoint()
if u['method'].lower() in ['get', 'post']:
method = u['method'].lower()
else:
method = 'modify'
response = str(ResponseBody(method))
u['url'], list_url = clean_url(u['full_url'], _store, u['method'].lower())
if list_url is not None and u['method'].lower() == 'get':
list_endpoint = Endpoint()
list_endpoint.construct('get', list_url, response)
if str(list_endpoint) not in endpoints:
endpoints.append(str(list_endpoint))
if list_endpoint.uri not in endpoint_uris:
endpoint_uris.append(list_endpoint.uri)
if method == 'modify':
without_prefix = re.sub(r'\/(\w+)\_\_', '', u['url'])
for k, v in _store.items():
if without_prefix in k:
options = v.get('options', '{}')
options = ast.literal_eval(options)
modifiers = []
if options is not None:
modifiers = options.get('modifiers', [])
if modifiers:
for mod in modifiers:
if u['method'].lower() == mod:
mod_endpoint = Endpoint()
uri = without_prefix
if v.get('position') is not None and v['position'] == 'url':
uri = re.sub(r'\/?\_\_key', '/:id', u['full_url'])
mod_endpoint.construct(u['method'].lower(), uri, response)
if str(mod_endpoint) not in endpoints:
endpoints.append(str(mod_endpoint))
if mod_endpoint.uri not in endpoint_uris:
endpoint_uris.append(mod_endpoint.uri)
else:
endpoint.construct(u['method'], u['url'], response)
if str(endpoint) not in endpoints:
endpoints.append(str(endpoint))
if endpoint.uri not in endpoint_uris:
endpoint_uris.append(endpoint.uri)
endpoints = ''.join(endpoints)
express = ExpressServer()
express.construct(variables, functions, endpoints, port)
return express |
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{'id': '16', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '17', 'type': 'argument_list', 'children': ['18', '19']}; {'id': '18', 'type': 'identifier', 'children': [], 'value': 'obj'}; {'id': '19', 'type': 'identifier', 'children': [], 'value': 'list'}; {'id': '20', 'type': 'block', 'children': ['21', '25', '39']}; {'id': '21', 'type': 'expression_statement', 'children': ['22']}; {'id': '22', 'type': 'assignment', 'children': ['23', '24']}; {'id': '23', 'type': 'identifier', 'children': [], 'value': 'res_v'}; {'id': '24', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '25', 'type': 'for_statement', 'children': ['26', '27', '28']}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'item'}; {'id': '27', 'type': 'identifier', 'children': [], 'value': 'obj'}; {'id': '28', 'type': 'block', 'children': ['29']}; {'id': '29', 'type': 'expression_statement', 'children': ['30']}; {'id': '30', 'type': 'call', 'children': ['31', '34']}; {'id': '31', 'type': 'attribute', 'children': ['32', '33']}; {'id': '32', 'type': 'identifier', 'children': [], 'value': 'res_v'}; {'id': '33', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '34', 'type': 'argument_list', 'children': ['35']}; {'id': '35', 'type': 'call', 'children': ['36', '37']}; {'id': '36', 'type': 'identifier', 'children': [], 'value': 'decrypt'}; {'id': '37', 'type': 'argument_list', 'children': ['38']}; {'id': '38', 'type': 'identifier', 'children': [], 'value': 'item'}; {'id': '39', 'type': 'return_statement', 'children': ['40']}; {'id': '40', 'type': 'identifier', 'children': [], 'value': 'res_v'}; {'id': '41', 'type': 'elif_clause', 'children': ['42', '47']}; {'id': '42', 'type': 'call', 'children': ['43', '44']}; {'id': '43', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '44', 'type': 'argument_list', 'children': ['45', '46']}; {'id': '45', 'type': 'identifier', 'children': [], 'value': 'obj'}; {'id': '46', 'type': 'identifier', 'children': [], 'value': 'dict'}; {'id': '47', 'type': 'block', 'children': ['48']}; {'id': '48', 'type': 'if_statement', 'children': ['49', '52', '115']}; {'id': '49', 'type': 'comparison_operator', 'children': ['50', '51'], 'value': 'in'}; {'id': '50', 'type': 'string', 'children': [], 'value': "'_gpg'"}; {'id': '51', 'type': 'identifier', 'children': [], 'value': 'obj'}; {'id': '52', 'type': 'block', 'children': ['53']}; {'id': '53', 'type': 'try_statement', 'children': ['54', '101']}; {'id': '54', 'type': 'block', 'children': ['55', '66']}; {'id': '55', 'type': 'expression_statement', 'children': ['56']}; {'id': '56', 'type': 'assignment', 'children': ['57', '58']}; {'id': '57', 'type': 'identifier', 'children': [], 'value': 'decrypted'}; {'id': '58', 'type': 'call', 'children': ['59', '62']}; {'id': '59', 'type': 'attribute', 'children': ['60', '61']}; {'id': '60', 'type': 'identifier', 'children': [], 'value': 'gpg'}; {'id': '61', 'type': 'identifier', 'children': [], 'value': 'decrypt'}; {'id': '62', 'type': 'argument_list', 'children': ['63']}; {'id': '63', 'type': 'subscript', 'children': ['64', '65']}; {'id': '64', 'type': 'identifier', 'children': [], 'value': 'obj'}; {'id': '65', 'type': 'string', 'children': [], 'value': "'_gpg'"}; {'id': '66', 'type': 'if_statement', 'children': ['67', '70', '89']}; {'id': '67', 'type': 'attribute', 'children': ['68', '69']}; {'id': '68', 'type': 'identifier', 'children': [], 'value': 'decrypted'}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'ok'}; {'id': '70', 'type': 'block', 'children': ['71']}; {'id': '71', 'type': 'expression_statement', 'children': ['72']}; {'id': '72', 'type': 'assignment', 'children': ['73', '74']}; {'id': '73', 'type': 'identifier', 'children': [], 'value': 'obj'}; {'id': '74', 'type': 'call', 'children': ['75', '76']}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'n'}; {'id': '76', 'type': 'argument_list', 'children': ['77']}; {'id': '77', 'type': 'call', 'children': ['78', '88']}; {'id': '78', 'type': 'attribute', 'children': ['79', '87']}; {'id': '79', 'type': 'call', 'children': ['80', '85']}; {'id': '80', 'type': 'attribute', 'children': ['81', '84']}; {'id': '81', 'type': 'attribute', 'children': ['82', '83']}; {'id': '82', 'type': 'identifier', 'children': [], 'value': 'decrypted'}; {'id': '83', 'type': 'identifier', 'children': [], 'value': 'data'}; {'id': '84', 'type': 'identifier', 'children': [], 'value': 'decode'}; {'id': '85', 'type': 'argument_list', 'children': ['86']}; {'id': '86', 'type': 'string', 'children': [], 'value': "'utf-8'"}; {'id': '87', 'type': 'identifier', 'children': [], 'value': 'encode'}; {'id': '88', 'type': 'argument_list', 'children': []}; {'id': '89', 'type': 'else_clause', 'children': ['90']}; {'id': '90', 'type': 'block', 'children': ['91']}; {'id': '91', 'type': 'expression_statement', 'children': ['92']}; {'id': '92', 'type': 'call', 'children': ['93', '96']}; {'id': '93', 'type': 'attribute', 'children': ['94', '95']}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'log'}; {'id': '95', 'type': 'identifier', 'children': [], 'value': 'error'}; 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Only decrypt strings'"}; {'id': '215', 'type': 'return_statement', 'children': ['216']}; {'id': '216', 'type': 'identifier', 'children': [], 'value': 'obj'}; {'id': '217', 'type': 'if_statement', 'children': ['218', '219']}; {'id': '218', 'type': 'identifier', 'children': [], 'value': 'GPG_IMPORTED'}; {'id': '219', 'type': 'block', 'children': ['220', '275', '299']}; {'id': '220', 'type': 'if_statement', 'children': ['221', '223']}; {'id': '221', 'type': 'not_operator', 'children': ['222']}; {'id': '222', 'type': 'identifier', 'children': [], 'value': 'gpg_config'}; {'id': '223', 'type': 'block', 'children': ['224', '228', '235', '248']}; {'id': '224', 'type': 'expression_statement', 'children': ['225']}; {'id': '225', 'type': 'assignment', 'children': ['226', '227']}; {'id': '226', 'type': 'identifier', 'children': [], 'value': 'gpg_config'}; {'id': '227', 'type': 'dictionary', 'children': []}; {'id': '228', 'type': 'expression_statement', 'children': ['229']}; {'id': '229', 'type': 'assignment', 'children': ['230', '231']}; 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{'id': '290', 'type': 'identifier', 'children': [], 'value': 'RuntimeError'}; {'id': '291', 'type': 'block', 'children': ['292']}; {'id': '292', 'type': 'expression_statement', 'children': ['293']}; {'id': '293', 'type': 'call', 'children': ['294', '297']}; {'id': '294', 'type': 'attribute', 'children': ['295', '296']}; {'id': '295', 'type': 'identifier', 'children': [], 'value': 'log'}; {'id': '296', 'type': 'identifier', 'children': [], 'value': 'exception'}; {'id': '297', 'type': 'argument_list', 'children': ['298']}; {'id': '298', 'type': 'string', 'children': [], 'value': "'Failed to configure gpg. Will be unable to decrypt secrets.'"}; {'id': '299', 'type': 'return_statement', 'children': ['300']}; {'id': '300', 'type': 'call', 'children': ['301', '302']}; {'id': '301', 'type': 'identifier', 'children': [], 'value': 'decrypt'}; {'id': '302', 'type': 'argument_list', 'children': ['303']}; {'id': '303', 'type': 'identifier', 'children': [], 'value': 'cfg'}; {'id': '304', 'type': 'return_statement', 'children': ['305']}; {'id': '305', 'type': 'identifier', 'children': [], 'value': 'cfg'} | def gpg_decrypt(cfg, gpg_config=None):
def decrypt(obj):
if isinstance(obj, list):
res_v = []
for item in obj:
res_v.append(decrypt(item))
return res_v
elif isinstance(obj, dict):
if '_gpg' in obj:
try:
decrypted = gpg.decrypt(obj['_gpg'])
if decrypted.ok:
obj = n(decrypted.data.decode('utf-8').encode())
else:
log.error("gpg error unpacking secrets %s", decrypted.stderr)
except Exception as err:
log.error("error unpacking secrets %s", err)
else:
for k, v in obj.items():
obj[k] = decrypt(v)
else:
try:
if 'BEGIN PGP' in obj:
try:
decrypted = gpg.decrypt(obj)
if decrypted.ok:
obj = n(decrypted.data.decode('utf-8').encode())
else:
log.error("gpg error unpacking secrets %s", decrypted.stderr)
except Exception as err:
log.error("error unpacking secrets %s", err)
except TypeError:
log.debug('Pass on decryption. Only decrypt strings')
return obj
if GPG_IMPORTED:
if not gpg_config:
gpg_config = {}
defaults = {'homedir': '~/.gnupg/'}
env_fields = {'homedir': 'FIGGYPY_GPG_HOMEDIR',
'binary': 'FIGGYPY_GPG_BINARY',
'keyring': 'FIGGYPY_GPG_KEYRING'}
for k, v in env_fields.items():
gpg_config[k] = env_or_default(v, defaults[k] if k in defaults else None)
try:
gpg = gnupg.GPG(**gpg_config)
except (OSError, RuntimeError):
log.exception('Failed to configure gpg. Will be unable to decrypt secrets.')
return decrypt(cfg)
return cfg |
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{'id': '79', 'type': 'assignment', 'children': ['80', '81']}; {'id': '80', 'type': 'identifier', 'children': [], 'value': 'new_team'}; {'id': '81', 'type': 'True', 'children': []}; {'id': '82', 'type': 'for_statement', 'children': ['83', '86', '90']}; {'id': '83', 'type': 'pattern_list', 'children': ['84', '85']}; {'id': '84', 'type': 'identifier', 'children': [], 'value': 't'}; {'id': '85', 'type': 'identifier', 'children': [], 'value': 'tl'}; {'id': '86', 'type': 'call', 'children': ['87', '88']}; {'id': '87', 'type': 'identifier', 'children': [], 'value': 'enumerate'}; {'id': '88', 'type': 'argument_list', 'children': ['89']}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'teams'}; {'id': '90', 'type': 'block', 'children': ['91', '104', '118']}; {'id': '91', 'type': 'if_statement', 'children': ['92', '99']}; {'id': '92', 'type': 'boolean_operator', 'children': ['93', '96'], 'value': 'or'}; {'id': '93', 'type': 'comparison_operator', 'children': ['94', '95'], 'value': 'in'}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '95', 'type': 'identifier', 'children': [], 'value': 'tl'}; {'id': '96', 'type': 'comparison_operator', 'children': ['97', '98'], 'value': 'in'}; {'id': '97', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '98', 'type': 'identifier', 'children': [], 'value': 'tl'}; {'id': '99', 'type': 'block', 'children': ['100']}; {'id': '100', 'type': 'expression_statement', 'children': ['101']}; {'id': '101', 'type': 'assignment', 'children': ['102', '103']}; {'id': '102', 'type': 'identifier', 'children': [], 'value': 'new_team'}; {'id': '103', 'type': 'False', 'children': []}; {'id': '104', 'type': 'if_statement', 'children': ['105', '112']}; {'id': '105', 'type': 'boolean_operator', 'children': ['106', '109'], 'value': 'and'}; {'id': '106', 'type': 'comparison_operator', 'children': ['107', '108'], 'value': 'in'}; {'id': '107', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '108', 'type': 'identifier', 'children': [], 'value': 'tl'}; {'id': '109', 'type': 'comparison_operator', 'children': ['110', '111'], 'value': 'not'}; {'id': '110', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '111', 'type': 'identifier', 'children': [], 'value': 'tl'}; {'id': '112', 'type': 'block', 'children': ['113', '117']}; {'id': '113', 'type': 'expression_statement', 'children': ['114']}; {'id': '114', 'type': 'assignment', 'children': ['115', '116']}; {'id': '115', 'type': 'identifier', 'children': [], 'value': 'inner_team'}; {'id': '116', 'type': 'identifier', 'children': [], 'value': 't'}; {'id': '117', 'type': 'break_statement', 'children': []}; {'id': '118', 'type': 'if_statement', 'children': ['119', '126']}; {'id': '119', 'type': 'boolean_operator', 'children': ['120', '123'], 'value': 'and'}; {'id': '120', 'type': 'comparison_operator', 'children': ['121', '122'], 'value': 'not'}; {'id': '121', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '122', 'type': 'identifier', 'children': [], 'value': 'tl'}; {'id': '123', 'type': 'comparison_operator', 'children': ['124', '125'], 'value': 'in'}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '125', 'type': 'identifier', 'children': [], 'value': 'tl'}; {'id': '126', 'type': 'block', 'children': ['127', '131']}; {'id': '127', 'type': 'expression_statement', 'children': ['128']}; {'id': '128', 'type': 'assignment', 'children': ['129', '130']}; {'id': '129', 'type': 'identifier', 'children': [], 'value': 'outer_team'}; {'id': '130', 'type': 'identifier', 'children': [], 'value': 't'}; {'id': '131', 'type': 'break_statement', 'children': []}; {'id': '132', 'type': 'if_statement', 'children': ['133', '134']}; {'id': '133', 'type': 'identifier', 'children': [], 'value': 'new_team'}; {'id': '134', 'type': 'block', 'children': ['135']}; {'id': '135', 'type': 'expression_statement', 'children': ['136']}; {'id': '136', 'type': 'call', 'children': ['137', '140']}; {'id': '137', 'type': 'attribute', 'children': ['138', '139']}; {'id': '138', 'type': 'identifier', 'children': [], 'value': 'teams'}; {'id': '139', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '140', 'type': 'argument_list', 'children': ['141']}; {'id': '141', 'type': 'list', 'children': ['142', '143'], 'value': '[i, j]'}; {'id': '142', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '143', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '144', 'type': 'if_statement', 'children': ['145', '148']}; {'id': '145', 'type': 'comparison_operator', 'children': ['146', '147'], 'value': 'is'}; {'id': '146', 'type': 'identifier', 'children': [], 'value': 'inner_team'}; {'id': '147', 'type': 'False', 'children': []}; {'id': '148', 'type': 'block', 'children': ['149']}; {'id': '149', 'type': 'expression_statement', 'children': ['150']}; {'id': '150', 'type': 'call', 'children': ['151', '156']}; {'id': '151', 'type': 'attribute', 'children': ['152', '155']}; {'id': '152', 'type': 'subscript', 'children': ['153', '154']}; {'id': '153', 'type': 'identifier', 'children': [], 'value': 'teams'}; {'id': '154', 'type': 'identifier', 'children': [], 'value': 'inner_team'}; {'id': '155', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '156', 'type': 'argument_list', 'children': ['157']}; {'id': '157', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '158', 'type': 'if_statement', 'children': ['159', '162']}; {'id': '159', 'type': 'comparison_operator', 'children': ['160', '161'], 'value': 'is'}; {'id': '160', 'type': 'identifier', 'children': [], 'value': 'outer_team'}; {'id': '161', 'type': 'False', 'children': []}; {'id': '162', 'type': 'block', 'children': ['163']}; {'id': '163', 'type': 'expression_statement', 'children': ['164']}; {'id': '164', 'type': 'call', 'children': ['165', '170']}; {'id': '165', 'type': 'attribute', 'children': ['166', '169']}; {'id': '166', 'type': 'subscript', 'children': ['167', '168']}; {'id': '167', 'type': 'identifier', 'children': [], 'value': 'teams'}; {'id': '168', 'type': 'identifier', 'children': [], 'value': 'outer_team'}; {'id': '169', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '170', 'type': 'argument_list', 'children': ['171']}; {'id': '171', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '172', 'type': 'expression_statement', 'children': ['173']}; {'id': '173', 'type': 'assignment', 'children': ['174', '175']}; {'id': '174', 'type': 'identifier', 'children': [], 'value': 'added'}; {'id': '175', 'type': 'True', 'children': []}; {'id': '176', 'type': 'if_statement', 'children': ['177', '183']}; {'id': '177', 'type': 'boolean_operator', 'children': ['178', '180'], 'value': 'and'}; {'id': '178', 'type': 'not_operator', 'children': ['179']}; {'id': '179', 'type': 'identifier', 'children': [], 'value': 'added'}; {'id': '180', 'type': 'comparison_operator', 'children': ['181', '182'], 'value': '!='}; {'id': '181', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '182', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '183', 'type': 'block', 'children': ['184']}; {'id': '184', 'type': 'expression_statement', 'children': ['185']}; {'id': '185', 'type': 'call', 'children': ['186', '189']}; {'id': '186', 'type': 'attribute', 'children': ['187', '188']}; {'id': '187', 'type': 'identifier', 'children': [], 'value': 'teams'}; {'id': '188', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '189', 'type': 'argument_list', 'children': ['190']}; {'id': '190', 'type': 'list', 'children': ['191'], 'value': '[j]'}; {'id': '191', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '192', 'type': 'expression_statement', 'children': ['193']}; {'id': '193', 'type': 'assignment', 'children': ['194', '199']}; {'id': '194', 'type': 'subscript', 'children': ['195', '198']}; {'id': '195', 'type': 'attribute', 'children': ['196', '197']}; {'id': '196', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '197', 'type': 'identifier', 'children': [], 'value': '_cache'}; {'id': '198', 'type': 'string', 'children': [], 'value': "'teams'"}; {'id': '199', 'type': 'identifier', 'children': [], 'value': 'teams'}; {'id': '200', 'type': 'return_statement', 'children': ['201']}; {'id': '201', 'type': 'identifier', 'children': [], 'value': 'teams'} | def get_teams(self):
if self._cache['teams']:
return self._cache['teams']
teams = []
for j, player in enumerate(self._header.initial.players):
added = False
for i in range(0, len(self._header.initial.players)):
if player.attributes.my_diplomacy[i] == 'ally':
inner_team = False
outer_team = False
new_team = True
for t, tl in enumerate(teams):
if j in tl or i in tl:
new_team = False
if j in tl and i not in tl:
inner_team = t
break
if j not in tl and i in tl:
outer_team = t
break
if new_team:
teams.append([i, j])
if inner_team is not False:
teams[inner_team].append(i)
if outer_team is not False:
teams[outer_team].append(j)
added = True
if not added and j != 0:
teams.append([j])
self._cache['teams'] = teams
return teams |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'get_settings'}; {'id': '3', 'type': 'parameters', 'children': ['4']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '5', 'type': 'block', 'children': ['6', '14']}; {'id': '6', 'type': 'expression_statement', 'children': ['7']}; {'id': '7', 'type': 'assignment', 'children': ['8', '9']}; {'id': '8', 'type': 'identifier', 'children': [], 'value': 'postgame'}; {'id': '9', 'type': 'call', 'children': ['10', '13']}; {'id': '10', 'type': 'attribute', 'children': ['11', '12']}; {'id': '11', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'get_postgame'}; {'id': '13', 'type': 'argument_list', 'children': []}; {'id': '14', 'type': 'return_statement', 'children': ['15']}; {'id': '15', 'type': 'dictionary', 'children': ['16', '33', '54', '65', '82', '108', '117', '126', '141', '156', '171', '180', '188', '196']}; {'id': '16', 'type': 'pair', 'children': ['17', '18']}; {'id': '17', 'type': 'string', 'children': [], 'value': "'type'"}; {'id': '18', 'type': 'tuple', 'children': ['19', '26']}; {'id': '19', 'type': 'attribute', 'children': ['20', '25']}; {'id': '20', 'type': 'attribute', 'children': ['21', '24']}; {'id': '21', 'type': 'attribute', 'children': ['22', '23']}; {'id': '22', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '23', 'type': 'identifier', 'children': [], 'value': '_header'}; {'id': '24', 'type': 'identifier', 'children': [], 'value': 'lobby'}; {'id': '25', 'type': 'identifier', 'children': [], 'value': 'game_type_id'}; {'id': '26', 'type': 'attribute', 'children': ['27', '32']}; {'id': '27', 'type': 'attribute', 'children': ['28', '31']}; {'id': '28', 'type': 'attribute', 'children': ['29', '30']}; {'id': '29', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '30', 'type': 'identifier', 'children': [], 'value': '_header'}; {'id': '31', 'type': 'identifier', 'children': [], 'value': 'lobby'}; {'id': '32', 'type': 'identifier', 'children': [], 'value': 'game_type'}; {'id': '33', 'type': 'pair', 'children': ['34', '35']}; {'id': '34', 'type': 'string', 'children': [], 'value': "'difficulty'"}; {'id': '35', 'type': 'tuple', 'children': ['36', '45']}; {'id': '36', 'type': 'attribute', 'children': ['37', '44']}; {'id': '37', 'type': 'attribute', 'children': ['38', '43']}; {'id': '38', 'type': 'attribute', 'children': ['39', '42']}; {'id': '39', 'type': 'attribute', 'children': ['40', '41']}; {'id': '40', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '41', 'type': 'identifier', 'children': [], 'value': '_header'}; {'id': '42', 'type': 'identifier', 'children': [], 'value': 'scenario'}; {'id': '43', 'type': 'identifier', 'children': [], 'value': 'game_settings'}; {'id': '44', 'type': 'identifier', 'children': [], 'value': 'difficulty_id'}; {'id': '45', 'type': 'attribute', 'children': ['46', '53']}; {'id': '46', 'type': 'attribute', 'children': ['47', '52']}; {'id': '47', 'type': 'attribute', 'children': ['48', '51']}; {'id': '48', 'type': 'attribute', 'children': ['49', '50']}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '50', 'type': 'identifier', 'children': [], 'value': '_header'}; {'id': '51', 'type': 'identifier', 'children': [], 'value': 'scenario'}; {'id': '52', 'type': 'identifier', 'children': [], 'value': 'game_settings'}; {'id': '53', 'type': 'identifier', 'children': [], 'value': 'difficulty'}; {'id': '54', 'type': 'pair', 'children': ['55', '56']}; {'id': '55', 'type': 'string', 'children': [], 'value': "'population_limit'"}; {'id': '56', 'type': 'binary_operator', 'children': ['57', '64'], 'value': '*'}; {'id': '57', 'type': 'attribute', 'children': ['58', '63']}; {'id': '58', 'type': 'attribute', 'children': ['59', '62']}; {'id': '59', 'type': 'attribute', 'children': ['60', '61']}; {'id': '60', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '61', 'type': 'identifier', 'children': [], 'value': '_header'}; {'id': '62', 'type': 'identifier', 'children': [], 'value': 'lobby'}; {'id': '63', 'type': 'identifier', 'children': [], 'value': 'population_limit'}; {'id': '64', 'type': 'integer', 'children': [], 'value': '25'}; {'id': '65', 'type': 'pair', 'children': ['66', '67']}; {'id': '66', 'type': 'string', 'children': [], 'value': "'map_reveal_choice'"}; {'id': '67', 'type': 'tuple', 'children': ['68', '75']}; {'id': '68', 'type': 'attribute', 'children': ['69', '74']}; {'id': '69', 'type': 'attribute', 'children': ['70', '73']}; {'id': '70', 'type': 'attribute', 'children': ['71', '72']}; {'id': '71', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '72', 'type': 'identifier', 'children': [], 'value': '_header'}; {'id': '73', 'type': 'identifier', 'children': [], 'value': 'lobby'}; {'id': '74', 'type': 'identifier', 'children': [], 'value': 'reveal_map_id'}; {'id': '75', 'type': 'attribute', 'children': ['76', '81']}; {'id': '76', 'type': 'attribute', 'children': ['77', '80']}; {'id': '77', 'type': 'attribute', 'children': ['78', '79']}; {'id': '78', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '79', 'type': 'identifier', 'children': [], 'value': '_header'}; {'id': '80', 'type': 'identifier', 'children': [], 'value': 'lobby'}; {'id': '81', 'type': 'identifier', 'children': [], 'value': 'reveal_map'}; {'id': '82', 'type': 'pair', 'children': ['83', '84']}; {'id': '83', 'type': 'string', 'children': [], 'value': "'speed'"}; {'id': '84', 'type': 'tuple', 'children': ['85', '92']}; {'id': '85', 'type': 'attribute', 'children': ['86', '91']}; {'id': '86', 'type': 'attribute', 'children': ['87', '90']}; {'id': '87', 'type': 'attribute', 'children': ['88', '89']}; {'id': '88', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '89', 'type': 'identifier', 'children': [], 'value': '_header'}; {'id': '90', 'type': 'identifier', 'children': [], 'value': 'replay'}; {'id': '91', 'type': 'identifier', 'children': [], 'value': 'game_speed_id'}; {'id': '92', 'type': 'call', 'children': ['93', '100']}; {'id': '93', 'type': 'attribute', 'children': ['94', '99']}; {'id': '94', 'type': 'attribute', 'children': ['95', '98']}; {'id': '95', 'type': 'attribute', 'children': ['96', '97']}; {'id': '96', 'type': 'identifier', 'children': [], 'value': 'mgz'}; {'id': '97', 'type': 'identifier', 'children': [], 'value': 'const'}; {'id': '98', 'type': 'identifier', 'children': [], 'value': 'SPEEDS'}; {'id': '99', 'type': 'identifier', 'children': [], 'value': 'get'}; {'id': '100', 'type': 'argument_list', 'children': ['101']}; {'id': '101', 'type': 'attribute', 'children': ['102', '107']}; {'id': '102', 'type': 'attribute', 'children': ['103', '106']}; {'id': '103', 'type': 'attribute', 'children': ['104', '105']}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '105', 'type': 'identifier', 'children': [], 'value': '_header'}; {'id': '106', 'type': 'identifier', 'children': [], 'value': 'replay'}; {'id': '107', 'type': 'identifier', 'children': [], 'value': 'game_speed_id'}; {'id': '108', 'type': 'pair', 'children': ['109', '110']}; {'id': '109', 'type': 'string', 'children': [], 'value': "'cheats'"}; {'id': '110', 'type': 'attribute', 'children': ['111', '116']}; {'id': '111', 'type': 'attribute', 'children': ['112', '115']}; {'id': '112', 'type': 'attribute', 'children': ['113', '114']}; {'id': '113', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '114', 'type': 'identifier', 'children': [], 'value': '_header'}; {'id': '115', 'type': 'identifier', 'children': [], 'value': 'replay'}; {'id': '116', 'type': 'identifier', 'children': [], 'value': 'cheats_enabled'}; {'id': '117', 'type': 'pair', 'children': ['118', '119']}; {'id': '118', 'type': 'string', 'children': [], 'value': "'lock_teams'"}; {'id': '119', 'type': 'attribute', 'children': ['120', '125']}; {'id': '120', 'type': 'attribute', 'children': ['121', '124']}; {'id': '121', 'type': 'attribute', 'children': ['122', '123']}; {'id': '122', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '123', 'type': 'identifier', 'children': [], 'value': '_header'}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'lobby'}; {'id': '125', 'type': 'identifier', 'children': [], 'value': 'lock_teams'}; {'id': '126', 'type': 'pair', 'children': ['127', '128']}; {'id': '127', 'type': 'string', 'children': [], 'value': "'starting_resources'"}; {'id': '128', 'type': 'tuple', 'children': ['129', '135']}; {'id': '129', 'type': 'conditional_expression', 'children': ['130', '133', '134'], 'value': 'if'}; {'id': '130', 'type': 'attribute', 'children': ['131', '132']}; {'id': '131', 'type': 'identifier', 'children': [], 'value': 'postgame'}; {'id': '132', 'type': 'identifier', 'children': [], 'value': 'resource_level_id'}; {'id': '133', 'type': 'identifier', 'children': [], 'value': 'postgame'}; {'id': '134', 'type': 'None', 'children': []}; {'id': '135', 'type': 'conditional_expression', 'children': ['136', '139', '140'], 'value': 'if'}; {'id': '136', 'type': 'attribute', 'children': ['137', '138']}; {'id': '137', 'type': 'identifier', 'children': [], 'value': 'postgame'}; {'id': '138', 'type': 'identifier', 'children': [], 'value': 'resource_level'}; {'id': '139', 'type': 'identifier', 'children': [], 'value': 'postgame'}; {'id': '140', 'type': 'None', 'children': []}; {'id': '141', 'type': 'pair', 'children': ['142', '143']}; {'id': '142', 'type': 'string', 'children': [], 'value': "'starting_age'"}; {'id': '143', 'type': 'tuple', 'children': ['144', '150']}; {'id': '144', 'type': 'conditional_expression', 'children': ['145', '148', '149'], 'value': 'if'}; {'id': '145', 'type': 'attribute', 'children': ['146', '147']}; {'id': '146', 'type': 'identifier', 'children': [], 'value': 'postgame'}; {'id': '147', 'type': 'identifier', 'children': [], 'value': 'starting_age_id'}; {'id': '148', 'type': 'identifier', 'children': [], 'value': 'postgame'}; {'id': '149', 'type': 'None', 'children': []}; {'id': '150', 'type': 'conditional_expression', 'children': ['151', '154', '155'], 'value': 'if'}; {'id': '151', 'type': 'attribute', 'children': ['152', '153']}; {'id': '152', 'type': 'identifier', 'children': [], 'value': 'postgame'}; {'id': '153', 'type': 'identifier', 'children': [], 'value': 'starting_age'}; {'id': '154', 'type': 'identifier', 'children': [], 'value': 'postgame'}; {'id': '155', 'type': 'None', 'children': []}; {'id': '156', 'type': 'pair', 'children': ['157', '158']}; {'id': '157', 'type': 'string', 'children': [], 'value': "'victory_condition'"}; {'id': '158', 'type': 'tuple', 'children': ['159', '165']}; {'id': '159', 'type': 'conditional_expression', 'children': ['160', '163', '164'], 'value': 'if'}; {'id': '160', 'type': 'attribute', 'children': ['161', '162']}; {'id': '161', 'type': 'identifier', 'children': [], 'value': 'postgame'}; {'id': '162', 'type': 'identifier', 'children': [], 'value': 'victory_type_id'}; {'id': '163', 'type': 'identifier', 'children': [], 'value': 'postgame'}; {'id': '164', 'type': 'None', 'children': []}; {'id': '165', 'type': 'conditional_expression', 'children': ['166', '169', '170'], 'value': 'if'}; {'id': '166', 'type': 'attribute', 'children': ['167', '168']}; {'id': '167', 'type': 'identifier', 'children': [], 'value': 'postgame'}; {'id': '168', 'type': 'identifier', 'children': [], 'value': 'victory_type'}; {'id': '169', 'type': 'identifier', 'children': [], 'value': 'postgame'}; {'id': '170', 'type': 'None', 'children': []}; {'id': '171', 'type': 'pair', 'children': ['172', '173']}; {'id': '172', 'type': 'string', 'children': [], 'value': "'team_together'"}; {'id': '173', 'type': 'conditional_expression', 'children': ['174', '178', '179'], 'value': 'if'}; {'id': '174', 'type': 'not_operator', 'children': ['175']}; {'id': '175', 'type': 'attribute', 'children': ['176', '177']}; {'id': '176', 'type': 'identifier', 'children': [], 'value': 'postgame'}; {'id': '177', 'type': 'identifier', 'children': [], 'value': 'team_together'}; {'id': '178', 'type': 'identifier', 'children': [], 'value': 'postgame'}; {'id': '179', 'type': 'None', 'children': []}; {'id': '180', 'type': 'pair', 'children': ['181', '182']}; {'id': '181', 'type': 'string', 'children': [], 'value': "'all_technologies'"}; {'id': '182', 'type': 'conditional_expression', 'children': ['183', '186', '187'], 'value': 'if'}; {'id': '183', 'type': 'attribute', 'children': ['184', '185']}; {'id': '184', 'type': 'identifier', 'children': [], 'value': 'postgame'}; {'id': '185', 'type': 'identifier', 'children': [], 'value': 'all_techs'}; {'id': '186', 'type': 'identifier', 'children': [], 'value': 'postgame'}; {'id': '187', 'type': 'None', 'children': []}; {'id': '188', 'type': 'pair', 'children': ['189', '190']}; {'id': '189', 'type': 'string', 'children': [], 'value': "'lock_speed'"}; {'id': '190', 'type': 'conditional_expression', 'children': ['191', '194', '195'], 'value': 'if'}; {'id': '191', 'type': 'attribute', 'children': ['192', '193']}; {'id': '192', 'type': 'identifier', 'children': [], 'value': 'postgame'}; {'id': '193', 'type': 'identifier', 'children': [], 'value': 'lock_speed'}; {'id': '194', 'type': 'identifier', 'children': [], 'value': 'postgame'}; {'id': '195', 'type': 'None', 'children': []}; {'id': '196', 'type': 'pair', 'children': ['197', '198']}; {'id': '197', 'type': 'string', 'children': [], 'value': "'multiqueue'"}; {'id': '198', 'type': 'None', 'children': []} | def get_settings(self):
postgame = self.get_postgame()
return {
'type': (
self._header.lobby.game_type_id,
self._header.lobby.game_type
),
'difficulty': (
self._header.scenario.game_settings.difficulty_id,
self._header.scenario.game_settings.difficulty
),
'population_limit': self._header.lobby.population_limit * 25,
'map_reveal_choice': (
self._header.lobby.reveal_map_id,
self._header.lobby.reveal_map
),
'speed': (
self._header.replay.game_speed_id,
mgz.const.SPEEDS.get(self._header.replay.game_speed_id)
),
'cheats': self._header.replay.cheats_enabled,
'lock_teams': self._header.lobby.lock_teams,
'starting_resources': (
postgame.resource_level_id if postgame else None,
postgame.resource_level if postgame else None,
),
'starting_age': (
postgame.starting_age_id if postgame else None,
postgame.starting_age if postgame else None
),
'victory_condition': (
postgame.victory_type_id if postgame else None,
postgame.victory_type if postgame else None
),
'team_together': not postgame.team_together if postgame else None,
'all_technologies': postgame.all_techs if postgame else None,
'lock_speed': postgame.lock_speed if postgame else None,
'multiqueue': None
} |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'get_map'}; {'id': '3', 'type': 'parameters', 'children': ['4']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '5', 'type': 'block', 'children': ['6', '19', '31', '43', '62', '72', '76', '80', '84', '88', '166', '205', '213', '221', '254', '264', '268', '283', '292', '296', '320', '344', '389']}; {'id': '6', 'type': 'if_statement', 'children': ['7', '12']}; {'id': '7', 'type': 'subscript', 'children': ['8', '11']}; {'id': '8', 'type': 'attribute', 'children': ['9', '10']}; {'id': '9', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '10', 'type': 'identifier', 'children': [], 'value': '_cache'}; {'id': '11', 'type': 'string', 'children': [], 'value': "'map'"}; {'id': '12', 'type': 'block', 'children': ['13']}; {'id': '13', 'type': 'return_statement', 'children': ['14']}; {'id': '14', 'type': 'subscript', 'children': ['15', '18']}; {'id': '15', 'type': 'attribute', 'children': ['16', '17']}; {'id': '16', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '17', 'type': 'identifier', 'children': [], 'value': '_cache'}; {'id': '18', 'type': 'string', 'children': [], 'value': "'map'"}; {'id': '19', 'type': 'expression_statement', 'children': ['20']}; {'id': '20', 'type': 'assignment', 'children': ['21', '22']}; {'id': '21', 'type': 'identifier', 'children': [], 'value': 'map_id'}; {'id': '22', 'type': 'attribute', 'children': ['23', '30']}; {'id': '23', 'type': 'attribute', 'children': ['24', '29']}; {'id': '24', 'type': 'attribute', 'children': ['25', '28']}; {'id': '25', 'type': 'attribute', 'children': ['26', '27']}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '27', 'type': 'identifier', 'children': [], 'value': '_header'}; {'id': '28', 'type': 'identifier', 'children': [], 'value': 'scenario'}; {'id': '29', 'type': 'identifier', 'children': [], 'value': 'game_settings'}; {'id': '30', 'type': 'identifier', 'children': [], 'value': 'map_id'}; {'id': '31', 'type': 'expression_statement', 'children': ['32']}; {'id': '32', 'type': 'assignment', 'children': ['33', '34']}; {'id': '33', 'type': 'identifier', 'children': [], 'value': 'instructions'}; {'id': '34', 'type': 'attribute', 'children': ['35', '42']}; {'id': '35', 'type': 'attribute', 'children': ['36', '41']}; {'id': '36', 'type': 'attribute', 'children': ['37', '40']}; {'id': '37', 'type': 'attribute', 'children': ['38', '39']}; {'id': '38', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '39', 'type': 'identifier', 'children': [], 'value': '_header'}; {'id': '40', 'type': 'identifier', 'children': [], 'value': 'scenario'}; {'id': '41', 'type': 'identifier', 'children': [], 'value': 'messages'}; {'id': '42', 'type': 'identifier', 'children': [], 'value': 'instructions'}; {'id': '43', 'type': 'expression_statement', 'children': ['44']}; {'id': '44', 'type': 'assignment', 'children': ['45', '46']}; {'id': '45', 'type': 'identifier', 'children': [], 'value': 'size'}; {'id': '46', 'type': 'call', 'children': ['47', '54']}; {'id': '47', 'type': 'attribute', 'children': ['48', '53']}; {'id': '48', 'type': 'attribute', 'children': ['49', '52']}; {'id': '49', 'type': 'attribute', 'children': ['50', '51']}; {'id': '50', 'type': 'identifier', 'children': [], 'value': 'mgz'}; {'id': '51', 'type': 'identifier', 'children': [], 'value': 'const'}; {'id': '52', 'type': 'identifier', 'children': [], 'value': 'MAP_SIZES'}; {'id': '53', 'type': 'identifier', 'children': [], 'value': 'get'}; {'id': '54', 'type': 'argument_list', 'children': ['55']}; {'id': '55', 'type': 'attribute', 'children': ['56', '61']}; {'id': '56', 'type': 'attribute', 'children': ['57', '60']}; {'id': '57', 'type': 'attribute', 'children': ['58', '59']}; {'id': '58', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '59', 'type': 'identifier', 'children': [], 'value': '_header'}; {'id': '60', 'type': 'identifier', 'children': [], 'value': 'map_info'}; {'id': '61', 'type': 'identifier', 'children': [], 'value': 'size_x'}; {'id': '62', 'type': 'expression_statement', 'children': ['63']}; {'id': '63', 'type': 'assignment', 'children': ['64', '65']}; {'id': '64', 'type': 'identifier', 'children': [], 'value': 'dimension'}; {'id': '65', 'type': 'attribute', 'children': ['66', '71']}; {'id': '66', 'type': 'attribute', 'children': ['67', '70']}; {'id': '67', 'type': 'attribute', 'children': ['68', '69']}; {'id': '68', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '69', 'type': 'identifier', 'children': [], 'value': '_header'}; {'id': '70', 'type': 'identifier', 'children': [], 'value': 'map_info'}; {'id': '71', 'type': 'identifier', 'children': [], 'value': 'size_x'}; {'id': '72', 'type': 'expression_statement', 'children': ['73']}; {'id': '73', 'type': 'assignment', 'children': ['74', '75']}; {'id': '74', 'type': 'identifier', 'children': [], 'value': 'custom'}; {'id': '75', 'type': 'True', 'children': []}; {'id': '76', 'type': 'expression_statement', 'children': ['77']}; {'id': '77', 'type': 'assignment', 'children': ['78', '79']}; {'id': '78', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '79', 'type': 'string', 'children': [], 'value': "'Unknown'"}; {'id': '80', 'type': 'expression_statement', 'children': ['81']}; {'id': '81', 'type': 'assignment', 'children': ['82', '83']}; {'id': '82', 'type': 'identifier', 'children': [], 'value': 'language'}; {'id': '83', 'type': 'None', 'children': []}; {'id': '84', 'type': 'expression_statement', 'children': ['85']}; {'id': '85', 'type': 'assignment', 'children': ['86', '87']}; {'id': '86', 'type': 'identifier', 'children': [], 'value': 'encoding'}; {'id': '87', 'type': 'string', 'children': [], 'value': "'unknown'"}; {'id': '88', 'type': 'for_statement', 'children': ['89', '90', '91']}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'pair'}; {'id': '90', 'type': 'identifier', 'children': [], 'value': 'ENCODING_MARKERS'}; {'id': '91', 'type': 'block', 'children': ['92', '98', '104', '113']}; {'id': '92', 'type': 'expression_statement', 'children': ['93']}; {'id': '93', 'type': 'assignment', 'children': ['94', '95']}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'marker'}; {'id': '95', 'type': 'subscript', 'children': ['96', '97']}; {'id': '96', 'type': 'identifier', 'children': [], 'value': 'pair'}; {'id': '97', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '98', 'type': 'expression_statement', 'children': ['99']}; {'id': '99', 'type': 'assignment', 'children': ['100', '101']}; {'id': '100', 'type': 'identifier', 'children': [], 'value': 'test_encoding'}; {'id': '101', 'type': 'subscript', 'children': ['102', '103']}; {'id': '102', 'type': 'identifier', 'children': [], 'value': 'pair'}; {'id': '103', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '104', 'type': 'expression_statement', 'children': ['105']}; {'id': '105', 'type': 'assignment', 'children': ['106', '107']}; {'id': '106', 'type': 'identifier', 'children': [], 'value': 'e_m'}; {'id': '107', 'type': 'call', 'children': ['108', '111']}; {'id': '108', 'type': 'attribute', 'children': ['109', '110']}; {'id': '109', 'type': 'identifier', 'children': [], 'value': 'marker'}; {'id': '110', 'type': 'identifier', 'children': [], 'value': 'encode'}; {'id': '111', 'type': 'argument_list', 'children': ['112']}; {'id': '112', 'type': 'identifier', 'children': [], 'value': 'test_encoding'}; {'id': '113', 'type': 'for_statement', 'children': ['114', '115', '121']}; {'id': '114', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '115', 'type': 'call', 'children': ['116', '119']}; {'id': '116', 'type': 'attribute', 'children': ['117', '118']}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'instructions'}; {'id': '118', 'type': 'identifier', 'children': [], 'value': 'split'}; {'id': '119', 'type': 'argument_list', 'children': ['120']}; {'id': '120', 'type': 'string', 'children': [], 'value': "b'\\n'"}; {'id': '121', 'type': 'block', 'children': ['122', '131']}; {'id': '122', 'type': 'expression_statement', 'children': ['123']}; {'id': '123', 'type': 'assignment', 'children': ['124', '125']}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'pos'}; {'id': '125', 'type': 'call', 'children': ['126', '129']}; {'id': '126', 'type': 'attribute', 'children': ['127', '128']}; {'id': '127', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '128', 'type': 'identifier', 'children': [], 'value': 'find'}; {'id': '129', 'type': 'argument_list', 'children': ['130']}; {'id': '130', 'type': 'identifier', 'children': [], 'value': 'e_m'}; {'id': '131', 'type': 'if_statement', 'children': ['132', '136']}; {'id': '132', 'type': 'comparison_operator', 'children': ['133', '134'], 'value': '>'}; {'id': '133', 'type': 'identifier', 'children': [], 'value': 'pos'}; {'id': '134', 'type': 'unary_operator', 'children': ['135'], 'value': '-'}; {'id': '135', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '136', 'type': 'block', 'children': ['137', '141', '159', '165']}; {'id': '137', 'type': 'expression_statement', 'children': ['138']}; {'id': '138', 'type': 'assignment', 'children': ['139', '140']}; {'id': '139', 'type': 'identifier', 'children': [], 'value': 'encoding'}; {'id': '140', 'type': 'identifier', 'children': [], 'value': 'test_encoding'}; {'id': '141', 'type': 'expression_statement', 'children': ['142']}; {'id': '142', 'type': 'assignment', 'children': ['143', '144']}; {'id': '143', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '144', 'type': 'call', 'children': ['145', '157']}; {'id': '145', 'type': 'attribute', 'children': ['146', '156']}; {'id': '146', 'type': 'subscript', 'children': ['147', '148']}; {'id': '147', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '148', 'type': 'slice', 'children': ['149', '155']}; {'id': '149', 'type': 'binary_operator', 'children': ['150', '151'], 'value': '+'}; {'id': '150', 'type': 'identifier', 'children': [], 'value': 'pos'}; {'id': '151', 'type': 'call', 'children': ['152', '153']}; {'id': '152', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '153', 'type': 'argument_list', 'children': ['154']}; {'id': '154', 'type': 'identifier', 'children': [], 'value': 'e_m'}; {'id': '155', 'type': 'colon', 'children': []}; {'id': '156', 'type': 'identifier', 'children': [], 'value': 'decode'}; {'id': '157', 'type': 'argument_list', 'children': ['158']}; {'id': '158', 'type': 'identifier', 'children': [], 'value': 'encoding'}; {'id': '159', 'type': 'expression_statement', 'children': ['160']}; {'id': '160', 'type': 'assignment', 'children': ['161', '162']}; {'id': '161', 'type': 'identifier', 'children': [], 'value': 'language'}; {'id': '162', 'type': 'subscript', 'children': ['163', '164']}; {'id': '163', 'type': 'identifier', 'children': [], 'value': 'pair'}; {'id': '164', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '165', 'type': 'break_statement', 'children': []}; {'id': '166', 'type': 'if_statement', 'children': ['167', '169']}; {'id': '167', 'type': 'not_operator', 'children': ['168']}; {'id': '168', 'type': 'identifier', 'children': [], 'value': 'language'}; {'id': '169', 'type': 'block', 'children': ['170', '174']}; {'id': '170', 'type': 'expression_statement', 'children': ['171']}; {'id': '171', 'type': 'assignment', 'children': ['172', '173']}; {'id': '172', 'type': 'identifier', 'children': [], 'value': 'language'}; {'id': '173', 'type': 'string', 'children': [], 'value': "'unknown'"}; {'id': '174', 'type': 'for_statement', 'children': ['175', '176', '177']}; {'id': '175', 'type': 'identifier', 'children': [], 'value': 'pair'}; {'id': '176', 'type': 'identifier', 'children': [], 'value': 'LANGUAGE_MARKERS'}; {'id': '177', 'type': 'block', 'children': ['178']}; {'id': '178', 'type': 'if_statement', 'children': ['179', '197']}; {'id': '179', 'type': 'comparison_operator', 'children': ['180', '195'], 'value': '>'}; {'id': '180', 'type': 'call', 'children': ['181', '184']}; {'id': '181', 'type': 'attribute', 'children': ['182', '183']}; {'id': '182', 'type': 'identifier', 'children': [], 'value': 'instructions'}; {'id': '183', 'type': 'identifier', 'children': [], 'value': 'find'}; {'id': '184', 'type': 'argument_list', 'children': ['185']}; {'id': '185', 'type': 'call', 'children': ['186', '191']}; {'id': '186', 'type': 'attribute', 'children': ['187', '190']}; {'id': '187', 'type': 'subscript', 'children': ['188', '189']}; {'id': '188', 'type': 'identifier', 'children': [], 'value': 'pair'}; {'id': '189', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '190', 'type': 'identifier', 'children': [], 'value': 'encode'}; {'id': '191', 'type': 'argument_list', 'children': ['192']}; {'id': '192', 'type': 'subscript', 'children': ['193', '194']}; {'id': '193', 'type': 'identifier', 'children': [], 'value': 'pair'}; {'id': '194', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '195', 'type': 'unary_operator', 'children': ['196'], 'value': '-'}; {'id': '196', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '197', 'type': 'block', 'children': ['198', '204']}; {'id': '198', 'type': 'expression_statement', 'children': ['199']}; {'id': '199', 'type': 'assignment', 'children': ['200', '201']}; {'id': '200', 'type': 'identifier', 'children': [], 'value': 'language'}; {'id': '201', 'type': 'subscript', 'children': ['202', '203']}; {'id': '202', 'type': 'identifier', 'children': [], 'value': 'pair'}; {'id': '203', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '204', 'type': 'break_statement', 'children': []}; {'id': '205', 'type': 'expression_statement', 'children': ['206']}; {'id': '206', 'type': 'assignment', 'children': ['207', '212']}; {'id': '207', 'type': 'subscript', 'children': ['208', '211']}; {'id': '208', 'type': 'attribute', 'children': ['209', '210']}; {'id': '209', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '210', 'type': 'identifier', 'children': [], 'value': '_cache'}; {'id': '211', 'type': 'string', 'children': [], 'value': "'encoding'"}; {'id': '212', 'type': 'identifier', 'children': [], 'value': 'encoding'}; {'id': '213', 'type': 'expression_statement', 'children': ['214']}; {'id': '214', 'type': 'assignment', 'children': ['215', '220']}; {'id': '215', 'type': 'subscript', 'children': ['216', '219']}; {'id': '216', 'type': 'attribute', 'children': ['217', '218']}; {'id': '217', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '218', 'type': 'identifier', 'children': [], 'value': '_cache'}; {'id': '219', 'type': 'string', 'children': [], 'value': "'language'"}; {'id': '220', 'type': 'identifier', 'children': [], 'value': 'language'}; {'id': '221', 'type': 'if_statement', 'children': ['222', '225']}; {'id': '222', 'type': 'comparison_operator', 'children': ['223', '224'], 'value': '!='}; {'id': '223', 'type': 'identifier', 'children': [], 'value': 'map_id'}; {'id': '224', 'type': 'integer', 'children': [], 'value': '44'}; {'id': '225', 'type': 'block', 'children': ['226', '240', '250']}; {'id': '226', 'type': 'if_statement', 'children': ['227', '234']}; {'id': '227', 'type': 'comparison_operator', 'children': ['228', '229'], 'value': 'not'}; {'id': '228', 'type': 'identifier', 'children': [], 'value': 'map_id'}; {'id': '229', 'type': 'attribute', 'children': ['230', '233']}; {'id': '230', 'type': 'attribute', 'children': ['231', '232']}; {'id': '231', 'type': 'identifier', 'children': [], 'value': 'mgz'}; {'id': '232', 'type': 'identifier', 'children': [], 'value': 'const'}; {'id': '233', 'type': 'identifier', 'children': [], 'value': 'MAP_NAMES'}; {'id': '234', 'type': 'block', 'children': ['235']}; {'id': '235', 'type': 'raise_statement', 'children': ['236']}; {'id': '236', 'type': 'call', 'children': ['237', '238']}; {'id': '237', 'type': 'identifier', 'children': [], 'value': 'ValueError'}; {'id': '238', 'type': 'argument_list', 'children': ['239']}; {'id': '239', 'type': 'string', 'children': [], 'value': "'unspecified builtin map'"}; {'id': '240', 'type': 'expression_statement', 'children': ['241']}; {'id': '241', 'type': 'assignment', 'children': ['242', '243']}; {'id': '242', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '243', 'type': 'subscript', 'children': ['244', '249']}; {'id': '244', 'type': 'attribute', 'children': ['245', '248']}; {'id': '245', 'type': 'attribute', 'children': ['246', '247']}; {'id': '246', 'type': 'identifier', 'children': [], 'value': 'mgz'}; {'id': '247', 'type': 'identifier', 'children': [], 'value': 'const'}; {'id': '248', 'type': 'identifier', 'children': [], 'value': 'MAP_NAMES'}; {'id': '249', 'type': 'identifier', 'children': [], 'value': 'map_id'}; {'id': '250', 'type': 'expression_statement', 'children': ['251']}; {'id': '251', 'type': 'assignment', 'children': ['252', '253']}; {'id': '252', 'type': 'identifier', 'children': [], 'value': 'custom'}; {'id': '253', 'type': 'False', 'children': []}; {'id': '254', 'type': 'expression_statement', 'children': ['255']}; {'id': '255', 'type': 'assignment', 'children': ['256', '257']}; {'id': '256', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '257', 'type': 'call', 'children': ['258', '261']}; {'id': '258', 'type': 'attribute', 'children': ['259', '260']}; {'id': '259', 'type': 'identifier', 'children': [], 'value': 're'}; {'id': '260', 'type': 'identifier', 'children': [], 'value': 'search'}; {'id': '261', 'type': 'argument_list', 'children': ['262', '263']}; {'id': '262', 'type': 'string', 'children': [], 'value': "b'\\x00.*? (\\-?[0-9]+)\\x00.*?\\.rms'"}; {'id': '263', 'type': 'identifier', 'children': [], 'value': 'instructions'}; {'id': '264', 'type': 'expression_statement', 'children': ['265']}; {'id': '265', 'type': 'assignment', 'children': ['266', '267']}; {'id': '266', 'type': 'identifier', 'children': [], 'value': 'seed'}; {'id': '267', 'type': 'None', 'children': []}; {'id': '268', 'type': 'if_statement', 'children': ['269', '270']}; {'id': '269', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '270', 'type': 'block', 'children': ['271']}; {'id': '271', 'type': 'expression_statement', 'children': ['272']}; {'id': '272', 'type': 'assignment', 'children': ['273', '274']}; {'id': '273', 'type': 'identifier', 'children': [], 'value': 'seed'}; {'id': '274', 'type': 'call', 'children': ['275', '276']}; {'id': '275', 'type': 'identifier', 'children': [], 'value': 'int'}; {'id': '276', 'type': 'argument_list', 'children': ['277']}; {'id': '277', 'type': 'call', 'children': ['278', '281']}; {'id': '278', 'type': 'attribute', 'children': ['279', '280']}; {'id': '279', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '280', 'type': 'identifier', 'children': [], 'value': 'group'}; {'id': '281', 'type': 'argument_list', 'children': ['282']}; {'id': '282', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '283', 'type': 'expression_statement', 'children': ['284']}; {'id': '284', 'type': 'assignment', 'children': ['285', '286']}; {'id': '285', 'type': 'identifier', 'children': [], 'value': 'has_modes'}; {'id': '286', 'type': 'call', 'children': ['287', '290']}; {'id': '287', 'type': 'attribute', 'children': ['288', '289']}; {'id': '288', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '289', 'type': 'identifier', 'children': [], 'value': 'find'}; {'id': '290', 'type': 'argument_list', 'children': ['291']}; {'id': '291', 'type': 'string', 'children': [], 'value': "': !'"}; {'id': '292', 'type': 'expression_statement', 'children': ['293']}; {'id': '293', 'type': 'assignment', 'children': ['294', '295']}; {'id': '294', 'type': 'identifier', 'children': [], 'value': 'mode_string'}; {'id': '295', 'type': 'string', 'children': [], 'value': "''"}; {'id': '296', 'type': 'if_statement', 'children': ['297', '301']}; {'id': '297', 'type': 'comparison_operator', 'children': ['298', '299'], 'value': '>'}; {'id': '298', 'type': 'identifier', 'children': [], 'value': 'has_modes'}; {'id': '299', 'type': 'unary_operator', 'children': ['300'], 'value': '-'}; {'id': '300', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '301', 'type': 'block', 'children': ['302', '312']}; {'id': '302', 'type': 'expression_statement', 'children': ['303']}; {'id': '303', 'type': 'assignment', 'children': ['304', '305']}; {'id': '304', 'type': 'identifier', 'children': [], 'value': 'mode_string'}; {'id': '305', 'type': 'subscript', 'children': ['306', '307']}; {'id': '306', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '307', 'type': 'slice', 'children': ['308', '311']}; {'id': '308', 'type': 'binary_operator', 'children': ['309', '310'], 'value': '+'}; {'id': '309', 'type': 'identifier', 'children': [], 'value': 'has_modes'}; {'id': '310', 'type': 'integer', 'children': [], 'value': '3'}; {'id': '311', 'type': 'colon', 'children': []}; {'id': '312', 'type': 'expression_statement', 'children': ['313']}; {'id': '313', 'type': 'assignment', 'children': ['314', '315']}; {'id': '314', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '315', 'type': 'subscript', 'children': ['316', '317']}; {'id': '316', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '317', 'type': 'slice', 'children': ['318', '319']}; {'id': '318', 'type': 'colon', 'children': []}; {'id': '319', 'type': 'identifier', 'children': [], 'value': 'has_modes'}; {'id': '320', 'type': 'expression_statement', 'children': ['321']}; {'id': '321', 'type': 'assignment', 'children': ['322', '323']}; {'id': '322', 'type': 'identifier', 'children': [], 'value': 'modes'}; {'id': '323', 'type': 'dictionary', 'children': ['324', '329', '334', '339']}; {'id': '324', 'type': 'pair', 'children': ['325', '326']}; {'id': '325', 'type': 'string', 'children': [], 'value': "'direct_placement'"}; {'id': '326', 'type': 'comparison_operator', 'children': ['327', '328'], 'value': 'in'}; {'id': '327', 'type': 'string', 'children': [], 'value': "'P'"}; {'id': '328', 'type': 'identifier', 'children': [], 'value': 'mode_string'}; {'id': '329', 'type': 'pair', 'children': ['330', '331']}; {'id': '330', 'type': 'string', 'children': [], 'value': "'effect_quantity'"}; {'id': '331', 'type': 'comparison_operator', 'children': ['332', '333'], 'value': 'in'}; {'id': '332', 'type': 'string', 'children': [], 'value': "'C'"}; {'id': '333', 'type': 'identifier', 'children': [], 'value': 'mode_string'}; {'id': '334', 'type': 'pair', 'children': ['335', '336']}; {'id': '335', 'type': 'string', 'children': [], 'value': "'guard_state'"}; {'id': '336', 'type': 'comparison_operator', 'children': ['337', '338'], 'value': 'in'}; {'id': '337', 'type': 'string', 'children': [], 'value': "'G'"}; {'id': '338', 'type': 'identifier', 'children': [], 'value': 'mode_string'}; {'id': '339', 'type': 'pair', 'children': ['340', '341']}; {'id': '340', 'type': 'string', 'children': [], 'value': "'fixed_positions'"}; {'id': '341', 'type': 'comparison_operator', 'children': ['342', '343'], 'value': 'in'}; {'id': '342', 'type': 'string', 'children': [], 'value': "'F'"}; {'id': '343', 'type': 'identifier', 'children': [], 'value': 'mode_string'}; {'id': '344', 'type': 'expression_statement', 'children': ['345']}; {'id': '345', 'type': 'assignment', 'children': ['346', '351']}; {'id': '346', 'type': 'subscript', 'children': ['347', '350']}; {'id': '347', 'type': 'attribute', 'children': ['348', '349']}; {'id': '348', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '349', 'type': 'identifier', 'children': [], 'value': '_cache'}; {'id': '350', 'type': 'string', 'children': [], 'value': "'map'"}; {'id': '351', 'type': 'dictionary', 'children': ['352', '359', '366', '369', '372', '375', '378', '381']}; {'id': '352', 'type': 'pair', 'children': ['353', '354']}; {'id': '353', 'type': 'string', 'children': [], 'value': "'id'"}; {'id': '354', 'type': 'conditional_expression', 'children': ['355', '356', '358'], 'value': 'if'}; {'id': '355', 'type': 'identifier', 'children': [], 'value': 'map_id'}; {'id': '356', 'type': 'not_operator', 'children': ['357']}; {'id': '357', 'type': 'identifier', 'children': [], 'value': 'custom'}; {'id': '358', 'type': 'None', 'children': []}; {'id': '359', 'type': 'pair', 'children': ['360', '361']}; {'id': '360', 'type': 'string', 'children': [], 'value': "'name'"}; {'id': '361', 'type': 'call', 'children': ['362', '365']}; {'id': '362', 'type': 'attribute', 'children': ['363', '364']}; {'id': '363', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '364', 'type': 'identifier', 'children': [], 'value': 'strip'}; {'id': '365', 'type': 'argument_list', 'children': []}; {'id': '366', 'type': 'pair', 'children': ['367', '368']}; {'id': '367', 'type': 'string', 'children': [], 'value': "'size'"}; {'id': '368', 'type': 'identifier', 'children': [], 'value': 'size'}; {'id': '369', 'type': 'pair', 'children': ['370', '371']}; {'id': '370', 'type': 'string', 'children': [], 'value': "'dimension'"}; {'id': '371', 'type': 'identifier', 'children': [], 'value': 'dimension'}; {'id': '372', 'type': 'pair', 'children': ['373', '374']}; {'id': '373', 'type': 'string', 'children': [], 'value': "'seed'"}; {'id': '374', 'type': 'identifier', 'children': [], 'value': 'seed'}; {'id': '375', 'type': 'pair', 'children': ['376', '377']}; {'id': '376', 'type': 'string', 'children': [], 'value': "'modes'"}; {'id': '377', 'type': 'identifier', 'children': [], 'value': 'modes'}; {'id': '378', 'type': 'pair', 'children': ['379', '380']}; {'id': '379', 'type': 'string', 'children': [], 'value': "'custom'"}; {'id': '380', 'type': 'identifier', 'children': [], 'value': 'custom'}; {'id': '381', 'type': 'pair', 'children': ['382', '383']}; {'id': '382', 'type': 'string', 'children': [], 'value': "'zr'"}; {'id': '383', 'type': 'call', 'children': ['384', '387']}; {'id': '384', 'type': 'attribute', 'children': ['385', '386']}; {'id': '385', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '386', 'type': 'identifier', 'children': [], 'value': 'startswith'}; {'id': '387', 'type': 'argument_list', 'children': ['388']}; {'id': '388', 'type': 'string', 'children': [], 'value': "'ZR@'"}; {'id': '389', 'type': 'return_statement', 'children': ['390']}; {'id': '390', 'type': 'subscript', 'children': ['391', '394']}; {'id': '391', 'type': 'attribute', 'children': ['392', '393']}; {'id': '392', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '393', 'type': 'identifier', 'children': [], 'value': '_cache'}; {'id': '394', 'type': 'string', 'children': [], 'value': "'map'"} | def get_map(self):
if self._cache['map']:
return self._cache['map']
map_id = self._header.scenario.game_settings.map_id
instructions = self._header.scenario.messages.instructions
size = mgz.const.MAP_SIZES.get(self._header.map_info.size_x)
dimension = self._header.map_info.size_x
custom = True
name = 'Unknown'
language = None
encoding = 'unknown'
for pair in ENCODING_MARKERS:
marker = pair[0]
test_encoding = pair[1]
e_m = marker.encode(test_encoding)
for line in instructions.split(b'\n'):
pos = line.find(e_m)
if pos > -1:
encoding = test_encoding
name = line[pos+len(e_m):].decode(encoding)
language = pair[2]
break
if not language:
language = 'unknown'
for pair in LANGUAGE_MARKERS:
if instructions.find(pair[0].encode(pair[1])) > -1:
language = pair[2]
break
self._cache['encoding'] = encoding
self._cache['language'] = language
if map_id != 44:
if map_id not in mgz.const.MAP_NAMES:
raise ValueError('unspecified builtin map')
name = mgz.const.MAP_NAMES[map_id]
custom = False
match = re.search(b'\x00.*? (\-?[0-9]+)\x00.*?\.rms', instructions)
seed = None
if match:
seed = int(match.group(1))
has_modes = name.find(': !')
mode_string = ''
if has_modes > -1:
mode_string = name[has_modes + 3:]
name = name[:has_modes]
modes = {
'direct_placement': 'P' in mode_string,
'effect_quantity': 'C' in mode_string,
'guard_state': 'G' in mode_string,
'fixed_positions': 'F' in mode_string
}
self._cache['map'] = {
'id': map_id if not custom else None,
'name': name.strip(),
'size': size,
'dimension': dimension,
'seed': seed,
'modes': modes,
'custom': custom,
'zr': name.startswith('ZR@')
}
return self._cache['map'] |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '17']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'update'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '7', '12']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '5', 'type': 'list_splat_pattern', 'children': ['6']}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'sources'}; {'id': '7', 'type': 'typed_default_parameter', 'children': ['8', '9', '11']}; {'id': '8', 'type': 'identifier', 'children': [], 'value': 'follow_symlinks'}; {'id': '9', 'type': 'type', 'children': ['10']}; {'id': '10', 'type': 'identifier', 'children': [], 'value': 'bool'}; {'id': '11', 'type': 'False', 'children': []}; {'id': '12', 'type': 'typed_default_parameter', 'children': ['13', '14', '16']}; {'id': '13', 'type': 'identifier', 'children': [], 'value': 'maximum_depth'}; {'id': '14', 'type': 'type', 'children': ['15']}; {'id': '15', 'type': 'identifier', 'children': [], 'value': 'int'}; {'id': '16', 'type': 'integer', 'children': [], 'value': '20'}; {'id': '17', 'type': 'block', 'children': ['18']}; {'id': '18', 'type': 'for_statement', 'children': ['19', '20', '21']}; {'id': '19', 'type': 'identifier', 'children': [], 'value': 'source'}; {'id': '20', 'type': 'identifier', 'children': [], 'value': 'sources'}; {'id': '21', 'type': 'block', 'children': ['22', '60', '67']}; {'id': '22', 'type': 'if_statement', 'children': ['23', '30']}; {'id': '23', 'type': 'call', 'children': ['24', '25']}; {'id': '24', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '25', 'type': 'argument_list', 'children': ['26', '27']}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'source'}; {'id': '27', 'type': 'attribute', 'children': ['28', '29']}; {'id': '28', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '29', 'type': 'identifier', 'children': [], 'value': 'klass'}; {'id': '30', 'type': 'block', 'children': ['31', '45', '59']}; {'id': '31', 'type': 'expression_statement', 'children': ['32']}; {'id': '32', 'type': 'assignment', 'children': ['33', '44']}; {'id': '33', 'type': 'subscript', 'children': ['34', '37']}; {'id': '34', 'type': 'attribute', 'children': ['35', '36']}; {'id': '35', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '36', 'type': 'identifier', 'children': [], 'value': 'path_map'}; {'id': '37', 'type': 'attribute', 'children': ['38', '43']}; {'id': '38', 'type': 'attribute', 'children': ['39', '42']}; {'id': '39', 'type': 'attribute', 'children': ['40', '41']}; {'id': '40', 'type': 'identifier', 'children': [], 'value': 'source'}; {'id': '41', 'type': 'identifier', 'children': [], 'value': 'this'}; {'id': '42', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '43', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '44', 'type': 'identifier', 'children': [], 'value': 'source'}; {'id': '45', 'type': 'expression_statement', 'children': ['46']}; {'id': '46', 'type': 'assignment', 'children': ['47', '58']}; {'id': '47', 'type': 'subscript', 'children': ['48', '51']}; {'id': '48', 'type': 'attribute', 'children': ['49', '50']}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '50', 'type': 'identifier', 'children': [], 'value': 'class_cache'}; {'id': '51', 'type': 'attribute', 'children': ['52', '57']}; {'id': '52', 'type': 'attribute', 'children': ['53', '56']}; {'id': '53', 'type': 'attribute', 'children': ['54', '55']}; {'id': '54', 'type': 'identifier', 'children': [], 'value': 'source'}; {'id': '55', 'type': 'identifier', 'children': [], 'value': 'this'}; {'id': '56', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '57', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '58', 'type': 'identifier', 'children': [], 'value': 'source'}; {'id': '59', 'type': 'continue_statement', 'children': []}; {'id': '60', 'type': 'expression_statement', 'children': ['61']}; {'id': '61', 'type': 'assignment', 'children': ['62', '63']}; {'id': '62', 'type': 'identifier', 'children': [], 'value': 'source'}; {'id': '63', 'type': 'call', 'children': ['64', '65']}; {'id': '64', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '65', 'type': 'argument_list', 'children': ['66']}; {'id': '66', 'type': 'identifier', 'children': [], 'value': 'source'}; {'id': '67', 'type': 'if_statement', 'children': ['68', '80', '109']}; {'id': '68', 'type': 'call', 'children': ['69', '76']}; {'id': '69', 'type': 'attribute', 'children': ['70', '75']}; {'id': '70', 'type': 'call', 'children': ['71', '74']}; {'id': '71', 'type': 'attribute', 'children': ['72', '73']}; {'id': '72', 'type': 'identifier', 'children': [], 'value': 'source'}; {'id': '73', 'type': 'identifier', 'children': [], 'value': 'lower'}; {'id': '74', 'type': 'argument_list', 'children': []}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'endswith'}; {'id': '76', 'type': 'argument_list', 'children': ['77']}; {'id': '77', 'type': 'tuple', 'children': ['78', '79']}; {'id': '78', 'type': 'string', 'children': [], 'value': "'.zip'"}; {'id': '79', 'type': 'string', 'children': [], 'value': "'.jar'"}; {'id': '80', 'type': 'block', 'children': ['81', '89']}; {'id': '81', 'type': 'expression_statement', 'children': ['82']}; {'id': '82', 'type': 'assignment', 'children': ['83', '84']}; {'id': '83', 'type': 'identifier', 'children': [], 'value': 'zf'}; {'id': '84', 'type': 'call', 'children': ['85', '86']}; {'id': '85', 'type': 'identifier', 'children': [], 'value': 'ZipFile'}; {'id': '86', 'type': 'argument_list', 'children': ['87', '88']}; {'id': '87', 'type': 'identifier', 'children': [], 'value': 'source'}; {'id': '88', 'type': 'string', 'children': [], 'value': "'r'"}; {'id': '89', 'type': 'expression_statement', 'children': ['90']}; {'id': '90', 'type': 'call', 'children': ['91', '96']}; {'id': '91', 'type': 'attribute', 'children': ['92', '95']}; {'id': '92', 'type': 'attribute', 'children': ['93', '94']}; {'id': '93', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'path_map'}; {'id': '95', 'type': 'identifier', 'children': [], 'value': 'update'}; {'id': '96', 'type': 'argument_list', 'children': ['97']}; {'id': '97', 'type': 'call', 'children': ['98', '99']}; {'id': '98', 'type': 'identifier', 'children': [], 'value': 'zip'}; {'id': '99', 'type': 'argument_list', 'children': ['100', '105']}; {'id': '100', 'type': 'call', 'children': ['101', '104']}; {'id': '101', 'type': 'attribute', 'children': ['102', '103']}; {'id': '102', 'type': 'identifier', 'children': [], 'value': 'zf'}; {'id': '103', 'type': 'identifier', 'children': [], 'value': 'namelist'}; {'id': '104', 'type': 'argument_list', 'children': []}; {'id': '105', 'type': 'call', 'children': ['106', '107']}; {'id': '106', 'type': 'identifier', 'children': [], 'value': 'repeat'}; {'id': '107', 'type': 'argument_list', 'children': ['108']}; {'id': '108', 'type': 'identifier', 'children': [], 'value': 'zf'}; {'id': '109', 'type': 'elif_clause', 'children': ['110', '118']}; {'id': '110', 'type': 'call', 'children': ['111', '116']}; {'id': '111', 'type': 'attribute', 'children': ['112', '115']}; {'id': '112', 'type': 'attribute', 'children': ['113', '114']}; {'id': '113', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '114', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '115', 'type': 'identifier', 'children': [], 'value': 'isdir'}; {'id': '116', 'type': 'argument_list', 'children': ['117']}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'source'}; {'id': '118', 'type': 'block', 'children': ['119', '132']}; {'id': '119', 'type': 'expression_statement', 'children': ['120']}; {'id': '120', 'type': 'assignment', 'children': ['121', '122']}; {'id': '121', 'type': 'identifier', 'children': [], 'value': 'walker'}; {'id': '122', 'type': 'call', 'children': ['123', '124']}; {'id': '123', 'type': 'identifier', 'children': [], 'value': '_walk'}; {'id': '124', 'type': 'argument_list', 'children': ['125', '126', '129']}; {'id': '125', 'type': 'identifier', 'children': [], 'value': 'source'}; {'id': '126', 'type': 'keyword_argument', 'children': ['127', '128']}; {'id': '127', 'type': 'identifier', 'children': [], 'value': 'follow_links'}; {'id': '128', 'type': 'identifier', 'children': [], 'value': 'follow_symlinks'}; {'id': '129', 'type': 'keyword_argument', 'children': ['130', '131']}; {'id': '130', 'type': 'identifier', 'children': [], 'value': 'maximum_depth'}; {'id': '131', 'type': 'identifier', 'children': [], 'value': 'maximum_depth'}; {'id': '132', 'type': 'for_statement', 'children': ['133', '137', '138']}; {'id': '133', 'type': 'pattern_list', 'children': ['134', '135', '136']}; {'id': '134', 'type': 'identifier', 'children': [], 'value': 'root'}; {'id': '135', 'type': 'identifier', 'children': [], 'value': 'dirs'}; {'id': '136', 'type': 'identifier', 'children': [], 'value': 'files'}; {'id': '137', 'type': 'identifier', 'children': [], 'value': 'walker'}; {'id': '138', 'type': 'block', 'children': ['139']}; {'id': '139', 'type': 'for_statement', 'children': ['140', '141', '142']}; {'id': '140', 'type': 'identifier', 'children': [], 'value': 'file_'}; {'id': '141', 'type': 'identifier', 'children': [], 'value': 'files'}; {'id': '142', 'type': 'block', 'children': ['143', '155', '167']}; {'id': '143', 'type': 'expression_statement', 'children': ['144']}; {'id': '144', 'type': 'assignment', 'children': ['145', '146']}; {'id': '145', 'type': 'identifier', 'children': [], 'value': 'path_full'}; {'id': '146', 'type': 'call', 'children': ['147', '152']}; {'id': '147', 'type': 'attribute', 'children': ['148', '151']}; {'id': '148', 'type': 'attribute', 'children': ['149', '150']}; {'id': '149', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '150', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '151', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '152', 'type': 'argument_list', 'children': ['153', '154']}; {'id': '153', 'type': 'identifier', 'children': [], 'value': 'root'}; {'id': '154', 'type': 'identifier', 'children': [], 'value': 'file_'}; {'id': '155', 'type': 'expression_statement', 'children': ['156']}; {'id': '156', 'type': 'assignment', 'children': ['157', '158']}; {'id': '157', 'type': 'identifier', 'children': [], 'value': 'path_suffix'}; {'id': '158', 'type': 'call', 'children': ['159', '164']}; {'id': '159', 'type': 'attribute', 'children': ['160', '163']}; {'id': '160', 'type': 'attribute', 'children': ['161', '162']}; {'id': '161', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '162', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '163', 'type': 'identifier', 'children': [], 'value': 'relpath'}; {'id': '164', 'type': 'argument_list', 'children': ['165', '166']}; {'id': '165', 'type': 'identifier', 'children': [], 'value': 'path_full'}; {'id': '166', 'type': 'identifier', 'children': [], 'value': 'source'}; {'id': '167', 'type': 'expression_statement', 'children': ['168']}; {'id': '168', 'type': 'assignment', 'children': ['169', '174']}; {'id': '169', 'type': 'subscript', 'children': ['170', '173']}; {'id': '170', 'type': 'attribute', 'children': ['171', '172']}; {'id': '171', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '172', 'type': 'identifier', 'children': [], 'value': 'path_map'}; {'id': '173', 'type': 'identifier', 'children': [], 'value': 'path_suffix'}; {'id': '174', 'type': 'identifier', 'children': [], 'value': 'path_full'} | def update(self, *sources, follow_symlinks: bool=False,
maximum_depth: int=20):
for source in sources:
if isinstance(source, self.klass):
self.path_map[source.this.name.value] = source
self.class_cache[source.this.name.value] = source
continue
source = str(source)
if source.lower().endswith(('.zip', '.jar')):
zf = ZipFile(source, 'r')
self.path_map.update(zip(zf.namelist(), repeat(zf)))
elif os.path.isdir(source):
walker = _walk(
source,
follow_links=follow_symlinks,
maximum_depth=maximum_depth
)
for root, dirs, files in walker:
for file_ in files:
path_full = os.path.join(root, file_)
path_suffix = os.path.relpath(path_full, source)
self.path_map[path_suffix] = path_full |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '7']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'error_view'}; {'id': '3', 'type': 'parameters', 'children': ['4']}; {'id': '4', 'type': 'default_parameter', 'children': ['5', '6']}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'template_dir'}; {'id': '6', 'type': 'None', 'children': []}; {'id': '7', 'type': 'block', 'children': ['8', '16', '22', '212']}; {'id': '8', 'type': 'if_statement', 'children': ['9', '11']}; {'id': '9', 'type': 'not_operator', 'children': ['10']}; {'id': '10', 'type': 'identifier', 'children': [], 'value': 'template_dir'}; {'id': '11', 'type': 'block', 'children': ['12']}; {'id': '12', 'type': 'expression_statement', 'children': ['13']}; {'id': '13', 'type': 'assignment', 'children': ['14', '15']}; {'id': '14', 'type': 'identifier', 'children': [], 'value': 'template_dir'}; {'id': '15', 'type': 'string', 'children': [], 'value': '"Pylot/Error"'}; {'id': '16', 'type': 'expression_statement', 'children': ['17']}; {'id': '17', 'type': 'assignment', 'children': ['18', '19']}; {'id': '18', 'type': 'identifier', 'children': [], 'value': 'template_page'}; {'id': '19', 'type': 'binary_operator', 'children': ['20', '21'], 'value': '%'}; {'id': '20', 'type': 'string', 'children': [], 'value': '"%s/index.html"'}; {'id': '21', 'type': 'identifier', 'children': [], 'value': 'template_dir'}; {'id': '22', 'type': 'class_definition', 'children': ['23', '24', '26']}; {'id': '23', 'type': 'identifier', 'children': [], 'value': 'Error'}; {'id': '24', 'type': 'argument_list', 'children': ['25']}; {'id': '25', 'type': 'identifier', 'children': [], 'value': 'Pylot'}; {'id': '26', 'type': 'block', 'children': ['27', '177']}; {'id': '27', 'type': 'decorated_definition', 'children': ['28', '30']}; {'id': '28', 'type': 'decorator', 'children': ['29']}; {'id': '29', 'type': 'identifier', 'children': [], 'value': 'classmethod'}; {'id': '30', 'type': 'function_definition', 'children': ['31', '32', '37']}; {'id': '31', 'type': 'function_name', 'children': [], 'value': 'register'}; {'id': '32', 'type': 'parameters', 'children': ['33', '34', '35']}; {'id': '33', 'type': 'identifier', 'children': [], 'value': 'cls'}; {'id': '34', 'type': 'identifier', 'children': [], 'value': 'app'}; {'id': '35', 'type': 'dictionary_splat_pattern', 'children': ['36']}; {'id': '36', 'type': 'identifier', 'children': [], 'value': 'kwargs'}; {'id': '37', 'type': 'block', 'children': ['38', '51', '72', '93', '114', '135', '156']}; {'id': '38', 'type': 'expression_statement', 'children': ['39']}; {'id': '39', 'type': 'call', 'children': ['40', '47']}; {'id': '40', 'type': 'attribute', 'children': ['41', '46']}; {'id': '41', 'type': 'call', 'children': ['42', '43']}; {'id': '42', 'type': 'identifier', 'children': [], 'value': 'super'}; {'id': '43', 'type': 'argument_list', 'children': ['44', '45']}; {'id': '44', 'type': 'identifier', 'children': [], 'value': 'cls'}; {'id': '45', 'type': 'identifier', 'children': [], 'value': 'cls'}; {'id': '46', 'type': 'identifier', 'children': [], 'value': 'register'}; {'id': '47', 'type': 'argument_list', 'children': ['48', '49']}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'app'}; {'id': '49', 'type': 'dictionary_splat', 'children': ['50']}; {'id': '50', 'type': 'identifier', 'children': [], 'value': 'kwargs'}; {'id': '51', 'type': 'decorated_definition', 'children': ['52', '59']}; {'id': '52', 'type': 'decorator', 'children': ['53']}; {'id': '53', 'type': 'call', 'children': ['54', '57']}; {'id': '54', 'type': 'attribute', 'children': ['55', '56']}; {'id': '55', 'type': 'identifier', 'children': [], 'value': 'app'}; {'id': '56', 'type': 'identifier', 'children': [], 'value': 'errorhandler'}; {'id': '57', 'type': 'argument_list', 'children': ['58']}; {'id': '58', 'type': 'integer', 'children': [], 'value': '400'}; {'id': '59', 'type': 'function_definition', 'children': ['60', '61', '63']}; {'id': '60', 'type': 'function_name', 'children': [], 'value': 'error_400'}; {'id': '61', 'type': 'parameters', 'children': ['62']}; {'id': '62', 'type': 'identifier', 'children': [], 'value': 'error'}; {'id': '63', 'type': 'block', 'children': ['64']}; {'id': '64', 'type': 'return_statement', 'children': ['65']}; {'id': '65', 'type': 'call', 'children': ['66', '69']}; {'id': '66', 'type': 'attribute', 'children': ['67', '68']}; {'id': '67', 'type': 'identifier', 'children': [], 'value': 'cls'}; {'id': '68', 'type': 'identifier', 'children': [], 'value': 'index'}; {'id': '69', 'type': 'argument_list', 'children': ['70', '71']}; {'id': '70', 'type': 'identifier', 'children': [], 'value': 'error'}; {'id': '71', 'type': 'integer', 'children': [], 'value': '400'}; {'id': '72', 'type': 'decorated_definition', 'children': ['73', '80']}; {'id': '73', 'type': 'decorator', 'children': ['74']}; {'id': '74', 'type': 'call', 'children': ['75', '78']}; {'id': '75', 'type': 'attribute', 'children': ['76', '77']}; {'id': '76', 'type': 'identifier', 'children': [], 'value': 'app'}; {'id': '77', 'type': 'identifier', 'children': [], 'value': 'errorhandler'}; {'id': '78', 'type': 'argument_list', 'children': ['79']}; {'id': '79', 'type': 'integer', 'children': [], 'value': '401'}; {'id': '80', 'type': 'function_definition', 'children': ['81', '82', '84']}; {'id': '81', 'type': 'function_name', 'children': [], 'value': 'error_401'}; {'id': '82', 'type': 'parameters', 'children': ['83']}; {'id': '83', 'type': 'identifier', 'children': [], 'value': 'error'}; {'id': '84', 'type': 'block', 'children': ['85']}; {'id': '85', 'type': 'return_statement', 'children': ['86']}; {'id': '86', 'type': 'call', 'children': ['87', '90']}; {'id': '87', 'type': 'attribute', 'children': ['88', '89']}; {'id': '88', 'type': 'identifier', 'children': [], 'value': 'cls'}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'index'}; {'id': '90', 'type': 'argument_list', 'children': ['91', '92']}; {'id': '91', 'type': 'identifier', 'children': [], 'value': 'error'}; {'id': '92', 'type': 'integer', 'children': [], 'value': '401'}; {'id': '93', 'type': 'decorated_definition', 'children': ['94', '101']}; {'id': '94', 'type': 'decorator', 'children': ['95']}; {'id': '95', 'type': 'call', 'children': ['96', '99']}; {'id': '96', 'type': 'attribute', 'children': ['97', '98']}; {'id': '97', 'type': 'identifier', 'children': [], 'value': 'app'}; {'id': '98', 'type': 'identifier', 'children': [], 'value': 'errorhandler'}; {'id': '99', 'type': 'argument_list', 'children': ['100']}; {'id': '100', 'type': 'integer', 'children': [], 'value': '403'}; {'id': '101', 'type': 'function_definition', 'children': ['102', '103', '105']}; {'id': '102', 'type': 'function_name', 'children': [], 'value': 'error_403'}; {'id': '103', 'type': 'parameters', 'children': ['104']}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'error'}; {'id': '105', 'type': 'block', 'children': ['106']}; {'id': '106', 'type': 'return_statement', 'children': ['107']}; {'id': '107', 'type': 'call', 'children': ['108', '111']}; {'id': '108', 'type': 'attribute', 'children': ['109', '110']}; {'id': '109', 'type': 'identifier', 'children': [], 'value': 'cls'}; {'id': '110', 'type': 'identifier', 'children': [], 'value': 'index'}; {'id': '111', 'type': 'argument_list', 'children': ['112', '113']}; {'id': '112', 'type': 'identifier', 'children': [], 'value': 'error'}; {'id': '113', 'type': 'integer', 'children': [], 'value': '403'}; {'id': '114', 'type': 'decorated_definition', 'children': ['115', '122']}; {'id': '115', 'type': 'decorator', 'children': ['116']}; {'id': '116', 'type': 'call', 'children': ['117', '120']}; {'id': '117', 'type': 'attribute', 'children': ['118', '119']}; {'id': '118', 'type': 'identifier', 'children': [], 'value': 'app'}; {'id': '119', 'type': 'identifier', 'children': [], 'value': 'errorhandler'}; {'id': '120', 'type': 'argument_list', 'children': ['121']}; {'id': '121', 'type': 'integer', 'children': [], 'value': '404'}; {'id': '122', 'type': 'function_definition', 'children': ['123', '124', '126']}; {'id': '123', 'type': 'function_name', 'children': [], 'value': 'error_404'}; {'id': '124', 'type': 'parameters', 'children': ['125']}; {'id': '125', 'type': 'identifier', 'children': [], 'value': 'error'}; {'id': '126', 'type': 'block', 'children': ['127']}; {'id': '127', 'type': 'return_statement', 'children': ['128']}; {'id': '128', 'type': 'call', 'children': ['129', '132']}; {'id': '129', 'type': 'attribute', 'children': ['130', '131']}; {'id': '130', 'type': 'identifier', 'children': [], 'value': 'cls'}; {'id': '131', 'type': 'identifier', 'children': [], 'value': 'index'}; {'id': '132', 'type': 'argument_list', 'children': ['133', '134']}; {'id': '133', 'type': 'identifier', 'children': [], 'value': 'error'}; {'id': '134', 'type': 'integer', 'children': [], 'value': '404'}; {'id': '135', 'type': 'decorated_definition', 'children': ['136', '143']}; {'id': '136', 'type': 'decorator', 'children': ['137']}; {'id': '137', 'type': 'call', 'children': ['138', '141']}; {'id': '138', 'type': 'attribute', 'children': ['139', '140']}; {'id': '139', 'type': 'identifier', 'children': [], 'value': 'app'}; {'id': '140', 'type': 'identifier', 'children': [], 'value': 'errorhandler'}; {'id': '141', 'type': 'argument_list', 'children': ['142']}; {'id': '142', 'type': 'integer', 'children': [], 'value': '500'}; {'id': '143', 'type': 'function_definition', 'children': ['144', '145', '147']}; {'id': '144', 'type': 'function_name', 'children': [], 'value': 'error_500'}; {'id': '145', 'type': 'parameters', 'children': ['146']}; {'id': '146', 'type': 'identifier', 'children': [], 'value': 'error'}; {'id': '147', 'type': 'block', 'children': ['148']}; {'id': '148', 'type': 'return_statement', 'children': ['149']}; {'id': '149', 'type': 'call', 'children': ['150', '153']}; {'id': '150', 'type': 'attribute', 'children': ['151', '152']}; {'id': '151', 'type': 'identifier', 'children': [], 'value': 'cls'}; {'id': '152', 'type': 'identifier', 'children': [], 'value': 'index'}; {'id': '153', 'type': 'argument_list', 'children': ['154', '155']}; {'id': '154', 'type': 'identifier', 'children': [], 'value': 'error'}; {'id': '155', 'type': 'integer', 'children': [], 'value': '500'}; {'id': '156', 'type': 'decorated_definition', 'children': ['157', '164']}; {'id': '157', 'type': 'decorator', 'children': ['158']}; {'id': '158', 'type': 'call', 'children': ['159', '162']}; {'id': '159', 'type': 'attribute', 'children': ['160', '161']}; {'id': '160', 'type': 'identifier', 'children': [], 'value': 'app'}; {'id': '161', 'type': 'identifier', 'children': [], 'value': 'errorhandler'}; {'id': '162', 'type': 'argument_list', 'children': ['163']}; {'id': '163', 'type': 'integer', 'children': [], 'value': '503'}; {'id': '164', 'type': 'function_definition', 'children': ['165', '166', '168']}; {'id': '165', 'type': 'function_name', 'children': [], 'value': 'error_503'}; {'id': '166', 'type': 'parameters', 'children': ['167']}; {'id': '167', 'type': 'identifier', 'children': [], 'value': 'error'}; {'id': '168', 'type': 'block', 'children': ['169']}; {'id': '169', 'type': 'return_statement', 'children': ['170']}; {'id': '170', 'type': 'call', 'children': ['171', '174']}; {'id': '171', 'type': 'attribute', 'children': ['172', '173']}; {'id': '172', 'type': 'identifier', 'children': [], 'value': 'cls'}; {'id': '173', 'type': 'identifier', 'children': [], 'value': 'index'}; {'id': '174', 'type': 'argument_list', 'children': ['175', '176']}; {'id': '175', 'type': 'identifier', 'children': [], 'value': 'error'}; {'id': '176', 'type': 'integer', 'children': [], 'value': '503'}; {'id': '177', 'type': 'decorated_definition', 'children': ['178', '180']}; {'id': '178', 'type': 'decorator', 'children': ['179']}; {'id': '179', 'type': 'identifier', 'children': [], 'value': 'classmethod'}; {'id': '180', 'type': 'function_definition', 'children': ['181', '182', '186']}; {'id': '181', 'type': 'function_name', 'children': [], 'value': 'index'}; {'id': '182', 'type': 'parameters', 'children': ['183', '184', '185']}; {'id': '183', 'type': 'identifier', 'children': [], 'value': 'cls'}; {'id': '184', 'type': 'identifier', 'children': [], 'value': 'error'}; {'id': '185', 'type': 'identifier', 'children': [], 'value': 'code'}; {'id': '186', 'type': 'block', 'children': ['187', '198']}; {'id': '187', 'type': 'expression_statement', 'children': ['188']}; {'id': '188', 'type': 'call', 'children': ['189', '192']}; {'id': '189', 'type': 'attribute', 'children': ['190', '191']}; {'id': '190', 'type': 'identifier', 'children': [], 'value': 'cls'}; {'id': '191', 'type': 'identifier', 'children': [], 'value': 'meta_'}; {'id': '192', 'type': 'argument_list', 'children': ['193']}; {'id': '193', 'type': 'keyword_argument', 'children': ['194', '195']}; {'id': '194', 'type': 'identifier', 'children': [], 'value': 'title'}; {'id': '195', 'type': 'binary_operator', 'children': ['196', '197'], 'value': '%'}; {'id': '196', 'type': 'string', 'children': [], 'value': '"Error %s"'}; {'id': '197', 'type': 'identifier', 'children': [], 'value': 'code'}; {'id': '198', 'type': 'return_statement', 'children': ['199']}; {'id': '199', 'type': 'expression_list', 'children': ['200', '211']}; {'id': '200', 'type': 'call', 'children': ['201', '204']}; {'id': '201', 'type': 'attribute', 'children': ['202', '203']}; {'id': '202', 'type': 'identifier', 'children': [], 'value': 'cls'}; {'id': '203', 'type': 'identifier', 'children': [], 'value': 'render'}; {'id': '204', 'type': 'argument_list', 'children': ['205', '208']}; {'id': '205', 'type': 'keyword_argument', 'children': ['206', '207']}; {'id': '206', 'type': 'identifier', 'children': [], 'value': 'error'}; {'id': '207', 'type': 'identifier', 'children': [], 'value': 'error'}; {'id': '208', 'type': 'keyword_argument', 'children': ['209', '210']}; {'id': '209', 'type': 'identifier', 'children': [], 'value': 'view_template'}; {'id': '210', 'type': 'identifier', 'children': [], 'value': 'template_page'}; {'id': '211', 'type': 'identifier', 'children': [], 'value': 'code'}; {'id': '212', 'type': 'return_statement', 'children': ['213']}; {'id': '213', 'type': 'identifier', 'children': [], 'value': 'Error'} | def error_view(template_dir=None):
if not template_dir:
template_dir = "Pylot/Error"
template_page = "%s/index.html" % template_dir
class Error(Pylot):
@classmethod
def register(cls, app, **kwargs):
super(cls, cls).register(app, **kwargs)
@app.errorhandler(400)
def error_400(error):
return cls.index(error, 400)
@app.errorhandler(401)
def error_401(error):
return cls.index(error, 401)
@app.errorhandler(403)
def error_403(error):
return cls.index(error, 403)
@app.errorhandler(404)
def error_404(error):
return cls.index(error, 404)
@app.errorhandler(500)
def error_500(error):
return cls.index(error, 500)
@app.errorhandler(503)
def error_503(error):
return cls.index(error, 503)
@classmethod
def index(cls, error, code):
cls.meta_(title="Error %s" % code)
return cls.render(error=error, view_template=template_page), code
return Error |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '6']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'update_device_list'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'sessions'}; {'id': '6', 'type': 'block', 'children': ['7', '20', '24', '28', '32', '217', '262']}; {'id': '7', 'type': 'if_statement', 'children': ['8', '11']}; {'id': '8', 'type': 'comparison_operator', 'children': ['9', '10'], 'value': 'is'}; {'id': '9', 'type': 'identifier', 'children': [], 'value': 'sessions'}; {'id': '10', 'type': 'None', 'children': []}; {'id': '11', 'type': 'block', 'children': ['12', '19']}; {'id': '12', 'type': 'expression_statement', 'children': ['13']}; {'id': '13', 'type': 'call', 'children': ['14', '17']}; {'id': '14', 'type': 'attribute', 'children': ['15', '16']}; {'id': '15', 'type': 'identifier', 'children': [], 'value': '_LOGGER'}; {'id': '16', 'type': 'identifier', 'children': [], 'value': 'error'}; {'id': '17', 'type': 'argument_list', 'children': ['18']}; {'id': '18', 'type': 'string', 'children': [], 'value': "'Error updating Emby devices.'"}; {'id': '19', 'type': 'return_statement', 'children': []}; {'id': '20', 'type': 'expression_statement', 'children': ['21']}; {'id': '21', 'type': 'assignment', 'children': ['22', '23']}; {'id': '22', 'type': 'identifier', 'children': [], 'value': 'new_devices'}; {'id': '23', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '24', 'type': 'expression_statement', 'children': ['25']}; {'id': '25', 'type': 'assignment', 'children': ['26', '27']}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'active_devices'}; {'id': '27', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '28', 'type': 'expression_statement', 'children': ['29']}; {'id': '29', 'type': 'assignment', 'children': ['30', '31']}; {'id': '30', 'type': 'identifier', 'children': [], 'value': 'dev_update'}; {'id': '31', 'type': 'False', 'children': []}; {'id': '32', 'type': 'for_statement', 'children': ['33', '34', '35']}; {'id': '33', 'type': 'identifier', 'children': [], 'value': 'device'}; {'id': '34', 'type': 'identifier', 'children': [], 'value': 'sessions'}; {'id': '35', 'type': 'block', 'children': ['36', '50', '74', '81']}; {'id': '36', 'type': 'expression_statement', 'children': ['37']}; {'id': '37', 'type': 'assignment', 'children': ['38', '39']}; {'id': '38', 'type': 'identifier', 'children': [], 'value': 'dev_name'}; {'id': '39', 'type': 'call', 'children': ['40', '43']}; {'id': '40', 'type': 'attribute', 'children': ['41', '42']}; {'id': '41', 'type': 'string', 'children': [], 'value': "'{}.{}'"}; {'id': '42', 'type': 'identifier', 'children': [], 'value': 'format'}; {'id': '43', 'type': 'argument_list', 'children': ['44', '47']}; {'id': '44', 'type': 'subscript', 'children': ['45', '46']}; {'id': '45', 'type': 'identifier', 'children': [], 'value': 'device'}; {'id': '46', 'type': 'string', 'children': [], 'value': "'DeviceId'"}; {'id': '47', 'type': 'subscript', 'children': ['48', '49']}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'device'}; {'id': '49', 'type': 'string', 'children': [], 'value': "'Client'"}; {'id': '50', 'type': 'try_statement', 'children': ['51', '70']}; {'id': '51', 'type': 'block', 'children': ['52']}; {'id': '52', 'type': 'expression_statement', 'children': ['53']}; {'id': '53', 'type': 'call', 'children': ['54', '57']}; {'id': '54', 'type': 'attribute', 'children': ['55', '56']}; {'id': '55', 'type': 'identifier', 'children': [], 'value': '_LOGGER'}; {'id': '56', 'type': 'identifier', 'children': [], 'value': 'debug'}; {'id': '57', 'type': 'argument_list', 'children': ['58', '59', '60', '65']}; {'id': '58', 'type': 'string', 'children': [], 'value': "'Session msg on %s of type: %s, themeflag: %s'"}; {'id': '59', 'type': 'identifier', 'children': [], 'value': 'dev_name'}; {'id': '60', 'type': 'subscript', 'children': ['61', '64']}; {'id': '61', 'type': 'subscript', 'children': ['62', '63']}; {'id': '62', 'type': 'identifier', 'children': [], 'value': 'device'}; {'id': '63', 'type': 'string', 'children': [], 'value': "'NowPlayingItem'"}; {'id': '64', 'type': 'string', 'children': [], 'value': "'Type'"}; {'id': '65', 'type': 'subscript', 'children': ['66', '69']}; {'id': '66', 'type': 'subscript', 'children': ['67', '68']}; {'id': '67', 'type': 'identifier', 'children': [], 'value': 'device'}; {'id': '68', 'type': 'string', 'children': [], 'value': "'NowPlayingItem'"}; {'id': '69', 'type': 'string', 'children': [], 'value': "'IsThemeMedia'"}; {'id': '70', 'type': 'except_clause', 'children': ['71', '72']}; {'id': '71', 'type': 'identifier', 'children': [], 'value': 'KeyError'}; {'id': '72', 'type': 'block', 'children': ['73']}; {'id': '73', 'type': 'pass_statement', 'children': []}; {'id': '74', 'type': 'expression_statement', 'children': ['75']}; {'id': '75', 'type': 'call', 'children': ['76', '79']}; {'id': '76', 'type': 'attribute', 'children': ['77', '78']}; {'id': '77', 'type': 'identifier', 'children': [], 'value': 'active_devices'}; {'id': '78', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '79', 'type': 'argument_list', 'children': ['80']}; {'id': '80', 'type': 'identifier', 'children': [], 'value': 'dev_name'}; {'id': '81', 'type': 'if_statement', 'children': ['82', '99', '131']}; {'id': '82', 'type': 'boolean_operator', 'children': ['83', '88', '89'], 'value': 'and'}; {'id': '83', 'type': 'comparison_operator', 'children': ['84', '85'], 'value': 'not'}; {'id': '84', 'type': 'identifier', 'children': [], 'value': 'dev_name'}; {'id': '85', 'type': 'attribute', 'children': ['86', '87']}; {'id': '86', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '87', 'type': 'identifier', 'children': [], 'value': '_devices'}; {'id': '88', 'type': 'line_continuation', 'children': [], 'value': '\\'}; {'id': '89', 'type': 'comparison_operator', 'children': ['90', '93'], 'value': '!='}; {'id': '90', 'type': 'subscript', 'children': ['91', '92']}; {'id': '91', 'type': 'identifier', 'children': [], 'value': 'device'}; {'id': '92', 'type': 'string', 'children': [], 'value': "'DeviceId'"}; {'id': '93', 'type': 'call', 'children': ['94', '95']}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '95', 'type': 'argument_list', 'children': ['96']}; {'id': '96', 'type': 'attribute', 'children': ['97', '98']}; {'id': '97', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '98', 'type': 'identifier', 'children': [], 'value': '_api_id'}; {'id': '99', 'type': 'block', 'children': ['100', '108', '116', '124']}; {'id': '100', 'type': 'expression_statement', 'children': ['101']}; {'id': '101', 'type': 'call', 'children': ['102', '105']}; {'id': '102', 'type': 'attribute', 'children': ['103', '104']}; {'id': '103', 'type': 'identifier', 'children': [], 'value': '_LOGGER'}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'debug'}; {'id': '105', 'type': 'argument_list', 'children': ['106', '107']}; {'id': '106', 'type': 'string', 'children': [], 'value': "'New Emby DeviceID: %s. Adding to device list.'"}; {'id': '107', 'type': 'identifier', 'children': [], 'value': 'dev_name'}; {'id': '108', 'type': 'expression_statement', 'children': ['109']}; {'id': '109', 'type': 'assignment', 'children': ['110', '111']}; {'id': '110', 'type': 'identifier', 'children': [], 'value': 'new'}; {'id': '111', 'type': 'call', 'children': ['112', '113']}; {'id': '112', 'type': 'identifier', 'children': [], 'value': 'EmbyDevice'}; {'id': '113', 'type': 'argument_list', 'children': ['114', '115']}; {'id': '114', 'type': 'identifier', 'children': [], 'value': 'device'}; {'id': '115', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '116', 'type': 'expression_statement', 'children': ['117']}; {'id': '117', 'type': 'assignment', 'children': ['118', '123']}; {'id': '118', 'type': 'subscript', 'children': ['119', '122']}; {'id': '119', 'type': 'attribute', 'children': ['120', '121']}; {'id': '120', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '121', 'type': 'identifier', 'children': [], 'value': '_devices'}; {'id': '122', 'type': 'identifier', 'children': [], 'value': 'dev_name'}; {'id': '123', 'type': 'identifier', 'children': [], 'value': 'new'}; {'id': '124', 'type': 'expression_statement', 'children': ['125']}; {'id': '125', 'type': 'call', 'children': ['126', '129']}; {'id': '126', 'type': 'attribute', 'children': ['127', '128']}; {'id': '127', 'type': 'identifier', 'children': [], 'value': 'new_devices'}; {'id': '128', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '129', 'type': 'argument_list', 'children': ['130']}; {'id': '130', 'type': 'identifier', 'children': [], 'value': 'new'}; {'id': '131', 'type': 'elif_clause', 'children': ['132', '142']}; {'id': '132', 'type': 'comparison_operator', 'children': ['133', '136'], 'value': '!='}; {'id': '133', 'type': 'subscript', 'children': ['134', '135']}; {'id': '134', 'type': 'identifier', 'children': [], 'value': 'device'}; {'id': '135', 'type': 'string', 'children': [], 'value': "'DeviceId'"}; {'id': '136', 'type': 'call', 'children': ['137', '138']}; 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{'id': '245', 'type': 'identifier', 'children': [], 'value': 'set_active'}; {'id': '246', 'type': 'argument_list', 'children': ['247']}; {'id': '247', 'type': 'False', 'children': []}; {'id': '248', 'type': 'expression_statement', 'children': ['249']}; {'id': '249', 'type': 'call', 'children': ['250', '253']}; {'id': '250', 'type': 'attribute', 'children': ['251', '252']}; {'id': '251', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '252', 'type': 'identifier', 'children': [], 'value': '_do_update_callback'}; {'id': '253', 'type': 'argument_list', 'children': ['254']}; {'id': '254', 'type': 'identifier', 'children': [], 'value': 'dev_id'}; {'id': '255', 'type': 'expression_statement', 'children': ['256']}; {'id': '256', 'type': 'call', 'children': ['257', '260']}; {'id': '257', 'type': 'attribute', 'children': ['258', '259']}; {'id': '258', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '259', 'type': 'identifier', 'children': [], 'value': '_do_stale_devices_callback'}; {'id': '260', 'type': 'argument_list', 'children': ['261']}; {'id': '261', 'type': 'identifier', 'children': [], 'value': 'dev_id'}; {'id': '262', 'type': 'if_statement', 'children': ['263', '264']}; {'id': '263', 'type': 'identifier', 'children': [], 'value': 'new_devices'}; {'id': '264', 'type': 'block', 'children': ['265']}; {'id': '265', 'type': 'expression_statement', 'children': ['266']}; {'id': '266', 'type': 'call', 'children': ['267', '270']}; {'id': '267', 'type': 'attribute', 'children': ['268', '269']}; {'id': '268', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '269', 'type': 'identifier', 'children': [], 'value': '_do_new_devices_callback'}; {'id': '270', 'type': 'argument_list', 'children': ['271']}; {'id': '271', 'type': 'integer', 'children': [], 'value': '0'} | def update_device_list(self, sessions):
if sessions is None:
_LOGGER.error('Error updating Emby devices.')
return
new_devices = []
active_devices = []
dev_update = False
for device in sessions:
dev_name = '{}.{}'.format(device['DeviceId'], device['Client'])
try:
_LOGGER.debug('Session msg on %s of type: %s, themeflag: %s',
dev_name, device['NowPlayingItem']['Type'],
device['NowPlayingItem']['IsThemeMedia'])
except KeyError:
pass
active_devices.append(dev_name)
if dev_name not in self._devices and \
device['DeviceId'] != str(self._api_id):
_LOGGER.debug('New Emby DeviceID: %s. Adding to device list.',
dev_name)
new = EmbyDevice(device, self)
self._devices[dev_name] = new
new_devices.append(new)
elif device['DeviceId'] != str(self._api_id):
if not self._devices[dev_name].is_active:
dev_update = True
do_update = self.update_check(
self._devices[dev_name], device)
self._devices[dev_name].update_data(device)
self._devices[dev_name].set_active(True)
if dev_update:
self._do_new_devices_callback(0)
dev_update = False
if do_update:
self._do_update_callback(dev_name)
for dev_id in self._devices:
if dev_id not in active_devices:
if self._devices[dev_id].is_active:
self._devices[dev_id].set_active(False)
self._do_update_callback(dev_id)
self._do_stale_devices_callback(dev_id)
if new_devices:
self._do_new_devices_callback(0) |
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{'id': '156', 'type': 'argument_list', 'children': ['157']}; {'id': '157', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '158', 'type': 'expression_statement', 'children': ['159']}; {'id': '159', 'type': 'assignment', 'children': ['160', '161']}; {'id': '160', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '161', 'type': 'binary_operator', 'children': ['162', '163'], 'value': '%'}; {'id': '162', 'type': 'string', 'children': [], 'value': "'%s-%s%s'"}; {'id': '163', 'type': 'tuple', 'children': ['164', '165', '170']}; {'id': '164', 'type': 'identifier', 'children': [], 'value': 'stem'}; {'id': '165', 'type': 'call', 'children': ['166', '169']}; {'id': '166', 'type': 'attribute', 'children': ['167', '168']}; {'id': '167', 'type': 'identifier', 'children': [], 'value': 'uuid'}; {'id': '168', 'type': 'identifier', 'children': [], 'value': 'uuid4'}; {'id': '169', 'type': 'argument_list', 'children': []}; {'id': '170', 'type': 'identifier', 'children': [], 'value': 'ext'}; {'id': '171', 'type': 'return_statement', 'children': ['172']}; {'id': '172', 'type': 'call', 'children': ['173', '178']}; {'id': '173', 'type': 'attribute', 'children': ['174', '177']}; {'id': '174', 'type': 'attribute', 'children': ['175', '176']}; {'id': '175', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '176', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '177', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '178', 'type': 'argument_list', 'children': ['179', '180']}; {'id': '179', 'type': 'identifier', 'children': [], 'value': 'ARCHIVE'}; {'id': '180', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '181', 'type': 'if_statement', 'children': ['182', '183']}; {'id': '182', 'type': 'identifier', 'children': [], 'value': 'archive'}; {'id': '183', 'type': 'block', 'children': ['184']}; {'id': '184', 'type': 'expression_statement', 'children': ['185']}; {'id': '185', 'type': 'call', 'children': ['186', '189']}; {'id': '186', 'type': 'attribute', 'children': ['187', '188']}; {'id': '187', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '188', 'type': 'identifier', 'children': [], 'value': 'makedirs'}; {'id': '189', 'type': 'argument_list', 'children': ['190', '191']}; {'id': '190', 'type': 'identifier', 'children': [], 'value': 'ARCHIVE'}; {'id': '191', 'type': 'keyword_argument', 'children': ['192', '193']}; {'id': '192', 'type': 'identifier', 'children': [], 'value': 'exist_ok'}; {'id': '193', 'type': 'True', 'children': []}; {'id': '194', 'type': 'expression_statement', 'children': ['195']}; {'id': '195', 'type': 'assignment', 'children': ['196', '197']}; {'id': '196', 'type': 'identifier', 'children': [], 'value': 'filelist'}; {'id': '197', 'type': 'call', 'children': ['198', '199']}; {'id': '198', 'type': 'identifier', 'children': [], 'value': 'list'}; {'id': '199', 'type': 'argument_list', 'children': []}; {'id': '200', 'type': 'for_statement', 'children': ['201', '202', '209']}; {'id': '201', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '202', 'type': 'subscript', 'children': ['203', '206']}; {'id': '203', 'type': 'attribute', 'children': ['204', '205']}; {'id': '204', 'type': 'identifier', 'children': [], 'value': 'sys'}; {'id': '205', 'type': 'identifier', 'children': [], 'value': 'argv'}; {'id': '206', 'type': 'slice', 'children': ['207', '208']}; {'id': '207', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '208', 'type': 'colon', 'children': []}; {'id': '209', 'type': 'block', 'children': ['210', '262']}; {'id': '210', 'type': 'if_statement', 'children': ['211', '219']}; {'id': '211', 'type': 'call', 'children': ['212', '217']}; {'id': '212', 'type': 'attribute', 'children': ['213', '216']}; {'id': '213', 'type': 'attribute', 'children': ['214', '215']}; {'id': '214', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '215', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '216', 'type': 'identifier', 'children': [], 'value': 'isfile'}; {'id': '217', 'type': 'argument_list', 'children': ['218']}; {'id': '218', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '219', 'type': 'block', 'children': ['220', '255']}; {'id': '220', 'type': 'if_statement', 'children': ['221', '222']}; {'id': '221', 'type': 'identifier', 'children': [], 'value': 'archive'}; {'id': '222', 'type': 'block', 'children': ['223', '230', '247']}; {'id': '223', 'type': 'expression_statement', 'children': ['224']}; {'id': '224', 'type': 'assignment', 'children': ['225', '226']}; {'id': '225', 'type': 'identifier', 'children': [], 'value': 'dest'}; {'id': '226', 'type': 'call', 'children': ['227', '228']}; {'id': '227', 'type': 'identifier', 'children': [], 'value': 'rename'}; {'id': '228', 'type': 'argument_list', 'children': ['229']}; {'id': '229', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '230', 'type': 'expression_statement', 'children': ['231']}; {'id': '231', 'type': 'call', 'children': ['232', '235']}; {'id': '232', 'type': 'attribute', 'children': ['233', '234']}; {'id': '233', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '234', 'type': 'identifier', 'children': [], 'value': 'makedirs'}; {'id': '235', 'type': 'argument_list', 'children': ['236', '244']}; {'id': '236', 'type': 'call', 'children': ['237', '242']}; {'id': '237', 'type': 'attribute', 'children': ['238', '241']}; {'id': '238', 'type': 'attribute', 'children': ['239', '240']}; {'id': '239', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '240', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '241', 'type': 'identifier', 'children': [], 'value': 'dirname'}; {'id': '242', 'type': 'argument_list', 'children': ['243']}; {'id': '243', 'type': 'identifier', 'children': [], 'value': 'dest'}; {'id': '244', 'type': 'keyword_argument', 'children': ['245', '246']}; {'id': '245', 'type': 'identifier', 'children': [], 'value': 'exist_ok'}; {'id': '246', 'type': 'True', 'children': []}; {'id': '247', 'type': 'expression_statement', 'children': ['248']}; {'id': '248', 'type': 'call', 'children': ['249', '252']}; {'id': '249', 'type': 'attribute', 'children': ['250', '251']}; {'id': '250', 'type': 'identifier', 'children': [], 'value': 'shutil'}; {'id': '251', 'type': 'identifier', 'children': [], 'value': 'copy'}; {'id': '252', 'type': 'argument_list', 'children': ['253', '254']}; {'id': '253', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '254', 'type': 'identifier', 'children': [], 'value': 'dest'}; {'id': '255', 'type': 'expression_statement', 'children': ['256']}; {'id': '256', 'type': 'call', 'children': ['257', '260']}; {'id': '257', 'type': 'attribute', 'children': ['258', '259']}; {'id': '258', 'type': 'identifier', 'children': [], 'value': 'filelist'}; {'id': '259', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '260', 'type': 'argument_list', 'children': ['261']}; {'id': '261', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '262', 'type': 'if_statement', 'children': ['263', '271']}; {'id': '263', 'type': 'call', 'children': ['264', '269']}; {'id': '264', 'type': 'attribute', 'children': ['265', '268']}; {'id': '265', 'type': 'attribute', 'children': ['266', '267']}; {'id': '266', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '267', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '268', 'type': 'identifier', 'children': [], 'value': 'isdir'}; {'id': '269', 'type': 'argument_list', 'children': ['270']}; {'id': '270', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '271', 'type': 'block', 'children': ['272', '286']}; {'id': '272', 'type': 'if_statement', 'children': ['273', '274']}; {'id': '273', 'type': 'identifier', 'children': [], 'value': 'archive'}; {'id': '274', 'type': 'block', 'children': ['275']}; {'id': '275', 'type': 'expression_statement', 'children': ['276']}; {'id': '276', 'type': 'call', 'children': ['277', '280']}; {'id': '277', 'type': 'attribute', 'children': ['278', '279']}; {'id': '278', 'type': 'identifier', 'children': [], 'value': 'shutil'}; {'id': '279', 'type': 'identifier', 'children': [], 'value': 'copytree'}; {'id': '280', 'type': 'argument_list', 'children': ['281', '282']}; {'id': '281', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '282', 'type': 'call', 'children': ['283', '284']}; {'id': '283', 'type': 'identifier', 'children': [], 'value': 'rename'}; {'id': '284', 'type': 'argument_list', 'children': ['285']}; {'id': '285', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '286', 'type': 'expression_statement', 'children': ['287']}; {'id': '287', 'type': 'call', 'children': ['288', '291']}; {'id': '288', 'type': 'attribute', 'children': ['289', '290']}; {'id': '289', 'type': 'identifier', 'children': [], 'value': 'filelist'}; {'id': '290', 'type': 'identifier', 'children': [], 'value': 'extend'}; {'id': '291', 'type': 'argument_list', 'children': ['292']}; {'id': '292', 'type': 'call', 'children': ['293', '294']}; {'id': '293', 'type': 'identifier', 'children': [], 'value': 'find'}; {'id': '294', 'type': 'argument_list', 'children': ['295']}; {'id': '295', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '296', 'type': 'function_definition', 'children': ['297', '298', '300']}; {'id': '297', 'type': 'function_name', 'children': [], 'value': 'ispy'}; {'id': '298', 'type': 'parameters', 'children': ['299']}; {'id': '299', 'type': 'identifier', 'children': [], 'value': 'file'}; {'id': '300', 'type': 'block', 'children': ['301']}; {'id': '301', 'type': 'return_statement', 'children': ['302']}; {'id': '302', 'type': '()', 'children': ['303']}; {'id': '303', 'type': 'boolean_operator', 'children': ['304', '312'], 'value': 'and'}; {'id': '304', 'type': 'call', 'children': ['305', '310']}; {'id': '305', 'type': 'attribute', 'children': ['306', '309']}; {'id': '306', 'type': 'attribute', 'children': ['307', '308']}; {'id': '307', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '308', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '309', 'type': 'identifier', 'children': [], 'value': 'isfile'}; {'id': '310', 'type': 'argument_list', 'children': ['311']}; {'id': '311', 'type': 'identifier', 'children': [], 'value': 'file'}; {'id': '312', 'type': '()', 'children': ['313']}; {'id': '313', 'type': 'comparison_operator', 'children': ['314', '324'], 'value': 'in'}; {'id': '314', 'type': 'subscript', 'children': ['315', '323']}; {'id': '315', 'type': 'call', 'children': ['316', '321']}; {'id': '316', 'type': 'attribute', 'children': ['317', '320']}; {'id': '317', 'type': 'attribute', 'children': ['318', '319']}; {'id': '318', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '319', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '320', 'type': 'identifier', 'children': [], 'value': 'splitext'}; {'id': '321', 'type': 'argument_list', 'children': ['322']}; {'id': '322', 'type': 'identifier', 'children': [], 'value': 'file'}; {'id': '323', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '324', 'type': 'tuple', 'children': ['325', '326']}; {'id': '325', 'type': 'string', 'children': [], 'value': "'.py'"}; {'id': '326', 'type': 'string', 'children': [], 'value': "'.pyw'"}; {'id': '327', 'type': 'expression_statement', 'children': ['328']}; {'id': '328', 'type': 'assignment', 'children': ['329', '330']}; {'id': '329', 'type': 'identifier', 'children': [], 'value': 'filelist'}; {'id': '330', 'type': 'call', 'children': ['331', '332']}; {'id': '331', 'type': 'identifier', 'children': [], 'value': 'sorted'}; {'id': '332', 'type': 'argument_list', 'children': ['333']}; {'id': '333', 'type': 'call', 'children': ['334', '335']}; {'id': '334', 'type': 'identifier', 'children': [], 'value': 'filter'}; {'id': '335', 'type': 'argument_list', 'children': ['336', '337']}; {'id': '336', 'type': 'identifier', 'children': [], 'value': 'ispy'}; {'id': '337', 'type': 'identifier', 'children': [], 'value': 'filelist'}; {'id': '338', 'type': 'if_statement', 'children': ['339', '345']}; {'id': '339', 'type': 'comparison_operator', 'children': ['340', '344'], 'value': '=='}; {'id': '340', 'type': 'call', 'children': ['341', '342']}; {'id': '341', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '342', 'type': 'argument_list', 'children': ['343']}; {'id': '343', 'type': 'identifier', 'children': [], 'value': 'filelist'}; {'id': '344', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '345', 'type': 'block', 'children': ['346']}; {'id': '346', 'type': 'expression_statement', 'children': ['347']}; {'id': '347', 'type': 'call', 'children': ['348', '351']}; {'id': '348', 'type': 'attribute', 'children': ['349', '350']}; {'id': '349', 'type': 'identifier', 'children': [], 'value': 'parser'}; {'id': '350', 'type': 'identifier', 'children': [], 'value': 'error'}; {'id': '351', 'type': 'argument_list', 'children': ['352']}; {'id': '352', 'type': 'string', 'children': [], 'value': "'argument PATH: no valid source file found'"}; {'id': '353', 'type': 'if_statement', 'children': ['354', '361', '371']}; {'id': '354', 'type': 'boolean_operator', 'children': ['355', '358'], 'value': 'or'}; {'id': '355', 'type': 'comparison_operator', 'children': ['356', '357'], 'value': 'is'}; {'id': '356', 'type': 'identifier', 'children': [], 'value': 'mp'}; {'id': '357', 'type': 'None', 'children': []}; {'id': '358', 'type': 'comparison_operator', 'children': ['359', '360'], 'value': '<='}; {'id': '359', 'type': 'identifier', 'children': [], 'value': 'CPU_CNT'}; {'id': '360', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '361', 'type': 'block', 'children': ['362']}; {'id': '362', 'type': 'expression_statement', 'children': ['363']}; {'id': '363', 'type': 'list_comprehension', 'children': ['364', '368']}; {'id': '364', 'type': 'call', 'children': ['365', '366']}; {'id': '365', 'type': 'identifier', 'children': [], 'value': 'f2format'}; {'id': '366', 'type': 'argument_list', 'children': ['367']}; {'id': '367', 'type': 'identifier', 'children': [], 'value': 'filename'}; {'id': '368', 'type': 'for_in_clause', 'children': ['369', '370']}; {'id': '369', 'type': 'identifier', 'children': [], 'value': 'filename'}; {'id': '370', 'type': 'identifier', 'children': [], 'value': 'filelist'}; {'id': '371', 'type': 'else_clause', 'children': ['372']}; {'id': '372', 'type': 'block', 'children': ['373']}; {'id': '373', 'type': 'expression_statement', 'children': ['374']}; {'id': '374', 'type': 'call', 'children': ['375', '385']}; {'id': '375', 'type': 'attribute', 'children': ['376', '384']}; {'id': '376', 'type': 'call', 'children': ['377', '380']}; {'id': '377', 'type': 'attribute', 'children': ['378', '379']}; {'id': '378', 'type': 'identifier', 'children': [], 'value': 'mp'}; {'id': '379', 'type': 'identifier', 'children': [], 'value': 'Pool'}; {'id': '380', 'type': 'argument_list', 'children': ['381']}; {'id': '381', 'type': 'keyword_argument', 'children': ['382', '383']}; {'id': '382', 'type': 'identifier', 'children': [], 'value': 'processes'}; {'id': '383', 'type': 'identifier', 'children': [], 'value': 'CPU_CNT'}; {'id': '384', 'type': 'identifier', 'children': [], 'value': 'map'}; {'id': '385', 'type': 'argument_list', 'children': ['386', '387']}; {'id': '386', 'type': 'identifier', 'children': [], 'value': 'f2format'}; {'id': '387', 'type': 'identifier', 'children': [], 'value': 'filelist'} | def main():
parser = get_parser()
args = parser.parse_args()
ARCHIVE = args.archive_path
archive = (not args.no_archive)
os.environ['F2FORMAT_VERSION'] = args.python
os.environ['F2FORMAT_ENCODING'] = args.encoding
def find(root):
flst = list()
temp = os.listdir(root)
for file in temp:
path = os.path.join(root, file)
if os.path.isdir(path):
flst.extend(find(path))
elif os.path.isfile(path):
flst.append(path)
elif os.path.islink(path):
continue
yield from flst
def rename(path):
stem, ext = os.path.splitext(path)
name = '%s-%s%s' % (stem, uuid.uuid4(), ext)
return os.path.join(ARCHIVE, name)
if archive:
os.makedirs(ARCHIVE, exist_ok=True)
filelist = list()
for path in sys.argv[1:]:
if os.path.isfile(path):
if archive:
dest = rename(path)
os.makedirs(os.path.dirname(dest), exist_ok=True)
shutil.copy(path, dest)
filelist.append(path)
if os.path.isdir(path):
if archive:
shutil.copytree(path, rename(path))
filelist.extend(find(path))
def ispy(file): return (os.path.isfile(file) and (os.path.splitext(file)[1] in ('.py', '.pyw')))
filelist = sorted(filter(ispy, filelist))
if len(filelist) == 0:
parser.error('argument PATH: no valid source file found')
if mp is None or CPU_CNT <= 1:
[f2format(filename) for filename in filelist]
else:
mp.Pool(processes=CPU_CNT).map(f2format, filelist) |
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{'id': '15', 'type': 'string', 'children': [], 'value': "'urlfetch/%s'"}; {'id': '16', 'type': 'identifier', 'children': [], 'value': '__version__'}; {'id': '17', 'type': 'if_statement', 'children': ['18', '23', '29']}; {'id': '18', 'type': 'call', 'children': ['19', '20']}; {'id': '19', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '20', 'type': 'argument_list', 'children': ['21', '22']}; {'id': '21', 'type': 'identifier', 'children': [], 'value': 'filename'}; {'id': '22', 'type': 'identifier', 'children': [], 'value': 'basestring'}; {'id': '23', 'type': 'block', 'children': ['24']}; {'id': '24', 'type': 'expression_statement', 'children': ['25']}; {'id': '25', 'type': 'assignment', 'children': ['26', '27']}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'filenames'}; {'id': '27', 'type': 'list', 'children': ['28'], 'value': '[filename]'}; {'id': '28', 'type': 'identifier', 'children': [], 'value': 'filename'}; {'id': '29', 'type': 'else_clause', 'children': ['30']}; {'id': '30', 'type': 'block', 'children': ['31']}; {'id': '31', 'type': 'expression_statement', 'children': ['32']}; {'id': '32', 'type': 'assignment', 'children': ['33', '34']}; {'id': '33', 'type': 'identifier', 'children': [], 'value': 'filenames'}; {'id': '34', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '35', 'type': 'if_statement', 'children': ['36', '39']}; {'id': '36', 'type': 'boolean_operator', 'children': ['37', '38'], 'value': 'and'}; {'id': '37', 'type': 'identifier', 'children': [], 'value': 'filename'}; {'id': '38', 'type': 'identifier', 'children': [], 'value': 'UAFILE'}; {'id': '39', 'type': 'block', 'children': ['40']}; {'id': '40', 'type': 'expression_statement', 'children': ['41']}; {'id': '41', 'type': 'call', 'children': ['42', '45']}; {'id': '42', 'type': 'attribute', 'children': ['43', '44']}; {'id': '43', 'type': 'identifier', 'children': [], 'value': 'filenames'}; {'id': '44', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '45', 'type': 'argument_list', 'children': ['46']}; {'id': '46', 'type': 'identifier', 'children': [], 'value': 'UAFILE'}; {'id': '47', 'type': 'for_statement', 'children': ['48', '49', '50', '86']}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'filename'}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'filenames'}; {'id': '50', 'type': 'block', 'children': ['51']}; {'id': '51', 'type': 'try_statement', 'children': ['52', '83']}; {'id': '52', 'type': 'block', 'children': ['53', '62']}; {'id': '53', 'type': 'expression_statement', 'children': ['54']}; {'id': '54', 'type': 'assignment', 'children': ['55', '56']}; {'id': '55', 'type': 'identifier', 'children': [], 'value': 'st'}; {'id': '56', 'type': 'call', 'children': ['57', '60']}; {'id': '57', 'type': 'attribute', 'children': ['58', '59']}; {'id': '58', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '59', 'type': 'identifier', 'children': [], 'value': 'stat'}; {'id': '60', 'type': 'argument_list', 'children': ['61']}; {'id': '61', 'type': 'identifier', 'children': [], 'value': 'filename'}; {'id': '62', 'type': 'if_statement', 'children': ['63', '81']}; {'id': '63', 'type': 'boolean_operator', 'children': ['64', '72'], 'value': 'and'}; {'id': '64', 'type': 'call', 'children': ['65', '68']}; {'id': '65', 'type': 'attribute', 'children': ['66', '67']}; {'id': '66', 'type': 'identifier', 'children': [], 'value': 'stat'}; {'id': '67', 'type': 'identifier', 'children': [], 'value': 'S_ISREG'}; {'id': '68', 'type': 'argument_list', 'children': ['69']}; {'id': '69', 'type': 'attribute', 'children': ['70', '71']}; {'id': '70', 'type': 'identifier', 'children': [], 'value': 'st'}; {'id': '71', 'type': 'identifier', 'children': [], 'value': 'st_mode'}; {'id': '72', 'type': 'call', 'children': ['73', '76']}; {'id': '73', 'type': 'attribute', 'children': ['74', '75']}; {'id': '74', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'access'}; {'id': '76', 'type': 'argument_list', 'children': ['77', '78']}; {'id': '77', 'type': 'identifier', 'children': [], 'value': 'filename'}; {'id': '78', 'type': 'attribute', 'children': ['79', '80']}; {'id': '79', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '80', 'type': 'identifier', 'children': [], 'value': 'R_OK'}; {'id': '81', 'type': 'block', 'children': ['82']}; {'id': '82', 'type': 'break_statement', 'children': []}; {'id': '83', 'type': 'except_clause', 'children': ['84']}; {'id': '84', 'type': 'block', 'children': ['85']}; {'id': '85', 'type': 'pass_statement', 'children': []}; {'id': '86', 'type': 'else_clause', 'children': ['87']}; {'id': '87', 'type': 'block', 'children': ['88']}; {'id': '88', 'type': 'return_statement', 'children': ['89']}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'default_ua'}; {'id': '90', 'type': 'with_statement', 'children': ['91', '101']}; {'id': '91', 'type': 'with_clause', 'children': ['92']}; {'id': '92', 'type': 'with_item', 'children': ['93']}; {'id': '93', 'type': 'as_pattern', 'children': ['94', '99']}; {'id': '94', 'type': 'call', 'children': ['95', '96']}; {'id': '95', 'type': 'identifier', 'children': [], 'value': 'open'}; {'id': '96', 'type': 'argument_list', 'children': ['97', '98']}; {'id': '97', 'type': 'identifier', 'children': [], 'value': 'filename'}; {'id': '98', 'type': 'string', 'children': [], 'value': "'rb'"}; {'id': '99', 'type': 'as_pattern_target', 'children': ['100']}; {'id': '100', 'type': 'identifier', 'children': [], 'value': 'f'}; {'id': '101', 'type': 'block', 'children': ['102', '108', '112', '120']}; {'id': '102', 'type': 'expression_statement', 'children': ['103']}; {'id': '103', 'type': 'assignment', 'children': ['104', '105']}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'filesize'}; {'id': '105', 'type': 'attribute', 'children': ['106', '107']}; {'id': '106', 'type': 'identifier', 'children': [], 'value': 'st'}; {'id': '107', 'type': 'identifier', 'children': [], 'value': 'st_size'}; {'id': '108', 'type': 'expression_statement', 'children': ['109']}; {'id': '109', 'type': 'assignment', 'children': ['110', '111']}; {'id': '110', 'type': 'identifier', 'children': [], 'value': 'pos'}; {'id': '111', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '112', 'type': 'expression_statement', 'children': ['113']}; {'id': '113', 'type': 'assignment', 'children': ['114', '115']}; {'id': '114', 'type': 'identifier', 'children': [], 'value': 'r'}; {'id': '115', 'type': 'call', 'children': ['116', '119']}; {'id': '116', 'type': 'attribute', 'children': ['117', '118']}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'random'}; {'id': '118', 'type': 'identifier', 'children': [], 'value': 'Random'}; {'id': '119', 'type': 'argument_list', 'children': []}; {'id': '120', 'type': 'for_statement', 'children': ['121', '122', '126']}; {'id': '121', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '122', 'type': 'call', 'children': ['123', '124']}; {'id': '123', 'type': 'identifier', 'children': [], 'value': 'range'}; {'id': '124', 'type': 'argument_list', 'children': ['125']}; {'id': '125', 'type': 'integer', 'children': [], 'value': '3'}; {'id': '126', 'type': 'block', 'children': ['127', '137', '141', '148', '154', '162', '190', '198']}; {'id': '127', 'type': 'expression_statement', 'children': ['128']}; {'id': '128', 'type': 'augmented_assignment', 'children': ['129', '130'], 'value': '+='}; {'id': '129', 'type': 'identifier', 'children': [], 'value': 'pos'}; {'id': '130', 'type': 'call', 'children': ['131', '134']}; {'id': '131', 'type': 'attribute', 'children': ['132', '133']}; {'id': '132', 'type': 'identifier', 'children': [], 'value': 'r'}; {'id': '133', 'type': 'identifier', 'children': [], 'value': 'randint'}; {'id': '134', 'type': 'argument_list', 'children': ['135', '136']}; {'id': '135', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '136', 'type': 'identifier', 'children': [], 'value': 'filesize'}; {'id': '137', 'type': 'expression_statement', 'children': ['138']}; {'id': '138', 'type': 'augmented_assignment', 'children': ['139', '140'], 'value': '%='}; {'id': '139', 'type': 'identifier', 'children': [], 'value': 'pos'}; {'id': '140', 'type': 'identifier', 'children': [], 'value': 'filesize'}; {'id': '141', 'type': 'expression_statement', 'children': ['142']}; {'id': '142', 'type': 'call', 'children': ['143', '146']}; {'id': '143', 'type': 'attribute', 'children': ['144', '145']}; {'id': '144', 'type': 'identifier', 'children': [], 'value': 'f'}; {'id': '145', 'type': 'identifier', 'children': [], 'value': 'seek'}; {'id': '146', 'type': 'argument_list', 'children': ['147']}; {'id': '147', 'type': 'identifier', 'children': [], 'value': 'pos'}; {'id': '148', 'type': 'expression_statement', 'children': ['149']}; {'id': '149', 'type': 'call', 'children': ['150', '153']}; {'id': '150', 'type': 'attribute', 'children': ['151', '152']}; {'id': '151', 'type': 'identifier', 'children': [], 'value': 'f'}; {'id': '152', 'type': 'identifier', 'children': [], 'value': 'readline'}; {'id': '153', 'type': 'argument_list', 'children': []}; {'id': '154', 'type': 'expression_statement', 'children': ['155']}; {'id': '155', 'type': 'assignment', 'children': ['156', '157']}; {'id': '156', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '157', 'type': 'call', 'children': ['158', '161']}; {'id': '158', 'type': 'attribute', 'children': ['159', '160']}; {'id': '159', 'type': 'identifier', 'children': [], 'value': 'f'}; {'id': '160', 'type': 'identifier', 'children': [], 'value': 'readline'}; {'id': '161', 'type': 'argument_list', 'children': []}; {'id': '162', 'type': 'if_statement', 'children': ['163', '165']}; {'id': '163', 'type': 'not_operator', 'children': ['164']}; {'id': '164', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '165', 'type': 'block', 'children': ['166']}; {'id': '166', 'type': 'if_statement', 'children': ['167', '174']}; {'id': '167', 'type': 'comparison_operator', 'children': ['168', '173'], 'value': '=='}; {'id': '168', 'type': 'call', 'children': ['169', '172']}; {'id': '169', 'type': 'attribute', 'children': ['170', '171']}; {'id': '170', 'type': 'identifier', 'children': [], 'value': 'f'}; {'id': '171', 'type': 'identifier', 'children': [], 'value': 'tell'}; {'id': '172', 'type': 'argument_list', 'children': []}; {'id': '173', 'type': 'identifier', 'children': [], 'value': 'filesize'}; {'id': '174', 'type': 'block', 'children': ['175', '182']}; {'id': '175', 'type': 'expression_statement', 'children': ['176']}; {'id': '176', 'type': 'call', 'children': ['177', '180']}; {'id': '177', 'type': 'attribute', 'children': ['178', '179']}; {'id': '178', 'type': 'identifier', 'children': [], 'value': 'f'}; {'id': '179', 'type': 'identifier', 'children': [], 'value': 'seek'}; {'id': '180', 'type': 'argument_list', 'children': ['181']}; {'id': '181', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '182', 'type': 'expression_statement', 'children': ['183']}; {'id': '183', 'type': 'assignment', 'children': ['184', '185']}; {'id': '184', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '185', 'type': 'call', 'children': ['186', '189']}; {'id': '186', 'type': 'attribute', 'children': ['187', '188']}; {'id': '187', 'type': 'identifier', 'children': [], 'value': 'f'}; {'id': '188', 'type': 'identifier', 'children': [], 'value': 'readline'}; {'id': '189', 'type': 'argument_list', 'children': []}; {'id': '190', 'type': 'expression_statement', 'children': ['191']}; {'id': '191', 'type': 'assignment', 'children': ['192', '193']}; {'id': '192', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '193', 'type': 'call', 'children': ['194', '197']}; {'id': '194', 'type': 'attribute', 'children': ['195', '196']}; {'id': '195', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '196', 'type': 'identifier', 'children': [], 'value': 'strip'}; {'id': '197', 'type': 'argument_list', 'children': []}; {'id': '198', 'type': 'ERROR', 'children': ['199', '200', '203', '204']}; {'id': '199', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '200', 'type': 'subscript', 'children': ['201', '202']}; {'id': '201', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '202', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '203', 'type': 'identifier', 'children': [], 'value': 'return'}; {'id': '204', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '205', 'type': 'return_statement', 'children': ['206']}; {'id': '206', 'type': 'identifier', 'children': [], 'value': 'default_ua'} | def random_useragent(filename=True):
import random
default_ua = 'urlfetch/%s' % __version__
if isinstance(filename, basestring):
filenames = [filename]
else:
filenames = []
if filename and UAFILE:
filenames.append(UAFILE)
for filename in filenames:
try:
st = os.stat(filename)
if stat.S_ISREG(st.st_mode) and os.access(filename, os.R_OK):
break
except:
pass
else:
return default_ua
with open(filename, 'rb') as f:
filesize = st.st_size
pos = 0
r = random.Random()
for i in range(3):
pos += r.randint(0, filesize)
pos %= filesize
f.seek(pos)
f.readline()
line = f.readline()
if not line:
if f.tell() == filesize:
f.seek(0)
line = f.readline()
line = line.strip()
if line and line[0] != '
return line
return default_ua |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '6']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'encode_multipart'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'data'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'files'}; {'id': '6', 'type': 'block', 'children': ['7', '13', '19', '28', '39', '153', '329', '343', '349']}; {'id': '7', 'type': 'expression_statement', 'children': ['8']}; {'id': '8', 'type': 'assignment', 'children': ['9', '10']}; {'id': '9', 'type': 'identifier', 'children': [], 'value': 'body'}; {'id': '10', 'type': 'call', 'children': ['11', '12']}; {'id': '11', 'type': 'identifier', 'children': [], 'value': 'BytesIO'}; {'id': '12', 'type': 'argument_list', 'children': []}; {'id': '13', 'type': 'expression_statement', 'children': ['14']}; {'id': '14', 'type': 'assignment', 'children': ['15', '16']}; {'id': '15', 'type': 'identifier', 'children': [], 'value': 'boundary'}; {'id': '16', 'type': 'call', 'children': ['17', '18']}; {'id': '17', 'type': 'identifier', 'children': [], 'value': 'choose_boundary'}; {'id': '18', 'type': 'argument_list', 'children': []}; {'id': '19', 'type': 'expression_statement', 'children': ['20']}; {'id': '20', 'type': 'assignment', 'children': ['21', '22']}; {'id': '21', 'type': 'identifier', 'children': [], 'value': 'part_boundary'}; {'id': '22', 'type': 'call', 'children': ['23', '24']}; {'id': '23', 'type': 'identifier', 'children': [], 'value': 'b'}; {'id': '24', 'type': 'argument_list', 'children': ['25']}; {'id': '25', 'type': 'binary_operator', 'children': ['26', '27'], 'value': '%'}; {'id': '26', 'type': 'string', 'children': [], 'value': "'--%s\\r\\n'"}; {'id': '27', 'type': 'identifier', 'children': [], 'value': 'boundary'}; {'id': '28', 'type': 'expression_statement', 'children': ['29']}; {'id': '29', 'type': 'assignment', 'children': ['30', '31']}; {'id': '30', 'type': 'identifier', 'children': [], 'value': 'writer'}; {'id': '31', 'type': 'subscript', 'children': ['32', '38']}; {'id': '32', 'type': 'call', 'children': ['33', '36']}; {'id': '33', 'type': 'attribute', 'children': ['34', '35']}; {'id': '34', 'type': 'identifier', 'children': [], 'value': 'codecs'}; {'id': '35', 'type': 'identifier', 'children': [], 'value': 'lookup'}; {'id': '36', 'type': 'argument_list', 'children': ['37']}; {'id': '37', 'type': 'string', 'children': [], 'value': "'utf-8'"}; {'id': '38', 'type': 'integer', 'children': [], 'value': '3'}; {'id': '39', 'type': 'if_statement', 'children': ['40', '45']}; {'id': '40', 'type': 'call', 'children': ['41', '42']}; {'id': '41', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '42', 'type': 'argument_list', 'children': ['43', '44']}; {'id': '43', 'type': 'identifier', 'children': [], 'value': 'data'}; {'id': '44', 'type': 'identifier', 'children': [], 'value': 'dict'}; {'id': '45', 'type': 'block', 'children': ['46']}; {'id': '46', 'type': 'for_statement', 'children': ['47', '50', '55']}; {'id': '47', 'type': 'pattern_list', 'children': ['48', '49']}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'values'}; {'id': '50', 'type': 'call', 'children': ['51', '54']}; {'id': '51', 'type': 'attribute', 'children': ['52', '53']}; {'id': '52', 'type': 'identifier', 'children': [], 'value': 'data'}; {'id': '53', 'type': 'identifier', 'children': [], 'value': 'items'}; {'id': '54', 'type': 'argument_list', 'children': []}; {'id': '55', 'type': 'block', 'children': ['56', '72']}; {'id': '56', 'type': 'if_statement', 'children': ['57', '66']}; {'id': '57', 'type': 'not_operator', 'children': ['58']}; {'id': '58', 'type': 'call', 'children': ['59', '60']}; {'id': '59', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '60', 'type': 'argument_list', 'children': ['61', '62']}; {'id': '61', 'type': 'identifier', 'children': [], 'value': 'values'}; {'id': '62', 'type': 'tuple', 'children': ['63', '64', '65']}; {'id': '63', 'type': 'identifier', 'children': [], 'value': 'list'}; {'id': '64', 'type': 'identifier', 'children': [], 'value': 'tuple'}; {'id': '65', 'type': 'identifier', 'children': [], 'value': 'set'}; {'id': '66', 'type': 'block', 'children': ['67']}; {'id': '67', 'type': 'expression_statement', 'children': ['68']}; {'id': '68', 'type': 'assignment', 'children': ['69', '70']}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'values'}; {'id': '70', 'type': 'tuple', 'children': ['71']}; {'id': '71', 'type': 'identifier', 'children': [], 'value': 'values'}; {'id': '72', 'type': 'for_statement', 'children': ['73', '74', '75']}; {'id': '73', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '74', 'type': 'identifier', 'children': [], 'value': 'values'}; {'id': '75', 'type': 'block', 'children': ['76', '83', '97', '104', '118', '146']}; {'id': '76', 'type': 'expression_statement', 'children': ['77']}; {'id': '77', 'type': 'call', 'children': ['78', '81']}; {'id': '78', 'type': 'attribute', 'children': ['79', '80']}; {'id': '79', 'type': 'identifier', 'children': [], 'value': 'body'}; {'id': '80', 'type': 'identifier', 'children': [], 'value': 'write'}; {'id': '81', 'type': 'argument_list', 'children': ['82']}; {'id': '82', 'type': 'identifier', 'children': [], 'value': 'part_boundary'}; {'id': '83', 'type': 'expression_statement', 'children': ['84']}; {'id': '84', 'type': 'call', 'children': ['85', '91']}; {'id': '85', 'type': 'attribute', 'children': ['86', '90']}; {'id': '86', 'type': 'call', 'children': ['87', '88']}; {'id': '87', 'type': 'identifier', 'children': [], 'value': 'writer'}; {'id': '88', 'type': 'argument_list', 'children': ['89']}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'body'}; {'id': '90', 'type': 'identifier', 'children': [], 'value': 'write'}; {'id': '91', 'type': 'argument_list', 'children': ['92']}; {'id': '92', 'type': 'binary_operator', 'children': ['93', '96'], 'value': '%'}; {'id': '93', 'type': 'concatenated_string', 'children': ['94', '95']}; {'id': '94', 'type': 'string', 'children': [], 'value': "'Content-Disposition: form-data; '"}; {'id': '95', 'type': 'string', 'children': [], 'value': '\'name="%s"\\r\\n\''}; {'id': '96', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '97', 'type': 'expression_statement', 'children': ['98']}; {'id': '98', 'type': 'call', 'children': ['99', '102']}; {'id': '99', 'type': 'attribute', 'children': ['100', '101']}; {'id': '100', 'type': 'identifier', 'children': [], 'value': 'body'}; {'id': '101', 'type': 'identifier', 'children': [], 'value': 'write'}; {'id': '102', 'type': 'argument_list', 'children': ['103']}; {'id': '103', 'type': 'string', 'children': [], 'value': "b'Content-Type: text/plain\\r\\n\\r\\n'"}; {'id': '104', 'type': 'if_statement', 'children': ['105', '110']}; {'id': '105', 'type': 'call', 'children': ['106', '107']}; {'id': '106', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '107', 'type': 'argument_list', 'children': ['108', '109']}; {'id': '108', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '109', 'type': 'identifier', 'children': [], 'value': 'int'}; {'id': '110', 'type': 'block', 'children': ['111']}; {'id': '111', 'type': 'expression_statement', 'children': ['112']}; {'id': '112', 'type': 'assignment', 'children': ['113', '114']}; {'id': '113', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '114', 'type': 'call', 'children': ['115', '116']}; {'id': '115', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '116', 'type': 'argument_list', 'children': ['117']}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '118', 'type': 'if_statement', 'children': ['119', '126', '137']}; {'id': '119', 'type': 'boolean_operator', 'children': ['120', '121'], 'value': 'and'}; {'id': '120', 'type': 'identifier', 'children': [], 'value': 'py3k'}; {'id': '121', 'type': 'call', 'children': ['122', '123']}; {'id': '122', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '123', 'type': 'argument_list', 'children': ['124', '125']}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '125', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '126', 'type': 'block', 'children': ['127']}; {'id': '127', 'type': 'expression_statement', 'children': ['128']}; {'id': '128', 'type': 'call', 'children': ['129', '135']}; {'id': '129', 'type': 'attribute', 'children': ['130', '134']}; {'id': '130', 'type': 'call', 'children': ['131', '132']}; {'id': '131', 'type': 'identifier', 'children': [], 'value': 'writer'}; {'id': '132', 'type': 'argument_list', 'children': ['133']}; {'id': '133', 'type': 'identifier', 'children': [], 'value': 'body'}; {'id': '134', 'type': 'identifier', 'children': [], 'value': 'write'}; {'id': '135', 'type': 'argument_list', 'children': ['136']}; {'id': '136', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '137', 'type': 'else_clause', 'children': ['138']}; {'id': '138', 'type': 'block', 'children': ['139']}; {'id': '139', 'type': 'expression_statement', 'children': ['140']}; {'id': '140', 'type': 'call', 'children': ['141', '144']}; {'id': '141', 'type': 'attribute', 'children': ['142', '143']}; {'id': '142', 'type': 'identifier', 'children': [], 'value': 'body'}; {'id': '143', 'type': 'identifier', 'children': [], 'value': 'write'}; {'id': '144', 'type': 'argument_list', 'children': ['145']}; {'id': '145', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '146', 'type': 'expression_statement', 'children': ['147']}; {'id': '147', 'type': 'call', 'children': ['148', '151']}; {'id': '148', 'type': 'attribute', 'children': ['149', '150']}; {'id': '149', 'type': 'identifier', 'children': [], 'value': 'body'}; {'id': '150', 'type': 'identifier', 'children': [], 'value': 'write'}; {'id': '151', 'type': 'argument_list', 'children': ['152']}; {'id': '152', 'type': 'string', 'children': [], 'value': "b'\\r\\n'"}; {'id': '153', 'type': 'for_statement', 'children': ['154', '157', '162']}; {'id': '154', 'type': 'pattern_list', 'children': ['155', '156']}; {'id': '155', 'type': 'identifier', 'children': [], 'value': 'fieldname'}; {'id': '156', 'type': 'identifier', 'children': [], 'value': 'f'}; {'id': '157', 'type': 'call', 'children': ['158', '161']}; {'id': '158', 'type': 'attribute', 'children': ['159', '160']}; {'id': '159', 'type': 'identifier', 'children': [], 'value': 'files'}; {'id': '160', 'type': 'identifier', 'children': [], 'value': 'items'}; {'id': '161', 'type': 'argument_list', 'children': []}; {'id': '162', 'type': 'block', 'children': ['163', '203', '238', '245', '294', '322']}; {'id': '163', 'type': 'if_statement', 'children': ['164', '169', '176', '192']}; {'id': '164', 'type': 'call', 'children': ['165', '166']}; {'id': '165', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '166', 'type': 'argument_list', 'children': ['167', '168']}; {'id': '167', 'type': 'identifier', 'children': [], 'value': 'f'}; {'id': '168', 'type': 'identifier', 'children': [], 'value': 'tuple'}; {'id': '169', 'type': 'block', 'children': ['170']}; {'id': '170', 'type': 'expression_statement', 'children': ['171']}; {'id': '171', 'type': 'assignment', 'children': ['172', '175']}; {'id': '172', 'type': 'pattern_list', 'children': ['173', '174']}; {'id': '173', 'type': 'identifier', 'children': [], 'value': 'filename'}; {'id': '174', 'type': 'identifier', 'children': [], 'value': 'f'}; {'id': '175', 'type': 'identifier', 'children': [], 'value': 'f'}; {'id': '176', 'type': 'elif_clause', 'children': ['177', '182']}; {'id': '177', 'type': 'call', 'children': ['178', '179']}; {'id': '178', 'type': 'identifier', 'children': [], 'value': 'hasattr'}; {'id': '179', 'type': 'argument_list', 'children': ['180', '181']}; {'id': '180', 'type': 'identifier', 'children': [], 'value': 'f'}; {'id': '181', 'type': 'string', 'children': [], 'value': "'name'"}; {'id': '182', 'type': 'block', 'children': ['183']}; {'id': '183', 'type': 'expression_statement', 'children': ['184']}; {'id': '184', 'type': 'assignment', 'children': ['185', '186']}; {'id': '185', 'type': 'identifier', 'children': [], 'value': 'filename'}; {'id': '186', 'type': 'call', 'children': ['187', '188']}; {'id': '187', 'type': 'identifier', 'children': [], 'value': 'basename'}; {'id': '188', 'type': 'argument_list', 'children': ['189']}; {'id': '189', 'type': 'attribute', 'children': ['190', '191']}; {'id': '190', 'type': 'identifier', 'children': [], 'value': 'f'}; {'id': '191', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '192', 'type': 'else_clause', 'children': ['193']}; {'id': '193', 'type': 'block', 'children': ['194', '198']}; {'id': '194', 'type': 'expression_statement', 'children': ['195']}; {'id': '195', 'type': 'assignment', 'children': ['196', '197']}; {'id': '196', 'type': 'identifier', 'children': [], 'value': 'filename'}; {'id': '197', 'type': 'None', 'children': []}; {'id': '198', 'type': 'raise_statement', 'children': ['199']}; {'id': '199', 'type': 'call', 'children': ['200', '201']}; {'id': '200', 'type': 'identifier', 'children': [], 'value': 'UrlfetchException'}; {'id': '201', 'type': 'argument_list', 'children': ['202']}; {'id': '202', 'type': 'string', 'children': [], 'value': '"file must has filename"'}; {'id': '203', 'type': 'if_statement', 'children': ['204', '209', '218', '229']}; {'id': '204', 'type': 'call', 'children': ['205', '206']}; {'id': '205', 'type': 'identifier', 'children': [], 'value': 'hasattr'}; {'id': '206', 'type': 'argument_list', 'children': ['207', '208']}; {'id': '207', 'type': 'identifier', 'children': [], 'value': 'f'}; {'id': '208', 'type': 'string', 'children': [], 'value': "'read'"}; {'id': '209', 'type': 'block', 'children': ['210']}; {'id': '210', 'type': 'expression_statement', 'children': ['211']}; {'id': '211', 'type': 'assignment', 'children': ['212', '213']}; {'id': '212', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '213', 'type': 'call', 'children': ['214', '217']}; {'id': '214', 'type': 'attribute', 'children': ['215', '216']}; {'id': '215', 'type': 'identifier', 'children': [], 'value': 'f'}; {'id': '216', 'type': 'identifier', 'children': [], 'value': 'read'}; {'id': '217', 'type': 'argument_list', 'children': []}; {'id': '218', 'type': 'elif_clause', 'children': ['219', '224']}; {'id': '219', 'type': 'call', 'children': ['220', '221']}; {'id': '220', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '221', 'type': 'argument_list', 'children': ['222', '223']}; {'id': '222', 'type': 'identifier', 'children': [], 'value': 'f'}; {'id': '223', 'type': 'identifier', 'children': [], 'value': 'basestring'}; {'id': '224', 'type': 'block', 'children': ['225']}; {'id': '225', 'type': 'expression_statement', 'children': ['226']}; {'id': '226', 'type': 'assignment', 'children': ['227', '228']}; {'id': '227', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '228', 'type': 'identifier', 'children': [], 'value': 'f'}; {'id': '229', 'type': 'else_clause', 'children': ['230']}; {'id': '230', 'type': 'block', 'children': ['231']}; {'id': '231', 'type': 'expression_statement', 'children': ['232']}; {'id': '232', 'type': 'assignment', 'children': ['233', '234']}; {'id': '233', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '234', 'type': 'call', 'children': ['235', '236']}; {'id': '235', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '236', 'type': 'argument_list', 'children': ['237']}; {'id': '237', 'type': 'identifier', 'children': [], 'value': 'f'}; {'id': '238', 'type': 'expression_statement', 'children': ['239']}; {'id': '239', 'type': 'call', 'children': ['240', '243']}; {'id': '240', 'type': 'attribute', 'children': ['241', '242']}; {'id': '241', 'type': 'identifier', 'children': [], 'value': 'body'}; {'id': '242', 'type': 'identifier', 'children': [], 'value': 'write'}; {'id': '243', 'type': 'argument_list', 'children': ['244']}; {'id': '244', 'type': 'identifier', 'children': [], 'value': 'part_boundary'}; {'id': '245', 'type': 'if_statement', 'children': ['246', '247', '271']}; {'id': '246', 'type': 'identifier', 'children': [], 'value': 'filename'}; {'id': '247', 'type': 'block', 'children': ['248', '264']}; {'id': '248', 'type': 'expression_statement', 'children': ['249']}; {'id': '249', 'type': 'call', 'children': ['250', '256']}; {'id': '250', 'type': 'attribute', 'children': ['251', '255']}; {'id': '251', 'type': 'call', 'children': ['252', '253']}; {'id': '252', 'type': 'identifier', 'children': [], 'value': 'writer'}; {'id': '253', 'type': 'argument_list', 'children': ['254']}; {'id': '254', 'type': 'identifier', 'children': [], 'value': 'body'}; {'id': '255', 'type': 'identifier', 'children': [], 'value': 'write'}; {'id': '256', 'type': 'argument_list', 'children': ['257']}; {'id': '257', 'type': 'binary_operator', 'children': ['258', '261'], 'value': '%'}; {'id': '258', 'type': 'concatenated_string', 'children': ['259', '260']}; {'id': '259', 'type': 'string', 'children': [], 'value': '\'Content-Disposition: form-data; name="%s"; \''}; {'id': '260', 'type': 'string', 'children': [], 'value': '\'filename="%s"\\r\\n\''}; {'id': '261', 'type': 'tuple', 'children': ['262', '263']}; {'id': '262', 'type': 'identifier', 'children': [], 'value': 'fieldname'}; {'id': '263', 'type': 'identifier', 'children': [], 'value': 'filename'}; {'id': '264', 'type': 'expression_statement', 'children': ['265']}; {'id': '265', 'type': 'call', 'children': ['266', '269']}; {'id': '266', 'type': 'attribute', 'children': ['267', '268']}; {'id': '267', 'type': 'identifier', 'children': [], 'value': 'body'}; {'id': '268', 'type': 'identifier', 'children': [], 'value': 'write'}; {'id': '269', 'type': 'argument_list', 'children': ['270']}; {'id': '270', 'type': 'string', 'children': [], 'value': "b'Content-Type: application/octet-stream\\r\\n\\r\\n'"}; {'id': '271', 'type': 'else_clause', 'children': ['272']}; {'id': '272', 'type': 'block', 'children': ['273', '287']}; {'id': '273', 'type': 'expression_statement', 'children': ['274']}; {'id': '274', 'type': 'call', 'children': ['275', '281']}; {'id': '275', 'type': 'attribute', 'children': ['276', '280']}; {'id': '276', 'type': 'call', 'children': ['277', '278']}; {'id': '277', 'type': 'identifier', 'children': [], 'value': 'writer'}; {'id': '278', 'type': 'argument_list', 'children': ['279']}; {'id': '279', 'type': 'identifier', 'children': [], 'value': 'body'}; {'id': '280', 'type': 'identifier', 'children': [], 'value': 'write'}; {'id': '281', 'type': 'argument_list', 'children': ['282']}; {'id': '282', 'type': 'binary_operator', 'children': ['283', '286'], 'value': '%'}; {'id': '283', 'type': 'concatenated_string', 'children': ['284', '285']}; {'id': '284', 'type': 'string', 'children': [], 'value': '\'Content-Disposition: form-data; name="%s"\''}; {'id': '285', 'type': 'string', 'children': [], 'value': "'\\r\\n'"}; {'id': '286', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '287', 'type': 'expression_statement', 'children': ['288']}; {'id': '288', 'type': 'call', 'children': ['289', '292']}; {'id': '289', 'type': 'attribute', 'children': ['290', '291']}; {'id': '290', 'type': 'identifier', 'children': [], 'value': 'body'}; {'id': '291', 'type': 'identifier', 'children': [], 'value': 'write'}; {'id': '292', 'type': 'argument_list', 'children': ['293']}; {'id': '293', 'type': 'string', 'children': [], 'value': "b'Content-Type: text/plain\\r\\n\\r\\n'"}; {'id': '294', 'type': 'if_statement', 'children': ['295', '302', '313']}; {'id': '295', 'type': 'boolean_operator', 'children': ['296', '297'], 'value': 'and'}; {'id': '296', 'type': 'identifier', 'children': [], 'value': 'py3k'}; {'id': '297', 'type': 'call', 'children': ['298', '299']}; {'id': '298', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '299', 'type': 'argument_list', 'children': ['300', '301']}; {'id': '300', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '301', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '302', 'type': 'block', 'children': ['303']}; {'id': '303', 'type': 'expression_statement', 'children': ['304']}; {'id': '304', 'type': 'call', 'children': ['305', '311']}; {'id': '305', 'type': 'attribute', 'children': ['306', '310']}; {'id': '306', 'type': 'call', 'children': ['307', '308']}; {'id': '307', 'type': 'identifier', 'children': [], 'value': 'writer'}; {'id': '308', 'type': 'argument_list', 'children': ['309']}; {'id': '309', 'type': 'identifier', 'children': [], 'value': 'body'}; {'id': '310', 'type': 'identifier', 'children': [], 'value': 'write'}; {'id': '311', 'type': 'argument_list', 'children': ['312']}; {'id': '312', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '313', 'type': 'else_clause', 'children': ['314']}; {'id': '314', 'type': 'block', 'children': ['315']}; {'id': '315', 'type': 'expression_statement', 'children': ['316']}; {'id': '316', 'type': 'call', 'children': ['317', '320']}; {'id': '317', 'type': 'attribute', 'children': ['318', '319']}; {'id': '318', 'type': 'identifier', 'children': [], 'value': 'body'}; {'id': '319', 'type': 'identifier', 'children': [], 'value': 'write'}; {'id': '320', 'type': 'argument_list', 'children': ['321']}; {'id': '321', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '322', 'type': 'expression_statement', 'children': ['323']}; {'id': '323', 'type': 'call', 'children': ['324', '327']}; {'id': '324', 'type': 'attribute', 'children': ['325', '326']}; {'id': '325', 'type': 'identifier', 'children': [], 'value': 'body'}; {'id': '326', 'type': 'identifier', 'children': [], 'value': 'write'}; {'id': '327', 'type': 'argument_list', 'children': ['328']}; {'id': '328', 'type': 'string', 'children': [], 'value': "b'\\r\\n'"}; {'id': '329', 'type': 'expression_statement', 'children': ['330']}; {'id': '330', 'type': 'call', 'children': ['331', '334']}; {'id': '331', 'type': 'attribute', 'children': ['332', '333']}; {'id': '332', 'type': 'identifier', 'children': [], 'value': 'body'}; {'id': '333', 'type': 'identifier', 'children': [], 'value': 'write'}; {'id': '334', 'type': 'argument_list', 'children': ['335']}; {'id': '335', 'type': 'call', 'children': ['336', '337']}; {'id': '336', 'type': 'identifier', 'children': [], 'value': 'b'}; {'id': '337', 'type': 'argument_list', 'children': ['338']}; {'id': '338', 'type': 'binary_operator', 'children': ['339', '342'], 'value': '+'}; {'id': '339', 'type': 'binary_operator', 'children': ['340', '341'], 'value': '+'}; {'id': '340', 'type': 'string', 'children': [], 'value': "'--'"}; {'id': '341', 'type': 'identifier', 'children': [], 'value': 'boundary'}; {'id': '342', 'type': 'string', 'children': [], 'value': "'--\\r\\n'"}; {'id': '343', 'type': 'expression_statement', 'children': ['344']}; {'id': '344', 'type': 'assignment', 'children': ['345', '346']}; {'id': '345', 'type': 'identifier', 'children': [], 'value': 'content_type'}; {'id': '346', 'type': 'binary_operator', 'children': ['347', '348'], 'value': '%'}; {'id': '347', 'type': 'string', 'children': [], 'value': "'multipart/form-data; boundary=%s'"}; {'id': '348', 'type': 'identifier', 'children': [], 'value': 'boundary'}; {'id': '349', 'type': 'return_statement', 'children': ['350']}; {'id': '350', 'type': 'expression_list', 'children': ['351', '352']}; {'id': '351', 'type': 'identifier', 'children': [], 'value': 'content_type'}; {'id': '352', 'type': 'call', 'children': ['353', '356']}; {'id': '353', 'type': 'attribute', 'children': ['354', '355']}; {'id': '354', 'type': 'identifier', 'children': [], 'value': 'body'}; {'id': '355', 'type': 'identifier', 'children': [], 'value': 'getvalue'}; {'id': '356', 'type': 'argument_list', 'children': []} | def encode_multipart(data, files):
body = BytesIO()
boundary = choose_boundary()
part_boundary = b('--%s\r\n' % boundary)
writer = codecs.lookup('utf-8')[3]
if isinstance(data, dict):
for name, values in data.items():
if not isinstance(values, (list, tuple, set)):
values = (values, )
for value in values:
body.write(part_boundary)
writer(body).write('Content-Disposition: form-data; '
'name="%s"\r\n' % name)
body.write(b'Content-Type: text/plain\r\n\r\n')
if isinstance(value, int):
value = str(value)
if py3k and isinstance(value, str):
writer(body).write(value)
else:
body.write(value)
body.write(b'\r\n')
for fieldname, f in files.items():
if isinstance(f, tuple):
filename, f = f
elif hasattr(f, 'name'):
filename = basename(f.name)
else:
filename = None
raise UrlfetchException("file must has filename")
if hasattr(f, 'read'):
value = f.read()
elif isinstance(f, basestring):
value = f
else:
value = str(f)
body.write(part_boundary)
if filename:
writer(body).write('Content-Disposition: form-data; name="%s"; '
'filename="%s"\r\n' % (fieldname, filename))
body.write(b'Content-Type: application/octet-stream\r\n\r\n')
else:
writer(body).write('Content-Disposition: form-data; name="%s"'
'\r\n' % name)
body.write(b'Content-Type: text/plain\r\n\r\n')
if py3k and isinstance(value, str):
writer(body).write(value)
else:
body.write(value)
body.write(b'\r\n')
body.write(b('--' + boundary + '--\r\n'))
content_type = 'multipart/form-data; boundary=%s' % boundary
return content_type, body.getvalue() |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'assemble'}; {'id': '3', 'type': 'parameters', 'children': ['4']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'code'}; {'id': '5', 'type': 'block', 'children': ['6', '10', '158', '162', '166', '195', '199']}; {'id': '6', 'type': 'expression_statement', 'children': ['7']}; {'id': '7', 'type': 'assignment', 'children': ['8', '9']}; {'id': '8', 'type': 'identifier', 'children': [], 'value': 'final'}; {'id': '9', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '10', 'type': 'for_statement', 'children': ['11', '12', '13']}; {'id': '11', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'code'}; {'id': '13', 'type': 'block', 'children': ['14', '29', '43', '51', '55', '145']}; {'id': '14', 'type': 'if_statement', 'children': ['15', '20']}; {'id': '15', 'type': 'call', 'children': ['16', '17']}; {'id': '16', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '17', 'type': 'argument_list', 'children': ['18', '19']}; {'id': '18', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '19', 'type': 'identifier', 'children': [], 'value': 'Label'}; {'id': '20', 'type': 'block', 'children': ['21', '28']}; {'id': '21', 'type': 'expression_statement', 'children': ['22']}; {'id': '22', 'type': 'call', 'children': ['23', '26']}; {'id': '23', 'type': 'attribute', 'children': ['24', '25']}; {'id': '24', 'type': 'identifier', 'children': [], 'value': 'final'}; {'id': '25', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '26', 'type': 'argument_list', 'children': ['27']}; {'id': '27', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '28', 'type': 'continue_statement', 'children': []}; {'id': '29', 'type': 'expression_statement', 'children': ['30']}; {'id': '30', 'type': 'assignment', 'children': ['31', '34']}; {'id': '31', 'type': 'pattern_list', 'children': ['32', '33']}; {'id': '32', 'type': 'identifier', 'children': [], 'value': 'mnemonic'}; {'id': '33', 'type': 'identifier', 'children': [], 'value': 'operands'}; {'id': '34', 'type': 'expression_list', 'children': ['35', '38']}; {'id': '35', 'type': 'subscript', 'children': ['36', '37']}; {'id': '36', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '37', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '38', 'type': 'subscript', 'children': ['39', '40']}; {'id': '39', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '40', 'type': 'slice', 'children': ['41', '42']}; {'id': '41', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '42', 'type': 'colon', 'children': []}; {'id': '43', 'type': 'expression_statement', 'children': ['44']}; {'id': '44', 'type': 'assignment', 'children': ['45', '46']}; {'id': '45', 'type': 'identifier', 'children': [], 'value': 'operand_fmts'}; {'id': '46', 'type': 'subscript', 'children': ['47', '50']}; {'id': '47', 'type': 'subscript', 'children': ['48', '49']}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'opcode_table'}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'mnemonic'}; {'id': '50', 'type': 'string', 'children': [], 'value': "'operands'"}; {'id': '51', 'type': 'expression_statement', 'children': ['52']}; {'id': '52', 'type': 'assignment', 'children': ['53', '54']}; {'id': '53', 'type': 'identifier', 'children': [], 'value': 'final_operands'}; {'id': '54', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '55', 'type': 'for_statement', 'children': ['56', '59', '63']}; {'id': '56', 'type': 'pattern_list', 'children': ['57', '58']}; {'id': '57', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '58', 'type': 'identifier', 'children': [], 'value': 'operand'}; {'id': '59', 'type': 'call', 'children': ['60', '61']}; {'id': '60', 'type': 'identifier', 'children': [], 'value': 'enumerate'}; {'id': '61', 'type': 'argument_list', 'children': ['62']}; {'id': '62', 'type': 'identifier', 'children': [], 'value': 'operands'}; {'id': '63', 'type': 'block', 'children': ['64']}; {'id': '64', 'type': 'if_statement', 'children': ['65', '70', '78', '100', '114', '128']}; {'id': '65', 'type': 'call', 'children': ['66', '67']}; {'id': '66', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '67', 'type': 'argument_list', 'children': ['68', '69']}; {'id': '68', 'type': 'identifier', 'children': [], 'value': 'operand'}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'Operand'}; {'id': '70', 'type': 'block', 'children': ['71']}; {'id': '71', 'type': 'expression_statement', 'children': ['72']}; {'id': '72', 'type': 'call', 'children': ['73', '76']}; {'id': '73', 'type': 'attribute', 'children': ['74', '75']}; {'id': '74', 'type': 'identifier', 'children': [], 'value': 'final_operands'}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '76', 'type': 'argument_list', 'children': ['77']}; {'id': '77', 'type': 'identifier', 'children': [], 'value': 'operand'}; {'id': '78', 'type': 'elif_clause', 'children': ['79', '84']}; {'id': '79', 'type': 'call', 'children': ['80', '81']}; {'id': '80', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '81', 'type': 'argument_list', 'children': ['82', '83']}; {'id': '82', 'type': 'identifier', 'children': [], 'value': 'operand'}; {'id': '83', 'type': 'identifier', 'children': [], 'value': 'Constant'}; {'id': '84', 'type': 'block', 'children': ['85']}; {'id': '85', 'type': 'expression_statement', 'children': ['86']}; {'id': '86', 'type': 'call', 'children': ['87', '90']}; {'id': '87', 'type': 'attribute', 'children': ['88', '89']}; {'id': '88', 'type': 'identifier', 'children': [], 'value': 'final_operands'}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '90', 'type': 'argument_list', 'children': ['91']}; {'id': '91', 'type': 'call', 'children': ['92', '93']}; {'id': '92', 'type': 'identifier', 'children': [], 'value': 'Operand'}; {'id': '93', 'type': 'argument_list', 'children': ['94', '97']}; {'id': '94', 'type': 'attribute', 'children': ['95', '96']}; {'id': '95', 'type': 'identifier', 'children': [], 'value': 'OperandTypes'}; {'id': '96', 'type': 'identifier', 'children': [], 'value': 'CONSTANT_INDEX'}; {'id': '97', 'type': 'attribute', 'children': ['98', '99']}; {'id': '98', 'type': 'identifier', 'children': [], 'value': 'operand'}; {'id': '99', 'type': 'identifier', 'children': [], 'value': 'index'}; {'id': '100', 'type': 'elif_clause', 'children': ['101', '106']}; {'id': '101', 'type': 'call', 'children': ['102', '103']}; {'id': '102', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '103', 'type': 'argument_list', 'children': ['104', '105']}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'operand'}; {'id': '105', 'type': 'identifier', 'children': [], 'value': 'dict'}; {'id': '106', 'type': 'block', 'children': ['107']}; {'id': '107', 'type': 'expression_statement', 'children': ['108']}; {'id': '108', 'type': 'call', 'children': ['109', '112']}; {'id': '109', 'type': 'attribute', 'children': ['110', '111']}; {'id': '110', 'type': 'identifier', 'children': [], 'value': 'final_operands'}; {'id': '111', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '112', 'type': 'argument_list', 'children': ['113']}; {'id': '113', 'type': 'identifier', 'children': [], 'value': 'operand'}; {'id': '114', 'type': 'elif_clause', 'children': ['115', '120']}; {'id': '115', 'type': 'call', 'children': ['116', '117']}; {'id': '116', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '117', 'type': 'argument_list', 'children': ['118', '119']}; {'id': '118', 'type': 'identifier', 'children': [], 'value': 'operand'}; {'id': '119', 'type': 'identifier', 'children': [], 'value': 'Label'}; {'id': '120', 'type': 'block', 'children': ['121']}; {'id': '121', 'type': 'expression_statement', 'children': ['122']}; {'id': '122', 'type': 'call', 'children': ['123', '126']}; {'id': '123', 'type': 'attribute', 'children': ['124', '125']}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'final_operands'}; {'id': '125', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '126', 'type': 'argument_list', 'children': ['127']}; {'id': '127', 'type': 'identifier', 'children': [], 'value': 'operand'}; {'id': '128', 'type': 'else_clause', 'children': ['129']}; {'id': '129', 'type': 'block', 'children': ['130']}; {'id': '130', 'type': 'expression_statement', 'children': ['131']}; {'id': '131', 'type': 'call', 'children': ['132', '135']}; {'id': '132', 'type': 'attribute', 'children': ['133', '134']}; {'id': '133', 'type': 'identifier', 'children': [], 'value': 'final_operands'}; {'id': '134', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '135', 'type': 'argument_list', 'children': ['136']}; {'id': '136', 'type': 'call', 'children': ['137', '138']}; {'id': '137', 'type': 'identifier', 'children': [], 'value': 'Operand'}; {'id': '138', 'type': 'argument_list', 'children': ['139', '144']}; {'id': '139', 'type': 'subscript', 'children': ['140', '143']}; {'id': '140', 'type': 'subscript', 'children': ['141', '142']}; {'id': '141', 'type': 'identifier', 'children': [], 'value': 'operand_fmts'}; {'id': '142', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '143', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '144', 'type': 'identifier', 'children': [], 'value': 'operand'}; {'id': '145', 'type': 'expression_statement', 'children': ['146']}; {'id': '146', 'type': 'call', 'children': ['147', '150']}; {'id': '147', 'type': 'attribute', 'children': ['148', '149']}; {'id': '148', 'type': 'identifier', 'children': [], 'value': 'final'}; {'id': '149', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '150', 'type': 'argument_list', 'children': ['151']}; {'id': '151', 'type': 'call', 'children': ['152', '155']}; {'id': '152', 'type': 'attribute', 'children': ['153', '154']}; {'id': '153', 'type': 'identifier', 'children': [], 'value': 'Instruction'}; {'id': '154', 'type': 'identifier', 'children': [], 'value': 'create'}; {'id': '155', 'type': 'argument_list', 'children': ['156', '157']}; {'id': '156', 'type': 'identifier', 'children': [], 'value': 'mnemonic'}; {'id': '157', 'type': 'identifier', 'children': [], 'value': 'final_operands'}; {'id': '158', 'type': 'expression_statement', 'children': ['159']}; {'id': '159', 'type': 'assignment', 'children': ['160', '161']}; {'id': '160', 'type': 'identifier', 'children': [], 'value': 'label_pcs'}; {'id': '161', 'type': 'dictionary', 'children': []}; {'id': '162', 'type': 'expression_statement', 'children': ['163']}; {'id': '163', 'type': 'assignment', 'children': ['164', '165']}; {'id': '164', 'type': 'identifier', 'children': [], 'value': 'current_pc'}; {'id': '165', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '166', 'type': 'for_statement', 'children': ['167', '168', '169']}; {'id': '167', 'type': 'identifier', 'children': [], 'value': 'ins'}; {'id': '168', 'type': 'identifier', 'children': [], 'value': 'final'}; {'id': '169', 'type': 'block', 'children': ['170', '186']}; {'id': '170', 'type': 'if_statement', 'children': ['171', '176']}; {'id': '171', 'type': 'call', 'children': ['172', '173']}; {'id': '172', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '173', 'type': 'argument_list', 'children': ['174', '175']}; {'id': '174', 'type': 'identifier', 'children': [], 'value': 'ins'}; {'id': '175', 'type': 'identifier', 'children': [], 'value': 'Label'}; {'id': '176', 'type': 'block', 'children': ['177', '185']}; {'id': '177', 'type': 'expression_statement', 'children': ['178']}; {'id': '178', 'type': 'assignment', 'children': ['179', '184']}; {'id': '179', 'type': 'subscript', 'children': ['180', '181']}; {'id': '180', 'type': 'identifier', 'children': [], 'value': 'label_pcs'}; {'id': '181', 'type': 'attribute', 'children': ['182', '183']}; {'id': '182', 'type': 'identifier', 'children': [], 'value': 'ins'}; {'id': '183', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '184', 'type': 'identifier', 'children': [], 'value': 'current_pc'}; {'id': '185', 'type': 'continue_statement', 'children': []}; {'id': '186', 'type': 'expression_statement', 'children': ['187']}; {'id': '187', 'type': 'augmented_assignment', 'children': ['188', '189'], 'value': '+='}; {'id': '188', 'type': 'identifier', 'children': [], 'value': 'current_pc'}; {'id': '189', 'type': 'call', 'children': ['190', '193']}; {'id': '190', 'type': 'attribute', 'children': ['191', '192']}; {'id': '191', 'type': 'identifier', 'children': [], 'value': 'ins'}; {'id': '192', 'type': 'identifier', 'children': [], 'value': 'size_on_disk'}; {'id': '193', 'type': 'argument_list', 'children': ['194']}; {'id': '194', 'type': 'identifier', 'children': [], 'value': 'current_pc'}; {'id': '195', 'type': 'expression_statement', 'children': ['196']}; {'id': '196', 'type': 'assignment', 'children': ['197', '198']}; {'id': '197', 'type': 'identifier', 'children': [], 'value': 'current_pc'}; {'id': '198', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '199', 'type': 'for_statement', 'children': ['200', '201', '202']}; {'id': '200', 'type': 'identifier', 'children': [], 'value': 'ins'}; {'id': '201', 'type': 'identifier', 'children': [], 'value': 'final'}; {'id': '202', 'type': 'block', 'children': ['203', '211', '287', '296']}; {'id': '203', 'type': 'if_statement', 'children': ['204', '209']}; {'id': '204', 'type': 'call', 'children': ['205', '206']}; {'id': '205', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '206', 'type': 'argument_list', 'children': ['207', '208']}; {'id': '207', 'type': 'identifier', 'children': [], 'value': 'ins'}; {'id': '208', 'type': 'identifier', 'children': [], 'value': 'Label'}; {'id': '209', 'type': 'block', 'children': ['210']}; {'id': '210', 'type': 'continue_statement', 'children': []}; {'id': '211', 'type': 'for_statement', 'children': ['212', '215', '221']}; {'id': '212', 'type': 'pattern_list', 'children': ['213', '214']}; {'id': '213', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '214', 'type': 'identifier', 'children': [], 'value': 'operand'}; {'id': '215', 'type': 'call', 'children': ['216', '217']}; {'id': '216', 'type': 'identifier', 'children': [], 'value': 'enumerate'}; {'id': '217', 'type': 'argument_list', 'children': ['218']}; {'id': '218', 'type': 'attribute', 'children': ['219', '220']}; {'id': '219', 'type': 'identifier', 'children': [], 'value': 'ins'}; {'id': '220', 'type': 'identifier', 'children': [], 'value': 'operands'}; {'id': '221', 'type': 'block', 'children': ['222']}; {'id': '222', 'type': 'if_statement', 'children': ['223', '228', '262']}; {'id': '223', 'type': 'call', 'children': ['224', '225']}; {'id': '224', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '225', 'type': 'argument_list', 'children': ['226', '227']}; {'id': '226', 'type': 'identifier', 'children': [], 'value': 'operand'}; {'id': '227', 'type': 'identifier', 'children': [], 'value': 'dict'}; {'id': '228', 'type': 'block', 'children': ['229']}; {'id': '229', 'type': 'for_statement', 'children': ['230', '233', '238']}; {'id': '230', 'type': 'pattern_list', 'children': ['231', '232']}; {'id': '231', 'type': 'identifier', 'children': [], 'value': 'k'}; {'id': '232', 'type': 'identifier', 'children': [], 'value': 'v'}; {'id': '233', 'type': 'call', 'children': ['234', '237']}; {'id': '234', 'type': 'attribute', 'children': ['235', '236']}; {'id': '235', 'type': 'identifier', 'children': [], 'value': 'operand'}; {'id': '236', 'type': 'identifier', 'children': [], 'value': 'items'}; {'id': '237', 'type': 'argument_list', 'children': []}; {'id': '238', 'type': 'block', 'children': ['239']}; {'id': '239', 'type': 'if_statement', 'children': ['240', '245']}; {'id': '240', 'type': 'call', 'children': ['241', '242']}; {'id': '241', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '242', 'type': 'argument_list', 'children': ['243', '244']}; {'id': '243', 'type': 'identifier', 'children': [], 'value': 'v'}; {'id': '244', 'type': 'identifier', 'children': [], 'value': 'Label'}; {'id': '245', 'type': 'block', 'children': ['246']}; {'id': '246', 'type': 'expression_statement', 'children': ['247']}; {'id': '247', 'type': 'assignment', 'children': ['248', '251']}; {'id': '248', 'type': 'subscript', 'children': ['249', '250']}; {'id': '249', 'type': 'identifier', 'children': [], 'value': 'operand'}; {'id': '250', 'type': 'identifier', 'children': [], 'value': 'k'}; {'id': '251', 'type': 'call', 'children': ['252', '253']}; {'id': '252', 'type': 'identifier', 'children': [], 'value': 'Operand'}; {'id': '253', 'type': 'argument_list', 'children': ['254', '255']}; {'id': '254', 'type': 'integer', 'children': [], 'value': '40'}; {'id': '255', 'type': 'binary_operator', 'children': ['256', '261'], 'value': '-'}; {'id': '256', 'type': 'subscript', 'children': ['257', '258']}; {'id': '257', 'type': 'identifier', 'children': [], 'value': 'label_pcs'}; {'id': '258', 'type': 'attribute', 'children': ['259', '260']}; {'id': '259', 'type': 'identifier', 'children': [], 'value': 'v'}; {'id': '260', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '261', 'type': 'identifier', 'children': [], 'value': 'current_pc'}; {'id': '262', 'type': 'elif_clause', 'children': ['263', '268']}; {'id': '263', 'type': 'call', 'children': ['264', '265']}; {'id': '264', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '265', 'type': 'argument_list', 'children': ['266', '267']}; {'id': '266', 'type': 'identifier', 'children': [], 'value': 'operand'}; {'id': '267', 'type': 'identifier', 'children': [], 'value': 'Label'}; {'id': '268', 'type': 'block', 'children': ['269']}; {'id': '269', 'type': 'expression_statement', 'children': ['270']}; {'id': '270', 'type': 'assignment', 'children': ['271', '276']}; {'id': '271', 'type': 'subscript', 'children': ['272', '275']}; {'id': '272', 'type': 'attribute', 'children': ['273', '274']}; {'id': '273', 'type': 'identifier', 'children': [], 'value': 'ins'}; {'id': '274', 'type': 'identifier', 'children': [], 'value': 'operands'}; {'id': '275', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '276', 'type': 'call', 'children': ['277', '278']}; {'id': '277', 'type': 'identifier', 'children': [], 'value': 'Operand'}; {'id': '278', 'type': 'argument_list', 'children': ['279', '280']}; {'id': '279', 'type': 'integer', 'children': [], 'value': '40'}; {'id': '280', 'type': 'binary_operator', 'children': ['281', '286'], 'value': '-'}; {'id': '281', 'type': 'subscript', 'children': ['282', '283']}; {'id': '282', 'type': 'identifier', 'children': [], 'value': 'label_pcs'}; {'id': '283', 'type': 'attribute', 'children': ['284', '285']}; {'id': '284', 'type': 'identifier', 'children': [], 'value': 'operand'}; {'id': '285', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '286', 'type': 'identifier', 'children': [], 'value': 'current_pc'}; {'id': '287', 'type': 'expression_statement', 'children': ['288']}; {'id': '288', 'type': 'augmented_assignment', 'children': ['289', '290'], 'value': '+='}; {'id': '289', 'type': 'identifier', 'children': [], 'value': 'current_pc'}; {'id': '290', 'type': 'call', 'children': ['291', '294']}; {'id': '291', 'type': 'attribute', 'children': ['292', '293']}; {'id': '292', 'type': 'identifier', 'children': [], 'value': 'ins'}; {'id': '293', 'type': 'identifier', 'children': [], 'value': 'size_on_disk'}; {'id': '294', 'type': 'argument_list', 'children': ['295']}; {'id': '295', 'type': 'identifier', 'children': [], 'value': 'current_pc'}; {'id': '296', 'type': 'expression_statement', 'children': ['297']}; {'id': '297', 'type': 'yield', 'children': ['298']}; {'id': '298', 'type': 'identifier', 'children': [], 'value': 'ins'} | def assemble(code):
final = []
for line in code:
if isinstance(line, Label):
final.append(line)
continue
mnemonic, operands = line[0], line[1:]
operand_fmts = opcode_table[mnemonic]['operands']
final_operands = []
for i, operand in enumerate(operands):
if isinstance(operand, Operand):
final_operands.append(operand)
elif isinstance(operand, Constant):
final_operands.append(Operand(
OperandTypes.CONSTANT_INDEX,
operand.index
))
elif isinstance(operand, dict):
final_operands.append(operand)
elif isinstance(operand, Label):
final_operands.append(operand)
else:
final_operands.append(Operand(
operand_fmts[i][1],
operand
))
final.append(Instruction.create(mnemonic, final_operands))
label_pcs = {}
current_pc = 0
for ins in final:
if isinstance(ins, Label):
label_pcs[ins.name] = current_pc
continue
current_pc += ins.size_on_disk(current_pc)
current_pc = 0
for ins in final:
if isinstance(ins, Label):
continue
for i, operand in enumerate(ins.operands):
if isinstance(operand, dict):
for k, v in operand.items():
if isinstance(v, Label):
operand[k] = Operand(40, label_pcs[v.name] - current_pc)
elif isinstance(operand, Label):
ins.operands[i] = Operand(
40,
label_pcs[operand.name] - current_pc
)
current_pc += ins.size_on_disk(current_pc)
yield ins |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '6']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': '_add_new'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'host_object'}; {'id': '6', 'type': 'block', 'children': ['7', '16', '43']}; {'id': '7', 'type': 'expression_statement', 'children': ['8']}; {'id': '8', 'type': 'assignment', 'children': ['9', '10']}; {'id': '9', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '10', 'type': 'call', 'children': ['11', '14']}; {'id': '11', 'type': 'attribute', 'children': ['12', '13']}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '13', 'type': 'identifier', 'children': [], 'value': '_get_insertion_point'}; {'id': '14', 'type': 'argument_list', 'children': ['15']}; {'id': '15', 'type': 'identifier', 'children': [], 'value': 'host_object'}; {'id': '16', 'type': 'for_statement', 'children': ['17', '18', '23']}; {'id': '17', 'type': 'identifier', 'children': [], 'value': 'listed'}; {'id': '18', 'type': 'subscript', 'children': ['19', '20']}; {'id': '19', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '20', 'type': 'slice', 'children': ['21', '22']}; {'id': '21', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '22', 'type': 'colon', 'children': []}; {'id': '23', 'type': 'block', 'children': ['24', '34']}; {'id': '24', 'type': 'if_statement', 'children': ['25', '32']}; {'id': '25', 'type': 'not_operator', 'children': ['26']}; {'id': '26', 'type': 'call', 'children': ['27', '30']}; {'id': '27', 'type': 'attribute', 'children': ['28', '29']}; {'id': '28', 'type': 'identifier', 'children': [], 'value': 'listed'}; {'id': '29', 'type': 'identifier', 'children': [], 'value': 'is_subdomain'}; {'id': '30', 'type': 'argument_list', 'children': ['31']}; {'id': '31', 'type': 'identifier', 'children': [], 'value': 'host_object'}; {'id': '32', 'type': 'block', 'children': ['33']}; {'id': '33', 'type': 'break_statement', 'children': []}; {'id': '34', 'type': 'expression_statement', 'children': ['35']}; {'id': '35', 'type': 'call', 'children': ['36', '41']}; {'id': '36', 'type': 'attribute', 'children': ['37', '40']}; {'id': '37', 'type': 'attribute', 'children': ['38', '39']}; {'id': '38', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '39', 'type': 'identifier', 'children': [], 'value': 'hosts'}; {'id': '40', 'type': 'identifier', 'children': [], 'value': 'pop'}; {'id': '41', 'type': 'argument_list', 'children': ['42']}; {'id': '42', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '43', 'type': 'expression_statement', 'children': ['44']}; {'id': '44', 'type': 'call', 'children': ['45', '50']}; {'id': '45', 'type': 'attribute', 'children': ['46', '49']}; {'id': '46', 'type': 'attribute', 'children': ['47', '48']}; {'id': '47', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'hosts'}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'insert'}; {'id': '50', 'type': 'argument_list', 'children': ['51', '52']}; {'id': '51', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '52', 'type': 'call', 'children': ['53', '56']}; {'id': '53', 'type': 'attribute', 'children': ['54', '55']}; {'id': '54', 'type': 'identifier', 'children': [], 'value': 'host_object'}; {'id': '55', 'type': 'identifier', 'children': [], 'value': 'to_unicode'}; {'id': '56', 'type': 'argument_list', 'children': []} | def _add_new(self, host_object):
i = self._get_insertion_point(host_object)
for listed in self[i:]:
if not listed.is_subdomain(host_object):
break
self.hosts.pop(i)
self.hosts.insert(i, host_object.to_unicode()) |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '7']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'write_instruction'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '6']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'fout'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'start_pos'}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'ins'}; {'id': '7', 'type': 'block', 'children': ['8', '20', '28']}; {'id': '8', 'type': 'expression_statement', 'children': ['9']}; {'id': '9', 'type': 'assignment', 'children': ['10', '13']}; {'id': '10', 'type': 'pattern_list', 'children': ['11', '12']}; {'id': '11', 'type': 'identifier', 'children': [], 'value': 'opcode'}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'operands'}; {'id': '13', 'type': 'expression_list', 'children': ['14', '17']}; {'id': '14', 'type': 'attribute', 'children': ['15', '16']}; {'id': '15', 'type': 'identifier', 'children': [], 'value': 'ins'}; {'id': '16', 'type': 'identifier', 'children': [], 'value': 'opcode'}; {'id': '17', 'type': 'attribute', 'children': ['18', '19']}; {'id': '18', 'type': 'identifier', 'children': [], 'value': 'ins'}; {'id': '19', 'type': 'identifier', 'children': [], 'value': 'operands'}; {'id': '20', 'type': 'expression_statement', 'children': ['21']}; {'id': '21', 'type': 'assignment', 'children': ['22', '23']}; {'id': '22', 'type': 'identifier', 'children': [], 'value': 'fmt_operands'}; {'id': '23', 'type': 'subscript', 'children': ['24', '27']}; {'id': '24', 'type': 'subscript', 'children': ['25', '26']}; {'id': '25', 'type': 'identifier', 'children': [], 'value': 'opcode_table'}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'opcode'}; {'id': '27', 'type': 'string', 'children': [], 'value': "'operands'"}; {'id': '28', 'type': 'if_statement', 'children': ['29', '32', '90', '133', '229', '312']}; {'id': '29', 'type': 'attribute', 'children': ['30', '31']}; {'id': '30', 'type': 'identifier', 'children': [], 'value': 'ins'}; {'id': '31', 'type': 'identifier', 'children': [], 'value': 'wide'}; {'id': '32', 'type': 'block', 'children': ['33', '44', '55', '70']}; {'id': '33', 'type': 'expression_statement', 'children': ['34']}; {'id': '34', 'type': 'call', 'children': ['35', '38']}; {'id': '35', 'type': 'attribute', 'children': ['36', '37']}; {'id': '36', 'type': 'identifier', 'children': [], 'value': 'fout'}; {'id': '37', 'type': 'identifier', 'children': [], 'value': 'write'}; {'id': '38', 'type': 'argument_list', 'children': ['39']}; {'id': '39', 'type': 'call', 'children': ['40', '41']}; {'id': '40', 'type': 'identifier', 'children': [], 'value': 'pack'}; {'id': '41', 'type': 'argument_list', 'children': ['42', '43']}; {'id': '42', 'type': 'string', 'children': [], 'value': "'>B'"}; {'id': '43', 'type': 'integer', 'children': [], 'value': '0xC4'}; {'id': '44', 'type': 'expression_statement', 'children': ['45']}; {'id': '45', 'type': 'call', 'children': ['46', '49']}; {'id': '46', 'type': 'attribute', 'children': ['47', '48']}; {'id': '47', 'type': 'identifier', 'children': [], 'value': 'fout'}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'write'}; {'id': '49', 'type': 'argument_list', 'children': ['50']}; {'id': '50', 'type': 'call', 'children': ['51', '52']}; {'id': '51', 'type': 'identifier', 'children': [], 'value': 'pack'}; {'id': '52', 'type': 'argument_list', 'children': ['53', '54']}; {'id': '53', 'type': 'string', 'children': [], 'value': "'>B'"}; {'id': '54', 'type': 'identifier', 'children': [], 'value': 'opcode'}; {'id': '55', 'type': 'expression_statement', 'children': ['56']}; {'id': '56', 'type': 'call', 'children': ['57', '60']}; {'id': '57', 'type': 'attribute', 'children': ['58', '59']}; {'id': '58', 'type': 'identifier', 'children': [], 'value': 'fout'}; {'id': '59', 'type': 'identifier', 'children': [], 'value': 'write'}; {'id': '60', 'type': 'argument_list', 'children': ['61']}; {'id': '61', 'type': 'call', 'children': ['62', '63']}; {'id': '62', 'type': 'identifier', 'children': [], 'value': 'pack'}; {'id': '63', 'type': 'argument_list', 'children': ['64', '65']}; {'id': '64', 'type': 'string', 'children': [], 'value': "'>H'"}; {'id': '65', 'type': 'attribute', 'children': ['66', '69']}; {'id': '66', 'type': 'subscript', 'children': ['67', '68']}; {'id': '67', 'type': 'identifier', 'children': [], 'value': 'operands'}; {'id': '68', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '70', 'type': 'if_statement', 'children': ['71', '74']}; {'id': '71', 'type': 'comparison_operator', 'children': ['72', '73'], 'value': '=='}; {'id': '72', 'type': 'identifier', 'children': [], 'value': 'opcode'}; {'id': '73', 'type': 'integer', 'children': [], 'value': '0x84'}; {'id': '74', 'type': 'block', 'children': ['75']}; {'id': '75', 'type': 'expression_statement', 'children': ['76']}; {'id': '76', 'type': 'call', 'children': ['77', '80']}; {'id': '77', 'type': 'attribute', 'children': ['78', '79']}; {'id': '78', 'type': 'identifier', 'children': [], 'value': 'fout'}; {'id': '79', 'type': 'identifier', 'children': [], 'value': 'write'}; {'id': '80', 'type': 'argument_list', 'children': ['81']}; {'id': '81', 'type': 'call', 'children': ['82', '83']}; {'id': '82', 'type': 'identifier', 'children': [], 'value': 'pack'}; {'id': '83', 'type': 'argument_list', 'children': ['84', '85']}; {'id': '84', 'type': 'string', 'children': [], 'value': "'>h'"}; {'id': '85', 'type': 'attribute', 'children': ['86', '89']}; {'id': '86', 'type': 'subscript', 'children': ['87', '88']}; {'id': '87', 'type': 'identifier', 'children': [], 'value': 'operands'}; {'id': '88', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '90', 'type': 'elif_clause', 'children': ['91', '92']}; {'id': '91', 'type': 'identifier', 'children': [], 'value': 'fmt_operands'}; {'id': '92', 'type': 'block', 'children': ['93', '104']}; {'id': '93', 'type': 'expression_statement', 'children': ['94']}; {'id': '94', 'type': 'call', 'children': ['95', '98']}; {'id': '95', 'type': 'attribute', 'children': ['96', '97']}; {'id': '96', 'type': 'identifier', 'children': [], 'value': 'fout'}; {'id': '97', 'type': 'identifier', 'children': [], 'value': 'write'}; {'id': '98', 'type': 'argument_list', 'children': ['99']}; {'id': '99', 'type': 'call', 'children': ['100', '101']}; {'id': '100', 'type': 'identifier', 'children': [], 'value': 'pack'}; {'id': '101', 'type': 'argument_list', 'children': ['102', '103']}; {'id': '102', 'type': 'string', 'children': [], 'value': "'>B'"}; {'id': '103', 'type': 'identifier', 'children': [], 'value': 'opcode'}; {'id': '104', 'type': 'for_statement', 'children': ['105', '110', '114']}; {'id': '105', 'type': 'pattern_list', 'children': ['106', '107']}; {'id': '106', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '107', 'type': 'tuple_pattern', 'children': ['108', '109']}; {'id': '108', 'type': 'identifier', 'children': [], 'value': 'fmt'}; {'id': '109', 'type': 'identifier', 'children': [], 'value': '_'}; {'id': '110', 'type': 'call', 'children': ['111', '112']}; {'id': '111', 'type': 'identifier', 'children': [], 'value': 'enumerate'}; {'id': '112', 'type': 'argument_list', 'children': ['113']}; {'id': '113', 'type': 'identifier', 'children': [], 'value': 'fmt_operands'}; {'id': '114', 'type': 'block', 'children': ['115']}; {'id': '115', 'type': 'expression_statement', 'children': ['116']}; {'id': '116', 'type': 'call', 'children': ['117', '120']}; {'id': '117', 'type': 'attribute', 'children': ['118', '119']}; {'id': '118', 'type': 'identifier', 'children': [], 'value': 'fout'}; {'id': '119', 'type': 'identifier', 'children': [], 'value': 'write'}; {'id': '120', 'type': 'argument_list', 'children': ['121']}; {'id': '121', 'type': 'call', 'children': ['122', '127']}; {'id': '122', 'type': 'attribute', 'children': ['123', '126']}; {'id': '123', 'type': 'attribute', 'children': ['124', '125']}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'fmt'}; {'id': '125', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '126', 'type': 'identifier', 'children': [], 'value': 'pack'}; {'id': '127', 'type': 'argument_list', 'children': ['128']}; {'id': '128', 'type': 'attribute', 'children': ['129', '132']}; {'id': '129', 'type': 'subscript', 'children': ['130', '131']}; {'id': '130', 'type': 'identifier', 'children': [], 'value': 'operands'}; {'id': '131', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '132', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '133', 'type': 'elif_clause', 'children': ['134', '137']}; {'id': '134', 'type': 'comparison_operator', 'children': ['135', '136'], 'value': '=='}; {'id': '135', 'type': 'identifier', 'children': [], 'value': 'opcode'}; {'id': '136', 'type': 'integer', 'children': [], 'value': '0xAB'}; {'id': '137', 'type': 'block', 'children': ['138', '149', '160', '169', '179', '200']}; {'id': '138', 'type': 'expression_statement', 'children': ['139']}; {'id': '139', 'type': 'call', 'children': ['140', '143']}; {'id': '140', 'type': 'attribute', 'children': ['141', '142']}; {'id': '141', 'type': 'identifier', 'children': [], 'value': 'fout'}; {'id': '142', 'type': 'identifier', 'children': [], 'value': 'write'}; {'id': '143', 'type': 'argument_list', 'children': ['144']}; {'id': '144', 'type': 'call', 'children': ['145', '146']}; {'id': '145', 'type': 'identifier', 'children': [], 'value': 'pack'}; {'id': '146', 'type': 'argument_list', 'children': ['147', '148']}; {'id': '147', 'type': 'string', 'children': [], 'value': "'>B'"}; {'id': '148', 'type': 'identifier', 'children': [], 'value': 'opcode'}; {'id': '149', 'type': 'expression_statement', 'children': ['150']}; {'id': '150', 'type': 'assignment', 'children': ['151', '152']}; {'id': '151', 'type': 'identifier', 'children': [], 'value': 'padding'}; {'id': '152', 'type': 'binary_operator', 'children': ['153', '154'], 'value': '-'}; {'id': '153', 'type': 'integer', 'children': [], 'value': '4'}; {'id': '154', 'type': 'binary_operator', 'children': ['155', '159'], 'value': '%'}; {'id': '155', 'type': '()', 'children': ['156']}; {'id': '156', 'type': 'binary_operator', 'children': ['157', '158'], 'value': '+'}; {'id': '157', 'type': 'identifier', 'children': [], 'value': 'start_pos'}; {'id': '158', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '159', 'type': 'integer', 'children': [], 'value': '4'}; {'id': '160', 'type': 'expression_statement', 'children': ['161']}; {'id': '161', 'type': 'assignment', 'children': ['162', '163']}; {'id': '162', 'type': 'identifier', 'children': [], 'value': 'padding'}; {'id': '163', 'type': 'conditional_expression', 'children': ['164', '165', '168'], 'value': 'if'}; {'id': '164', 'type': 'identifier', 'children': [], 'value': 'padding'}; {'id': '165', 'type': 'comparison_operator', 'children': ['166', '167'], 'value': '!='}; {'id': '166', 'type': 'identifier', 'children': [], 'value': 'padding'}; {'id': '167', 'type': 'integer', 'children': [], 'value': '4'}; {'id': '168', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '169', 'type': 'expression_statement', 'children': ['170']}; {'id': '170', 'type': 'call', 'children': ['171', '174']}; {'id': '171', 'type': 'attribute', 'children': ['172', '173']}; {'id': '172', 'type': 'identifier', 'children': [], 'value': 'fout'}; {'id': '173', 'type': 'identifier', 'children': [], 'value': 'write'}; {'id': '174', 'type': 'argument_list', 'children': ['175']}; {'id': '175', 'type': 'call', 'children': ['176', '177']}; {'id': '176', 'type': 'identifier', 'children': [], 'value': 'pack'}; {'id': '177', 'type': 'argument_list', 'children': ['178']}; {'id': '178', 'type': 'string', 'children': [], 'value': "f'{padding}x'"}; {'id': '179', 'type': 'expression_statement', 'children': ['180']}; {'id': '180', 'type': 'call', 'children': ['181', '184']}; {'id': '181', 'type': 'attribute', 'children': ['182', '183']}; {'id': '182', 'type': 'identifier', 'children': [], 'value': 'fout'}; {'id': '183', 'type': 'identifier', 'children': [], 'value': 'write'}; {'id': '184', 'type': 'argument_list', 'children': ['185']}; {'id': '185', 'type': 'call', 'children': ['186', '187']}; {'id': '186', 'type': 'identifier', 'children': [], 'value': 'pack'}; {'id': '187', 'type': 'argument_list', 'children': ['188', '189', '194']}; {'id': '188', 'type': 'string', 'children': [], 'value': "'>ii'"}; {'id': '189', 'type': 'attribute', 'children': ['190', '193']}; {'id': '190', 'type': 'subscript', 'children': ['191', '192']}; {'id': '191', 'type': 'identifier', 'children': [], 'value': 'operands'}; {'id': '192', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '193', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '194', 'type': 'call', 'children': ['195', '196']}; {'id': '195', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '196', 'type': 'argument_list', 'children': ['197']}; {'id': '197', 'type': 'subscript', 'children': ['198', '199']}; {'id': '198', 'type': 'identifier', 'children': [], 'value': 'operands'}; {'id': '199', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '200', 'type': 'for_statement', 'children': ['201', '202', '212']}; {'id': '201', 'type': 'identifier', 'children': [], 'value': 'key'}; {'id': '202', 'type': 'call', 'children': ['203', '204']}; {'id': '203', 'type': 'identifier', 'children': [], 'value': 'sorted'}; {'id': '204', 'type': 'argument_list', 'children': ['205']}; {'id': '205', 'type': 'call', 'children': ['206', '211']}; {'id': '206', 'type': 'attribute', 'children': ['207', '210']}; {'id': '207', 'type': 'subscript', 'children': ['208', '209']}; {'id': '208', 'type': 'identifier', 'children': [], 'value': 'operands'}; {'id': '209', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '210', 'type': 'identifier', 'children': [], 'value': 'keys'}; {'id': '211', 'type': 'argument_list', 'children': []}; {'id': '212', 'type': 'block', 'children': ['213']}; {'id': '213', 'type': 'expression_statement', 'children': ['214']}; {'id': '214', 'type': 'call', 'children': ['215', '218']}; {'id': '215', 'type': 'attribute', 'children': ['216', '217']}; {'id': '216', 'type': 'identifier', 'children': [], 'value': 'fout'}; {'id': '217', 'type': 'identifier', 'children': [], 'value': 'write'}; {'id': '218', 'type': 'argument_list', 'children': ['219']}; {'id': '219', 'type': 'call', 'children': ['220', '221']}; {'id': '220', 'type': 'identifier', 'children': [], 'value': 'pack'}; {'id': '221', 'type': 'argument_list', 'children': ['222', '223', '224']}; {'id': '222', 'type': 'string', 'children': [], 'value': "'>ii'"}; {'id': '223', 'type': 'identifier', 'children': [], 'value': 'key'}; {'id': '224', 'type': 'subscript', 'children': ['225', '228']}; {'id': '225', 'type': 'subscript', 'children': ['226', '227']}; {'id': '226', 'type': 'identifier', 'children': [], 'value': 'operands'}; {'id': '227', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '228', 'type': 'identifier', 'children': [], 'value': 'key'}; {'id': '229', 'type': 'elif_clause', 'children': ['230', '233']}; {'id': '230', 'type': 'comparison_operator', 'children': ['231', '232'], 'value': '=='}; {'id': '231', 'type': 'identifier', 'children': [], 'value': 'opcode'}; {'id': '232', 'type': 'integer', 'children': [], 'value': '0xAA'}; {'id': '233', 'type': 'block', 'children': ['234', '245', '256', '265', '275']}; {'id': '234', 'type': 'expression_statement', 'children': ['235']}; {'id': '235', 'type': 'call', 'children': ['236', '239']}; {'id': '236', 'type': 'attribute', 'children': ['237', '238']}; {'id': '237', 'type': 'identifier', 'children': [], 'value': 'fout'}; {'id': '238', 'type': 'identifier', 'children': [], 'value': 'write'}; {'id': '239', 'type': 'argument_list', 'children': ['240']}; {'id': '240', 'type': 'call', 'children': ['241', '242']}; {'id': '241', 'type': 'identifier', 'children': [], 'value': 'pack'}; {'id': '242', 'type': 'argument_list', 'children': ['243', '244']}; {'id': '243', 'type': 'string', 'children': [], 'value': "'>B'"}; {'id': '244', 'type': 'identifier', 'children': [], 'value': 'opcode'}; {'id': '245', 'type': 'expression_statement', 'children': ['246']}; {'id': '246', 'type': 'assignment', 'children': ['247', '248']}; {'id': '247', 'type': 'identifier', 'children': [], 'value': 'padding'}; {'id': '248', 'type': 'binary_operator', 'children': ['249', '250'], 'value': '-'}; {'id': '249', 'type': 'integer', 'children': [], 'value': '4'}; {'id': '250', 'type': 'binary_operator', 'children': ['251', '255'], 'value': '%'}; {'id': '251', 'type': '()', 'children': ['252']}; {'id': '252', 'type': 'binary_operator', 'children': ['253', '254'], 'value': '+'}; {'id': '253', 'type': 'identifier', 'children': [], 'value': 'start_pos'}; {'id': '254', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '255', 'type': 'integer', 'children': [], 'value': '4'}; {'id': '256', 'type': 'expression_statement', 'children': ['257']}; {'id': '257', 'type': 'assignment', 'children': ['258', '259']}; {'id': '258', 'type': 'identifier', 'children': [], 'value': 'padding'}; {'id': '259', 'type': 'conditional_expression', 'children': ['260', '261', '264'], 'value': 'if'}; {'id': '260', 'type': 'identifier', 'children': [], 'value': 'padding'}; {'id': '261', 'type': 'comparison_operator', 'children': ['262', '263'], 'value': '!='}; {'id': '262', 'type': 'identifier', 'children': [], 'value': 'padding'}; {'id': '263', 'type': 'integer', 'children': [], 'value': '4'}; {'id': '264', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '265', 'type': 'expression_statement', 'children': ['266']}; {'id': '266', 'type': 'call', 'children': ['267', '270']}; {'id': '267', 'type': 'attribute', 'children': ['268', '269']}; {'id': '268', 'type': 'identifier', 'children': [], 'value': 'fout'}; {'id': '269', 'type': 'identifier', 'children': [], 'value': 'write'}; {'id': '270', 'type': 'argument_list', 'children': ['271']}; {'id': '271', 'type': 'call', 'children': ['272', '273']}; {'id': '272', 'type': 'identifier', 'children': [], 'value': 'pack'}; {'id': '273', 'type': 'argument_list', 'children': ['274']}; {'id': '274', 'type': 'string', 'children': [], 'value': "f'{padding}x'"}; {'id': '275', 'type': 'expression_statement', 'children': ['276']}; {'id': '276', 'type': 'call', 'children': ['277', '280']}; {'id': '277', 'type': 'attribute', 'children': ['278', '279']}; {'id': '278', 'type': 'identifier', 'children': [], 'value': 'fout'}; {'id': '279', 'type': 'identifier', 'children': [], 'value': 'write'}; {'id': '280', 'type': 'argument_list', 'children': ['281']}; {'id': '281', 'type': 'call', 'children': ['282', '283']}; {'id': '282', 'type': 'identifier', 'children': [], 'value': 'pack'}; {'id': '283', 'type': 'argument_list', 'children': ['284', '285', '290', '295', '300']}; {'id': '284', 'type': 'string', 'children': [], 'value': "f'>iii{len(operands) - 3}i'"}; {'id': '285', 'type': 'attribute', 'children': ['286', '289']}; {'id': '286', 'type': 'subscript', 'children': ['287', '288']}; {'id': '287', 'type': 'identifier', 'children': [], 'value': 'operands'}; {'id': '288', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '289', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '290', 'type': 'attribute', 'children': ['291', '294']}; {'id': '291', 'type': 'subscript', 'children': ['292', '293']}; {'id': '292', 'type': 'identifier', 'children': [], 'value': 'operands'}; {'id': '293', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '294', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '295', 'type': 'attribute', 'children': ['296', '299']}; {'id': '296', 'type': 'subscript', 'children': ['297', '298']}; {'id': '297', 'type': 'identifier', 'children': [], 'value': 'operands'}; {'id': '298', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '299', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '300', 'type': 'list_splat', 'children': ['301']}; {'id': '301', 'type': 'generator_expression', 'children': ['302', '305']}; {'id': '302', 'type': 'attribute', 'children': ['303', '304']}; {'id': '303', 'type': 'identifier', 'children': [], 'value': 'o'}; {'id': '304', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '305', 'type': 'for_in_clause', 'children': ['306', '307']}; {'id': '306', 'type': 'identifier', 'children': [], 'value': 'o'}; {'id': '307', 'type': 'subscript', 'children': ['308', '309']}; {'id': '308', 'type': 'identifier', 'children': [], 'value': 'operands'}; {'id': '309', 'type': 'slice', 'children': ['310', '311']}; {'id': '310', 'type': 'integer', 'children': [], 'value': '3'}; {'id': '311', 'type': 'colon', 'children': []}; {'id': '312', 'type': 'else_clause', 'children': ['313']}; {'id': '313', 'type': 'block', 'children': ['314']}; {'id': '314', 'type': 'expression_statement', 'children': ['315']}; {'id': '315', 'type': 'call', 'children': ['316', '319']}; {'id': '316', 'type': 'attribute', 'children': ['317', '318']}; {'id': '317', 'type': 'identifier', 'children': [], 'value': 'fout'}; {'id': '318', 'type': 'identifier', 'children': [], 'value': 'write'}; {'id': '319', 'type': 'argument_list', 'children': ['320']}; {'id': '320', 'type': 'call', 'children': ['321', '322']}; {'id': '321', 'type': 'identifier', 'children': [], 'value': 'pack'}; {'id': '322', 'type': 'argument_list', 'children': ['323', '324']}; {'id': '323', 'type': 'string', 'children': [], 'value': "'>B'"}; {'id': '324', 'type': 'identifier', 'children': [], 'value': 'opcode'} | def write_instruction(fout, start_pos, ins):
opcode, operands = ins.opcode, ins.operands
fmt_operands = opcode_table[opcode]['operands']
if ins.wide:
fout.write(pack('>B', 0xC4))
fout.write(pack('>B', opcode))
fout.write(pack('>H', operands[0].value))
if opcode == 0x84:
fout.write(pack('>h', operands[1].value))
elif fmt_operands:
fout.write(pack('>B', opcode))
for i, (fmt, _) in enumerate(fmt_operands):
fout.write(fmt.value.pack(operands[i].value))
elif opcode == 0xAB:
fout.write(pack('>B', opcode))
padding = 4 - (start_pos + 1) % 4
padding = padding if padding != 4 else 0
fout.write(pack(f'{padding}x'))
fout.write(pack('>ii', operands[1].value, len(operands[0])))
for key in sorted(operands[0].keys()):
fout.write(pack('>ii', key, operands[0][key]))
elif opcode == 0xAA:
fout.write(pack('>B', opcode))
padding = 4 - (start_pos + 1) % 4
padding = padding if padding != 4 else 0
fout.write(pack(f'{padding}x'))
fout.write(pack(
f'>iii{len(operands) - 3}i',
operands[0].value,
operands[1].value,
operands[2].value,
*(o.value for o in operands[3:])
))
else:
fout.write(pack('>B', opcode)) |
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{'id': '15', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '16', 'type': 'if_statement', 'children': ['17', '19']}; {'id': '17', 'type': 'not_operator', 'children': ['18']}; {'id': '18', 'type': 'identifier', 'children': [], 'value': 'op'}; {'id': '19', 'type': 'block', 'children': ['20']}; {'id': '20', 'type': 'return_statement', 'children': ['21']}; {'id': '21', 'type': 'None', 'children': []}; {'id': '22', 'type': 'expression_statement', 'children': ['23']}; {'id': '23', 'type': 'assignment', 'children': ['24', '25']}; {'id': '24', 'type': 'identifier', 'children': [], 'value': 'op'}; {'id': '25', 'type': 'call', 'children': ['26', '27']}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'ord'}; {'id': '27', 'type': 'argument_list', 'children': ['28']}; {'id': '28', 'type': 'identifier', 'children': [], 'value': 'op'}; {'id': '29', 'type': 'expression_statement', 'children': ['30']}; {'id': '30', 'type': 'assignment', 'children': ['31', '32']}; {'id': '31', 'type': 'identifier', 'children': [], 'value': 'ins'}; {'id': '32', 'type': 'subscript', 'children': ['33', '34']}; {'id': '33', 'type': 'identifier', 'children': [], 'value': 'opcode_table'}; {'id': '34', 'type': 'identifier', 'children': [], 'value': 'op'}; {'id': '35', 'type': 'expression_statement', 'children': ['36']}; {'id': '36', 'type': 'assignment', 'children': ['37', '38']}; {'id': '37', 'type': 'identifier', 'children': [], 'value': 'operands'}; {'id': '38', 'type': 'subscript', 'children': ['39', '40']}; {'id': '39', 'type': 'identifier', 'children': [], 'value': 'ins'}; {'id': '40', 'type': 'string', 'children': [], 'value': "'operands'"}; {'id': '41', 'type': 'expression_statement', 'children': ['42']}; {'id': '42', 'type': 'assignment', 'children': ['43', '44']}; {'id': '43', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '44', 'type': 'subscript', 'children': ['45', '46']}; {'id': '45', 'type': 'identifier', 'children': [], 'value': 'ins'}; {'id': '46', 'type': 'string', 'children': [], 'value': "'mnemonic'"}; {'id': '47', 'type': 'expression_statement', 'children': ['48']}; {'id': '48', 'type': 'assignment', 'children': ['49', '50']}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'final_operands'}; {'id': '50', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '51', 'type': 'if_statement', 'children': ['52', '53', '89', '189', '316']}; {'id': '52', 'type': 'identifier', 'children': [], 'value': 'operands'}; {'id': '53', 'type': 'block', 'children': ['54']}; {'id': '54', 'type': 'for_statement', 'children': ['55', '58', '59']}; {'id': '55', 'type': 'pattern_list', 'children': ['56', '57']}; {'id': '56', 'type': 'identifier', 'children': [], 'value': 'fmt'}; {'id': '57', 'type': 'identifier', 'children': [], 'value': 'type_'}; {'id': '58', 'type': 'identifier', 'children': [], 'value': 'operands'}; {'id': '59', 'type': 'block', 'children': ['60']}; {'id': '60', 'type': 'expression_statement', 'children': ['61']}; {'id': '61', 'type': 'call', 'children': ['62', '65']}; {'id': '62', 'type': 'attribute', 'children': ['63', '64']}; {'id': '63', 'type': 'identifier', 'children': [], 'value': 'final_operands'}; {'id': '64', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '65', 'type': 'argument_list', 'children': ['66']}; {'id': '66', 'type': 'call', 'children': ['67', '68']}; {'id': '67', 'type': 'identifier', 'children': [], 'value': 'Operand'}; {'id': '68', 'type': 'argument_list', 'children': ['69', '70']}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'type_'}; {'id': '70', 'type': 'subscript', 'children': ['71', '88']}; {'id': '71', 'type': 'call', 'children': ['72', '77']}; {'id': '72', 'type': 'attribute', 'children': ['73', '76']}; {'id': '73', 'type': 'attribute', 'children': ['74', '75']}; {'id': '74', 'type': 'identifier', 'children': [], 'value': 'fmt'}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '76', 'type': 'identifier', 'children': [], 'value': 'unpack'}; {'id': '77', 'type': 'argument_list', 'children': ['78']}; {'id': '78', 'type': 'call', 'children': ['79', '82']}; {'id': '79', 'type': 'attribute', 'children': ['80', '81']}; {'id': '80', 'type': 'identifier', 'children': [], 'value': 'fio'}; {'id': '81', 'type': 'identifier', 'children': [], 'value': 'read'}; {'id': '82', 'type': 'argument_list', 'children': ['83']}; {'id': '83', 'type': 'attribute', 'children': ['84', '87']}; {'id': '84', 'type': 'attribute', 'children': ['85', '86']}; {'id': '85', 'type': 'identifier', 'children': [], 'value': 'fmt'}; {'id': '86', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '87', 'type': 'identifier', 'children': [], 'value': 'size'}; {'id': '88', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '89', 'type': 'elif_clause', 'children': ['90', '93']}; {'id': '90', 'type': 'comparison_operator', 'children': ['91', '92'], 'value': '=='}; {'id': '91', 'type': 'identifier', 'children': [], 'value': 'op'}; {'id': '92', 'type': 'integer', 'children': [], 'value': '0xAB'}; {'id': '93', 'type': 'block', 'children': ['94', '105', '114', '121', '136', '140', '169', '176']}; {'id': '94', 'type': 'expression_statement', 'children': ['95']}; {'id': '95', 'type': 'assignment', 'children': ['96', '97']}; {'id': '96', 'type': 'identifier', 'children': [], 'value': 'padding'}; {'id': '97', 'type': 'binary_operator', 'children': ['98', '99'], 'value': '-'}; {'id': '98', 'type': 'integer', 'children': [], 'value': '4'}; {'id': '99', 'type': 'binary_operator', 'children': ['100', '104'], 'value': '%'}; {'id': '100', 'type': '()', 'children': ['101']}; {'id': '101', 'type': 'binary_operator', 'children': ['102', '103'], 'value': '+'}; {'id': '102', 'type': 'identifier', 'children': [], 'value': 'start_pos'}; {'id': '103', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '104', 'type': 'integer', 'children': [], 'value': '4'}; {'id': '105', 'type': 'expression_statement', 'children': ['106']}; {'id': '106', 'type': 'assignment', 'children': ['107', '108']}; {'id': '107', 'type': 'identifier', 'children': [], 'value': 'padding'}; {'id': '108', 'type': 'conditional_expression', 'children': ['109', '110', '113'], 'value': 'if'}; {'id': '109', 'type': 'identifier', 'children': [], 'value': 'padding'}; {'id': '110', 'type': 'comparison_operator', 'children': ['111', '112'], 'value': '!='}; {'id': '111', 'type': 'identifier', 'children': [], 'value': 'padding'}; {'id': '112', 'type': 'integer', 'children': [], 'value': '4'}; {'id': '113', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '114', 'type': 'expression_statement', 'children': ['115']}; {'id': '115', 'type': 'call', 'children': ['116', '119']}; {'id': '116', 'type': 'attribute', 'children': ['117', '118']}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'fio'}; {'id': '118', 'type': 'identifier', 'children': [], 'value': 'read'}; {'id': '119', 'type': 'argument_list', 'children': ['120']}; {'id': '120', 'type': 'identifier', 'children': [], 'value': 'padding'}; {'id': '121', 'type': 'expression_statement', 'children': ['122']}; {'id': '122', 'type': 'assignment', 'children': ['123', '126']}; {'id': '123', 'type': 'pattern_list', 'children': ['124', '125']}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'default'}; {'id': '125', 'type': 'identifier', 'children': [], 'value': 'npairs'}; {'id': '126', 'type': 'call', 'children': ['127', '128']}; {'id': '127', 'type': 'identifier', 'children': [], 'value': 'unpack'}; {'id': '128', 'type': 'argument_list', 'children': ['129', '130']}; {'id': '129', 'type': 'string', 'children': [], 'value': "'>ii'"}; {'id': '130', 'type': 'call', 'children': ['131', '134']}; {'id': '131', 'type': 'attribute', 'children': ['132', '133']}; {'id': '132', 'type': 'identifier', 'children': [], 'value': 'fio'}; {'id': '133', 'type': 'identifier', 'children': [], 'value': 'read'}; {'id': '134', 'type': 'argument_list', 'children': ['135']}; {'id': '135', 'type': 'integer', 'children': [], 'value': '8'}; {'id': '136', 'type': 'expression_statement', 'children': ['137']}; {'id': '137', 'type': 'assignment', 'children': ['138', '139']}; {'id': '138', 'type': 'identifier', 'children': [], 'value': 'pairs'}; {'id': '139', 'type': 'dictionary', 'children': []}; {'id': '140', 'type': 'for_statement', 'children': ['141', '142', '147']}; {'id': '141', 'type': 'identifier', 'children': [], 'value': '_'}; {'id': '142', 'type': 'call', 'children': ['143', '144']}; {'id': '143', 'type': 'identifier', 'children': [], 'value': 'repeat'}; {'id': '144', 'type': 'argument_list', 'children': ['145', '146']}; {'id': '145', 'type': 'None', 'children': []}; {'id': '146', 'type': 'identifier', 'children': [], 'value': 'npairs'}; {'id': '147', 'type': 'block', 'children': ['148', '163']}; {'id': '148', 'type': 'expression_statement', 'children': ['149']}; {'id': '149', 'type': 'assignment', 'children': ['150', '153']}; {'id': '150', 'type': 'pattern_list', 'children': ['151', '152']}; {'id': '151', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '152', 'type': 'identifier', 'children': [], 'value': 'offset'}; {'id': '153', 'type': 'call', 'children': ['154', '155']}; {'id': '154', 'type': 'identifier', 'children': [], 'value': 'unpack'}; {'id': '155', 'type': 'argument_list', 'children': ['156', '157']}; {'id': '156', 'type': 'string', 'children': [], 'value': "'>ii'"}; {'id': '157', 'type': 'call', 'children': ['158', '161']}; {'id': '158', 'type': 'attribute', 'children': ['159', '160']}; {'id': '159', 'type': 'identifier', 'children': [], 'value': 'fio'}; {'id': '160', 'type': 'identifier', 'children': [], 'value': 'read'}; {'id': '161', 'type': 'argument_list', 'children': ['162']}; {'id': '162', 'type': 'integer', 'children': [], 'value': '8'}; {'id': '163', 'type': 'expression_statement', 'children': ['164']}; {'id': '164', 'type': 'assignment', 'children': ['165', '168']}; {'id': '165', 'type': 'subscript', 'children': ['166', '167']}; {'id': '166', 'type': 'identifier', 'children': [], 'value': 'pairs'}; {'id': '167', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '168', 'type': 'identifier', 'children': [], 'value': 'offset'}; {'id': '169', 'type': 'expression_statement', 'children': ['170']}; {'id': '170', 'type': 'call', 'children': ['171', '174']}; {'id': '171', 'type': 'attribute', 'children': ['172', '173']}; {'id': '172', 'type': 'identifier', 'children': [], 'value': 'final_operands'}; {'id': '173', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '174', 'type': 'argument_list', 'children': ['175']}; {'id': '175', 'type': 'identifier', 'children': [], 'value': 'pairs'}; {'id': '176', 'type': 'expression_statement', 'children': ['177']}; {'id': '177', 'type': 'call', 'children': ['178', '181']}; {'id': '178', 'type': 'attribute', 'children': ['179', '180']}; {'id': '179', 'type': 'identifier', 'children': [], 'value': 'final_operands'}; {'id': '180', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '181', 'type': 'argument_list', 'children': ['182']}; {'id': '182', 'type': 'call', 'children': ['183', '184']}; {'id': '183', 'type': 'identifier', 'children': [], 'value': 'Operand'}; {'id': '184', 'type': 'argument_list', 'children': ['185', '188']}; {'id': '185', 'type': 'attribute', 'children': ['186', '187']}; {'id': '186', 'type': 'identifier', 'children': [], 'value': 'OperandTypes'}; {'id': '187', 'type': 'identifier', 'children': [], 'value': 'BRANCH'}; {'id': '188', 'type': 'identifier', 'children': [], 'value': 'default'}; {'id': '189', 'type': 'elif_clause', 'children': ['190', '193']}; {'id': '190', 'type': 'comparison_operator', 'children': ['191', '192'], 'value': '=='}; {'id': '191', 'type': 'identifier', 'children': [], 'value': 'op'}; {'id': '192', 'type': 'integer', 'children': [], 'value': '0xAA'}; {'id': '193', 'type': 'block', 'children': ['194', '205', '214', '221', '237', '250', '263', '276']}; {'id': '194', 'type': 'expression_statement', 'children': ['195']}; {'id': '195', 'type': 'assignment', 'children': ['196', '197']}; {'id': '196', 'type': 'identifier', 'children': [], 'value': 'padding'}; {'id': '197', 'type': 'binary_operator', 'children': ['198', '199'], 'value': '-'}; {'id': '198', 'type': 'integer', 'children': [], 'value': '4'}; {'id': '199', 'type': 'binary_operator', 'children': ['200', '204'], 'value': '%'}; {'id': '200', 'type': '()', 'children': ['201']}; {'id': '201', 'type': 'binary_operator', 'children': ['202', '203'], 'value': '+'}; {'id': '202', 'type': 'identifier', 'children': [], 'value': 'start_pos'}; {'id': '203', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '204', 'type': 'integer', 'children': [], 'value': '4'}; {'id': '205', 'type': 'expression_statement', 'children': ['206']}; {'id': '206', 'type': 'assignment', 'children': ['207', '208']}; {'id': '207', 'type': 'identifier', 'children': [], 'value': 'padding'}; {'id': '208', 'type': 'conditional_expression', 'children': ['209', '210', '213'], 'value': 'if'}; {'id': '209', 'type': 'identifier', 'children': [], 'value': 'padding'}; {'id': '210', 'type': 'comparison_operator', 'children': ['211', '212'], 'value': '!='}; {'id': '211', 'type': 'identifier', 'children': [], 'value': 'padding'}; {'id': '212', 'type': 'integer', 'children': [], 'value': '4'}; {'id': '213', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '214', 'type': 'expression_statement', 'children': ['215']}; {'id': '215', 'type': 'call', 'children': ['216', '219']}; {'id': '216', 'type': 'attribute', 'children': ['217', '218']}; {'id': '217', 'type': 'identifier', 'children': [], 'value': 'fio'}; {'id': '218', 'type': 'identifier', 'children': [], 'value': 'read'}; {'id': '219', 'type': 'argument_list', 'children': ['220']}; {'id': '220', 'type': 'identifier', 'children': [], 'value': 'padding'}; {'id': '221', 'type': 'expression_statement', 'children': ['222']}; {'id': '222', 'type': 'assignment', 'children': ['223', '227']}; {'id': '223', 'type': 'pattern_list', 'children': ['224', '225', '226']}; {'id': '224', 'type': 'identifier', 'children': [], 'value': 'default'}; {'id': '225', 'type': 'identifier', 'children': [], 'value': 'low'}; {'id': '226', 'type': 'identifier', 'children': [], 'value': 'high'}; {'id': '227', 'type': 'call', 'children': ['228', '229']}; {'id': '228', 'type': 'identifier', 'children': [], 'value': 'unpack'}; {'id': '229', 'type': 'argument_list', 'children': ['230', '231']}; {'id': '230', 'type': 'string', 'children': [], 'value': "'>iii'"}; {'id': '231', 'type': 'call', 'children': ['232', '235']}; {'id': '232', 'type': 'attribute', 'children': ['233', '234']}; {'id': '233', 'type': 'identifier', 'children': [], 'value': 'fio'}; {'id': '234', 'type': 'identifier', 'children': [], 'value': 'read'}; {'id': '235', 'type': 'argument_list', 'children': ['236']}; {'id': '236', 'type': 'integer', 'children': [], 'value': '12'}; {'id': '237', 'type': 'expression_statement', 'children': ['238']}; {'id': '238', 'type': 'call', 'children': ['239', '242']}; {'id': '239', 'type': 'attribute', 'children': ['240', '241']}; {'id': '240', 'type': 'identifier', 'children': [], 'value': 'final_operands'}; {'id': '241', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '242', 'type': 'argument_list', 'children': ['243']}; {'id': '243', 'type': 'call', 'children': ['244', '245']}; {'id': '244', 'type': 'identifier', 'children': [], 'value': 'Operand'}; {'id': '245', 'type': 'argument_list', 'children': ['246', '249']}; {'id': '246', 'type': 'attribute', 'children': ['247', '248']}; {'id': '247', 'type': 'identifier', 'children': [], 'value': 'OperandTypes'}; {'id': '248', 'type': 'identifier', 'children': [], 'value': 'BRANCH'}; {'id': '249', 'type': 'identifier', 'children': [], 'value': 'default'}; {'id': '250', 'type': 'expression_statement', 'children': ['251']}; {'id': '251', 'type': 'call', 'children': ['252', '255']}; {'id': '252', 'type': 'attribute', 'children': ['253', '254']}; {'id': '253', 'type': 'identifier', 'children': [], 'value': 'final_operands'}; {'id': '254', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '255', 'type': 'argument_list', 'children': ['256']}; {'id': '256', 'type': 'call', 'children': ['257', '258']}; {'id': '257', 'type': 'identifier', 'children': [], 'value': 'Operand'}; {'id': '258', 'type': 'argument_list', 'children': ['259', '262']}; {'id': '259', 'type': 'attribute', 'children': ['260', '261']}; {'id': '260', 'type': 'identifier', 'children': [], 'value': 'OperandTypes'}; {'id': '261', 'type': 'identifier', 'children': [], 'value': 'LITERAL'}; {'id': '262', 'type': 'identifier', 'children': [], 'value': 'low'}; {'id': '263', 'type': 'expression_statement', 'children': ['264']}; {'id': '264', 'type': 'call', 'children': ['265', '268']}; {'id': '265', 'type': 'attribute', 'children': ['266', '267']}; {'id': '266', 'type': 'identifier', 'children': [], 'value': 'final_operands'}; {'id': '267', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '268', 'type': 'argument_list', 'children': ['269']}; {'id': '269', 'type': 'call', 'children': ['270', '271']}; {'id': '270', 'type': 'identifier', 'children': [], 'value': 'Operand'}; {'id': '271', 'type': 'argument_list', 'children': ['272', '275']}; {'id': '272', 'type': 'attribute', 'children': ['273', '274']}; {'id': '273', 'type': 'identifier', 'children': [], 'value': 'OperandTypes'}; {'id': '274', 'type': 'identifier', 'children': [], 'value': 'LITERAL'}; {'id': '275', 'type': 'identifier', 'children': [], 'value': 'high'}; {'id': '276', 'type': 'for_statement', 'children': ['277', '278', '287']}; {'id': '277', 'type': 'identifier', 'children': [], 'value': '_'}; {'id': '278', 'type': 'call', 'children': ['279', '280']}; {'id': '279', 'type': 'identifier', 'children': [], 'value': 'repeat'}; {'id': '280', 'type': 'argument_list', 'children': ['281', '282']}; {'id': '281', 'type': 'None', 'children': []}; {'id': '282', 'type': 'binary_operator', 'children': ['283', '286'], 'value': '+'}; {'id': '283', 'type': 'binary_operator', 'children': ['284', '285'], 'value': '-'}; {'id': '284', 'type': 'identifier', 'children': [], 'value': 'high'}; {'id': '285', 'type': 'identifier', 'children': [], 'value': 'low'}; {'id': '286', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '287', 'type': 'block', 'children': ['288', '303']}; {'id': '288', 'type': 'expression_statement', 'children': ['289']}; {'id': '289', 'type': 'assignment', 'children': ['290', '291']}; {'id': '290', 'type': 'identifier', 'children': [], 'value': 'offset'}; {'id': '291', 'type': 'subscript', 'children': ['292', '302']}; {'id': '292', 'type': 'call', 'children': ['293', '294']}; {'id': '293', 'type': 'identifier', 'children': [], 'value': 'unpack'}; {'id': '294', 'type': 'argument_list', 'children': ['295', '296']}; {'id': '295', 'type': 'string', 'children': [], 'value': "'>i'"}; {'id': '296', 'type': 'call', 'children': ['297', '300']}; {'id': '297', 'type': 'attribute', 'children': ['298', '299']}; {'id': '298', 'type': 'identifier', 'children': [], 'value': 'fio'}; {'id': '299', 'type': 'identifier', 'children': [], 'value': 'read'}; {'id': '300', 'type': 'argument_list', 'children': ['301']}; {'id': '301', 'type': 'integer', 'children': [], 'value': '4'}; {'id': '302', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '303', 'type': 'expression_statement', 'children': ['304']}; {'id': '304', 'type': 'call', 'children': ['305', '308']}; {'id': '305', 'type': 'attribute', 'children': ['306', '307']}; {'id': '306', 'type': 'identifier', 'children': [], 'value': 'final_operands'}; {'id': '307', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '308', 'type': 'argument_list', 'children': ['309']}; {'id': '309', 'type': 'call', 'children': ['310', '311']}; {'id': '310', 'type': 'identifier', 'children': [], 'value': 'Operand'}; {'id': '311', 'type': 'argument_list', 'children': ['312', '315']}; {'id': '312', 'type': 'attribute', 'children': ['313', '314']}; {'id': '313', 'type': 'identifier', 'children': [], 'value': 'OperandTypes'}; {'id': '314', 'type': 'identifier', 'children': [], 'value': 'BRANCH'}; {'id': '315', 'type': 'identifier', 'children': [], 'value': 'offset'}; {'id': '316', 'type': 'elif_clause', 'children': ['317', '320']}; {'id': '317', 'type': 'comparison_operator', 'children': ['318', '319'], 'value': '=='}; {'id': '318', 'type': 'identifier', 'children': [], 'value': 'op'}; {'id': '319', 'type': 'integer', 'children': [], 'value': '0xC4'}; {'id': '320', 'type': 'block', 'children': ['321', '336', '342', '348', '372']}; {'id': '321', 'type': 'expression_statement', 'children': ['322']}; {'id': '322', 'type': 'assignment', 'children': ['323', '324']}; {'id': '323', 'type': 'identifier', 'children': [], 'value': 'real_op'}; {'id': '324', 'type': 'subscript', 'children': ['325', '335']}; {'id': '325', 'type': 'call', 'children': ['326', '327']}; {'id': '326', 'type': 'identifier', 'children': [], 'value': 'unpack'}; {'id': '327', 'type': 'argument_list', 'children': ['328', '329']}; {'id': '328', 'type': 'string', 'children': [], 'value': "'>B'"}; {'id': '329', 'type': 'call', 'children': ['330', '333']}; {'id': '330', 'type': 'attribute', 'children': ['331', '332']}; {'id': '331', 'type': 'identifier', 'children': [], 'value': 'fio'}; {'id': '332', 'type': 'identifier', 'children': [], 'value': 'read'}; {'id': '333', 'type': 'argument_list', 'children': ['334']}; {'id': '334', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '335', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '336', 'type': 'expression_statement', 'children': ['337']}; {'id': '337', 'type': 'assignment', 'children': ['338', '339']}; {'id': '338', 'type': 'identifier', 'children': [], 'value': 'ins'}; {'id': '339', 'type': 'subscript', 'children': ['340', '341']}; {'id': '340', 'type': 'identifier', 'children': [], 'value': 'opcode_table'}; {'id': '341', 'type': 'identifier', 'children': [], 'value': 'real_op'}; {'id': '342', 'type': 'expression_statement', 'children': ['343']}; {'id': '343', 'type': 'assignment', 'children': ['344', '345']}; {'id': '344', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '345', 'type': 'subscript', 'children': ['346', '347']}; {'id': '346', 'type': 'identifier', 'children': [], 'value': 'ins'}; {'id': '347', 'type': 'string', 'children': [], 'value': "'mnemonic'"}; {'id': '348', 'type': 'expression_statement', 'children': ['349']}; {'id': '349', 'type': 'call', 'children': ['350', '353']}; {'id': '350', 'type': 'attribute', 'children': ['351', '352']}; {'id': '351', 'type': 'identifier', 'children': [], 'value': 'final_operands'}; {'id': '352', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '353', 'type': 'argument_list', 'children': ['354']}; {'id': '354', 'type': 'call', 'children': ['355', '356']}; {'id': '355', 'type': 'identifier', 'children': [], 'value': 'Operand'}; {'id': '356', 'type': 'argument_list', 'children': ['357', '360']}; {'id': '357', 'type': 'attribute', 'children': ['358', '359']}; {'id': '358', 'type': 'identifier', 'children': [], 'value': 'OperandTypes'}; {'id': '359', 'type': 'identifier', 'children': [], 'value': 'LOCAL_INDEX'}; {'id': '360', 'type': 'subscript', 'children': ['361', '371']}; {'id': '361', 'type': 'call', 'children': ['362', '363']}; {'id': '362', 'type': 'identifier', 'children': [], 'value': 'unpack'}; {'id': '363', 'type': 'argument_list', 'children': ['364', '365']}; {'id': '364', 'type': 'string', 'children': [], 'value': "'>H'"}; {'id': '365', 'type': 'call', 'children': ['366', '369']}; {'id': '366', 'type': 'attribute', 'children': ['367', '368']}; {'id': '367', 'type': 'identifier', 'children': [], 'value': 'fio'}; {'id': '368', 'type': 'identifier', 'children': [], 'value': 'read'}; {'id': '369', 'type': 'argument_list', 'children': ['370']}; {'id': '370', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '371', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '372', 'type': 'if_statement', 'children': ['373', '376']}; {'id': '373', 'type': 'comparison_operator', 'children': ['374', '375'], 'value': '=='}; {'id': '374', 'type': 'identifier', 'children': [], 'value': 'real_op'}; {'id': '375', 'type': 'integer', 'children': [], 'value': '0x84'}; {'id': '376', 'type': 'block', 'children': ['377']}; {'id': '377', 'type': 'expression_statement', 'children': ['378']}; {'id': '378', 'type': 'call', 'children': ['379', '382']}; {'id': '379', 'type': 'attribute', 'children': ['380', '381']}; {'id': '380', 'type': 'identifier', 'children': [], 'value': 'final_operands'}; {'id': '381', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '382', 'type': 'argument_list', 'children': ['383']}; {'id': '383', 'type': 'call', 'children': ['384', '385']}; {'id': '384', 'type': 'identifier', 'children': [], 'value': 'Operand'}; {'id': '385', 'type': 'argument_list', 'children': ['386', '389']}; {'id': '386', 'type': 'attribute', 'children': ['387', '388']}; {'id': '387', 'type': 'identifier', 'children': [], 'value': 'OperandTypes'}; {'id': '388', 'type': 'identifier', 'children': [], 'value': 'LITERAL'}; {'id': '389', 'type': 'subscript', 'children': ['390', '400']}; {'id': '390', 'type': 'call', 'children': ['391', '392']}; {'id': '391', 'type': 'identifier', 'children': [], 'value': 'unpack'}; {'id': '392', 'type': 'argument_list', 'children': ['393', '394']}; {'id': '393', 'type': 'string', 'children': [], 'value': "'>H'"}; {'id': '394', 'type': 'call', 'children': ['395', '398']}; {'id': '395', 'type': 'attribute', 'children': ['396', '397']}; {'id': '396', 'type': 'identifier', 'children': [], 'value': 'fio'}; {'id': '397', 'type': 'identifier', 'children': [], 'value': 'read'}; {'id': '398', 'type': 'argument_list', 'children': ['399']}; {'id': '399', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '400', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '401', 'type': 'return_statement', 'children': ['402']}; {'id': '402', 'type': 'call', 'children': ['403', '404']}; {'id': '403', 'type': 'identifier', 'children': [], 'value': 'Instruction'}; {'id': '404', 'type': 'argument_list', 'children': ['405', '406', '407', '408']}; {'id': '405', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '406', 'type': 'identifier', 'children': [], 'value': 'op'}; {'id': '407', 'type': 'identifier', 'children': [], 'value': 'final_operands'}; {'id': '408', 'type': 'identifier', 'children': [], 'value': 'start_pos'} | def read_instruction(fio, start_pos):
op = fio.read(1)
if not op:
return None
op = ord(op)
ins = opcode_table[op]
operands = ins['operands']
name = ins['mnemonic']
final_operands = []
if operands:
for fmt, type_ in operands:
final_operands.append(
Operand(
type_,
fmt.value.unpack(fio.read(fmt.value.size))[0]
)
)
elif op == 0xAB:
padding = 4 - (start_pos + 1) % 4
padding = padding if padding != 4 else 0
fio.read(padding)
default, npairs = unpack('>ii', fio.read(8))
pairs = {}
for _ in repeat(None, npairs):
match, offset = unpack('>ii', fio.read(8))
pairs[match] = offset
final_operands.append(pairs)
final_operands.append(Operand(OperandTypes.BRANCH, default))
elif op == 0xAA:
padding = 4 - (start_pos + 1) % 4
padding = padding if padding != 4 else 0
fio.read(padding)
default, low, high = unpack('>iii', fio.read(12))
final_operands.append(Operand(OperandTypes.BRANCH, default))
final_operands.append(Operand(OperandTypes.LITERAL, low))
final_operands.append(Operand(OperandTypes.LITERAL, high))
for _ in repeat(None, high - low + 1):
offset = unpack('>i', fio.read(4))[0]
final_operands.append(Operand(OperandTypes.BRANCH, offset))
elif op == 0xC4:
real_op = unpack('>B', fio.read(1))[0]
ins = opcode_table[real_op]
name = ins['mnemonic']
final_operands.append(Operand(
OperandTypes.LOCAL_INDEX,
unpack('>H', fio.read(2))[0]
))
if real_op == 0x84:
final_operands.append(Operand(
OperandTypes.LITERAL,
unpack('>H', fio.read(2))[0]
))
return Instruction(name, op, final_operands, start_pos) |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'sort_by_type'}; {'id': '3', 'type': 'parameters', 'children': ['4']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'file_list'}; {'id': '5', 'type': 'block', 'children': ['6', '13', '45']}; {'id': '6', 'type': 'expression_statement', 'children': ['7']}; {'id': '7', 'type': 'assignment', 'children': ['8', '9']}; {'id': '8', 'type': 'identifier', 'children': [], 'value': 'ret_dict'}; {'id': '9', 'type': 'call', 'children': ['10', '11']}; {'id': '10', 'type': 'identifier', 'children': [], 'value': 'defaultdict'}; {'id': '11', 'type': 'argument_list', 'children': ['12']}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'list'}; {'id': '13', 'type': 'for_statement', 'children': ['14', '15', '16']}; {'id': '14', 'type': 'identifier', 'children': [], 'value': 'filepath'}; {'id': '15', 'type': 'identifier', 'children': [], 'value': 'file_list'}; {'id': '16', 'type': 'block', 'children': ['17', '30']}; {'id': '17', 'type': 'expression_statement', 'children': ['18']}; {'id': '18', 'type': 'assignment', 'children': ['19', '22']}; {'id': '19', 'type': 'pattern_list', 'children': ['20', '21']}; {'id': '20', 'type': 'identifier', 'children': [], 'value': '_'}; {'id': '21', 'type': 'identifier', 'children': [], 'value': 'ext'}; {'id': '22', 'type': 'call', 'children': ['23', '28']}; {'id': '23', 'type': 'attribute', 'children': ['24', '27']}; {'id': '24', 'type': 'attribute', 'children': ['25', '26']}; {'id': '25', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '27', 'type': 'identifier', 'children': [], 'value': 'splitext'}; {'id': '28', 'type': 'argument_list', 'children': ['29']}; {'id': '29', 'type': 'identifier', 'children': [], 'value': 'filepath'}; {'id': '30', 'type': 'expression_statement', 'children': ['31']}; {'id': '31', 'type': 'call', 'children': ['32', '43']}; {'id': '32', 'type': 'attribute', 'children': ['33', '42']}; {'id': '33', 'type': 'subscript', 'children': ['34', '35']}; {'id': '34', 'type': 'identifier', 'children': [], 'value': 'ret_dict'}; {'id': '35', 'type': 'call', 'children': ['36', '39']}; {'id': '36', 'type': 'attribute', 'children': ['37', '38']}; {'id': '37', 'type': 'identifier', 'children': [], 'value': 'ext'}; {'id': '38', 'type': 'identifier', 'children': [], 'value': 'replace'}; {'id': '39', 'type': 'argument_list', 'children': ['40', '41']}; {'id': '40', 'type': 'string', 'children': [], 'value': "'.'"}; {'id': '41', 'type': 'string', 'children': [], 'value': "''"}; {'id': '42', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '43', 'type': 'argument_list', 'children': ['44']}; {'id': '44', 'type': 'identifier', 'children': [], 'value': 'filepath'}; {'id': '45', 'type': 'return_statement', 'children': ['46']}; {'id': '46', 'type': 'identifier', 'children': [], 'value': 'ret_dict'} | def sort_by_type(file_list):
ret_dict = defaultdict(list)
for filepath in file_list:
_, ext = os.path.splitext(filepath)
ret_dict[ext.replace('.', '')].append(filepath)
return ret_dict |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '6']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': '_check_triple'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'triple'}; {'id': '6', 'type': 'block', 'children': ['7', '14', '40', '44', '53', '62', '83', '95', '114', '146', '155', '169', '181', '188', '199', '211', '223', '235', '246', '253']}; {'id': '7', 'type': 'expression_statement', 'children': ['8']}; {'id': '8', 'type': 'assignment', 'children': ['9', '13']}; {'id': '9', 'type': 'pattern_list', 'children': ['10', '11', '12']}; {'id': '10', 'type': 'identifier', 'children': [], 'value': 'subj'}; {'id': '11', 'type': 'identifier', 'children': [], 'value': 'pred'}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'obj'}; {'id': '13', 'type': 'identifier', 'children': [], 'value': 'triple'}; {'id': '14', 'type': 'if_statement', 'children': ['15', '21']}; {'id': '15', 'type': 'call', 'children': ['16', '19']}; {'id': '16', 'type': 'attribute', 'children': ['17', '18']}; {'id': '17', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '18', 'type': 'identifier', 'children': [], 'value': '_should_ignore_predicate'}; {'id': '19', 'type': 'argument_list', 'children': ['20']}; {'id': '20', 'type': 'identifier', 'children': [], 'value': 'pred'}; {'id': '21', 'type': 'block', 'children': ['22', '39']}; {'id': '22', 'type': 'expression_statement', 'children': ['23']}; {'id': '23', 'type': 'call', 'children': ['24', '27']}; {'id': '24', 'type': 'attribute', 'children': ['25', '26']}; {'id': '25', 'type': 'identifier', 'children': [], 'value': 'log'}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'info'}; {'id': '27', 'type': 'argument_list', 'children': ['28']}; {'id': '28', 'type': 'call', 'children': ['29', '32']}; {'id': '29', 'type': 'attribute', 'children': ['30', '31']}; {'id': '30', 'type': 'string', 'children': [], 'value': '"Ignoring triple with predicate \'{}\'"'}; {'id': '31', 'type': 'identifier', 'children': [], 'value': 'format'}; {'id': '32', 'type': 'argument_list', 'children': ['33']}; {'id': '33', 'type': 'call', 'children': ['34', '37']}; {'id': '34', 'type': 'attribute', 'children': ['35', '36']}; {'id': '35', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '36', 'type': 'identifier', 'children': [], 'value': '_field_name_from_uri'}; {'id': '37', 'type': 'argument_list', 'children': ['38']}; {'id': '38', 'type': 'identifier', 'children': [], 'value': 'pred'}; {'id': '39', 'type': 'return_statement', 'children': []}; {'id': '40', 'type': 'expression_statement', 'children': ['41']}; {'id': '41', 'type': 'assignment', 'children': ['42', '43']}; {'id': '42', 'type': 'identifier', 'children': [], 'value': 'classes'}; {'id': '43', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '44', 'type': 'expression_statement', 'children': ['45']}; {'id': '45', 'type': 'call', 'children': ['46', '49']}; {'id': '46', 'type': 'attribute', 'children': ['47', '48']}; {'id': '47', 'type': 'identifier', 'children': [], 'value': 'log'}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'warning'}; {'id': '49', 'type': 'argument_list', 'children': ['50']}; {'id': '50', 'type': 'binary_operator', 'children': ['51', '52'], 'value': '%'}; {'id': '51', 'type': 'string', 'children': [], 'value': '"Possible member %s found"'}; {'id': '52', 'type': 'identifier', 'children': [], 'value': 'pred'}; {'id': '53', 'type': 'expression_statement', 'children': ['54']}; {'id': '54', 'type': 'assignment', 'children': ['55', '56']}; {'id': '55', 'type': 'identifier', 'children': [], 'value': 'pred'}; {'id': '56', 'type': 'call', 'children': ['57', '60']}; {'id': '57', 'type': 'attribute', 'children': ['58', '59']}; {'id': '58', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '59', 'type': 'identifier', 'children': [], 'value': '_expand_qname'}; {'id': '60', 'type': 'argument_list', 'children': ['61']}; {'id': '61', 'type': 'identifier', 'children': [], 'value': 'pred'}; {'id': '62', 'type': 'if_statement', 'children': ['63', '73']}; {'id': '63', 'type': 'comparison_operator', 'children': ['64', '70'], 'value': 'not'}; {'id': '64', 'type': 'call', 'children': ['65', '68']}; {'id': '65', 'type': 'attribute', 'children': ['66', '67']}; {'id': '66', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '67', 'type': 'identifier', 'children': [], 'value': '_namespace_from_uri'}; {'id': '68', 'type': 'argument_list', 'children': ['69']}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'pred'}; {'id': '70', 'type': 'attribute', 'children': ['71', '72']}; {'id': '71', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '72', 'type': 'identifier', 'children': [], 'value': 'allowed_namespaces'}; {'id': '73', 'type': 'block', 'children': ['74', '82']}; {'id': '74', 'type': 'expression_statement', 'children': ['75']}; {'id': '75', 'type': 'call', 'children': ['76', '79']}; {'id': '76', 'type': 'attribute', 'children': ['77', '78']}; {'id': '77', 'type': 'identifier', 'children': [], 'value': 'log'}; {'id': '78', 'type': 'identifier', 'children': [], 'value': 'info'}; {'id': '79', 'type': 'argument_list', 'children': ['80', '81']}; {'id': '80', 'type': 'string', 'children': [], 'value': '"Member %s does not use an allowed namespace"'}; {'id': '81', 'type': 'identifier', 'children': [], 'value': 'pred'}; {'id': '82', 'type': 'return_statement', 'children': []}; {'id': '83', 'type': 'expression_statement', 'children': ['84']}; {'id': '84', 'type': 'assignment', 'children': ['85', '86']}; {'id': '85', 'type': 'identifier', 'children': [], 'value': 'instanceof'}; {'id': '86', 'type': 'call', 'children': ['87', '90']}; {'id': '87', 'type': 'attribute', 'children': ['88', '89']}; {'id': '88', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '89', 'type': 'identifier', 'children': [], 'value': '_is_instance'}; {'id': '90', 'type': 'argument_list', 'children': ['91']}; {'id': '91', 'type': 'tuple', 'children': ['92', '93', '94']}; {'id': '92', 'type': 'identifier', 'children': [], 'value': 'subj'}; {'id': '93', 'type': 'identifier', 'children': [], 'value': 'pred'}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'obj'}; {'id': '95', 'type': 'if_statement', 'children': ['96', '104']}; {'id': '96', 'type': 'comparison_operator', 'children': ['97', '101'], 'value': '=='}; {'id': '97', 'type': 'call', 'children': ['98', '99']}; {'id': '98', 'type': 'identifier', 'children': [], 'value': 'type'}; {'id': '99', 'type': 'argument_list', 'children': ['100']}; {'id': '100', 'type': 'identifier', 'children': [], 'value': 'instanceof'}; {'id': '101', 'type': 'attribute', 'children': ['102', '103']}; {'id': '102', 'type': 'identifier', 'children': [], 'value': 'rt'}; {'id': '103', 'type': 'identifier', 'children': [], 'value': 'URIRef'}; {'id': '104', 'type': 'block', 'children': ['105']}; {'id': '105', 'type': 'expression_statement', 'children': ['106']}; {'id': '106', 'type': 'assignment', 'children': ['107', '108']}; {'id': '107', 'type': 'identifier', 'children': [], 'value': 'instanceof'}; {'id': '108', 'type': 'call', 'children': ['109', '112']}; {'id': '109', 'type': 'attribute', 'children': ['110', '111']}; {'id': '110', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '111', 'type': 'identifier', 'children': [], 'value': '_expand_qname'}; {'id': '112', 'type': 'argument_list', 'children': ['113']}; {'id': '113', 'type': 'identifier', 'children': [], 'value': 'instanceof'}; {'id': '114', 'type': 'if_statement', 'children': ['115', '130']}; {'id': '115', 'type': 'boolean_operator', 'children': ['116', '123', '124'], 'value': 'and'}; {'id': '116', 'type': 'call', 'children': ['117', '118']}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'hasattr'}; {'id': '118', 'type': 'argument_list', 'children': ['119', '122']}; {'id': '119', 'type': 'attribute', 'children': ['120', '121']}; {'id': '120', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '121', 'type': 'identifier', 'children': [], 'value': 'schema_def'}; {'id': '122', 'type': 'string', 'children': [], 'value': '"attributes_by_class"'}; {'id': '123', 'type': 'line_continuation', 'children': [], 'value': '\\'}; {'id': '124', 'type': 'not_operator', 'children': ['125']}; {'id': '125', 'type': 'attribute', 'children': ['126', '129']}; {'id': '126', 'type': 'attribute', 'children': ['127', '128']}; {'id': '127', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '128', 'type': 'identifier', 'children': [], 'value': 'schema_def'}; {'id': '129', 'type': 'identifier', 'children': [], 'value': 'attributes_by_class'}; {'id': '130', 'type': 'block', 'children': ['131', '138']}; {'id': '131', 'type': 'expression_statement', 'children': ['132']}; {'id': '132', 'type': 'call', 'children': ['133', '136']}; {'id': '133', 'type': 'attribute', 'children': ['134', '135']}; {'id': '134', 'type': 'identifier', 'children': [], 'value': 'log'}; {'id': '135', 'type': 'identifier', 'children': [], 'value': 'info'}; {'id': '136', 'type': 'argument_list', 'children': ['137']}; {'id': '137', 'type': 'string', 'children': [], 'value': '"Parsed ontology not found. Parsing..."'}; {'id': '138', 'type': 'expression_statement', 'children': ['139']}; {'id': '139', 'type': 'call', 'children': ['140', '145']}; {'id': '140', 'type': 'attribute', 'children': ['141', '144']}; {'id': '141', 'type': 'attribute', 'children': ['142', '143']}; {'id': '142', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '143', 'type': 'identifier', 'children': [], 'value': 'schema_def'}; {'id': '144', 'type': 'identifier', 'children': [], 'value': 'parse_ontology'}; {'id': '145', 'type': 'argument_list', 'children': []}; {'id': '146', 'type': 'expression_statement', 'children': ['147']}; {'id': '147', 'type': 'assignment', 'children': ['148', '149']}; {'id': '148', 'type': 'identifier', 'children': [], 'value': 'class_invalid'}; {'id': '149', 'type': 'call', 'children': ['150', '153']}; {'id': '150', 'type': 'attribute', 'children': ['151', '152']}; {'id': '151', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '152', 'type': 'identifier', 'children': [], 'value': '_validate_class'}; {'id': '153', 'type': 'argument_list', 'children': ['154']}; {'id': '154', 'type': 'identifier', 'children': [], 'value': 'instanceof'}; {'id': '155', 'type': 'if_statement', 'children': ['156', '157']}; {'id': '156', 'type': 'identifier', 'children': [], 'value': 'class_invalid'}; {'id': '157', 'type': 'block', 'children': ['158', '167']}; {'id': '158', 'type': 'expression_statement', 'children': ['159']}; {'id': '159', 'type': 'call', 'children': ['160', '163']}; {'id': '160', 'type': 'attribute', 'children': ['161', '162']}; {'id': '161', 'type': 'identifier', 'children': [], 'value': 'log'}; {'id': '162', 'type': 'identifier', 'children': [], 'value': 'warning'}; {'id': '163', 'type': 'argument_list', 'children': ['164']}; {'id': '164', 'type': 'binary_operator', 'children': ['165', '166'], 'value': '%'}; {'id': '165', 'type': 'string', 'children': [], 'value': '"Invalid class %s"'}; {'id': '166', 'type': 'identifier', 'children': [], 'value': 'instanceof'}; {'id': '167', 'type': 'return_statement', 'children': ['168']}; {'id': '168', 'type': 'identifier', 'children': [], 'value': 'class_invalid'}; {'id': '169', 'type': 'expression_statement', 'children': ['170']}; {'id': '170', 'type': 'assignment', 'children': ['171', '172']}; {'id': '171', 'type': 'identifier', 'children': [], 'value': 'classes'}; {'id': '172', 'type': 'call', 'children': ['173', '176']}; {'id': '173', 'type': 'attribute', 'children': ['174', '175']}; {'id': '174', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '175', 'type': 'identifier', 'children': [], 'value': '_superclasses_for_subject'}; {'id': '176', 'type': 'argument_list', 'children': ['177', '180']}; {'id': '177', 'type': 'attribute', 'children': ['178', '179']}; {'id': '178', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '179', 'type': 'identifier', 'children': [], 'value': 'graph'}; {'id': '180', 'type': 'identifier', 'children': [], 'value': 'instanceof'}; {'id': '181', 'type': 'expression_statement', 'children': ['182']}; {'id': '182', 'type': 'call', 'children': ['183', '186']}; {'id': '183', 'type': 'attribute', 'children': ['184', '185']}; {'id': '184', 'type': 'identifier', 'children': [], 'value': 'classes'}; {'id': '185', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '186', 'type': 'argument_list', 'children': ['187']}; {'id': '187', 'type': 'identifier', 'children': [], 'value': 'instanceof'}; {'id': '188', 'type': 'expression_statement', 'children': ['189']}; {'id': '189', 'type': 'assignment', 'children': ['190', '191']}; {'id': '190', 'type': 'identifier', 'children': [], 'value': 'member_invalid'}; {'id': '191', 'type': 'call', 'children': ['192', '195']}; {'id': '192', 'type': 'attribute', 'children': ['193', '194']}; {'id': '193', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '194', 'type': 'identifier', 'children': [], 'value': '_validate_member'}; {'id': '195', 'type': 'argument_list', 'children': ['196', '197', '198']}; {'id': '196', 'type': 'identifier', 'children': [], 'value': 'pred'}; {'id': '197', 'type': 'identifier', 'children': [], 'value': 'classes'}; {'id': '198', 'type': 'identifier', 'children': [], 'value': 'instanceof'}; {'id': '199', 'type': 'if_statement', 'children': ['200', '201']}; {'id': '200', 'type': 'identifier', 'children': [], 'value': 'member_invalid'}; {'id': '201', 'type': 'block', 'children': ['202', '209']}; {'id': '202', 'type': 'expression_statement', 'children': ['203']}; {'id': '203', 'type': 'call', 'children': ['204', '207']}; {'id': '204', 'type': 'attribute', 'children': ['205', '206']}; {'id': '205', 'type': 'identifier', 'children': [], 'value': 'log'}; {'id': '206', 'type': 'identifier', 'children': [], 'value': 'warning'}; {'id': '207', 'type': 'argument_list', 'children': ['208']}; {'id': '208', 'type': 'string', 'children': [], 'value': '"Invalid member of class"'}; {'id': '209', 'type': 'return_statement', 'children': ['210']}; {'id': '210', 'type': 'identifier', 'children': [], 'value': 'member_invalid'}; {'id': '211', 'type': 'expression_statement', 'children': ['212']}; {'id': '212', 'type': 'assignment', 'children': ['213', '214']}; {'id': '213', 'type': 'identifier', 'children': [], 'value': 'dupe_invalid'}; {'id': '214', 'type': 'call', 'children': ['215', '218']}; {'id': '215', 'type': 'attribute', 'children': ['216', '217']}; {'id': '216', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '217', 'type': 'identifier', 'children': [], 'value': '_validate_duplication'}; {'id': '218', 'type': 'argument_list', 'children': ['219', '222']}; {'id': '219', 'type': 'tuple', 'children': ['220', '221']}; {'id': '220', 'type': 'identifier', 'children': [], 'value': 'subj'}; {'id': '221', 'type': 'identifier', 'children': [], 'value': 'pred'}; {'id': '222', 'type': 'identifier', 'children': [], 'value': 'instanceof'}; {'id': '223', 'type': 'if_statement', 'children': ['224', '225']}; {'id': '224', 'type': 'identifier', 'children': [], 'value': 'dupe_invalid'}; {'id': '225', 'type': 'block', 'children': ['226', '233']}; {'id': '226', 'type': 'expression_statement', 'children': ['227']}; {'id': '227', 'type': 'call', 'children': ['228', '231']}; {'id': '228', 'type': 'attribute', 'children': ['229', '230']}; {'id': '229', 'type': 'identifier', 'children': [], 'value': 'log'}; {'id': '230', 'type': 'identifier', 'children': [], 'value': 'warning'}; {'id': '231', 'type': 'argument_list', 'children': ['232']}; {'id': '232', 'type': 'string', 'children': [], 'value': '"Duplication found"'}; {'id': '233', 'type': 'return_statement', 'children': ['234']}; {'id': '234', 'type': 'identifier', 'children': [], 'value': 'dupe_invalid'}; {'id': '235', 'type': 'expression_statement', 'children': ['236']}; {'id': '236', 'type': 'call', 'children': ['237', '242']}; {'id': '237', 'type': 'attribute', 'children': ['238', '241']}; {'id': '238', 'type': 'attribute', 'children': ['239', '240']}; {'id': '239', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '240', 'type': 'identifier', 'children': [], 'value': 'checked_attributes'}; {'id': '241', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '242', 'type': 'argument_list', 'children': ['243']}; {'id': '243', 'type': 'tuple', 'children': ['244', '245']}; {'id': '244', 'type': 'identifier', 'children': [], 'value': 'subj'}; {'id': '245', 'type': 'identifier', 'children': [], 'value': 'pred'}; {'id': '246', 'type': 'expression_statement', 'children': ['247']}; {'id': '247', 'type': 'call', 'children': ['248', '251']}; {'id': '248', 'type': 'attribute', 'children': ['249', '250']}; {'id': '249', 'type': 'identifier', 'children': [], 'value': 'log'}; {'id': '250', 'type': 'identifier', 'children': [], 'value': 'warning'}; {'id': '251', 'type': 'argument_list', 'children': ['252']}; {'id': '252', 'type': 'string', 'children': [], 'value': '"successfully validated triple, no errors"'}; {'id': '253', 'type': 'return_statement', 'children': []} | def _check_triple(self, triple):
subj, pred, obj = triple
if self._should_ignore_predicate(pred):
log.info("Ignoring triple with predicate '{}'"
.format(self._field_name_from_uri(pred)))
return
classes = []
log.warning("Possible member %s found" % pred)
pred = self._expand_qname(pred)
if self._namespace_from_uri(pred) not in self.allowed_namespaces:
log.info("Member %s does not use an allowed namespace", pred)
return
instanceof = self._is_instance((subj, pred, obj))
if type(instanceof) == rt.URIRef:
instanceof = self._expand_qname(instanceof)
if hasattr(self.schema_def, "attributes_by_class") and \
not self.schema_def.attributes_by_class:
log.info("Parsed ontology not found. Parsing...")
self.schema_def.parse_ontology()
class_invalid = self._validate_class(instanceof)
if class_invalid:
log.warning("Invalid class %s" % instanceof)
return class_invalid
classes = self._superclasses_for_subject(self.graph, instanceof)
classes.append(instanceof)
member_invalid = self._validate_member(pred, classes, instanceof)
if member_invalid:
log.warning("Invalid member of class")
return member_invalid
dupe_invalid = self._validate_duplication((subj, pred), instanceof)
if dupe_invalid:
log.warning("Duplication found")
return dupe_invalid
self.checked_attributes.append((subj, pred))
log.warning("successfully validated triple, no errors")
return |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'parse_ontology'}; {'id': '3', 'type': 'parameters', 'children': ['4']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '5', 'type': 'block', 'children': ['6', '14', '27', '159', '172']}; {'id': '6', 'type': 'expression_statement', 'children': ['7']}; {'id': '7', 'type': 'assignment', 'children': ['8', '9']}; {'id': '8', 'type': 'identifier', 'children': [], 'value': 'start'}; {'id': '9', 'type': 'call', 'children': ['10', '13']}; {'id': '10', 'type': 'attribute', 'children': ['11', '12']}; {'id': '11', 'type': 'identifier', 'children': [], 'value': 'time'}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'clock'}; {'id': '13', 'type': 'argument_list', 'children': []}; {'id': '14', 'type': 'expression_statement', 'children': ['15']}; {'id': '15', 'type': 'call', 'children': ['16', '19']}; {'id': '16', 'type': 'attribute', 'children': ['17', '18']}; {'id': '17', 'type': 'identifier', 'children': [], 'value': 'log'}; {'id': '18', 'type': 'identifier', 'children': [], 'value': 'info'}; {'id': '19', 'type': 'argument_list', 'children': ['20']}; {'id': '20', 'type': 'binary_operator', 'children': ['21', '22'], 'value': '%'}; {'id': '21', 'type': 'string', 'children': [], 'value': '"Parsing ontology file for %s"'}; {'id': '22', 'type': 'attribute', 'children': ['23', '26']}; {'id': '23', 'type': 'attribute', 'children': ['24', '25']}; {'id': '24', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '25', 'type': 'identifier', 'children': [], 'value': '__class__'}; {'id': '26', 'type': 'identifier', 'children': [], 'value': '__name__'}; {'id': '27', 'type': 'for_statement', 'children': ['28', '32', '37']}; {'id': '28', 'type': 'pattern_list', 'children': ['29', '30', '31']}; {'id': '29', 'type': 'identifier', 'children': [], 'value': 'subj'}; {'id': '30', 'type': 'identifier', 'children': [], 'value': 'pred'}; {'id': '31', 'type': 'identifier', 'children': [], 'value': 'obj'}; {'id': '32', 'type': 'call', 'children': ['33', '36']}; {'id': '33', 'type': 'attribute', 'children': ['34', '35']}; {'id': '34', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '35', 'type': 'identifier', 'children': [], 'value': '_schema_nodes'}; {'id': '36', 'type': 'argument_list', 'children': []}; {'id': '37', 'type': 'block', 'children': ['38', '81', '89', '112']}; {'id': '38', 'type': 'if_statement', 'children': ['39', '44']}; {'id': '39', 'type': 'comparison_operator', 'children': ['40', '41'], 'value': 'not'}; {'id': '40', 'type': 'identifier', 'children': [], 'value': 'subj'}; {'id': '41', 'type': 'attribute', 'children': ['42', '43']}; {'id': '42', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '43', 'type': 'identifier', 'children': [], 'value': 'attributes_by_class'}; {'id': '44', 'type': 'block', 'children': ['45']}; {'id': '45', 'type': 'if_statement', 'children': ['46', '72']}; {'id': '46', 'type': 'boolean_operator', 'children': ['47', '59', '60'], 'value': 'and'}; {'id': '47', 'type': 'comparison_operator', 'children': ['48', '49'], 'value': '=='}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'obj'}; {'id': '49', 'type': 'call', 'children': ['50', '53']}; {'id': '50', 'type': 'attribute', 'children': ['51', '52']}; {'id': '51', 'type': 'identifier', 'children': [], 'value': 'rt'}; {'id': '52', 'type': 'identifier', 'children': [], 'value': 'URIRef'}; {'id': '53', 'type': 'argument_list', 'children': ['54']}; {'id': '54', 'type': 'subscript', 'children': ['55', '58']}; {'id': '55', 'type': 'attribute', 'children': ['56', '57']}; {'id': '56', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '57', 'type': 'identifier', 'children': [], 'value': 'lexicon'}; {'id': '58', 'type': 'string', 'children': [], 'value': "'class'"}; {'id': '59', 'type': 'line_continuation', 'children': [], 'value': '\\'}; {'id': '60', 'type': 'comparison_operator', 'children': ['61', '62'], 'value': '=='}; {'id': '61', 'type': 'identifier', 'children': [], 'value': 'pred'}; {'id': '62', 'type': 'call', 'children': ['63', '66']}; {'id': '63', 'type': 'attribute', 'children': ['64', '65']}; {'id': '64', 'type': 'identifier', 'children': [], 'value': 'rt'}; {'id': '65', 'type': 'identifier', 'children': [], 'value': 'URIRef'}; {'id': '66', 'type': 'argument_list', 'children': ['67']}; {'id': '67', 'type': 'subscript', 'children': ['68', '71']}; {'id': '68', 'type': 'attribute', 'children': ['69', '70']}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '70', 'type': 'identifier', 'children': [], 'value': 'lexicon'}; {'id': '71', 'type': 'string', 'children': [], 'value': "'type'"}; {'id': '72', 'type': 'block', 'children': ['73']}; {'id': '73', 'type': 'expression_statement', 'children': ['74']}; {'id': '74', 'type': 'assignment', 'children': ['75', '80']}; {'id': '75', 'type': 'subscript', 'children': ['76', '79']}; {'id': '76', 'type': 'attribute', 'children': ['77', '78']}; {'id': '77', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '78', 'type': 'identifier', 'children': [], 'value': 'attributes_by_class'}; {'id': '79', 'type': 'identifier', 'children': [], 'value': 'subj'}; {'id': '80', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '81', 'type': 'expression_statement', 'children': ['82']}; {'id': '82', 'type': 'assignment', 'children': ['83', '84']}; {'id': '83', 'type': 'identifier', 'children': [], 'value': 'leaves'}; {'id': '84', 'type': 'list', 'children': ['85'], 'value': '[(subj, pred, obj)]'}; {'id': '85', 'type': 'tuple', 'children': ['86', '87', '88']}; {'id': '86', 'type': 'identifier', 'children': [], 'value': 'subj'}; {'id': '87', 'type': 'identifier', 'children': [], 'value': 'pred'}; {'id': '88', 'type': 'identifier', 'children': [], 'value': 'obj'}; {'id': '89', 'type': 'if_statement', 'children': ['90', '98']}; {'id': '90', 'type': 'comparison_operator', 'children': ['91', '95'], 'value': '=='}; {'id': '91', 'type': 'call', 'children': ['92', '93']}; {'id': '92', 'type': 'identifier', 'children': [], 'value': 'type'}; {'id': '93', 'type': 'argument_list', 'children': ['94']}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'obj'}; {'id': '95', 'type': 'attribute', 'children': ['96', '97']}; {'id': '96', 'type': 'identifier', 'children': [], 'value': 'rt'}; {'id': '97', 'type': 'identifier', 'children': [], 'value': 'BNode'}; {'id': '98', 'type': 'block', 'children': ['99']}; {'id': '99', 'type': 'expression_statement', 'children': ['100']}; {'id': '100', 'type': 'assignment', 'children': ['101', '102']}; {'id': '101', 'type': 'identifier', 'children': [], 'value': 'leaves'}; {'id': '102', 'type': 'call', 'children': ['103', '104']}; {'id': '103', 'type': 'identifier', 'children': [], 'value': 'deepest_node'}; {'id': '104', 'type': 'argument_list', 'children': ['105', '109']}; {'id': '105', 'type': 'tuple', 'children': ['106', '107', '108']}; {'id': '106', 'type': 'identifier', 'children': [], 'value': 'subj'}; {'id': '107', 'type': 'identifier', 'children': [], 'value': 'pred'}; {'id': '108', 'type': 'identifier', 'children': [], 'value': 'obj'}; {'id': '109', 'type': 'attribute', 'children': ['110', '111']}; {'id': '110', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '111', 'type': 'identifier', 'children': [], 'value': 'graph'}; {'id': '112', 'type': 'for_statement', 'children': ['113', '117', '118']}; {'id': '113', 'type': 'pattern_list', 'children': ['114', '115', '116']}; {'id': '114', 'type': 'identifier', 'children': [], 'value': 's'}; {'id': '115', 'type': 'identifier', 'children': [], 'value': 'p'}; {'id': '116', 'type': 'identifier', 'children': [], 'value': 'o'}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'leaves'}; {'id': '118', 'type': 'block', 'children': ['119', '134']}; {'id': '119', 'type': 'if_statement', 'children': ['120', '125']}; {'id': '120', 'type': 'comparison_operator', 'children': ['121', '122'], 'value': 'not'}; {'id': '121', 'type': 'identifier', 'children': [], 'value': 'o'}; {'id': '122', 'type': 'attribute', 'children': ['123', '124']}; {'id': '123', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'attributes_by_class'}; {'id': '125', 'type': 'block', 'children': ['126']}; {'id': '126', 'type': 'expression_statement', 'children': ['127']}; {'id': '127', 'type': 'assignment', 'children': ['128', '133']}; {'id': '128', 'type': 'subscript', 'children': ['129', '132']}; {'id': '129', 'type': 'attribute', 'children': ['130', '131']}; {'id': '130', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '131', 'type': 'identifier', 'children': [], 'value': 'attributes_by_class'}; {'id': '132', 'type': 'identifier', 'children': [], 'value': 'o'}; {'id': '133', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '134', 'type': 'if_statement', 'children': ['135', '147']}; {'id': '135', 'type': 'comparison_operator', 'children': ['136', '137'], 'value': '=='}; {'id': '136', 'type': 'identifier', 'children': [], 'value': 'pred'}; {'id': '137', 'type': 'call', 'children': ['138', '141']}; {'id': '138', 'type': 'attribute', 'children': ['139', '140']}; {'id': '139', 'type': 'identifier', 'children': [], 'value': 'rt'}; {'id': '140', 'type': 'identifier', 'children': [], 'value': 'URIRef'}; {'id': '141', 'type': 'argument_list', 'children': ['142']}; {'id': '142', 'type': 'subscript', 'children': ['143', '146']}; {'id': '143', 'type': 'attribute', 'children': ['144', '145']}; {'id': '144', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '145', 'type': 'identifier', 'children': [], 'value': 'lexicon'}; {'id': '146', 'type': 'string', 'children': [], 'value': "'domain'"}; {'id': '147', 'type': 'block', 'children': ['148']}; {'id': '148', 'type': 'expression_statement', 'children': ['149']}; {'id': '149', 'type': 'call', 'children': ['150', '157']}; {'id': '150', 'type': 'attribute', 'children': ['151', '156']}; {'id': '151', 'type': 'subscript', 'children': ['152', '155']}; {'id': '152', 'type': 'attribute', 'children': ['153', '154']}; {'id': '153', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '154', 'type': 'identifier', 'children': [], 'value': 'attributes_by_class'}; {'id': '155', 'type': 'identifier', 'children': [], 'value': 'o'}; {'id': '156', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '157', 'type': 'argument_list', 'children': ['158']}; {'id': '158', 'type': 'identifier', 'children': [], 'value': 'subj'}; {'id': '159', 'type': 'if_statement', 'children': ['160', '164']}; {'id': '160', 'type': 'not_operator', 'children': ['161']}; {'id': '161', 'type': 'attribute', 'children': ['162', '163']}; {'id': '162', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '163', 'type': 'identifier', 'children': [], 'value': 'attributes_by_class'}; {'id': '164', 'type': 'block', 'children': ['165']}; {'id': '165', 'type': 'expression_statement', 'children': ['166']}; {'id': '166', 'type': 'call', 'children': ['167', '170']}; {'id': '167', 'type': 'attribute', 'children': ['168', '169']}; {'id': '168', 'type': 'identifier', 'children': [], 'value': 'log'}; {'id': '169', 'type': 'identifier', 'children': [], 'value': 'info'}; {'id': '170', 'type': 'argument_list', 'children': ['171']}; {'id': '171', 'type': 'string', 'children': [], 'value': '"No nodes found in ontology"'}; {'id': '172', 'type': 'expression_statement', 'children': ['173']}; {'id': '173', 'type': 'call', 'children': ['174', '177']}; {'id': '174', 'type': 'attribute', 'children': ['175', '176']}; {'id': '175', 'type': 'identifier', 'children': [], 'value': 'log'}; {'id': '176', 'type': 'identifier', 'children': [], 'value': 'info'}; {'id': '177', 'type': 'argument_list', 'children': ['178']}; {'id': '178', 'type': 'call', 'children': ['179', '182']}; {'id': '179', 'type': 'attribute', 'children': ['180', '181']}; {'id': '180', 'type': 'string', 'children': [], 'value': '"Ontology parsing complete in {}"'}; {'id': '181', 'type': 'identifier', 'children': [], 'value': 'format'}; {'id': '182', 'type': 'argument_list', 'children': ['183']}; {'id': '183', 'type': 'binary_operator', 'children': ['184', '192'], 'value': '*'}; {'id': '184', 'type': '()', 'children': ['185']}; {'id': '185', 'type': 'binary_operator', 'children': ['186', '191'], 'value': '-'}; {'id': '186', 'type': 'call', 'children': ['187', '190']}; {'id': '187', 'type': 'attribute', 'children': ['188', '189']}; {'id': '188', 'type': 'identifier', 'children': [], 'value': 'time'}; {'id': '189', 'type': 'identifier', 'children': [], 'value': 'clock'}; {'id': '190', 'type': 'argument_list', 'children': []}; {'id': '191', 'type': 'identifier', 'children': [], 'value': 'start'}; {'id': '192', 'type': 'integer', 'children': [], 'value': '1000'} | def parse_ontology(self):
start = time.clock()
log.info("Parsing ontology file for %s" % self.__class__.__name__)
for subj, pred, obj in self._schema_nodes():
if subj not in self.attributes_by_class:
if obj == rt.URIRef(self.lexicon['class']) and \
pred == rt.URIRef(self.lexicon['type']):
self.attributes_by_class[subj] = []
leaves = [(subj, pred, obj)]
if type(obj) == rt.BNode:
leaves = deepest_node((subj, pred, obj), self.graph)
for s, p, o in leaves:
if o not in self.attributes_by_class:
self.attributes_by_class[o] = []
if pred == rt.URIRef(self.lexicon['domain']):
self.attributes_by_class[o].append(subj)
if not self.attributes_by_class:
log.info("No nodes found in ontology")
log.info("Ontology parsing complete in {}".format(
(time.clock() - start) * 1000)) |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'new_frame_event'}; {'id': '3', 'type': 'parameters', 'children': ['4']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '5', 'type': 'block', 'children': ['6', '25', '29', '106', '195']}; {'id': '6', 'type': 'for_statement', 'children': ['7', '8', '15']}; {'id': '7', 'type': 'identifier', 'children': [], 'value': 'out_pool'}; {'id': '8', 'type': 'call', 'children': ['9', '14']}; {'id': '9', 'type': 'attribute', 'children': ['10', '13']}; {'id': '10', 'type': 'attribute', 'children': ['11', '12']}; {'id': '11', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'outframe_pool'}; {'id': '13', 'type': 'identifier', 'children': [], 'value': 'values'}; {'id': '14', 'type': 'argument_list', 'children': []}; {'id': '15', 'type': 'block', 'children': ['16']}; {'id': '16', 'type': 'if_statement', 'children': ['17', '23']}; {'id': '17', 'type': 'not_operator', 'children': ['18']}; {'id': '18', 'type': 'call', 'children': ['19', '22']}; {'id': '19', 'type': 'attribute', 'children': ['20', '21']}; {'id': '20', 'type': 'identifier', 'children': [], 'value': 'out_pool'}; {'id': '21', 'type': 'identifier', 'children': [], 'value': 'available'}; {'id': '22', 'type': 'argument_list', 'children': []}; {'id': '23', 'type': 'block', 'children': ['24']}; {'id': '24', 'type': 'return_statement', 'children': []}; {'id': '25', 'type': 'expression_statement', 'children': ['26']}; {'id': '26', 'type': 'assignment', 'children': ['27', '28']}; {'id': '27', 'type': 'identifier', 'children': [], 'value': 'frame_nos'}; {'id': '28', 'type': 'dictionary', 'children': []}; {'id': '29', 'type': 'for_statement', 'children': ['30', '31', '38']}; {'id': '30', 'type': 'identifier', 'children': [], 'value': 'in_buff'}; {'id': '31', 'type': 'call', 'children': ['32', '37']}; {'id': '32', 'type': 'attribute', 'children': ['33', '36']}; {'id': '33', 'type': 'attribute', 'children': ['34', '35']}; {'id': '34', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '35', 'type': 'identifier', 'children': [], 'value': 'input_buffer'}; {'id': '36', 'type': 'identifier', 'children': [], 'value': 'values'}; {'id': '37', 'type': 'argument_list', 'children': []}; {'id': '38', 'type': 'block', 'children': ['39', '48', '56', '65']}; {'id': '39', 'type': 'if_statement', 'children': ['40', '46']}; {'id': '40', 'type': 'not_operator', 'children': ['41']}; {'id': '41', 'type': 'call', 'children': ['42', '45']}; {'id': '42', 'type': 'attribute', 'children': ['43', '44']}; {'id': '43', 'type': 'identifier', 'children': [], 'value': 'in_buff'}; {'id': '44', 'type': 'identifier', 'children': [], 'value': 'available'}; {'id': '45', 'type': 'argument_list', 'children': []}; {'id': '46', 'type': 'block', 'children': ['47']}; {'id': '47', 'type': 'return_statement', 'children': []}; {'id': '48', 'type': 'expression_statement', 'children': ['49']}; {'id': '49', 'type': 'assignment', 'children': ['50', '51']}; {'id': '50', 'type': 'identifier', 'children': [], 'value': 'in_frame'}; {'id': '51', 'type': 'call', 'children': ['52', '55']}; {'id': '52', 'type': 'attribute', 'children': ['53', '54']}; {'id': '53', 'type': 'identifier', 'children': [], 'value': 'in_buff'}; {'id': '54', 'type': 'identifier', 'children': [], 'value': 'peek'}; {'id': '55', 'type': 'argument_list', 'children': []}; {'id': '56', 'type': 'if_statement', 'children': ['57', '60']}; {'id': '57', 'type': 'comparison_operator', 'children': ['58', '59'], 'value': 'is'}; {'id': '58', 'type': 'identifier', 'children': [], 'value': 'in_frame'}; {'id': '59', 'type': 'None', 'children': []}; {'id': '60', 'type': 'block', 'children': ['61']}; {'id': '61', 'type': 'raise_statement', 'children': ['62']}; {'id': '62', 'type': 'call', 'children': ['63', '64']}; {'id': '63', 'type': 'identifier', 'children': [], 'value': 'StopIteration'}; {'id': '64', 'type': 'argument_list', 'children': []}; {'id': '65', 'type': 'if_statement', 'children': ['66', '71', '80']}; {'id': '66', 'type': 'comparison_operator', 'children': ['67', '70'], 'value': '>='}; {'id': '67', 'type': 'attribute', 'children': ['68', '69']}; {'id': '68', 'type': 'identifier', 'children': [], 'value': 'in_frame'}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'frame_no'}; {'id': '70', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '71', 'type': 'block', 'children': ['72']}; {'id': '72', 'type': 'expression_statement', 'children': ['73']}; {'id': '73', 'type': 'assignment', 'children': ['74', '77']}; {'id': '74', 'type': 'subscript', 'children': ['75', '76']}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'frame_nos'}; {'id': '76', 'type': 'identifier', 'children': [], 'value': 'in_buff'}; {'id': '77', 'type': 'attribute', 'children': ['78', '79']}; {'id': '78', 'type': 'identifier', 'children': [], 'value': 'in_frame'}; {'id': '79', 'type': 'identifier', 'children': [], 'value': 'frame_no'}; {'id': '80', 'type': 'else_clause', 'children': ['81']}; {'id': '81', 'type': 'block', 'children': ['82']}; {'id': '82', 'type': 'while_statement', 'children': ['83', '99']}; {'id': '83', 'type': 'boolean_operator', 'children': ['84', '91'], 'value': 'and'}; {'id': '84', 'type': 'comparison_operator', 'children': ['85', '90'], 'value': '>'}; {'id': '85', 'type': 'call', 'children': ['86', '89']}; {'id': '86', 'type': 'attribute', 'children': ['87', '88']}; {'id': '87', 'type': 'identifier', 'children': [], 'value': 'in_buff'}; {'id': '88', 'type': 'identifier', 'children': [], 'value': 'available'}; {'id': '89', 'type': 'argument_list', 'children': []}; {'id': '90', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '91', 'type': 'comparison_operator', 'children': ['92', '98'], 'value': 'is'}; {'id': '92', 'type': 'call', 'children': ['93', '96']}; {'id': '93', 'type': 'attribute', 'children': ['94', '95']}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'in_buff'}; {'id': '95', 'type': 'identifier', 'children': [], 'value': 'peek'}; {'id': '96', 'type': 'argument_list', 'children': ['97']}; {'id': '97', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '98', 'type': 'None', 'children': []}; {'id': '99', 'type': 'block', 'children': ['100']}; {'id': '100', 'type': 'expression_statement', 'children': ['101']}; {'id': '101', 'type': 'call', 'children': ['102', '105']}; {'id': '102', 'type': 'attribute', 'children': ['103', '104']}; {'id': '103', 'type': 'identifier', 'children': [], 'value': 'in_buff'}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'get'}; {'id': '105', 'type': 'argument_list', 'children': []}; {'id': '106', 'type': 'if_statement', 'children': ['107', '113']}; {'id': '107', 'type': 'comparison_operator', 'children': ['108', '112'], 'value': '>'}; {'id': '108', 'type': 'call', 'children': ['109', '110']}; {'id': '109', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '110', 'type': 'argument_list', 'children': ['111']}; {'id': '111', 'type': 'identifier', 'children': [], 'value': 'frame_nos'}; {'id': '112', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '113', 'type': 'block', 'children': ['114', '125', '175']}; {'id': '114', 'type': 'expression_statement', 'children': ['115']}; {'id': '115', 'type': 'assignment', 'children': ['116', '117']}; {'id': '116', 'type': 'identifier', 'children': [], 'value': 'frame_no'}; {'id': '117', 'type': 'call', 'children': ['118', '119']}; {'id': '118', 'type': 'identifier', 'children': [], 'value': 'max'}; {'id': '119', 'type': 'argument_list', 'children': ['120']}; {'id': '120', 'type': 'call', 'children': ['121', '124']}; {'id': '121', 'type': 'attribute', 'children': ['122', '123']}; {'id': '122', 'type': 'identifier', 'children': [], 'value': 'frame_nos'}; {'id': '123', 'type': 'identifier', 'children': [], 'value': 'values'}; {'id': '124', 'type': 'argument_list', 'children': []}; {'id': '125', 'type': 'for_statement', 'children': ['126', '127', '128']}; {'id': '126', 'type': 'identifier', 'children': [], 'value': 'in_buff'}; {'id': '127', 'type': 'identifier', 'children': [], 'value': 'frame_nos'}; {'id': '128', 'type': 'block', 'children': ['129']}; {'id': '129', 'type': 'while_statement', 'children': ['130', '143']}; {'id': '130', 'type': 'boolean_operator', 'children': ['131', '136'], 'value': 'and'}; {'id': '131', 'type': 'comparison_operator', 'children': ['132', '135'], 'value': '<'}; {'id': '132', 'type': 'subscript', 'children': ['133', '134']}; {'id': '133', 'type': 'identifier', 'children': [], 'value': 'frame_nos'}; {'id': '134', 'type': 'identifier', 'children': [], 'value': 'in_buff'}; {'id': '135', 'type': 'identifier', 'children': [], 'value': 'frame_no'}; {'id': '136', 'type': 'comparison_operator', 'children': ['137', '142'], 'value': '>'}; {'id': '137', 'type': 'call', 'children': ['138', '141']}; {'id': '138', 'type': 'attribute', 'children': ['139', '140']}; {'id': '139', 'type': 'identifier', 'children': [], 'value': 'in_buff'}; {'id': '140', 'type': 'identifier', 'children': [], 'value': 'available'}; {'id': '141', 'type': 'argument_list', 'children': []}; {'id': '142', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '143', 'type': 'block', 'children': ['144', '150', '158', '167']}; {'id': '144', 'type': 'expression_statement', 'children': ['145']}; {'id': '145', 'type': 'call', 'children': ['146', '149']}; {'id': '146', 'type': 'attribute', 'children': ['147', '148']}; {'id': '147', 'type': 'identifier', 'children': [], 'value': 'in_buff'}; {'id': '148', 'type': 'identifier', 'children': [], 'value': 'get'}; {'id': '149', 'type': 'argument_list', 'children': []}; {'id': '150', 'type': 'expression_statement', 'children': ['151']}; {'id': '151', 'type': 'assignment', 'children': ['152', '153']}; {'id': '152', 'type': 'identifier', 'children': [], 'value': 'in_frame'}; {'id': '153', 'type': 'call', 'children': ['154', '157']}; {'id': '154', 'type': 'attribute', 'children': ['155', '156']}; {'id': '155', 'type': 'identifier', 'children': [], 'value': 'in_buff'}; {'id': '156', 'type': 'identifier', 'children': [], 'value': 'peek'}; {'id': '157', 'type': 'argument_list', 'children': []}; {'id': '158', 'type': 'if_statement', 'children': ['159', '162']}; {'id': '159', 'type': 'comparison_operator', 'children': ['160', '161'], 'value': 'is'}; {'id': '160', 'type': 'identifier', 'children': [], 'value': 'in_frame'}; {'id': '161', 'type': 'None', 'children': []}; {'id': '162', 'type': 'block', 'children': ['163']}; {'id': '163', 'type': 'raise_statement', 'children': ['164']}; {'id': '164', 'type': 'call', 'children': ['165', '166']}; {'id': '165', 'type': 'identifier', 'children': [], 'value': 'StopIteration'}; {'id': '166', 'type': 'argument_list', 'children': []}; {'id': '167', 'type': 'expression_statement', 'children': ['168']}; {'id': '168', 'type': 'assignment', 'children': ['169', '172']}; {'id': '169', 'type': 'subscript', 'children': ['170', '171']}; {'id': '170', 'type': 'identifier', 'children': [], 'value': 'frame_nos'}; {'id': '171', 'type': 'identifier', 'children': [], 'value': 'in_buff'}; {'id': '172', 'type': 'attribute', 'children': ['173', '174']}; {'id': '173', 'type': 'identifier', 'children': [], 'value': 'in_frame'}; {'id': '174', 'type': 'identifier', 'children': [], 'value': 'frame_no'}; {'id': '175', 'type': 'if_statement', 'children': ['176', '193']}; {'id': '176', 'type': 'comparison_operator', 'children': ['177', '185'], 'value': '!='}; {'id': '177', 'type': 'call', 'children': ['178', '179']}; {'id': '178', 'type': 'identifier', 'children': [], 'value': 'min'}; {'id': '179', 'type': 'argument_list', 'children': ['180']}; {'id': '180', 'type': 'call', 'children': ['181', '184']}; {'id': '181', 'type': 'attribute', 'children': ['182', '183']}; {'id': '182', 'type': 'identifier', 'children': [], 'value': 'frame_nos'}; {'id': '183', 'type': 'identifier', 'children': [], 'value': 'values'}; {'id': '184', 'type': 'argument_list', 'children': []}; {'id': '185', 'type': 'call', 'children': ['186', '187']}; {'id': '186', 'type': 'identifier', 'children': [], 'value': 'max'}; {'id': '187', 'type': 'argument_list', 'children': ['188']}; {'id': '188', 'type': 'call', 'children': ['189', '192']}; {'id': '189', 'type': 'attribute', 'children': ['190', '191']}; {'id': '190', 'type': 'identifier', 'children': [], 'value': 'frame_nos'}; {'id': '191', 'type': 'identifier', 'children': [], 'value': 'values'}; {'id': '192', 'type': 'argument_list', 'children': []}; {'id': '193', 'type': 'block', 'children': ['194']}; {'id': '194', 'type': 'return_statement', 'children': []}; {'id': '195', 'type': 'try_statement', 'children': ['196', '203', '207']}; {'id': '196', 'type': 'block', 'children': ['197']}; {'id': '197', 'type': 'expression_statement', 'children': ['198']}; {'id': '198', 'type': 'call', 'children': ['199', '202']}; {'id': '199', 'type': 'attribute', 'children': ['200', '201']}; {'id': '200', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '201', 'type': 'identifier', 'children': [], 'value': 'process_frame'}; {'id': '202', 'type': 'argument_list', 'children': []}; {'id': '203', 'type': 'except_clause', 'children': ['204', '205']}; {'id': '204', 'type': 'identifier', 'children': [], 'value': 'StopIteration'}; {'id': '205', 'type': 'block', 'children': ['206']}; {'id': '206', 'type': 'raise_statement', 'children': []}; {'id': '207', 'type': 'except_clause', 'children': ['208', '212']}; {'id': '208', 'type': 'as_pattern', 'children': ['209', '210']}; {'id': '209', 'type': 'identifier', 'children': [], 'value': 'Exception'}; {'id': '210', 'type': 'as_pattern_target', 'children': ['211']}; {'id': '211', 'type': 'identifier', 'children': [], 'value': 'ex'}; {'id': '212', 'type': 'block', 'children': ['213', '222']}; {'id': '213', 'type': 'expression_statement', 'children': ['214']}; {'id': '214', 'type': 'call', 'children': ['215', '220']}; {'id': '215', 'type': 'attribute', 'children': ['216', '219']}; {'id': '216', 'type': 'attribute', 'children': ['217', '218']}; {'id': '217', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '218', 'type': 'identifier', 'children': [], 'value': 'logger'}; {'id': '219', 'type': 'identifier', 'children': [], 'value': 'exception'}; {'id': '220', 'type': 'argument_list', 'children': ['221']}; {'id': '221', 'type': 'identifier', 'children': [], 'value': 'ex'}; {'id': '222', 'type': 'raise_statement', 'children': ['223']}; {'id': '223', 'type': 'call', 'children': ['224', '225']}; {'id': '224', 'type': 'identifier', 'children': [], 'value': 'StopIteration'}; {'id': '225', 'type': 'argument_list', 'children': []} | def new_frame_event(self):
for out_pool in self.outframe_pool.values():
if not out_pool.available():
return
frame_nos = {}
for in_buff in self.input_buffer.values():
if not in_buff.available():
return
in_frame = in_buff.peek()
if in_frame is None:
raise StopIteration()
if in_frame.frame_no >= 0:
frame_nos[in_buff] = in_frame.frame_no
else:
while in_buff.available() > 1 and in_buff.peek(1) is not None:
in_buff.get()
if len(frame_nos) > 1:
frame_no = max(frame_nos.values())
for in_buff in frame_nos:
while frame_nos[in_buff] < frame_no and in_buff.available() > 1:
in_buff.get()
in_frame = in_buff.peek()
if in_frame is None:
raise StopIteration()
frame_nos[in_buff] = in_frame.frame_no
if min(frame_nos.values()) != max(frame_nos.values()):
return
try:
self.process_frame()
except StopIteration:
raise
except Exception as ex:
self.logger.exception(ex)
raise StopIteration() |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '10']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'GaussianFilterCore'}; {'id': '3', 'type': 'parameters', 'children': ['4', '7']}; {'id': '4', 'type': 'default_parameter', 'children': ['5', '6']}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'x_sigma'}; {'id': '6', 'type': 'float', 'children': [], 'value': '0.0'}; {'id': '7', 'type': 'default_parameter', 'children': ['8', '9']}; {'id': '8', 'type': 'identifier', 'children': [], 'value': 'y_sigma'}; {'id': '9', 'type': 'float', 'children': [], 'value': '0.0'}; {'id': '10', 'type': 'block', 'children': ['11', '137', '145', '153', '160', '167', '192', '228', '234', '240', '246', '257', '261', '273', '285', '295']}; {'id': '11', 'type': 'function_definition', 'children': ['12', '13', '15']}; {'id': '12', 'type': 'function_name', 'children': [], 'value': 'filter_1D'}; {'id': '13', 'type': 'parameters', 'children': ['14']}; {'id': '14', 'type': 'identifier', 'children': [], 'value': 'sigma'}; {'id': '15', 'type': 'block', 'children': ['16', '32', '36', '40', '74', '83', '102', '127', '135']}; {'id': '16', 'type': 'expression_statement', 'children': ['17']}; {'id': '17', 'type': 'assignment', 'children': ['18', '19']}; {'id': '18', 'type': 'identifier', 'children': [], 'value': 'alpha'}; {'id': '19', 'type': 'binary_operator', 'children': ['20', '21'], 'value': '/'}; {'id': '20', 'type': 'float', 'children': [], 'value': '1.0'}; {'id': '21', 'type': '()', 'children': ['22']}; {'id': '22', 'type': 'binary_operator', 'children': ['23', '24'], 'value': '*'}; {'id': '23', 'type': 'float', 'children': [], 'value': '2.0'}; {'id': '24', 'type': '()', 'children': ['25']}; {'id': '25', 'type': 'binary_operator', 'children': ['26', '31'], 'value': '**'}; {'id': '26', 'type': 'call', 'children': ['27', '28']}; {'id': '27', 'type': 'identifier', 'children': [], 'value': 'max'}; {'id': '28', 'type': 'argument_list', 'children': ['29', '30']}; {'id': '29', 'type': 'identifier', 'children': [], 'value': 'sigma'}; {'id': '30', 'type': 'float', 'children': [], 'value': '0.0001'}; {'id': '31', 'type': 'float', 'children': [], 'value': '2.0'}; {'id': '32', 'type': 'expression_statement', 'children': ['33']}; {'id': '33', 'type': 'assignment', 'children': ['34', '35']}; {'id': '34', 'type': 'identifier', 'children': [], 'value': 'coefs'}; {'id': '35', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '36', 'type': 'expression_statement', 'children': ['37']}; {'id': '37', 'type': 'assignment', 'children': ['38', '39']}; {'id': '38', 'type': 'identifier', 'children': [], 'value': 'coef'}; {'id': '39', 'type': 'float', 'children': [], 'value': '1.0'}; {'id': '40', 'type': 'while_statement', 'children': ['41', '44']}; {'id': '41', 'type': 'comparison_operator', 'children': ['42', '43'], 'value': '>'}; {'id': '42', 'type': 'identifier', 'children': [], 'value': 'coef'}; {'id': '43', 'type': 'float', 'children': [], 'value': '0.0001'}; {'id': '44', 'type': 'block', 'children': ['45', '52']}; {'id': '45', 'type': 'expression_statement', 'children': ['46']}; {'id': '46', 'type': 'call', 'children': ['47', '50']}; {'id': '47', 'type': 'attribute', 'children': ['48', '49']}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'coefs'}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '50', 'type': 'argument_list', 'children': ['51']}; {'id': '51', 'type': 'identifier', 'children': [], 'value': 'coef'}; {'id': '52', 'type': 'expression_statement', 'children': ['53']}; {'id': '53', 'type': 'assignment', 'children': ['54', '55']}; {'id': '54', 'type': 'identifier', 'children': [], 'value': 'coef'}; {'id': '55', 'type': 'call', 'children': ['56', '59']}; {'id': '56', 'type': 'attribute', 'children': ['57', '58']}; {'id': '57', 'type': 'identifier', 'children': [], 'value': 'math'}; {'id': '58', 'type': 'identifier', 'children': [], 'value': 'exp'}; {'id': '59', 'type': 'argument_list', 'children': ['60']}; {'id': '60', 'type': 'unary_operator', 'children': ['61'], 'value': '-'}; {'id': '61', 'type': '()', 'children': ['62']}; {'id': '62', 'type': 'binary_operator', 'children': ['63', '64'], 'value': '*'}; {'id': '63', 'type': 'identifier', 'children': [], 'value': 'alpha'}; {'id': '64', 'type': '()', 'children': ['65']}; {'id': '65', 'type': 'call', 'children': ['66', '67']}; {'id': '66', 'type': 'identifier', 'children': [], 'value': 'float'}; {'id': '67', 'type': 'argument_list', 'children': ['68']}; {'id': '68', 'type': 'binary_operator', 'children': ['69', '73'], 'value': '**'}; {'id': '69', 'type': 'call', 'children': ['70', '71']}; {'id': '70', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '71', 'type': 'argument_list', 'children': ['72']}; {'id': '72', 'type': 'identifier', 'children': [], 'value': 'coefs'}; {'id': '73', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '74', 'type': 'expression_statement', 'children': ['75']}; {'id': '75', 'type': 'assignment', 'children': ['76', '77']}; {'id': '76', 'type': 'identifier', 'children': [], 'value': 'fil_dim'}; {'id': '77', 'type': 'binary_operator', 'children': ['78', '82'], 'value': '-'}; {'id': '78', 'type': 'call', 'children': ['79', '80']}; {'id': '79', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '80', 'type': 'argument_list', 'children': ['81']}; {'id': '81', 'type': 'identifier', 'children': [], 'value': 'coefs'}; {'id': '82', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '83', 'type': 'expression_statement', 'children': ['84']}; {'id': '84', 'type': 'assignment', 'children': ['85', '86']}; {'id': '85', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '86', 'type': 'call', 'children': ['87', '90']}; {'id': '87', 'type': 'attribute', 'children': ['88', '89']}; {'id': '88', 'type': 'identifier', 'children': [], 'value': 'numpy'}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'zeros'}; {'id': '90', 'type': 'argument_list', 'children': ['91', '97']}; {'id': '91', 'type': 'binary_operator', 'children': ['92', '93'], 'value': '+'}; {'id': '92', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '93', 'type': '()', 'children': ['94']}; {'id': '94', 'type': 'binary_operator', 'children': ['95', '96'], 'value': '*'}; {'id': '95', 'type': 'identifier', 'children': [], 'value': 'fil_dim'}; {'id': '96', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '97', 'type': 'keyword_argument', 'children': ['98', '99']}; {'id': '98', 'type': 'identifier', 'children': [], 'value': 'dtype'}; {'id': '99', 'type': 'attribute', 'children': ['100', '101']}; {'id': '100', 'type': 'identifier', 'children': [], 'value': 'numpy'}; {'id': '101', 'type': 'identifier', 'children': [], 'value': 'float32'}; {'id': '102', 'type': 'for_statement', 'children': ['103', '106', '110']}; {'id': '103', 'type': 'pattern_list', 'children': ['104', '105']}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'n'}; {'id': '105', 'type': 'identifier', 'children': [], 'value': 'coef'}; {'id': '106', 'type': 'call', 'children': ['107', '108']}; {'id': '107', 'type': 'identifier', 'children': [], 'value': 'enumerate'}; {'id': '108', 'type': 'argument_list', 'children': ['109']}; {'id': '109', 'type': 'identifier', 'children': [], 'value': 'coefs'}; {'id': '110', 'type': 'block', 'children': ['111', '119']}; {'id': '111', 'type': 'expression_statement', 'children': ['112']}; {'id': '112', 'type': 'assignment', 'children': ['113', '118']}; {'id': '113', 'type': 'subscript', 'children': ['114', '115']}; {'id': '114', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '115', 'type': 'binary_operator', 'children': ['116', '117'], 'value': '-'}; {'id': '116', 'type': 'identifier', 'children': [], 'value': 'fil_dim'}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'n'}; {'id': '118', 'type': 'identifier', 'children': [], 'value': 'coef'}; {'id': '119', 'type': 'expression_statement', 'children': ['120']}; {'id': '120', 'type': 'assignment', 'children': ['121', '126']}; {'id': '121', 'type': 'subscript', 'children': ['122', '123']}; {'id': '122', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '123', 'type': 'binary_operator', 'children': ['124', '125'], 'value': '+'}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'fil_dim'}; {'id': '125', 'type': 'identifier', 'children': [], 'value': 'n'}; {'id': '126', 'type': 'identifier', 'children': [], 'value': 'coef'}; {'id': '127', 'type': 'expression_statement', 'children': ['128']}; {'id': '128', 'type': 'augmented_assignment', 'children': ['129', '130'], 'value': '/='}; {'id': '129', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '130', 'type': 'call', 'children': ['131', '134']}; {'id': '131', 'type': 'attribute', 'children': ['132', '133']}; {'id': '132', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '133', 'type': 'identifier', 'children': [], 'value': 'sum'}; {'id': '134', 'type': 'argument_list', 'children': []}; {'id': '135', 'type': 'return_statement', 'children': ['136']}; {'id': '136', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '137', 'type': 'expression_statement', 'children': ['138']}; {'id': '138', 'type': 'assignment', 'children': ['139', '140']}; {'id': '139', 'type': 'identifier', 'children': [], 'value': 'x_sigma'}; {'id': '140', 'type': 'call', 'children': ['141', '142']}; {'id': '141', 'type': 'identifier', 'children': [], 'value': 'max'}; {'id': '142', 'type': 'argument_list', 'children': ['143', '144']}; {'id': '143', 'type': 'identifier', 'children': [], 'value': 'x_sigma'}; {'id': '144', 'type': 'float', 'children': [], 'value': '0.0'}; {'id': '145', 'type': 'expression_statement', 'children': ['146']}; {'id': '146', 'type': 'assignment', 'children': ['147', '148']}; {'id': '147', 'type': 'identifier', 'children': [], 'value': 'y_sigma'}; {'id': '148', 'type': 'call', 'children': ['149', '150']}; {'id': '149', 'type': 'identifier', 'children': [], 'value': 'max'}; {'id': '150', 'type': 'argument_list', 'children': ['151', '152']}; {'id': '151', 'type': 'identifier', 'children': [], 'value': 'y_sigma'}; {'id': '152', 'type': 'float', 'children': [], 'value': '0.0'}; {'id': '153', 'type': 'expression_statement', 'children': ['154']}; {'id': '154', 'type': 'assignment', 'children': ['155', '156']}; {'id': '155', 'type': 'identifier', 'children': [], 'value': 'x_fil'}; {'id': '156', 'type': 'call', 'children': ['157', '158']}; {'id': '157', 'type': 'identifier', 'children': [], 'value': 'filter_1D'}; {'id': '158', 'type': 'argument_list', 'children': ['159']}; {'id': '159', 'type': 'identifier', 'children': [], 'value': 'x_sigma'}; {'id': '160', 'type': 'expression_statement', 'children': ['161']}; {'id': '161', 'type': 'assignment', 'children': ['162', '163']}; {'id': '162', 'type': 'identifier', 'children': [], 'value': 'y_fil'}; {'id': '163', 'type': 'call', 'children': ['164', '165']}; {'id': '164', 'type': 'identifier', 'children': [], 'value': 'filter_1D'}; {'id': '165', 'type': 'argument_list', 'children': ['166']}; {'id': '166', 'type': 'identifier', 'children': [], 'value': 'y_sigma'}; {'id': '167', 'type': 'expression_statement', 'children': ['168']}; {'id': '168', 'type': 'assignment', 'children': ['169', '170']}; {'id': '169', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '170', 'type': 'call', 'children': ['171', '174']}; {'id': '171', 'type': 'attribute', 'children': ['172', '173']}; {'id': '172', 'type': 'identifier', 'children': [], 'value': 'numpy'}; {'id': '173', 'type': 'identifier', 'children': [], 'value': 'empty'}; {'id': '174', 'type': 'argument_list', 'children': ['175', '187']}; {'id': '175', 'type': 'list', 'children': ['176', '181', '186'], 'value': '[y_fil.shape[0], x_fil.shape[0], 1]'}; {'id': '176', 'type': 'subscript', 'children': ['177', '180']}; {'id': '177', 'type': 'attribute', 'children': ['178', '179']}; {'id': '178', 'type': 'identifier', 'children': [], 'value': 'y_fil'}; {'id': '179', 'type': 'identifier', 'children': [], 'value': 'shape'}; {'id': '180', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '181', 'type': 'subscript', 'children': ['182', '185']}; {'id': '182', 'type': 'attribute', 'children': ['183', '184']}; {'id': '183', 'type': 'identifier', 'children': [], 'value': 'x_fil'}; {'id': '184', 'type': 'identifier', 'children': [], 'value': 'shape'}; {'id': '185', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '186', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '187', 'type': 'keyword_argument', 'children': ['188', '189']}; {'id': '188', 'type': 'identifier', 'children': [], 'value': 'dtype'}; {'id': '189', 'type': 'attribute', 'children': ['190', '191']}; {'id': '190', 'type': 'identifier', 'children': [], 'value': 'numpy'}; {'id': '191', 'type': 'identifier', 'children': [], 'value': 'float32'}; {'id': '192', 'type': 'for_statement', 'children': ['193', '194', '202']}; {'id': '193', 'type': 'identifier', 'children': [], 'value': 'y'}; {'id': '194', 'type': 'call', 'children': ['195', '196']}; {'id': '195', 'type': 'identifier', 'children': [], 'value': 'range'}; {'id': '196', 'type': 'argument_list', 'children': ['197']}; {'id': '197', 'type': 'subscript', 'children': ['198', '201']}; {'id': '198', 'type': 'attribute', 'children': ['199', '200']}; {'id': '199', 'type': 'identifier', 'children': [], 'value': 'y_fil'}; {'id': '200', 'type': 'identifier', 'children': [], 'value': 'shape'}; {'id': '201', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '202', 'type': 'block', 'children': ['203']}; {'id': '203', 'type': 'for_statement', 'children': ['204', '205', '213']}; {'id': '204', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '205', 'type': 'call', 'children': ['206', '207']}; {'id': '206', 'type': 'identifier', 'children': [], 'value': 'range'}; {'id': '207', 'type': 'argument_list', 'children': ['208']}; {'id': '208', 'type': 'subscript', 'children': ['209', '212']}; {'id': '209', 'type': 'attribute', 'children': ['210', '211']}; {'id': '210', 'type': 'identifier', 'children': [], 'value': 'x_fil'}; {'id': '211', 'type': 'identifier', 'children': [], 'value': 'shape'}; {'id': '212', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '213', 'type': 'block', 'children': ['214']}; {'id': '214', 'type': 'expression_statement', 'children': ['215']}; {'id': '215', 'type': 'assignment', 'children': ['216', '221']}; {'id': '216', 'type': 'subscript', 'children': ['217', '218', '219', '220']}; {'id': '217', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '218', 'type': 'identifier', 'children': [], 'value': 'y'}; {'id': '219', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '220', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '221', 'type': 'binary_operator', 'children': ['222', '225'], 'value': '*'}; {'id': '222', 'type': 'subscript', 'children': ['223', '224']}; {'id': '223', 'type': 'identifier', 'children': [], 'value': 'x_fil'}; {'id': '224', 'type': 'identifier', 'children': [], 'value': 'x'}; {'id': '225', 'type': 'subscript', 'children': ['226', '227']}; {'id': '226', 'type': 'identifier', 'children': [], 'value': 'y_fil'}; {'id': '227', 'type': 'identifier', 'children': [], 'value': 'y'}; {'id': '228', 'type': 'expression_statement', 'children': ['229']}; {'id': '229', 'type': 'assignment', 'children': ['230', '231']}; {'id': '230', 'type': 'identifier', 'children': [], 'value': 'out_frame'}; {'id': '231', 'type': 'call', 'children': ['232', '233']}; {'id': '232', 'type': 'identifier', 'children': [], 'value': 'Frame'}; {'id': '233', 'type': 'argument_list', 'children': []}; {'id': '234', 'type': 'expression_statement', 'children': ['235']}; {'id': '235', 'type': 'assignment', 'children': ['236', '239']}; {'id': '236', 'type': 'attribute', 'children': ['237', '238']}; {'id': '237', 'type': 'identifier', 'children': [], 'value': 'out_frame'}; {'id': '238', 'type': 'identifier', 'children': [], 'value': 'data'}; {'id': '239', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '240', 'type': 'expression_statement', 'children': ['241']}; {'id': '241', 'type': 'assignment', 'children': ['242', '245']}; {'id': '242', 'type': 'attribute', 'children': ['243', '244']}; {'id': '243', 'type': 'identifier', 'children': [], 'value': 'out_frame'}; {'id': '244', 'type': 'identifier', 'children': [], 'value': 'type'}; {'id': '245', 'type': 'string', 'children': [], 'value': "'fil'"}; {'id': '246', 'type': 'expression_statement', 'children': ['247']}; {'id': '247', 'type': 'assignment', 'children': ['248', '249']}; {'id': '248', 'type': 'identifier', 'children': [], 'value': 'audit'}; {'id': '249', 'type': 'call', 'children': ['250', '255']}; {'id': '250', 'type': 'attribute', 'children': ['251', '254']}; {'id': '251', 'type': 'attribute', 'children': ['252', '253']}; {'id': '252', 'type': 'identifier', 'children': [], 'value': 'out_frame'}; {'id': '253', 'type': 'identifier', 'children': [], 'value': 'metadata'}; {'id': '254', 'type': 'identifier', 'children': [], 'value': 'get'}; {'id': '255', 'type': 'argument_list', 'children': ['256']}; {'id': '256', 'type': 'string', 'children': [], 'value': "'audit'"}; {'id': '257', 'type': 'expression_statement', 'children': ['258']}; {'id': '258', 'type': 'augmented_assignment', 'children': ['259', '260'], 'value': '+='}; {'id': '259', 'type': 'identifier', 'children': [], 'value': 'audit'}; {'id': '260', 'type': 'string', 'children': [], 'value': "'data = GaussianFilter()\\n'"}; {'id': '261', 'type': 'if_statement', 'children': ['262', '265']}; {'id': '262', 'type': 'comparison_operator', 'children': ['263', '264'], 'value': '!='}; {'id': '263', 'type': 'identifier', 'children': [], 'value': 'x_sigma'}; {'id': '264', 'type': 'float', 'children': [], 'value': '0.0'}; {'id': '265', 'type': 'block', 'children': ['266']}; {'id': '266', 'type': 'expression_statement', 'children': ['267']}; {'id': '267', 'type': 'augmented_assignment', 'children': ['268', '269'], 'value': '+='}; {'id': '268', 'type': 'identifier', 'children': [], 'value': 'audit'}; {'id': '269', 'type': 'binary_operator', 'children': ['270', '271'], 'value': '%'}; {'id': '270', 'type': 'string', 'children': [], 'value': "' x_sigma: %g\\n'"}; {'id': '271', 'type': '()', 'children': ['272']}; {'id': '272', 'type': 'identifier', 'children': [], 'value': 'x_sigma'}; {'id': '273', 'type': 'if_statement', 'children': ['274', '277']}; {'id': '274', 'type': 'comparison_operator', 'children': ['275', '276'], 'value': '!='}; {'id': '275', 'type': 'identifier', 'children': [], 'value': 'y_sigma'}; {'id': '276', 'type': 'float', 'children': [], 'value': '0.0'}; {'id': '277', 'type': 'block', 'children': ['278']}; {'id': '278', 'type': 'expression_statement', 'children': ['279']}; {'id': '279', 'type': 'augmented_assignment', 'children': ['280', '281'], 'value': '+='}; {'id': '280', 'type': 'identifier', 'children': [], 'value': 'audit'}; {'id': '281', 'type': 'binary_operator', 'children': ['282', '283'], 'value': '%'}; {'id': '282', 'type': 'string', 'children': [], 'value': "' y_sigma: %g\\n'"}; {'id': '283', 'type': '()', 'children': ['284']}; {'id': '284', 'type': 'identifier', 'children': [], 'value': 'y_sigma'}; {'id': '285', 'type': 'expression_statement', 'children': ['286']}; {'id': '286', 'type': 'call', 'children': ['287', '292']}; {'id': '287', 'type': 'attribute', 'children': ['288', '291']}; {'id': '288', 'type': 'attribute', 'children': ['289', '290']}; {'id': '289', 'type': 'identifier', 'children': [], 'value': 'out_frame'}; {'id': '290', 'type': 'identifier', 'children': [], 'value': 'metadata'}; {'id': '291', 'type': 'identifier', 'children': [], 'value': 'set'}; {'id': '292', 'type': 'argument_list', 'children': ['293', '294']}; {'id': '293', 'type': 'string', 'children': [], 'value': "'audit'"}; {'id': '294', 'type': 'identifier', 'children': [], 'value': 'audit'}; {'id': '295', 'type': 'return_statement', 'children': ['296']}; {'id': '296', 'type': 'identifier', 'children': [], 'value': 'out_frame'} | def GaussianFilterCore(x_sigma=0.0, y_sigma=0.0):
def filter_1D(sigma):
alpha = 1.0 / (2.0 * (max(sigma, 0.0001) ** 2.0))
coefs = []
coef = 1.0
while coef > 0.0001:
coefs.append(coef)
coef = math.exp(-(alpha * (float(len(coefs) ** 2))))
fil_dim = len(coefs) - 1
result = numpy.zeros(1 + (fil_dim * 2), dtype=numpy.float32)
for n, coef in enumerate(coefs):
result[fil_dim - n] = coef
result[fil_dim + n] = coef
result /= result.sum()
return result
x_sigma = max(x_sigma, 0.0)
y_sigma = max(y_sigma, 0.0)
x_fil = filter_1D(x_sigma)
y_fil = filter_1D(y_sigma)
result = numpy.empty(
[y_fil.shape[0], x_fil.shape[0], 1], dtype=numpy.float32)
for y in range(y_fil.shape[0]):
for x in range(x_fil.shape[0]):
result[y, x, 0] = x_fil[x] * y_fil[y]
out_frame = Frame()
out_frame.data = result
out_frame.type = 'fil'
audit = out_frame.metadata.get('audit')
audit += 'data = GaussianFilter()\n'
if x_sigma != 0.0:
audit += ' x_sigma: %g\n' % (x_sigma)
if y_sigma != 0.0:
audit += ' y_sigma: %g\n' % (y_sigma)
out_frame.metadata.set('audit', audit)
return out_frame |
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{'id': '64', 'type': 'identifier', 'children': [], 'value': 'either'}; {'id': '65', 'type': 'subscript', 'children': ['66', '78']}; {'id': '66', 'type': 'list_comprehension', 'children': ['67', '68', '71']}; {'id': '67', 'type': 'identifier', 'children': [], 'value': 'c'}; {'id': '68', 'type': 'for_in_clause', 'children': ['69', '70']}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'c'}; {'id': '70', 'type': 'identifier', 'children': [], 'value': 'children'}; {'id': '71', 'type': 'if_clause', 'children': ['72']}; {'id': '72', 'type': 'comparison_operator', 'children': ['73', '77'], 'value': 'is'}; {'id': '73', 'type': 'call', 'children': ['74', '75']}; {'id': '74', 'type': 'identifier', 'children': [], 'value': 'type'}; {'id': '75', 'type': 'argument_list', 'children': ['76']}; {'id': '76', 'type': 'identifier', 'children': [], 'value': 'c'}; {'id': '77', 'type': 'identifier', 'children': [], 'value': 'Either'}; {'id': '78', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '79', 'type': 'expression_statement', 'children': ['80']}; {'id': '80', 'type': 'call', 'children': ['81', '84']}; {'id': '81', 'type': 'attribute', 'children': ['82', '83']}; {'id': '82', 'type': 'identifier', 'children': [], 'value': 'children'}; {'id': '83', 'type': 'identifier', 'children': [], 'value': 'pop'}; {'id': '84', 'type': 'argument_list', 'children': ['85']}; {'id': '85', 'type': 'call', 'children': ['86', '89']}; {'id': '86', 'type': 'attribute', 'children': ['87', '88']}; {'id': '87', 'type': 'identifier', 'children': [], 'value': 'children'}; {'id': '88', 'type': 'identifier', 'children': [], 'value': 'index'}; {'id': '89', 'type': 'argument_list', 'children': ['90']}; {'id': '90', 'type': 'identifier', 'children': [], 'value': 'either'}; {'id': '91', 'type': 'for_statement', 'children': ['92', '93', '96']}; {'id': '92', 'type': 'identifier', 'children': [], 'value': 'c'}; {'id': '93', 'type': 'attribute', 'children': ['94', '95']}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'either'}; {'id': '95', 'type': 'identifier', 'children': [], 'value': 'children'}; {'id': '96', 'type': 'block', 'children': ['97']}; {'id': '97', 'type': 'expression_statement', 'children': ['98']}; {'id': '98', 'type': 'call', 'children': ['99', '102']}; {'id': '99', 'type': 'attribute', 'children': ['100', '101']}; {'id': '100', 'type': 'identifier', 'children': [], 'value': 'groups'}; {'id': '101', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '102', 'type': 'argument_list', 'children': ['103']}; {'id': '103', 'type': 'binary_operator', 'children': ['104', '106'], 'value': '+'}; {'id': '104', 'type': 'list', 'children': ['105'], 'value': '[c]'}; {'id': '105', 'type': 'identifier', 'children': [], 'value': 'c'}; {'id': '106', 'type': 'identifier', 'children': [], 'value': 'children'}; {'id': '107', 'type': 'elif_clause', 'children': ['108', '111']}; {'id': '108', 'type': 'comparison_operator', 'children': ['109', '110'], 'value': 'in'}; {'id': '109', 'type': 'identifier', 'children': [], 'value': 'Required'}; {'id': '110', 'type': 'identifier', 'children': [], 'value': 'types'}; {'id': '111', 'type': 'block', 'children': ['112', '129', '141']}; {'id': '112', 'type': 'expression_statement', 'children': ['113']}; {'id': '113', 'type': 'assignment', 'children': ['114', '115']}; {'id': '114', 'type': 'identifier', 'children': [], 'value': 'required'}; {'id': '115', 'type': 'subscript', 'children': ['116', '128']}; {'id': '116', 'type': 'list_comprehension', 'children': ['117', '118', '121']}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'c'}; {'id': '118', 'type': 'for_in_clause', 'children': ['119', '120']}; {'id': '119', 'type': 'identifier', 'children': [], 'value': 'c'}; {'id': '120', 'type': 'identifier', 'children': [], 'value': 'children'}; {'id': '121', 'type': 'if_clause', 'children': ['122']}; {'id': '122', 'type': 'comparison_operator', 'children': ['123', '127'], 'value': 'is'}; {'id': '123', 'type': 'call', 'children': ['124', '125']}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'type'}; {'id': '125', 'type': 'argument_list', 'children': ['126']}; {'id': '126', 'type': 'identifier', 'children': [], 'value': 'c'}; {'id': '127', 'type': 'identifier', 'children': [], 'value': 'Required'}; {'id': '128', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '129', 'type': 'expression_statement', 'children': ['130']}; {'id': '130', 'type': 'call', 'children': ['131', '134']}; {'id': '131', 'type': 'attribute', 'children': ['132', '133']}; {'id': '132', 'type': 'identifier', 'children': [], 'value': 'children'}; {'id': '133', 'type': 'identifier', 'children': [], 'value': 'pop'}; {'id': '134', 'type': 'argument_list', 'children': ['135']}; {'id': '135', 'type': 'call', 'children': ['136', '139']}; {'id': '136', 'type': 'attribute', 'children': ['137', '138']}; {'id': '137', 'type': 'identifier', 'children': [], 'value': 'children'}; {'id': '138', 'type': 'identifier', 'children': [], 'value': 'index'}; {'id': '139', 'type': 'argument_list', 'children': ['140']}; {'id': '140', 'type': 'identifier', 'children': [], 'value': 'required'}; {'id': '141', 'type': 'expression_statement', 'children': ['142']}; {'id': '142', 'type': 'call', 'children': ['143', '146']}; {'id': '143', 'type': 'attribute', 'children': ['144', '145']}; {'id': '144', 'type': 'identifier', 'children': [], 'value': 'groups'}; {'id': '145', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '146', 'type': 'argument_list', 'children': ['147']}; {'id': '147', 'type': 'binary_operator', 'children': ['148', '154'], 'value': '+'}; {'id': '148', 'type': 'call', 'children': ['149', '150']}; {'id': '149', 'type': 'identifier', 'children': [], 'value': 'list'}; {'id': '150', 'type': 'argument_list', 'children': ['151']}; {'id': '151', 'type': 'attribute', 'children': ['152', '153']}; {'id': '152', 'type': 'identifier', 'children': [], 'value': 'required'}; {'id': '153', 'type': 'identifier', 'children': [], 'value': 'children'}; {'id': '154', 'type': 'identifier', 'children': [], 'value': 'children'}; {'id': '155', 'type': 'elif_clause', 'children': ['156', '159']}; {'id': '156', 'type': 'comparison_operator', 'children': ['157', '158'], 'value': 'in'}; {'id': '157', 'type': 'identifier', 'children': [], 'value': 'Optional'}; {'id': '158', 'type': 'identifier', 'children': [], 'value': 'types'}; {'id': '159', 'type': 'block', 'children': ['160', '177', '189']}; {'id': '160', 'type': 'expression_statement', 'children': ['161']}; {'id': '161', 'type': 'assignment', 'children': ['162', '163']}; {'id': '162', 'type': 'identifier', 'children': [], 'value': 'optional'}; {'id': '163', 'type': 'subscript', 'children': ['164', '176']}; {'id': '164', 'type': 'list_comprehension', 'children': ['165', '166', '169']}; {'id': '165', 'type': 'identifier', 'children': [], 'value': 'c'}; {'id': '166', 'type': 'for_in_clause', 'children': ['167', '168']}; {'id': '167', 'type': 'identifier', 'children': [], 'value': 'c'}; {'id': '168', 'type': 'identifier', 'children': [], 'value': 'children'}; {'id': '169', 'type': 'if_clause', 'children': ['170']}; {'id': '170', 'type': 'comparison_operator', 'children': ['171', '175'], 'value': 'is'}; {'id': '171', 'type': 'call', 'children': ['172', '173']}; {'id': '172', 'type': 'identifier', 'children': [], 'value': 'type'}; {'id': '173', 'type': 'argument_list', 'children': ['174']}; {'id': '174', 'type': 'identifier', 'children': [], 'value': 'c'}; {'id': '175', 'type': 'identifier', 'children': [], 'value': 'Optional'}; {'id': '176', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '177', 'type': 'expression_statement', 'children': ['178']}; {'id': '178', 'type': 'call', 'children': ['179', '182']}; {'id': '179', 'type': 'attribute', 'children': ['180', '181']}; {'id': '180', 'type': 'identifier', 'children': [], 'value': 'children'}; {'id': '181', 'type': 'identifier', 'children': [], 'value': 'pop'}; {'id': '182', 'type': 'argument_list', 'children': ['183']}; {'id': '183', 'type': 'call', 'children': ['184', '187']}; {'id': '184', 'type': 'attribute', 'children': ['185', '186']}; {'id': '185', 'type': 'identifier', 'children': [], 'value': 'children'}; {'id': '186', 'type': 'identifier', 'children': [], 'value': 'index'}; {'id': '187', 'type': 'argument_list', 'children': ['188']}; {'id': '188', 'type': 'identifier', 'children': [], 'value': 'optional'}; {'id': '189', 'type': 'expression_statement', 'children': ['190']}; {'id': '190', 'type': 'call', 'children': ['191', '194']}; {'id': '191', 'type': 'attribute', 'children': ['192', '193']}; {'id': '192', 'type': 'identifier', 'children': [], 'value': 'groups'}; {'id': '193', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '194', 'type': 'argument_list', 'children': ['195']}; {'id': '195', 'type': 'binary_operator', 'children': ['196', '202'], 'value': '+'}; {'id': '196', 'type': 'call', 'children': ['197', '198']}; {'id': '197', 'type': 'identifier', 'children': [], 'value': 'list'}; {'id': '198', 'type': 'argument_list', 'children': ['199']}; {'id': '199', 'type': 'attribute', 'children': ['200', '201']}; {'id': '200', 'type': 'identifier', 'children': [], 'value': 'optional'}; {'id': '201', 'type': 'identifier', 'children': [], 'value': 'children'}; {'id': '202', 'type': 'identifier', 'children': [], 'value': 'children'}; {'id': '203', 'type': 'elif_clause', 'children': ['204', '207']}; {'id': '204', 'type': 'comparison_operator', 'children': ['205', '206'], 'value': 'in'}; {'id': '205', 'type': 'identifier', 'children': [], 'value': 'OneOrMore'}; {'id': '206', 'type': 'identifier', 'children': [], 'value': 'types'}; {'id': '207', 'type': 'block', 'children': ['208', '225', '237']}; {'id': '208', 'type': 'expression_statement', 'children': ['209']}; {'id': '209', 'type': 'assignment', 'children': ['210', '211']}; {'id': '210', 'type': 'identifier', 'children': [], 'value': 'oneormore'}; {'id': '211', 'type': 'subscript', 'children': ['212', '224']}; {'id': '212', 'type': 'list_comprehension', 'children': ['213', '214', '217']}; {'id': '213', 'type': 'identifier', 'children': [], 'value': 'c'}; {'id': '214', 'type': 'for_in_clause', 'children': ['215', '216']}; {'id': '215', 'type': 'identifier', 'children': [], 'value': 'c'}; {'id': '216', 'type': 'identifier', 'children': [], 'value': 'children'}; {'id': '217', 'type': 'if_clause', 'children': ['218']}; {'id': '218', 'type': 'comparison_operator', 'children': ['219', '223'], 'value': 'is'}; {'id': '219', 'type': 'call', 'children': ['220', '221']}; {'id': '220', 'type': 'identifier', 'children': [], 'value': 'type'}; {'id': '221', 'type': 'argument_list', 'children': ['222']}; {'id': '222', 'type': 'identifier', 'children': [], 'value': 'c'}; {'id': '223', 'type': 'identifier', 'children': [], 'value': 'OneOrMore'}; {'id': '224', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '225', 'type': 'expression_statement', 'children': ['226']}; {'id': '226', 'type': 'call', 'children': ['227', '230']}; {'id': '227', 'type': 'attribute', 'children': ['228', '229']}; {'id': '228', 'type': 'identifier', 'children': [], 'value': 'children'}; {'id': '229', 'type': 'identifier', 'children': [], 'value': 'pop'}; {'id': '230', 'type': 'argument_list', 'children': ['231']}; {'id': '231', 'type': 'call', 'children': ['232', '235']}; {'id': '232', 'type': 'attribute', 'children': ['233', '234']}; {'id': '233', 'type': 'identifier', 'children': [], 'value': 'children'}; {'id': '234', 'type': 'identifier', 'children': [], 'value': 'index'}; {'id': '235', 'type': 'argument_list', 'children': ['236']}; {'id': '236', 'type': 'identifier', 'children': [], 'value': 'oneormore'}; {'id': '237', 'type': 'expression_statement', 'children': ['238']}; {'id': '238', 'type': 'call', 'children': ['239', '242']}; {'id': '239', 'type': 'attribute', 'children': ['240', '241']}; {'id': '240', 'type': 'identifier', 'children': [], 'value': 'groups'}; {'id': '241', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '242', 'type': 'argument_list', 'children': ['243']}; {'id': '243', 'type': 'binary_operator', 'children': ['244', '252'], 'value': '+'}; {'id': '244', 'type': 'binary_operator', 'children': ['245', '251'], 'value': '*'}; {'id': '245', 'type': 'call', 'children': ['246', '247']}; {'id': '246', 'type': 'identifier', 'children': [], 'value': 'list'}; {'id': '247', 'type': 'argument_list', 'children': ['248']}; {'id': '248', 'type': 'attribute', 'children': ['249', '250']}; {'id': '249', 'type': 'identifier', 'children': [], 'value': 'oneormore'}; {'id': '250', 'type': 'identifier', 'children': [], 'value': 'children'}; {'id': '251', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '252', 'type': 'identifier', 'children': [], 'value': 'children'}; {'id': '253', 'type': 'else_clause', 'children': ['254']}; {'id': '254', 'type': 'block', 'children': ['255']}; {'id': '255', 'type': 'expression_statement', 'children': ['256']}; {'id': '256', 'type': 'call', 'children': ['257', '260']}; {'id': '257', 'type': 'attribute', 'children': ['258', '259']}; {'id': '258', 'type': 'identifier', 'children': [], 'value': 'ret'}; {'id': '259', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '260', 'type': 'argument_list', 'children': ['261']}; {'id': '261', 'type': 'identifier', 'children': [], 'value': 'children'}; {'id': '262', 'type': 'return_statement', 'children': ['263']}; {'id': '263', 'type': 'call', 'children': ['264', '265']}; {'id': '264', 'type': 'identifier', 'children': [], 'value': 'Either'}; {'id': '265', 'type': 'argument_list', 'children': ['266']}; {'id': '266', 'type': 'list_splat', 'children': ['267']}; {'id': '267', 'type': 'list_comprehension', 'children': ['268', '273']}; {'id': '268', 'type': 'call', 'children': ['269', '270']}; {'id': '269', 'type': 'identifier', 'children': [], 'value': 'Required'}; {'id': '270', 'type': 'argument_list', 'children': ['271']}; {'id': '271', 'type': 'list_splat', 'children': ['272']}; {'id': '272', 'type': 'identifier', 'children': [], 'value': 'e'}; {'id': '273', 'type': 'for_in_clause', 'children': ['274', '275']}; {'id': '274', 'type': 'identifier', 'children': [], 'value': 'e'}; {'id': '275', 'type': 'identifier', 'children': [], 'value': 'ret'} | def either(self):
if not hasattr(self, 'children'):
return Either(Required(self))
else:
ret = []
groups = [[self]]
while groups:
children = groups.pop(0)
types = [type(c) for c in children]
if Either in types:
either = [c for c in children if type(c) is Either][0]
children.pop(children.index(either))
for c in either.children:
groups.append([c] + children)
elif Required in types:
required = [c for c in children if type(c) is Required][0]
children.pop(children.index(required))
groups.append(list(required.children) + children)
elif Optional in types:
optional = [c for c in children if type(c) is Optional][0]
children.pop(children.index(optional))
groups.append(list(optional.children) + children)
elif OneOrMore in types:
oneormore = [c for c in children if type(c) is OneOrMore][0]
children.pop(children.index(oneormore))
groups.append(list(oneormore.children) * 2 + children)
else:
ret.append(children)
return Either(*[Required(*e) for e in ret]) |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '7']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'TranslateManagedObject'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '6']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'mObj'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'xlateOrg'}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'xlateMap'}; {'id': '7', 'type': 'block', 'children': ['8', '15', '20', '28', '39', '198', '352']}; {'id': '8', 'type': 'import_from_statement', 'children': ['9', '11', '13']}; {'id': '9', 'type': 'dotted_name', 'children': ['10']}; {'id': '10', 'type': 'identifier', 'children': [], 'value': 'UcsBase'}; {'id': '11', 'type': 'dotted_name', 'children': ['12']}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'UcsUtils'}; {'id': '13', 'type': 'dotted_name', 'children': ['14']}; {'id': '14', 'type': 'identifier', 'children': [], 'value': 'WriteUcsWarning'}; {'id': '15', 'type': 'import_from_statement', 'children': ['16', '18']}; {'id': '16', 'type': 'dotted_name', 'children': ['17']}; {'id': '17', 'type': 'identifier', 'children': [], 'value': 'Mos'}; {'id': '18', 'type': 'dotted_name', 'children': ['19']}; {'id': '19', 'type': 'identifier', 'children': [], 'value': 'OrgOrg'}; {'id': '20', 'type': 'expression_statement', 'children': ['21']}; {'id': '21', 'type': 'assignment', 'children': ['22', '23']}; {'id': '22', 'type': 'identifier', 'children': [], 'value': 'xMO'}; {'id': '23', 'type': 'call', 'children': ['24', '27']}; {'id': '24', 'type': 'attribute', 'children': ['25', '26']}; {'id': '25', 'type': 'identifier', 'children': [], 'value': 'mObj'}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'Clone'}; {'id': '27', 'type': 'argument_list', 'children': []}; {'id': '28', 'type': 'expression_statement', 'children': ['29']}; {'id': '29', 'type': 'call', 'children': ['30', '33']}; {'id': '30', 'type': 'attribute', 'children': ['31', '32']}; {'id': '31', 'type': 'identifier', 'children': [], 'value': 'xMO'}; {'id': '32', 'type': 'identifier', 'children': [], 'value': 'SetHandle'}; {'id': '33', 'type': 'argument_list', 'children': ['34']}; {'id': '34', 'type': 'call', 'children': ['35', '38']}; {'id': '35', 'type': 'attribute', 'children': ['36', '37']}; {'id': '36', 'type': 'identifier', 'children': [], 'value': 'mObj'}; {'id': '37', 'type': 'identifier', 'children': [], 'value': 'GetHandle'}; {'id': '38', 'type': 'argument_list', 'children': []}; {'id': '39', 'type': 'if_statement', 'children': ['40', '44']}; {'id': '40', 'type': '()', 'children': ['41']}; {'id': '41', 'type': 'comparison_operator', 'children': ['42', '43'], 'value': '!='}; {'id': '42', 'type': 'identifier', 'children': [], 'value': 'xlateOrg'}; {'id': '43', 'type': 'None', 'children': []}; {'id': '44', 'type': 'block', 'children': ['45', '57']}; {'id': '45', 'type': 'expression_statement', 'children': ['46']}; {'id': '46', 'type': 'assignment', 'children': ['47', '48']}; {'id': '47', 'type': 'identifier', 'children': [], 'value': 'matchObj'}; {'id': '48', 'type': 'call', 'children': ['49', '52']}; {'id': '49', 'type': 'attribute', 'children': ['50', '51']}; {'id': '50', 'type': 'identifier', 'children': [], 'value': 're'}; {'id': '51', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '52', 'type': 'argument_list', 'children': ['53', '54']}; {'id': '53', 'type': 'string', 'children': [], 'value': "r'^(org-[\\-\\.:_a-zA-Z0-9]{1,16}/)*org-[\\-\\.:_a-zA-Z0-9]{1,16}'"}; {'id': '54', 'type': 'attribute', 'children': ['55', '56']}; {'id': '55', 'type': 'identifier', 'children': [], 'value': 'xMO'}; {'id': '56', 'type': 'identifier', 'children': [], 'value': 'Dn'}; {'id': '57', 'type': 'if_statement', 'children': ['58', '59']}; {'id': '58', 'type': 'identifier', 'children': [], 'value': 'matchObj'}; {'id': '59', 'type': 'block', 'children': ['60']}; {'id': '60', 'type': 'if_statement', 'children': ['61', '75', '166']}; {'id': '61', 'type': 'comparison_operator', 'children': ['62', '70'], 'value': '=='}; {'id': '62', 'type': 'call', 'children': ['63', '66']}; {'id': '63', 'type': 'attribute', 'children': ['64', '65']}; {'id': '64', 'type': 'identifier', 'children': [], 'value': 'UcsUtils'}; {'id': '65', 'type': 'identifier', 'children': [], 'value': 'WordL'}; {'id': '66', 'type': 'argument_list', 'children': ['67']}; {'id': '67', 'type': 'attribute', 'children': ['68', '69']}; {'id': '68', 'type': 'identifier', 'children': [], 'value': 'xMO'}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'classId'}; {'id': '70', 'type': 'call', 'children': ['71', '74']}; {'id': '71', 'type': 'attribute', 'children': ['72', '73']}; {'id': '72', 'type': 'identifier', 'children': [], 'value': 'OrgOrg'}; {'id': '73', 'type': 'identifier', 'children': [], 'value': 'ClassId'}; {'id': '74', 'type': 'argument_list', 'children': []}; {'id': '75', 'type': 'block', 'children': ['76', '95', '112', '124']}; {'id': '76', 'type': 'expression_statement', 'children': ['77']}; {'id': '77', 'type': 'assignment', 'children': ['78', '79']}; {'id': '78', 'type': 'identifier', 'children': [], 'value': 'orgMoMeta'}; {'id': '79', 'type': 'call', 'children': ['80', '83']}; {'id': '80', 'type': 'attribute', 'children': ['81', '82']}; {'id': '81', 'type': 'identifier', 'children': [], 'value': 'UcsUtils'}; {'id': '82', 'type': 'identifier', 'children': [], 'value': 'GetUcsPropertyMeta'}; {'id': '83', 'type': 'argument_list', 'children': ['84', '94']}; {'id': '84', 'type': 'call', 'children': ['85', '88']}; {'id': '85', 'type': 'attribute', 'children': ['86', '87']}; {'id': '86', 'type': 'identifier', 'children': [], 'value': 'UcsUtils'}; {'id': '87', 'type': 'identifier', 'children': [], 'value': 'WordU'}; {'id': '88', 'type': 'argument_list', 'children': ['89']}; {'id': '89', 'type': 'call', 'children': ['90', '93']}; {'id': '90', 'type': 'attribute', 'children': ['91', '92']}; {'id': '91', 'type': 'identifier', 'children': [], 'value': 'OrgOrg'}; {'id': '92', 'type': 'identifier', 'children': [], 'value': 'ClassId'}; {'id': '93', 'type': 'argument_list', 'children': []}; {'id': '94', 'type': 'string', 'children': [], 'value': '"Meta"'}; {'id': '95', 'type': 'if_statement', 'children': ['96', '99']}; {'id': '96', 'type': 'comparison_operator', 'children': ['97', '98'], 'value': '=='}; {'id': '97', 'type': 'identifier', 'children': [], 'value': 'orgMoMeta'}; {'id': '98', 'type': 'None', 'children': []}; {'id': '99', 'type': 'block', 'children': ['100', '110']}; {'id': '100', 'type': 'expression_statement', 'children': ['101']}; {'id': '101', 'type': 'call', 'children': ['102', '103']}; {'id': '102', 'type': 'identifier', 'children': [], 'value': 'WriteUcsWarning'}; {'id': '103', 'type': 'argument_list', 'children': ['104']}; {'id': '104', 'type': 'binary_operator', 'children': ['105', '106'], 'value': '%'}; {'id': '105', 'type': 'string', 'children': [], 'value': "'[Warning]: Could not translate [%s]'"}; {'id': '106', 'type': '()', 'children': ['107']}; {'id': '107', 'type': 'attribute', 'children': ['108', '109']}; {'id': '108', 'type': 'identifier', 'children': [], 'value': 'xMO'}; {'id': '109', 'type': 'identifier', 'children': [], 'value': 'Dn'}; {'id': '110', 'type': 'return_statement', 'children': ['111']}; {'id': '111', 'type': 'identifier', 'children': [], 'value': 'xMO'}; {'id': '112', 'type': 'expression_statement', 'children': ['113']}; {'id': '113', 'type': 'assignment', 'children': ['114', '115']}; {'id': '114', 'type': 'identifier', 'children': [], 'value': 'matchObj1'}; {'id': '115', 'type': 'call', 'children': ['116', '119']}; {'id': '116', 'type': 'attribute', 'children': ['117', '118']}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 're'}; {'id': '118', 'type': 'identifier', 'children': [], 'value': 'findall'}; {'id': '119', 'type': 'argument_list', 'children': ['120', '121']}; {'id': '120', 'type': 'string', 'children': [], 'value': "r'(\\[[^\\]]+\\])'"}; {'id': '121', 'type': 'attribute', 'children': ['122', '123']}; {'id': '122', 'type': 'identifier', 'children': [], 'value': 'orgMoMeta'}; {'id': '123', 'type': 'identifier', 'children': [], 'value': 'rn'}; {'id': '124', 'type': 'if_statement', 'children': ['125', '126', '134']}; {'id': '125', 'type': 'identifier', 'children': [], 'value': 'matchObj1'}; {'id': '126', 'type': 'block', 'children': ['127']}; {'id': '127', 'type': 'expression_statement', 'children': ['128']}; {'id': '128', 'type': 'call', 'children': ['129', '130']}; {'id': '129', 'type': 'identifier', 'children': [], 'value': 'UpdateMoDnAlongWithNamingProperties'}; {'id': '130', 'type': 'argument_list', 'children': ['131', '132', '133']}; {'id': '131', 'type': 'identifier', 'children': [], 'value': 'xMO'}; {'id': '132', 'type': 'identifier', 'children': [], 'value': 'orgMoMeta'}; {'id': '133', 'type': 'identifier', 'children': [], 'value': 'xlateOrg'}; {'id': '134', 'type': 'else_clause', 'children': ['135']}; {'id': '135', 'type': 'block', 'children': ['136', '160']}; {'id': '136', 'type': 'expression_statement', 'children': ['137']}; {'id': '137', 'type': 'assignment', 'children': ['138', '139']}; {'id': '138', 'type': 'identifier', 'children': [], 'value': 'newDn'}; {'id': '139', 'type': 'call', 'children': ['140', '143']}; {'id': '140', 'type': 'attribute', 'children': ['141', '142']}; {'id': '141', 'type': 'identifier', 'children': [], 'value': 're'}; {'id': '142', 'type': 'identifier', 'children': [], 'value': 'sub'}; {'id': '143', 'type': 'argument_list', 'children': ['144', '153', '157']}; {'id': '144', 'type': 'binary_operator', 'children': ['145', '146'], 'value': '%'}; {'id': '145', 'type': 'string', 'children': [], 'value': '"%s"'}; {'id': '146', 'type': '()', 'children': ['147']}; {'id': '147', 'type': 'call', 'children': ['148', '151']}; {'id': '148', 'type': 'attribute', 'children': ['149', '150']}; {'id': '149', 'type': 'identifier', 'children': [], 'value': 'matchObj'}; {'id': '150', 'type': 'identifier', 'children': [], 'value': 'group'}; {'id': '151', 'type': 'argument_list', 'children': ['152']}; {'id': '152', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '153', 'type': 'binary_operator', 'children': ['154', '155'], 'value': '%'}; {'id': '154', 'type': 'string', 'children': [], 'value': '"%s"'}; {'id': '155', 'type': '()', 'children': ['156']}; {'id': '156', 'type': 'identifier', 'children': [], 'value': 'xlateOrg'}; {'id': '157', 'type': 'attribute', 'children': ['158', '159']}; {'id': '158', 'type': 'identifier', 'children': [], 'value': 'xMO'}; {'id': '159', 'type': 'identifier', 'children': [], 'value': 'Dn'}; {'id': '160', 'type': 'expression_statement', 'children': ['161']}; {'id': '161', 'type': 'assignment', 'children': ['162', '165']}; {'id': '162', 'type': 'attribute', 'children': ['163', '164']}; {'id': '163', 'type': 'identifier', 'children': [], 'value': 'xMO'}; {'id': '164', 'type': 'identifier', 'children': [], 'value': 'Dn'}; {'id': '165', 'type': 'identifier', 'children': [], 'value': 'newDn'}; {'id': '166', 'type': 'else_clause', 'children': ['167']}; {'id': '167', 'type': 'block', 'children': ['168', '192']}; {'id': '168', 'type': 'expression_statement', 'children': ['169']}; {'id': '169', 'type': 'assignment', 'children': ['170', '171']}; {'id': '170', 'type': 'identifier', 'children': [], 'value': 'newDn'}; {'id': '171', 'type': 'call', 'children': ['172', '175']}; {'id': '172', 'type': 'attribute', 'children': ['173', '174']}; {'id': '173', 'type': 'identifier', 'children': [], 'value': 're'}; {'id': '174', 'type': 'identifier', 'children': [], 'value': 'sub'}; {'id': '175', 'type': 'argument_list', 'children': ['176', '185', '189']}; {'id': '176', 'type': 'binary_operator', 'children': ['177', '178'], 'value': '%'}; {'id': '177', 'type': 'string', 'children': [], 'value': '"^%s/"'}; {'id': '178', 'type': '()', 'children': ['179']}; {'id': '179', 'type': 'call', 'children': ['180', '183']}; {'id': '180', 'type': 'attribute', 'children': ['181', '182']}; {'id': '181', 'type': 'identifier', 'children': [], 'value': 'matchObj'}; {'id': '182', 'type': 'identifier', 'children': [], 'value': 'group'}; {'id': '183', 'type': 'argument_list', 'children': ['184']}; {'id': '184', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '185', 'type': 'binary_operator', 'children': ['186', '187'], 'value': '%'}; {'id': '186', 'type': 'string', 'children': [], 'value': '"%s/"'}; {'id': '187', 'type': '()', 'children': ['188']}; {'id': '188', 'type': 'identifier', 'children': [], 'value': 'xlateOrg'}; {'id': '189', 'type': 'attribute', 'children': ['190', '191']}; {'id': '190', 'type': 'identifier', 'children': [], 'value': 'xMO'}; {'id': '191', 'type': 'identifier', 'children': [], 'value': 'Dn'}; {'id': '192', 'type': 'expression_statement', 'children': ['193']}; {'id': '193', 'type': 'assignment', 'children': ['194', '197']}; {'id': '194', 'type': 'attribute', 'children': ['195', '196']}; {'id': '195', 'type': 'identifier', 'children': [], 'value': 'xMO'}; {'id': '196', 'type': 'identifier', 'children': [], 'value': 'Dn'}; {'id': '197', 'type': 'identifier', 'children': [], 'value': 'newDn'}; {'id': '198', 'type': 'if_statement', 'children': ['199', '203']}; {'id': '199', 'type': '()', 'children': ['200']}; {'id': '200', 'type': 'comparison_operator', 'children': ['201', '202'], 'value': '!='}; {'id': '201', 'type': 'identifier', 'children': [], 'value': 'xlateMap'}; {'id': '202', 'type': 'None', 'children': []}; {'id': '203', 'type': 'block', 'children': ['204', '210']}; {'id': '204', 'type': 'expression_statement', 'children': ['205']}; {'id': '205', 'type': 'assignment', 'children': ['206', '207']}; {'id': '206', 'type': 'identifier', 'children': [], 'value': 'originalDn'}; {'id': '207', 'type': 'attribute', 'children': ['208', '209']}; {'id': '208', 'type': 'identifier', 'children': [], 'value': 'xMO'}; {'id': '209', 'type': 'identifier', 'children': [], 'value': 'Dn'}; {'id': '210', 'type': 'if_statement', 'children': ['211', '214', '281']}; {'id': '211', 'type': 'comparison_operator', 'children': ['212', '213'], 'value': 'in'}; {'id': '212', 'type': 'identifier', 'children': [], 'value': 'originalDn'}; {'id': '213', 'type': 'identifier', 'children': [], 'value': 'xlateMap'}; {'id': '214', 'type': 'block', 'children': ['215', '232', '247', '259']}; {'id': '215', 'type': 'expression_statement', 'children': ['216']}; {'id': '216', 'type': 'assignment', 'children': ['217', '218']}; {'id': '217', 'type': 'identifier', 'children': [], 'value': 'xMoMeta'}; {'id': '218', 'type': 'call', 'children': ['219', '222']}; {'id': '219', 'type': 'attribute', 'children': ['220', '221']}; {'id': '220', 'type': 'identifier', 'children': [], 'value': 'UcsUtils'}; {'id': '221', 'type': 'identifier', 'children': [], 'value': 'GetUcsPropertyMeta'}; {'id': '222', 'type': 'argument_list', 'children': ['223', '231']}; {'id': '223', 'type': 'call', 'children': ['224', '227']}; {'id': '224', 'type': 'attribute', 'children': ['225', '226']}; {'id': '225', 'type': 'identifier', 'children': [], 'value': 'UcsUtils'}; {'id': '226', 'type': 'identifier', 'children': [], 'value': 'WordU'}; {'id': '227', 'type': 'argument_list', 'children': ['228']}; {'id': '228', 'type': 'attribute', 'children': ['229', '230']}; {'id': '229', 'type': 'identifier', 'children': [], 'value': 'xMO'}; {'id': '230', 'type': 'identifier', 'children': [], 'value': 'classId'}; {'id': '231', 'type': 'string', 'children': [], 'value': '"Meta"'}; {'id': '232', 'type': 'if_statement', 'children': ['233', '236']}; {'id': '233', 'type': 'comparison_operator', 'children': ['234', '235'], 'value': '=='}; {'id': '234', 'type': 'identifier', 'children': [], 'value': 'xMoMeta'}; {'id': '235', 'type': 'None', 'children': []}; {'id': '236', 'type': 'block', 'children': ['237', '245']}; {'id': '237', 'type': 'expression_statement', 'children': ['238']}; {'id': '238', 'type': 'call', 'children': ['239', '240']}; {'id': '239', 'type': 'identifier', 'children': [], 'value': 'WriteUcsWarning'}; {'id': '240', 'type': 'argument_list', 'children': ['241']}; {'id': '241', 'type': 'binary_operator', 'children': ['242', '243'], 'value': '%'}; {'id': '242', 'type': 'string', 'children': [], 'value': "'[Warning]: Could not translate [%s]'"}; {'id': '243', 'type': '()', 'children': ['244']}; {'id': '244', 'type': 'identifier', 'children': [], 'value': 'originalDn'}; {'id': '245', 'type': 'return_statement', 'children': ['246']}; {'id': '246', 'type': 'identifier', 'children': [], 'value': 'xMO'}; {'id': '247', 'type': 'expression_statement', 'children': ['248']}; {'id': '248', 'type': 'assignment', 'children': ['249', '250']}; {'id': '249', 'type': 'identifier', 'children': [], 'value': 'matchObj'}; {'id': '250', 'type': 'call', 'children': ['251', '254']}; {'id': '251', 'type': 'attribute', 'children': ['252', '253']}; {'id': '252', 'type': 'identifier', 'children': [], 'value': 're'}; {'id': '253', 'type': 'identifier', 'children': [], 'value': 'findall'}; {'id': '254', 'type': 'argument_list', 'children': ['255', '256']}; {'id': '255', 'type': 'string', 'children': [], 'value': "r'(\\[[^\\]]+\\])'"}; {'id': '256', 'type': 'attribute', 'children': ['257', '258']}; {'id': '257', 'type': 'identifier', 'children': [], 'value': 'xMoMeta'}; {'id': '258', 'type': 'identifier', 'children': [], 'value': 'rn'}; {'id': '259', 'type': 'if_statement', 'children': ['260', '261', '271']}; {'id': '260', 'type': 'identifier', 'children': [], 'value': 'matchObj'}; {'id': '261', 'type': 'block', 'children': ['262']}; {'id': '262', 'type': 'expression_statement', 'children': ['263']}; {'id': '263', 'type': 'call', 'children': ['264', '265']}; {'id': '264', 'type': 'identifier', 'children': [], 'value': 'UpdateMoDnAlongWithNamingProperties'}; {'id': '265', 'type': 'argument_list', 'children': ['266', '267', '268']}; {'id': '266', 'type': 'identifier', 'children': [], 'value': 'xMO'}; {'id': '267', 'type': 'identifier', 'children': [], 'value': 'xMoMeta'}; {'id': '268', 'type': 'subscript', 'children': ['269', '270']}; {'id': '269', 'type': 'identifier', 'children': [], 'value': 'xlateMap'}; {'id': '270', 'type': 'identifier', 'children': [], 'value': 'originalDn'}; {'id': '271', 'type': 'else_clause', 'children': ['272']}; {'id': '272', 'type': 'block', 'children': ['273']}; {'id': '273', 'type': 'expression_statement', 'children': ['274']}; {'id': '274', 'type': 'assignment', 'children': ['275', '278']}; {'id': '275', 'type': 'attribute', 'children': ['276', '277']}; {'id': '276', 'type': 'identifier', 'children': [], 'value': 'xMO'}; {'id': '277', 'type': 'identifier', 'children': [], 'value': 'Dn'}; {'id': '278', 'type': 'subscript', 'children': ['279', '280']}; {'id': '279', 'type': 'identifier', 'children': [], 'value': 'xlateMap'}; {'id': '280', 'type': 'identifier', 'children': [], 'value': 'originalDn'}; {'id': '281', 'type': 'else_clause', 'children': ['282']}; {'id': '282', 'type': 'block', 'children': ['283', '294']}; {'id': '283', 'type': 'expression_statement', 'children': ['284']}; {'id': '284', 'type': 'assignment', 'children': ['285', '286']}; {'id': '285', 'type': 'identifier', 'children': [], 'value': 'originalDn'}; {'id': '286', 'type': 'call', 'children': ['287', '290']}; {'id': '287', 'type': 'attribute', 'children': ['288', '289']}; {'id': '288', 'type': 'identifier', 'children': [], 'value': 're'}; {'id': '289', 'type': 'identifier', 'children': [], 'value': 'sub'}; {'id': '290', 'type': 'argument_list', 'children': ['291', '292', '293']}; {'id': '291', 'type': 'string', 'children': [], 'value': "r'[/]*[^/]+$'"}; {'id': '292', 'type': 'string', 'children': [], 'value': "''"}; {'id': '293', 'type': 'identifier', 'children': [], 'value': 'originalDn'}; {'id': '294', 'type': 'while_statement', 'children': ['295', '303']}; {'id': '295', 'type': '()', 'children': ['296']}; {'id': '296', 'type': 'boolean_operator', 'children': ['297', '300'], 'value': 'or'}; {'id': '297', 'type': 'comparison_operator', 'children': ['298', '299'], 'value': '!='}; {'id': '298', 'type': 'identifier', 'children': [], 'value': 'originalDn'}; {'id': '299', 'type': 'None', 'children': []}; {'id': '300', 'type': 'comparison_operator', 'children': ['301', '302'], 'value': '=='}; {'id': '301', 'type': 'identifier', 'children': [], 'value': 'originalDn'}; {'id': '302', 'type': 'string', 'children': [], 'value': '""'}; {'id': '303', 'type': 'block', 'children': ['304', '324', '345', '351']}; {'id': '304', 'type': 'if_statement', 'children': ['305', '311']}; {'id': '305', 'type': '()', 'children': ['306']}; {'id': '306', 'type': 'not_operator', 'children': ['307']}; {'id': '307', 'type': '()', 'children': ['308']}; {'id': '308', 'type': 'comparison_operator', 'children': ['309', '310'], 'value': 'in'}; {'id': '309', 'type': 'identifier', 'children': [], 'value': 'originalDn'}; {'id': '310', 'type': 'identifier', 'children': [], 'value': 'xlateMap'}; {'id': '311', 'type': 'block', 'children': ['312', '323']}; {'id': '312', 'type': 'expression_statement', 'children': ['313']}; {'id': '313', 'type': 'assignment', 'children': ['314', '315']}; {'id': '314', 'type': 'identifier', 'children': [], 'value': 'originalDn'}; {'id': '315', 'type': 'call', 'children': ['316', '319']}; {'id': '316', 'type': 'attribute', 'children': ['317', '318']}; {'id': '317', 'type': 'identifier', 'children': [], 'value': 're'}; {'id': '318', 'type': 'identifier', 'children': [], 'value': 'sub'}; {'id': '319', 'type': 'argument_list', 'children': ['320', '321', '322']}; {'id': '320', 'type': 'string', 'children': [], 'value': "r'[/]*[^/]+$'"}; {'id': '321', 'type': 'string', 'children': [], 'value': "''"}; {'id': '322', 'type': 'identifier', 'children': [], 'value': 'originalDn'}; {'id': '323', 'type': 'continue_statement', 'children': []}; {'id': '324', 'type': 'expression_statement', 'children': ['325']}; {'id': '325', 'type': 'assignment', 'children': ['326', '327']}; {'id': '326', 'type': 'identifier', 'children': [], 'value': 'newDn'}; {'id': '327', 'type': 'call', 'children': ['328', '331']}; {'id': '328', 'type': 'attribute', 'children': ['329', '330']}; {'id': '329', 'type': 'identifier', 'children': [], 'value': 're'}; {'id': '330', 'type': 'identifier', 'children': [], 'value': 'sub'}; {'id': '331', 'type': 'argument_list', 'children': ['332', '336', '342']}; {'id': '332', 'type': 'binary_operator', 'children': ['333', '334'], 'value': '%'}; {'id': '333', 'type': 'string', 'children': [], 'value': '"^%s/"'}; {'id': '334', 'type': '()', 'children': ['335']}; {'id': '335', 'type': 'identifier', 'children': [], 'value': 'originalDn'}; {'id': '336', 'type': 'binary_operator', 'children': ['337', '338'], 'value': '%'}; {'id': '337', 'type': 'string', 'children': [], 'value': '"%s/"'}; {'id': '338', 'type': '()', 'children': ['339']}; {'id': '339', 'type': 'subscript', 'children': ['340', '341']}; {'id': '340', 'type': 'identifier', 'children': [], 'value': 'xlateMap'}; {'id': '341', 'type': 'identifier', 'children': [], 'value': 'originalDn'}; {'id': '342', 'type': 'attribute', 'children': ['343', '344']}; {'id': '343', 'type': 'identifier', 'children': [], 'value': 'xMO'}; {'id': '344', 'type': 'identifier', 'children': [], 'value': 'Dn'}; {'id': '345', 'type': 'expression_statement', 'children': ['346']}; {'id': '346', 'type': 'assignment', 'children': ['347', '350']}; {'id': '347', 'type': 'attribute', 'children': ['348', '349']}; {'id': '348', 'type': 'identifier', 'children': [], 'value': 'xMO'}; {'id': '349', 'type': 'identifier', 'children': [], 'value': 'Dn'}; {'id': '350', 'type': 'identifier', 'children': [], 'value': 'newDn'}; {'id': '351', 'type': 'break_statement', 'children': []}; {'id': '352', 'type': 'return_statement', 'children': ['353']}; {'id': '353', 'type': 'identifier', 'children': [], 'value': 'xMO'} | def TranslateManagedObject(mObj, xlateOrg, xlateMap):
from UcsBase import UcsUtils, WriteUcsWarning
from Mos import OrgOrg
xMO = mObj.Clone()
xMO.SetHandle(mObj.GetHandle())
if (xlateOrg != None):
matchObj = re.match(r'^(org-[\-\.:_a-zA-Z0-9]{1,16}/)*org-[\-\.:_a-zA-Z0-9]{1,16}', xMO.Dn)
if matchObj:
if UcsUtils.WordL(xMO.classId) == OrgOrg.ClassId():
orgMoMeta = UcsUtils.GetUcsPropertyMeta(UcsUtils.WordU(OrgOrg.ClassId()), "Meta")
if orgMoMeta == None:
WriteUcsWarning('[Warning]: Could not translate [%s]' % (xMO.Dn))
return xMO
matchObj1 = re.findall(r'(\[[^\]]+\])', orgMoMeta.rn)
if matchObj1:
UpdateMoDnAlongWithNamingProperties(xMO, orgMoMeta, xlateOrg)
else:
newDn = re.sub("%s" % (matchObj.group(0)), "%s" % (xlateOrg), xMO.Dn)
xMO.Dn = newDn
else:
newDn = re.sub("^%s/" % (matchObj.group(0)), "%s/" % (xlateOrg), xMO.Dn)
xMO.Dn = newDn
if (xlateMap != None):
originalDn = xMO.Dn
if originalDn in xlateMap:
xMoMeta = UcsUtils.GetUcsPropertyMeta(UcsUtils.WordU(xMO.classId), "Meta")
if xMoMeta == None:
WriteUcsWarning('[Warning]: Could not translate [%s]' % (originalDn))
return xMO
matchObj = re.findall(r'(\[[^\]]+\])', xMoMeta.rn)
if matchObj:
UpdateMoDnAlongWithNamingProperties(xMO, xMoMeta, xlateMap[originalDn])
else:
xMO.Dn = xlateMap[originalDn]
else:
originalDn = re.sub(r'[/]*[^/]+$', '', originalDn)
while (originalDn != None or originalDn == ""):
if (not (originalDn in xlateMap)):
originalDn = re.sub(r'[/]*[^/]+$', '', originalDn)
continue
newDn = re.sub("^%s/" % (originalDn), "%s/" % (xlateMap[originalDn]), xMO.Dn)
xMO.Dn = newDn
break
return xMO |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '6']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'ImportUcsSession'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'filePath'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'key'}; {'id': '6', 'type': 'block', 'children': ['7', '16', '26', '36', '65', '78', '84', '99']}; {'id': '7', 'type': 'import_from_statement', 'children': ['8', '10', '12', '14']}; {'id': '8', 'type': 'dotted_name', 'children': ['9']}; {'id': '9', 'type': 'identifier', 'children': [], 'value': 'UcsBase'}; {'id': '10', 'type': 'dotted_name', 'children': ['11']}; {'id': '11', 'type': 'identifier', 'children': [], 'value': 'UcsUtils'}; {'id': '12', 'type': 'dotted_name', 'children': ['13']}; {'id': '13', 'type': 'identifier', 'children': [], 'value': 'WriteUcsWarning'}; {'id': '14', 'type': 'dotted_name', 'children': ['15']}; {'id': '15', 'type': 'identifier', 'children': [], 'value': 'UcsValidationException'}; {'id': '16', 'type': 'if_statement', 'children': ['17', '20']}; {'id': '17', 'type': 'comparison_operator', 'children': ['18', '19'], 'value': 'is'}; {'id': '18', 'type': 'identifier', 'children': [], 'value': 'filePath'}; {'id': '19', 'type': 'None', 'children': []}; {'id': '20', 'type': 'block', 'children': ['21']}; {'id': '21', 'type': 'raise_statement', 'children': ['22']}; {'id': '22', 'type': 'call', 'children': ['23', '24']}; {'id': '23', 'type': 'identifier', 'children': [], 'value': 'UcsValidationException'}; {'id': '24', 'type': 'argument_list', 'children': ['25']}; {'id': '25', 'type': 'string', 'children': [], 'value': '"filePath parameter is not provided."'}; {'id': '26', 'type': 'if_statement', 'children': ['27', '30']}; {'id': '27', 'type': 'comparison_operator', 'children': ['28', '29'], 'value': 'is'}; {'id': '28', 'type': 'identifier', 'children': [], 'value': 'key'}; {'id': '29', 'type': 'None', 'children': []}; {'id': '30', 'type': 'block', 'children': ['31']}; {'id': '31', 'type': 'raise_statement', 'children': ['32']}; {'id': '32', 'type': 'call', 'children': ['33', '34']}; {'id': '33', 'type': 'identifier', 'children': [], 'value': 'UcsValidationException'}; {'id': '34', 'type': 'argument_list', 'children': ['35']}; {'id': '35', 'type': 'string', 'children': [], 'value': '"key parameter is not provided."'}; {'id': '36', 'type': 'if_statement', 'children': ['37', '56']}; {'id': '37', 'type': 'boolean_operator', 'children': ['38', '47'], 'value': 'or'}; {'id': '38', 'type': 'not_operator', 'children': ['39']}; {'id': '39', 'type': 'call', 'children': ['40', '45']}; {'id': '40', 'type': 'attribute', 'children': ['41', '44']}; {'id': '41', 'type': 'attribute', 'children': ['42', '43']}; {'id': '42', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '43', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '44', 'type': 'identifier', 'children': [], 'value': 'isfile'}; {'id': '45', 'type': 'argument_list', 'children': ['46']}; {'id': '46', 'type': 'identifier', 'children': [], 'value': 'filePath'}; {'id': '47', 'type': 'not_operator', 'children': ['48']}; {'id': '48', 'type': 'call', 'children': ['49', '54']}; {'id': '49', 'type': 'attribute', 'children': ['50', '53']}; {'id': '50', 'type': 'attribute', 'children': ['51', '52']}; {'id': '51', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '52', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '53', 'type': 'identifier', 'children': [], 'value': 'exists'}; {'id': '54', 'type': 'argument_list', 'children': ['55']}; {'id': '55', 'type': 'identifier', 'children': [], 'value': 'filePath'}; {'id': '56', 'type': 'block', 'children': ['57']}; {'id': '57', 'type': 'raise_statement', 'children': ['58']}; {'id': '58', 'type': 'call', 'children': ['59', '60']}; {'id': '59', 'type': 'identifier', 'children': [], 'value': 'UcsValidationException'}; {'id': '60', 'type': 'argument_list', 'children': ['61']}; {'id': '61', 'type': 'binary_operator', 'children': ['62', '63'], 'value': '%'}; {'id': '62', 'type': 'string', 'children': [], 'value': "'[Error]: File <%s> does not exist '"}; {'id': '63', 'type': '()', 'children': ['64']}; {'id': '64', 'type': 'identifier', 'children': [], 'value': 'filePath'}; {'id': '65', 'type': 'expression_statement', 'children': ['66']}; {'id': '66', 'type': 'assignment', 'children': ['67', '68']}; {'id': '67', 'type': 'identifier', 'children': [], 'value': 'doc'}; {'id': '68', 'type': 'call', 'children': ['69', '76']}; {'id': '69', 'type': 'attribute', 'children': ['70', '75']}; {'id': '70', 'type': 'attribute', 'children': ['71', '74']}; {'id': '71', 'type': 'attribute', 'children': ['72', '73']}; {'id': '72', 'type': 'identifier', 'children': [], 'value': 'xml'}; {'id': '73', 'type': 'identifier', 'children': [], 'value': 'dom'}; {'id': '74', 'type': 'identifier', 'children': [], 'value': 'minidom'}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'parse'}; {'id': '76', 'type': 'argument_list', 'children': ['77']}; {'id': '77', 'type': 'identifier', 'children': [], 'value': 'filePath'}; {'id': '78', 'type': 'expression_statement', 'children': ['79']}; {'id': '79', 'type': 'assignment', 'children': ['80', '81']}; {'id': '80', 'type': 'identifier', 'children': [], 'value': 'topNode'}; {'id': '81', 'type': 'attribute', 'children': ['82', '83']}; {'id': '82', 'type': 'identifier', 'children': [], 'value': 'doc'}; {'id': '83', 'type': 'identifier', 'children': [], 'value': 'documentElement'}; {'id': '84', 'type': 'if_statement', 'children': ['85', '96']}; {'id': '85', 'type': 'boolean_operator', 'children': ['86', '89'], 'value': 'or'}; {'id': '86', 'type': 'comparison_operator', 'children': ['87', '88'], 'value': 'is'}; {'id': '87', 'type': 'identifier', 'children': [], 'value': 'topNode'}; {'id': '88', 'type': 'None', 'children': []}; {'id': '89', 'type': 'comparison_operator', 'children': ['90', '93'], 'value': '!='}; {'id': '90', 'type': 'attribute', 'children': ['91', '92']}; {'id': '91', 'type': 'identifier', 'children': [], 'value': 'topNode'}; {'id': '92', 'type': 'identifier', 'children': [], 'value': 'localName'}; {'id': '93', 'type': 'attribute', 'children': ['94', '95']}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'UcsLoginXml'}; {'id': '95', 'type': 'identifier', 'children': [], 'value': 'UCS_HANDLES'}; {'id': '96', 'type': 'block', 'children': ['97']}; {'id': '97', 'type': 'return_statement', 'children': ['98']}; {'id': '98', 'type': 'None', 'children': []}; {'id': '99', 'type': 'if_statement', 'children': ['100', '106']}; {'id': '100', 'type': '()', 'children': ['101']}; {'id': '101', 'type': 'call', 'children': ['102', '105']}; {'id': '102', 'type': 'attribute', 'children': ['103', '104']}; {'id': '103', 'type': 'identifier', 'children': [], 'value': 'topNode'}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'hasChildNodes'}; {'id': '105', 'type': 'argument_list', 'children': []}; {'id': '106', 'type': 'block', 'children': ['107', '113', '120']}; {'id': '107', 'type': 'expression_statement', 'children': ['108']}; {'id': '108', 'type': 'assignment', 'children': ['109', '110']}; {'id': '109', 'type': 'identifier', 'children': [], 'value': 'childList'}; {'id': '110', 'type': 'attribute', 'children': ['111', '112']}; {'id': '111', 'type': 'identifier', 'children': [], 'value': 'topNode'}; {'id': '112', 'type': 'identifier', 'children': [], 'value': 'childNodes'}; {'id': '113', 'type': 'expression_statement', 'children': ['114']}; {'id': '114', 'type': 'assignment', 'children': ['115', '116']}; {'id': '115', 'type': 'identifier', 'children': [], 'value': 'childCount'}; {'id': '116', 'type': 'call', 'children': ['117', '118']}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '118', 'type': 'argument_list', 'children': ['119']}; {'id': '119', 'type': 'identifier', 'children': [], 'value': 'childList'}; {'id': '120', 'type': 'for_statement', 'children': ['121', '122', '126']}; {'id': '121', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '122', 'type': 'call', 'children': ['123', '124']}; {'id': '123', 'type': 'identifier', 'children': [], 'value': 'range'}; {'id': '124', 'type': 'argument_list', 'children': ['125']}; {'id': '125', 'type': 'identifier', 'children': [], 'value': 'childCount'}; {'id': '126', 'type': 'block', 'children': ['127', '136', '147', '157', '161', '165', '169', '173', '177', '198', '219', '246', '267', '288', '306']}; {'id': '127', 'type': 'expression_statement', 'children': ['128']}; {'id': '128', 'type': 'assignment', 'children': ['129', '130']}; {'id': '129', 'type': 'identifier', 'children': [], 'value': 'childNode'}; {'id': '130', 'type': 'call', 'children': ['131', '134']}; {'id': '131', 'type': 'attribute', 'children': ['132', '133']}; {'id': '132', 'type': 'identifier', 'children': [], 'value': 'childList'}; {'id': '133', 'type': 'identifier', 'children': [], 'value': 'item'}; {'id': '134', 'type': 'argument_list', 'children': ['135']}; {'id': '135', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '136', 'type': 'if_statement', 'children': ['137', '145']}; {'id': '137', 'type': '()', 'children': ['138']}; {'id': '138', 'type': 'comparison_operator', 'children': ['139', '142'], 'value': '!='}; {'id': '139', 'type': 'attribute', 'children': ['140', '141']}; {'id': '140', 'type': 'identifier', 'children': [], 'value': 'childNode'}; {'id': '141', 'type': 'identifier', 'children': [], 'value': 'nodeType'}; {'id': '142', 'type': 'attribute', 'children': ['143', '144']}; {'id': '143', 'type': 'identifier', 'children': [], 'value': 'Node'}; {'id': '144', 'type': 'identifier', 'children': [], 'value': 'ELEMENT_NODE'}; {'id': '145', 'type': 'block', 'children': ['146']}; {'id': '146', 'type': 'continue_statement', 'children': []}; {'id': '147', 'type': 'if_statement', 'children': ['148', '155']}; {'id': '148', 'type': 'comparison_operator', 'children': ['149', '152'], 'value': '!='}; {'id': '149', 'type': 'attribute', 'children': ['150', '151']}; {'id': '150', 'type': 'identifier', 'children': [], 'value': 'childNode'}; {'id': '151', 'type': 'identifier', 'children': [], 'value': 'localName'}; {'id': '152', 'type': 'attribute', 'children': ['153', '154']}; {'id': '153', 'type': 'identifier', 'children': [], 'value': 'UcsLoginXml'}; {'id': '154', 'type': 'identifier', 'children': [], 'value': 'UCS'}; {'id': '155', 'type': 'block', 'children': ['156']}; {'id': '156', 'type': 'continue_statement', 'children': []}; {'id': '157', 'type': 'expression_statement', 'children': ['158']}; {'id': '158', 'type': 'assignment', 'children': ['159', '160']}; {'id': '159', 'type': 'identifier', 'children': [], 'value': 'lName'}; {'id': '160', 'type': 'None', 'children': []}; {'id': '161', 'type': 'expression_statement', 'children': ['162']}; {'id': '162', 'type': 'assignment', 'children': ['163', '164']}; {'id': '163', 'type': 'identifier', 'children': [], 'value': 'lUsername'}; {'id': '164', 'type': 'None', 'children': []}; {'id': '165', 'type': 'expression_statement', 'children': ['166']}; {'id': '166', 'type': 'assignment', 'children': ['167', '168']}; {'id': '167', 'type': 'identifier', 'children': [], 'value': 'lPassword'}; {'id': '168', 'type': 'None', 'children': []}; {'id': '169', 'type': 'expression_statement', 'children': ['170']}; {'id': '170', 'type': 'assignment', 'children': ['171', '172']}; {'id': '171', 'type': 'identifier', 'children': [], 'value': 'lNoSsl'}; {'id': '172', 'type': 'False', 'children': []}; {'id': '173', 'type': 'expression_statement', 'children': ['174']}; {'id': '174', 'type': 'assignment', 'children': ['175', '176']}; {'id': '175', 'type': 'identifier', 'children': [], 'value': 'lPort'}; {'id': '176', 'type': 'None', 'children': []}; {'id': '177', 'type': 'if_statement', 'children': ['178', '186']}; {'id': '178', 'type': 'call', 'children': ['179', '182']}; {'id': '179', 'type': 'attribute', 'children': ['180', '181']}; {'id': '180', 'type': 'identifier', 'children': [], 'value': 'childNode'}; {'id': '181', 'type': 'identifier', 'children': [], 'value': 'hasAttribute'}; {'id': '182', 'type': 'argument_list', 'children': ['183']}; {'id': '183', 'type': 'attribute', 'children': ['184', '185']}; {'id': '184', 'type': 'identifier', 'children': [], 'value': 'UcsLoginXml'}; {'id': '185', 'type': 'identifier', 'children': [], 'value': 'NAME'}; {'id': '186', 'type': 'block', 'children': ['187']}; {'id': '187', 'type': 'expression_statement', 'children': ['188']}; {'id': '188', 'type': 'assignment', 'children': ['189', '190']}; {'id': '189', 'type': 'identifier', 'children': [], 'value': 'lName'}; {'id': '190', 'type': 'call', 'children': ['191', '194']}; {'id': '191', 'type': 'attribute', 'children': ['192', '193']}; {'id': '192', 'type': 'identifier', 'children': [], 'value': 'childNode'}; {'id': '193', 'type': 'identifier', 'children': [], 'value': 'getAttribute'}; {'id': '194', 'type': 'argument_list', 'children': ['195']}; {'id': '195', 'type': 'attribute', 'children': ['196', '197']}; {'id': '196', 'type': 'identifier', 'children': [], 'value': 'UcsLoginXml'}; {'id': '197', 'type': 'identifier', 'children': [], 'value': 'NAME'}; {'id': '198', 'type': 'if_statement', 'children': ['199', '207']}; {'id': '199', 'type': 'call', 'children': ['200', '203']}; {'id': '200', 'type': 'attribute', 'children': ['201', '202']}; {'id': '201', 'type': 'identifier', 'children': [], 'value': 'childNode'}; {'id': '202', 'type': 'identifier', 'children': [], 'value': 'hasAttribute'}; {'id': '203', 'type': 'argument_list', 'children': ['204']}; {'id': '204', 'type': 'attribute', 'children': ['205', '206']}; {'id': '205', 'type': 'identifier', 'children': [], 'value': 'UcsLoginXml'}; {'id': '206', 'type': 'identifier', 'children': [], 'value': 'USER_NAME'}; {'id': '207', 'type': 'block', 'children': ['208']}; {'id': '208', 'type': 'expression_statement', 'children': ['209']}; {'id': '209', 'type': 'assignment', 'children': ['210', '211']}; {'id': '210', 'type': 'identifier', 'children': [], 'value': 'lUsername'}; {'id': '211', 'type': 'call', 'children': ['212', '215']}; {'id': '212', 'type': 'attribute', 'children': ['213', '214']}; {'id': '213', 'type': 'identifier', 'children': [], 'value': 'childNode'}; {'id': '214', 'type': 'identifier', 'children': [], 'value': 'getAttribute'}; {'id': '215', 'type': 'argument_list', 'children': ['216']}; {'id': '216', 'type': 'attribute', 'children': ['217', '218']}; {'id': '217', 'type': 'identifier', 'children': [], 'value': 'UcsLoginXml'}; {'id': '218', 'type': 'identifier', 'children': [], 'value': 'USER_NAME'}; {'id': '219', 'type': 'if_statement', 'children': ['220', '228']}; {'id': '220', 'type': 'call', 'children': ['221', '224']}; {'id': '221', 'type': 'attribute', 'children': ['222', '223']}; {'id': '222', 'type': 'identifier', 'children': [], 'value': 'childNode'}; {'id': '223', 'type': 'identifier', 'children': [], 'value': 'hasAttribute'}; {'id': '224', 'type': 'argument_list', 'children': ['225']}; {'id': '225', 'type': 'attribute', 'children': ['226', '227']}; {'id': '226', 'type': 'identifier', 'children': [], 'value': 'UcsLoginXml'}; {'id': '227', 'type': 'identifier', 'children': [], 'value': 'PASSWORD'}; {'id': '228', 'type': 'block', 'children': ['229']}; {'id': '229', 'type': 'expression_statement', 'children': ['230']}; {'id': '230', 'type': 'assignment', 'children': ['231', '232']}; {'id': '231', 'type': 'identifier', 'children': [], 'value': 'lPassword'}; {'id': '232', 'type': 'call', 'children': ['233', '236']}; {'id': '233', 'type': 'attribute', 'children': ['234', '235']}; {'id': '234', 'type': 'identifier', 'children': [], 'value': 'UcsUtils'}; {'id': '235', 'type': 'identifier', 'children': [], 'value': 'DecryptPassword'}; {'id': '236', 'type': 'argument_list', 'children': ['237', '245']}; {'id': '237', 'type': 'call', 'children': ['238', '241']}; {'id': '238', 'type': 'attribute', 'children': ['239', '240']}; {'id': '239', 'type': 'identifier', 'children': [], 'value': 'childNode'}; {'id': '240', 'type': 'identifier', 'children': [], 'value': 'getAttribute'}; {'id': '241', 'type': 'argument_list', 'children': ['242']}; {'id': '242', 'type': 'attribute', 'children': ['243', '244']}; {'id': '243', 'type': 'identifier', 'children': [], 'value': 'UcsLoginXml'}; {'id': '244', 'type': 'identifier', 'children': [], 'value': 'PASSWORD'}; {'id': '245', 'type': 'identifier', 'children': [], 'value': 'key'}; {'id': '246', 'type': 'if_statement', 'children': ['247', '255']}; {'id': '247', 'type': 'call', 'children': ['248', '251']}; {'id': '248', 'type': 'attribute', 'children': ['249', '250']}; {'id': '249', 'type': 'identifier', 'children': [], 'value': 'childNode'}; {'id': '250', 'type': 'identifier', 'children': [], 'value': 'hasAttribute'}; {'id': '251', 'type': 'argument_list', 'children': ['252']}; {'id': '252', 'type': 'attribute', 'children': ['253', '254']}; {'id': '253', 'type': 'identifier', 'children': [], 'value': 'UcsLoginXml'}; {'id': '254', 'type': 'identifier', 'children': [], 'value': 'NO_SSL'}; {'id': '255', 'type': 'block', 'children': ['256']}; {'id': '256', 'type': 'expression_statement', 'children': ['257']}; {'id': '257', 'type': 'assignment', 'children': ['258', '259']}; {'id': '258', 'type': 'identifier', 'children': [], 'value': 'lNoSsl'}; {'id': '259', 'type': 'call', 'children': ['260', '263']}; {'id': '260', 'type': 'attribute', 'children': ['261', '262']}; {'id': '261', 'type': 'identifier', 'children': [], 'value': 'childNode'}; {'id': '262', 'type': 'identifier', 'children': [], 'value': 'getAttribute'}; {'id': '263', 'type': 'argument_list', 'children': ['264']}; {'id': '264', 'type': 'attribute', 'children': ['265', '266']}; {'id': '265', 'type': 'identifier', 'children': [], 'value': 'UcsLoginXml'}; {'id': '266', 'type': 'identifier', 'children': [], 'value': 'NO_SSL'}; {'id': '267', 'type': 'if_statement', 'children': ['268', '276']}; {'id': '268', 'type': 'call', 'children': ['269', '272']}; {'id': '269', 'type': 'attribute', 'children': ['270', '271']}; {'id': '270', 'type': 'identifier', 'children': [], 'value': 'childNode'}; {'id': '271', 'type': 'identifier', 'children': [], 'value': 'hasAttribute'}; {'id': '272', 'type': 'argument_list', 'children': ['273']}; {'id': '273', 'type': 'attribute', 'children': ['274', '275']}; {'id': '274', 'type': 'identifier', 'children': [], 'value': 'UcsLoginXml'}; {'id': '275', 'type': 'identifier', 'children': [], 'value': 'PORT'}; {'id': '276', 'type': 'block', 'children': ['277']}; {'id': '277', 'type': 'expression_statement', 'children': ['278']}; {'id': '278', 'type': 'assignment', 'children': ['279', '280']}; {'id': '279', 'type': 'identifier', 'children': [], 'value': 'lPort'}; {'id': '280', 'type': 'call', 'children': ['281', '284']}; {'id': '281', 'type': 'attribute', 'children': ['282', '283']}; {'id': '282', 'type': 'identifier', 'children': [], 'value': 'childNode'}; {'id': '283', 'type': 'identifier', 'children': [], 'value': 'getAttribute'}; {'id': '284', 'type': 'argument_list', 'children': ['285']}; {'id': '285', 'type': 'attribute', 'children': ['286', '287']}; {'id': '286', 'type': 'identifier', 'children': [], 'value': 'UcsLoginXml'}; {'id': '287', 'type': 'identifier', 'children': [], 'value': 'PORT'}; {'id': '288', 'type': 'if_statement', 'children': ['289', '304']}; {'id': '289', 'type': '()', 'children': ['290']}; {'id': '290', 'type': 'boolean_operator', 'children': ['291', '300'], 'value': 'or'}; {'id': '291', 'type': 'boolean_operator', 'children': ['292', '296'], 'value': 'or'}; {'id': '292', 'type': '()', 'children': ['293']}; {'id': '293', 'type': 'comparison_operator', 'children': ['294', '295'], 'value': 'is'}; {'id': '294', 'type': 'identifier', 'children': [], 'value': 'lName'}; {'id': '295', 'type': 'None', 'children': []}; {'id': '296', 'type': '()', 'children': ['297']}; {'id': '297', 'type': 'comparison_operator', 'children': ['298', '299'], 'value': '=='}; {'id': '298', 'type': 'identifier', 'children': [], 'value': 'lUsername'}; {'id': '299', 'type': 'None', 'children': []}; {'id': '300', 'type': '()', 'children': ['301']}; {'id': '301', 'type': 'comparison_operator', 'children': ['302', '303'], 'value': '=='}; {'id': '302', 'type': 'identifier', 'children': [], 'value': 'lPassword'}; {'id': '303', 'type': 'None', 'children': []}; {'id': '304', 'type': 'block', 'children': ['305']}; {'id': '305', 'type': 'continue_statement', 'children': []}; {'id': '306', 'type': 'try_statement', 'children': ['307', '335']}; {'id': '307', 'type': 'block', 'children': ['308', '314']}; {'id': '308', 'type': 'expression_statement', 'children': ['309']}; {'id': '309', 'type': 'assignment', 'children': ['310', '311']}; {'id': '310', 'type': 'identifier', 'children': [], 'value': 'handle'}; {'id': '311', 'type': 'call', 'children': ['312', '313']}; {'id': '312', 'type': 'identifier', 'children': [], 'value': 'UcsHandle'}; {'id': '313', 'type': 'argument_list', 'children': []}; {'id': '314', 'type': 'expression_statement', 'children': ['315']}; {'id': '315', 'type': 'call', 'children': ['316', '319']}; {'id': '316', 'type': 'attribute', 'children': ['317', '318']}; {'id': '317', 'type': 'identifier', 'children': [], 'value': 'handle'}; {'id': '318', 'type': 'identifier', 'children': [], 'value': 'Login'}; {'id': '319', 'type': 'argument_list', 'children': ['320', '323', '326', '329', '332']}; {'id': '320', 'type': 'keyword_argument', 'children': ['321', '322']}; {'id': '321', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '322', 'type': 'identifier', 'children': [], 'value': 'lName'}; {'id': '323', 'type': 'keyword_argument', 'children': ['324', '325']}; {'id': '324', 'type': 'identifier', 'children': [], 'value': 'username'}; {'id': '325', 'type': 'identifier', 'children': [], 'value': 'lUsername'}; {'id': '326', 'type': 'keyword_argument', 'children': ['327', '328']}; {'id': '327', 'type': 'identifier', 'children': [], 'value': 'password'}; {'id': '328', 'type': 'identifier', 'children': [], 'value': 'lPassword'}; {'id': '329', 'type': 'keyword_argument', 'children': ['330', '331']}; {'id': '330', 'type': 'identifier', 'children': [], 'value': 'noSsl'}; {'id': '331', 'type': 'identifier', 'children': [], 'value': 'lNoSsl'}; {'id': '332', 'type': 'keyword_argument', 'children': ['333', '334']}; {'id': '333', 'type': 'identifier', 'children': [], 'value': 'port'}; {'id': '334', 'type': 'identifier', 'children': [], 'value': 'lPort'}; {'id': '335', 'type': 'except_clause', 'children': ['336', '337', '338']}; {'id': '336', 'type': 'identifier', 'children': [], 'value': 'Exception'}; {'id': '337', 'type': 'identifier', 'children': [], 'value': 'err'}; {'id': '338', 'type': 'block', 'children': ['339']}; {'id': '339', 'type': 'expression_statement', 'children': ['340']}; {'id': '340', 'type': 'call', 'children': ['341', '342']}; {'id': '341', 'type': 'identifier', 'children': [], 'value': 'WriteUcsWarning'}; {'id': '342', 'type': 'argument_list', 'children': ['343']}; {'id': '343', 'type': 'binary_operator', 'children': ['344', '345'], 'value': '%'}; {'id': '344', 'type': 'string', 'children': [], 'value': '"[Connection Error<%s>] %s"'}; {'id': '345', 'type': 'tuple', 'children': ['346', '347']}; {'id': '346', 'type': 'identifier', 'children': [], 'value': 'lName'}; {'id': '347', 'type': 'call', 'children': ['348', '349']}; {'id': '348', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '349', 'type': 'argument_list', 'children': ['350']}; {'id': '350', 'type': 'identifier', 'children': [], 'value': 'err'} | def ImportUcsSession(filePath, key):
from UcsBase import UcsUtils, WriteUcsWarning, UcsValidationException
if filePath is None:
raise UcsValidationException("filePath parameter is not provided.")
if key is None:
raise UcsValidationException("key parameter is not provided.")
if not os.path.isfile(filePath) or not os.path.exists(filePath):
raise UcsValidationException('[Error]: File <%s> does not exist ' % (filePath))
doc = xml.dom.minidom.parse(filePath)
topNode = doc.documentElement
if topNode is None or topNode.localName != UcsLoginXml.UCS_HANDLES:
return None
if (topNode.hasChildNodes()):
childList = topNode.childNodes
childCount = len(childList)
for i in range(childCount):
childNode = childList.item(i)
if (childNode.nodeType != Node.ELEMENT_NODE):
continue
if childNode.localName != UcsLoginXml.UCS:
continue
lName = None
lUsername = None
lPassword = None
lNoSsl = False
lPort = None
if childNode.hasAttribute(UcsLoginXml.NAME):
lName = childNode.getAttribute(UcsLoginXml.NAME)
if childNode.hasAttribute(UcsLoginXml.USER_NAME):
lUsername = childNode.getAttribute(UcsLoginXml.USER_NAME)
if childNode.hasAttribute(UcsLoginXml.PASSWORD):
lPassword = UcsUtils.DecryptPassword(childNode.getAttribute(UcsLoginXml.PASSWORD), key)
if childNode.hasAttribute(UcsLoginXml.NO_SSL):
lNoSsl = childNode.getAttribute(UcsLoginXml.NO_SSL)
if childNode.hasAttribute(UcsLoginXml.PORT):
lPort = childNode.getAttribute(UcsLoginXml.PORT)
if ((lName is None) or (lUsername == None) or (lPassword == None)):
continue
try:
handle = UcsHandle()
handle.Login(name=lName, username=lUsername, password=lPassword, noSsl=lNoSsl, port=lPort)
except Exception, err:
WriteUcsWarning("[Connection Error<%s>] %s" % (lName, str(err))) |
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Cannot execute ImportUcsBackup. 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{'id': '74', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'exists'}; {'id': '76', 'type': 'argument_list', 'children': ['77']}; {'id': '77', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '78', 'type': 'block', 'children': ['79']}; {'id': '79', 'type': 'raise_statement', 'children': ['80']}; {'id': '80', 'type': 'call', 'children': ['81', '82']}; {'id': '81', 'type': 'identifier', 'children': [], 'value': 'UcsValidationException'}; {'id': '82', 'type': 'argument_list', 'children': ['83']}; {'id': '83', 'type': 'binary_operator', 'children': ['84', '85'], 'value': '%'}; {'id': '84', 'type': 'string', 'children': [], 'value': '"Backup File not found <%s>"'}; {'id': '85', 'type': '()', 'children': ['86']}; {'id': '86', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '87', 'type': 'expression_statement', 'children': ['88']}; {'id': '88', 'type': 'assignment', 'children': ['89', '90']}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'dn'}; {'id': '90', 'type': 'None', 'children': []}; {'id': '91', 'type': 'expression_statement', 'children': ['92']}; {'id': '92', 'type': 'assignment', 'children': ['93', '94']}; {'id': '93', 'type': 'identifier', 'children': [], 'value': 'filePath'}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '95', 'type': 'expression_statement', 'children': ['96']}; {'id': '96', 'type': 'assignment', 'children': ['97', '98']}; {'id': '97', 'type': 'identifier', 'children': [], 'value': 'localFile'}; {'id': '98', 'type': 'call', 'children': ['99', '104']}; {'id': '99', 'type': 'attribute', 'children': ['100', '103']}; {'id': '100', 'type': 'attribute', 'children': ['101', '102']}; {'id': '101', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '102', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '103', 'type': 'identifier', 'children': [], 'value': 'basename'}; {'id': '104', 'type': 'argument_list', 'children': ['105']}; {'id': '105', 'type': 'identifier', 'children': [], 'value': 'filePath'}; {'id': '106', 'type': 'expression_statement', 'children': ['107']}; {'id': '107', 'type': 'assignment', 'children': ['108', '109']}; {'id': '108', 'type': 'identifier', 'children': [], 'value': 'topSystem'}; {'id': '109', 'type': 'call', 'children': ['110', '111']}; {'id': '110', 'type': 'identifier', 'children': [], 'value': 'ManagedObject'}; {'id': '111', 'type': 'argument_list', 'children': ['112']}; {'id': '112', 'type': 'attribute', 'children': ['113', '114']}; {'id': '113', 'type': 'identifier', 'children': [], 'value': 'NamingId'}; {'id': '114', 'type': 'identifier', 'children': [], 'value': 'TOP_SYSTEM'}; {'id': '115', 'type': 'expression_statement', 'children': ['116']}; {'id': '116', 'type': 'assignment', 'children': ['117', '118']}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'mgmtImporter'}; {'id': '118', 'type': 'call', 'children': ['119', '120']}; {'id': '119', 'type': 'identifier', 'children': [], 'value': 'ManagedObject'}; {'id': '120', 'type': 'argument_list', 'children': ['121']}; {'id': '121', 'type': 'attribute', 'children': ['122', '123']}; {'id': '122', 'type': 'identifier', 'children': [], 'value': 'NamingId'}; {'id': '123', 'type': 'identifier', 'children': [], 'value': 'MGMT_IMPORTER'}; {'id': '124', 'type': 'expression_statement', 'children': ['125']}; {'id': '125', 'type': 'assignment', 'children': ['126', '129']}; {'id': '126', 'type': 'attribute', 'children': ['127', '128']}; {'id': '127', 'type': 'identifier', 'children': [], 'value': 'mgmtImporter'}; {'id': '128', 'type': 'identifier', 'children': [], 'value': 'Hostname'}; {'id': '129', 'type': 'binary_operator', 'children': ['130', '139'], 'value': '+'}; {'id': '130', 'type': 'call', 'children': ['131', '138']}; {'id': '131', 'type': 'attribute', 'children': ['132', '137']}; {'id': '132', 'type': 'subscript', 'children': ['133', '136']}; {'id': '133', 'type': 'attribute', 'children': ['134', '135']}; {'id': '134', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '135', 'type': 'identifier', 'children': [], 'value': 'environ'}; 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{'id': '167', 'type': 'argument_list', 'children': []}; {'id': '168', 'type': 'expression_statement', 'children': ['169']}; {'id': '169', 'type': 'assignment', 'children': ['170', '173']}; {'id': '170', 'type': 'attribute', 'children': ['171', '172']}; {'id': '171', 'type': 'identifier', 'children': [], 'value': 'mgmtImporter'}; {'id': '172', 'type': 'identifier', 'children': [], 'value': 'Dn'}; {'id': '173', 'type': 'identifier', 'children': [], 'value': 'dn'}; {'id': '174', 'type': 'expression_statement', 'children': ['175']}; {'id': '175', 'type': 'assignment', 'children': ['176', '179']}; {'id': '176', 'type': 'attribute', 'children': ['177', '178']}; {'id': '177', 'type': 'identifier', 'children': [], 'value': 'mgmtImporter'}; {'id': '178', 'type': 'identifier', 'children': [], 'value': 'Status'}; {'id': '179', 'type': 'attribute', 'children': ['180', '181']}; {'id': '180', 'type': 'identifier', 'children': [], 'value': 'Status'}; {'id': '181', 'type': 'identifier', 'children': [], 'value': 'CREATED'}; 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{'id': '257', 'type': 'integer', 'children': [], 'value': '6'}; {'id': '258', 'type': 'block', 'children': ['259', '267']}; {'id': '259', 'type': 'expression_statement', 'children': ['260']}; {'id': '260', 'type': 'assignment', 'children': ['261', '262']}; {'id': '261', 'type': 'identifier', 'children': [], 'value': 'uploadFileHandle'}; {'id': '262', 'type': 'call', 'children': ['263', '264']}; {'id': '263', 'type': 'identifier', 'children': [], 'value': 'open'}; {'id': '264', 'type': 'argument_list', 'children': ['265', '266']}; {'id': '265', 'type': 'identifier', 'children': [], 'value': 'filePath'}; {'id': '266', 'type': 'string', 'children': [], 'value': "'rb'"}; {'id': '267', 'type': 'expression_statement', 'children': ['268']}; {'id': '268', 'type': 'assignment', 'children': ['269', '270']}; {'id': '269', 'type': 'identifier', 'children': [], 'value': 'stream'}; {'id': '270', 'type': 'call', 'children': ['271', '274']}; {'id': '271', 'type': 'attribute', 'children': ['272', '273']}; {'id': '272', 'type': 'identifier', 'children': [], 'value': 'uploadFileHandle'}; {'id': '273', 'type': 'identifier', 'children': [], 'value': 'read'}; {'id': '274', 'type': 'argument_list', 'children': []}; {'id': '275', 'type': 'else_clause', 'children': ['276']}; {'id': '276', 'type': 'block', 'children': ['277', '283']}; {'id': '277', 'type': 'expression_statement', 'children': ['278']}; {'id': '278', 'type': 'assignment', 'children': ['279', '280']}; {'id': '279', 'type': 'identifier', 'children': [], 'value': 'progress'}; {'id': '280', 'type': 'call', 'children': ['281', '282']}; {'id': '281', 'type': 'identifier', 'children': [], 'value': 'Progress'}; {'id': '282', 'type': 'argument_list', 'children': []}; {'id': '283', 'type': 'expression_statement', 'children': ['284']}; {'id': '284', 'type': 'assignment', 'children': ['285', '286']}; {'id': '285', 'type': 'identifier', 'children': [], 'value': 'stream'}; {'id': '286', 'type': 'call', 'children': ['287', '288']}; {'id': '287', 'type': 'identifier', 'children': [], 'value': 'file_with_callback'}; {'id': '288', 'type': 'argument_list', 'children': ['289', '290', '291', '294']}; {'id': '289', 'type': 'identifier', 'children': [], 'value': 'filePath'}; {'id': '290', 'type': 'string', 'children': [], 'value': "'rb'"}; {'id': '291', 'type': 'attribute', 'children': ['292', '293']}; {'id': '292', 'type': 'identifier', 'children': [], 'value': 'progress'}; {'id': '293', 'type': 'identifier', 'children': [], 'value': 'update'}; {'id': '294', 'type': 'identifier', 'children': [], 'value': 'filePath'}; {'id': '295', 'type': 'expression_statement', 'children': ['296']}; {'id': '296', 'type': 'assignment', 'children': ['297', '298']}; {'id': '297', 'type': 'identifier', 'children': [], 'value': 'request'}; {'id': '298', 'type': 'call', 'children': ['299', '302']}; {'id': '299', 'type': 'attribute', 'children': ['300', '301']}; {'id': '300', 'type': 'identifier', 'children': [], 'value': 'urllib2'}; {'id': '301', 'type': 'identifier', 'children': [], 'value': 'Request'}; {'id': '302', 'type': 'argument_list', 'children': ['303']}; {'id': '303', 'type': 'identifier', 'children': [], 'value': 'uri'}; {'id': '304', 'type': 'expression_statement', 'children': ['305']}; {'id': '305', 'type': 'call', 'children': ['306', '309']}; {'id': '306', 'type': 'attribute', 'children': ['307', '308']}; {'id': '307', 'type': 'identifier', 'children': [], 'value': 'request'}; {'id': '308', 'type': 'identifier', 'children': [], 'value': 'add_header'}; {'id': '309', 'type': 'argument_list', 'children': ['310', '311']}; {'id': '310', 'type': 'string', 'children': [], 'value': "'Cookie'"}; {'id': '311', 'type': 'binary_operator', 'children': ['312', '313'], 'value': '%'}; {'id': '312', 'type': 'string', 'children': [], 'value': "'ucsm-cookie=%s'"}; {'id': '313', 'type': '()', 'children': ['314']}; {'id': '314', 'type': 'attribute', 'children': ['315', '316']}; {'id': '315', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '316', 'type': 'identifier', 'children': [], 'value': '_cookie'}; {'id': '317', 'type': 'expression_statement', 'children': ['318']}; {'id': '318', 'type': 'call', 'children': ['319', '322']}; {'id': '319', 'type': 'attribute', 'children': ['320', '321']}; {'id': '320', 'type': 'identifier', 'children': [], 'value': 'request'}; {'id': '321', 'type': 'identifier', 'children': [], 'value': 'add_data'}; {'id': '322', 'type': 'argument_list', 'children': ['323']}; {'id': '323', 'type': 'identifier', 'children': [], 'value': 'stream'}; {'id': '324', 'type': 'expression_statement', 'children': ['325']}; {'id': '325', 'type': 'assignment', 'children': ['326', '327']}; {'id': '326', 'type': 'identifier', 'children': [], 'value': 'response'}; {'id': '327', 'type': 'call', 'children': ['328', '336']}; {'id': '328', 'type': 'attribute', 'children': ['329', '335']}; {'id': '329', 'type': 'call', 'children': ['330', '333']}; {'id': '330', 'type': 'attribute', 'children': ['331', '332']}; {'id': '331', 'type': 'identifier', 'children': [], 'value': 'urllib2'}; {'id': '332', 'type': 'identifier', 'children': [], 'value': 'urlopen'}; {'id': '333', 'type': 'argument_list', 'children': ['334']}; {'id': '334', 'type': 'identifier', 'children': [], 'value': 'request'}; {'id': '335', 'type': 'identifier', 'children': [], 'value': 'read'}; {'id': '336', 'type': 'argument_list', 'children': []}; {'id': '337', 'type': 'if_statement', 'children': ['338', '340']}; {'id': '338', 'type': 'not_operator', 'children': ['339']}; {'id': '339', 'type': 'identifier', 'children': [], 'value': 'response'}; {'id': '340', 'type': 'block', 'children': ['341']}; {'id': '341', 'type': 'raise_statement', 'children': ['342']}; {'id': '342', 'type': 'call', 'children': ['343', '344']}; {'id': '343', 'type': 'identifier', 'children': [], 'value': 'UcsValidationException'}; {'id': '344', 'type': 'argument_list', 'children': ['345']}; {'id': '345', 'type': 'string', 'children': [], 'value': '"Unable to upload properly."'}; {'id': '346', 'type': 'expression_statement', 'children': ['347']}; {'id': '347', 'type': 'assignment', 'children': ['348', '349']}; {'id': '348', 'type': 'identifier', 'children': [], 'value': 'ccm'}; {'id': '349', 'type': 'call', 'children': ['350', '353']}; {'id': '350', 'type': 'attribute', 'children': ['351', '352']}; {'id': '351', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '352', 'type': 'identifier', 'children': [], 'value': 'ConfigConfMo'}; {'id': '353', 'type': 'argument_list', 'children': ['354', '357', '360', '365']}; {'id': '354', 'type': 'keyword_argument', 'children': ['355', '356']}; {'id': '355', 'type': 'identifier', 'children': [], 'value': 'dn'}; {'id': '356', 'type': 'identifier', 'children': [], 'value': 'dn'}; {'id': '357', 'type': 'keyword_argument', 'children': ['358', '359']}; {'id': '358', 'type': 'identifier', 'children': [], 'value': 'inConfig'}; {'id': '359', 'type': 'identifier', 'children': [], 'value': 'inConfig'}; {'id': '360', 'type': 'keyword_argument', 'children': ['361', '362']}; {'id': '361', 'type': 'identifier', 'children': [], 'value': 'inHierarchical'}; {'id': '362', 'type': 'attribute', 'children': ['363', '364']}; {'id': '363', 'type': 'identifier', 'children': [], 'value': 'YesOrNo'}; {'id': '364', 'type': 'identifier', 'children': [], 'value': 'FALSE'}; {'id': '365', 'type': 'keyword_argument', 'children': ['366', '367']}; {'id': '366', 'type': 'identifier', 'children': [], 'value': 'dumpXml'}; {'id': '367', 'type': 'identifier', 'children': [], 'value': 'dumpXml'}; {'id': '368', 'type': 'if_statement', 'children': ['369', '375']}; {'id': '369', 'type': '()', 'children': ['370']}; {'id': '370', 'type': 'comparison_operator', 'children': ['371', '374'], 'value': '!='}; {'id': '371', 'type': 'attribute', 'children': ['372', '373']}; {'id': '372', 'type': 'identifier', 'children': [], 'value': 'ccm'}; {'id': '373', 'type': 'identifier', 'children': [], 'value': 'errorCode'}; {'id': '374', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '375', 'type': 'block', 'children': ['376']}; {'id': '376', 'type': 'raise_statement', 'children': ['377']}; {'id': '377', 'type': 'call', 'children': ['378', '379']}; {'id': '378', 'type': 'identifier', 'children': [], 'value': 'UcsException'}; {'id': '379', 'type': 'argument_list', 'children': ['380', '383']}; {'id': '380', 'type': 'attribute', 'children': ['381', '382']}; {'id': '381', 'type': 'identifier', 'children': [], 'value': 'ccm'}; {'id': '382', 'type': 'identifier', 'children': [], 'value': 'errorCode'}; {'id': '383', 'type': 'attribute', 'children': ['384', '385']}; {'id': '384', 'type': 'identifier', 'children': [], 'value': 'ccm'}; {'id': '385', 'type': 'identifier', 'children': [], 'value': 'errorDescr'}; {'id': '386', 'type': 'return_statement', 'children': ['387']}; {'id': '387', 'type': 'call', 'children': ['388', '393']}; {'id': '388', 'type': 'attribute', 'children': ['389', '392']}; {'id': '389', 'type': 'attribute', 'children': ['390', '391']}; {'id': '390', 'type': 'identifier', 'children': [], 'value': 'ccm'}; {'id': '391', 'type': 'identifier', 'children': [], 'value': 'OutConfig'}; {'id': '392', 'type': 'identifier', 'children': [], 'value': 'GetChild'}; {'id': '393', 'type': 'argument_list', 'children': []} | def ImportUcsBackup(self, path=None, merge=False, dumpXml=False):
from UcsBase import WriteUcsWarning, UcsUtils, ManagedObject, WriteObject, UcsUtils, UcsException, \
UcsValidationException
from Ucs import ConfigConfig
from Mos import MgmtImporter
from datetime import datetime
if (self._transactionInProgress):
raise UcsValidationException(
"UCS transaction in progress. Cannot execute ImportUcsBackup. Complete or Undo UCS transaction.")
if not path:
raise UcsValidationException("path parameter is not provided.")
if not os.path.exists(path):
raise UcsValidationException("Backup File not found <%s>" % (path))
dn = None
filePath = path
localFile = os.path.basename(filePath)
topSystem = ManagedObject(NamingId.TOP_SYSTEM)
mgmtImporter = ManagedObject(NamingId.MGMT_IMPORTER)
mgmtImporter.Hostname = os.environ['COMPUTERNAME'].lower() + datetime.now().strftime('%Y%m%d%H%M')
dn = UcsUtils.MakeDn([topSystem.MakeRn(), mgmtImporter.MakeRn()])
mgmtImporter.Dn = dn
mgmtImporter.Status = Status.CREATED
mgmtImporter.RemoteFile = filePath
mgmtImporter.Proto = MgmtImporter.CONST_PROTO_HTTP
mgmtImporter.AdminState = MgmtImporter.CONST_ADMIN_STATE_ENABLED
if merge:
mgmtImporter.Action = MgmtImporter.CONST_ACTION_MERGE
else:
mgmtImporter.Action = MgmtImporter.CONST_ACTION_REPLACE
inConfig = ConfigConfig()
inConfig.AddChild(mgmtImporter)
uri = "%s/operations/file-%s/importconfig.txt" % (self.Uri(), localFile)
if sys.version_info < (2, 6):
uploadFileHandle = open(filePath, 'rb')
stream = uploadFileHandle.read()
else:
progress = Progress()
stream = file_with_callback(filePath, 'rb', progress.update, filePath)
request = urllib2.Request(uri)
request.add_header('Cookie', 'ucsm-cookie=%s' % (self._cookie))
request.add_data(stream)
response = urllib2.urlopen(request).read()
if not response:
raise UcsValidationException("Unable to upload properly.")
ccm = self.ConfigConfMo(dn=dn, inConfig=inConfig, inHierarchical=YesOrNo.FALSE, dumpXml=dumpXml)
if (ccm.errorCode != 0):
raise UcsException(ccm.errorCode, ccm.errorDescr)
return ccm.OutConfig.GetChild() |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': '_set_suffix_links'}; {'id': '3', 'type': 'parameters', 'children': ['4']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '5', 'type': 'block', 'children': ['6', '8', '14']}; {'id': '6', 'type': 'expression_statement', 'children': ['7']}; {'id': '7', 'type': 'string', 'children': [], 'value': "'''\n Sets all suffix links in all nodes in this trie.\n '''"}; {'id': '8', 'type': 'expression_statement', 'children': ['9']}; {'id': '9', 'type': 'assignment', 'children': ['10', '13']}; {'id': '10', 'type': 'attribute', 'children': ['11', '12']}; {'id': '11', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '12', 'type': 'identifier', 'children': [], 'value': '_suffix_links_set'}; {'id': '13', 'type': 'True', 'children': []}; {'id': '14', 'type': 'for_statement', 'children': ['15', '18', '23']}; {'id': '15', 'type': 'pattern_list', 'children': ['16', '17']}; {'id': '16', 'type': 'identifier', 'children': [], 'value': 'current'}; {'id': '17', 'type': 'identifier', 'children': [], 'value': 'parent'}; {'id': '18', 'type': 'call', 'children': ['19', '22']}; {'id': '19', 'type': 'attribute', 'children': ['20', '21']}; {'id': '20', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '21', 'type': 'identifier', 'children': [], 'value': 'bfs'}; {'id': '22', 'type': 'argument_list', 'children': []}; {'id': '23', 'type': 'block', 'children': ['24', '30', '38', '49', '55', '59', '103', '109', '125']}; {'id': '24', 'type': 'if_statement', 'children': ['25', '28']}; {'id': '25', 'type': 'comparison_operator', 'children': ['26', '27'], 'value': 'is'}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'parent'}; {'id': '27', 'type': 'None', 'children': []}; {'id': '28', 'type': 'block', 'children': ['29']}; {'id': '29', 'type': 'continue_statement', 'children': []}; {'id': '30', 'type': 'expression_statement', 'children': ['31']}; {'id': '31', 'type': 'assignment', 'children': ['32', '35']}; {'id': '32', 'type': 'attribute', 'children': ['33', '34']}; {'id': '33', 'type': 'identifier', 'children': [], 'value': 'current'}; {'id': '34', 'type': 'identifier', 'children': [], 'value': 'longest_prefix'}; {'id': '35', 'type': 'attribute', 'children': ['36', '37']}; {'id': '36', 'type': 'identifier', 'children': [], 'value': 'parent'}; {'id': '37', 'type': 'identifier', 'children': [], 'value': 'longest_prefix'}; {'id': '38', 'type': 'if_statement', 'children': ['39', '42']}; {'id': '39', 'type': 'attribute', 'children': ['40', '41']}; {'id': '40', 'type': 'identifier', 'children': [], 'value': 'parent'}; {'id': '41', 'type': 'identifier', 'children': [], 'value': 'has_value'}; {'id': '42', 'type': 'block', 'children': ['43']}; {'id': '43', 'type': 'expression_statement', 'children': ['44']}; {'id': '44', 'type': 'assignment', 'children': ['45', '48']}; {'id': '45', 'type': 'attribute', 'children': ['46', '47']}; {'id': '46', 'type': 'identifier', 'children': [], 'value': 'current'}; {'id': '47', 'type': 'identifier', 'children': [], 'value': 'longest_prefix'}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'parent'}; {'id': '49', 'type': 'if_statement', 'children': ['50', '53']}; {'id': '50', 'type': 'attribute', 'children': ['51', '52']}; {'id': '51', 'type': 'identifier', 'children': [], 'value': 'current'}; {'id': '52', 'type': 'identifier', 'children': [], 'value': 'has_suffix'}; {'id': '53', 'type': 'block', 'children': ['54']}; {'id': '54', 'type': 'continue_statement', 'children': []}; {'id': '55', 'type': 'expression_statement', 'children': ['56']}; {'id': '56', 'type': 'assignment', 'children': ['57', '58']}; {'id': '57', 'type': 'identifier', 'children': [], 'value': 'suffix'}; {'id': '58', 'type': 'identifier', 'children': [], 'value': 'parent'}; {'id': '59', 'type': 'while_statement', 'children': ['60', '61']}; {'id': '60', 'type': 'True', 'children': []}; {'id': '61', 'type': 'block', 'children': ['62', '85']}; {'id': '62', 'type': 'if_statement', 'children': ['63', '67', '77']}; {'id': '63', 'type': 'not_operator', 'children': ['64']}; {'id': '64', 'type': 'attribute', 'children': ['65', '66']}; {'id': '65', 'type': 'identifier', 'children': [], 'value': 'suffix'}; {'id': '66', 'type': 'identifier', 'children': [], 'value': 'has_suffix'}; {'id': '67', 'type': 'block', 'children': ['68', '76']}; {'id': '68', 'type': 'expression_statement', 'children': ['69']}; {'id': '69', 'type': 'assignment', 'children': ['70', '73']}; {'id': '70', 'type': 'attribute', 'children': ['71', '72']}; {'id': '71', 'type': 'identifier', 'children': [], 'value': 'current'}; {'id': '72', 'type': 'identifier', 'children': [], 'value': 'suffix'}; {'id': '73', 'type': 'attribute', 'children': ['74', '75']}; {'id': '74', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'root'}; {'id': '76', 'type': 'break_statement', 'children': []}; {'id': '77', 'type': 'else_clause', 'children': ['78']}; {'id': '78', 'type': 'block', 'children': ['79']}; {'id': '79', 'type': 'expression_statement', 'children': ['80']}; {'id': '80', 'type': 'assignment', 'children': ['81', '82']}; {'id': '81', 'type': 'identifier', 'children': [], 'value': 'suffix'}; {'id': '82', 'type': 'attribute', 'children': ['83', '84']}; {'id': '83', 'type': 'identifier', 'children': [], 'value': 'suffix'}; {'id': '84', 'type': 'identifier', 'children': [], 'value': 'suffix'}; {'id': '85', 'type': 'if_statement', 'children': ['86', '91']}; {'id': '86', 'type': 'comparison_operator', 'children': ['87', '90'], 'value': 'in'}; {'id': '87', 'type': 'attribute', 'children': ['88', '89']}; {'id': '88', 'type': 'identifier', 'children': [], 'value': 'current'}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'uplink'}; {'id': '90', 'type': 'identifier', 'children': [], 'value': 'suffix'}; {'id': '91', 'type': 'block', 'children': ['92', '102']}; {'id': '92', 'type': 'expression_statement', 'children': ['93']}; {'id': '93', 'type': 'assignment', 'children': ['94', '97']}; {'id': '94', 'type': 'attribute', 'children': ['95', '96']}; {'id': '95', 'type': 'identifier', 'children': [], 'value': 'current'}; {'id': '96', 'type': 'identifier', 'children': [], 'value': 'suffix'}; {'id': '97', 'type': 'subscript', 'children': ['98', '99']}; {'id': '98', 'type': 'identifier', 'children': [], 'value': 'suffix'}; {'id': '99', 'type': 'attribute', 'children': ['100', '101']}; {'id': '100', 'type': 'identifier', 'children': [], 'value': 'current'}; {'id': '101', 'type': 'identifier', 'children': [], 'value': 'uplink'}; {'id': '102', 'type': 'break_statement', 'children': []}; {'id': '103', 'type': 'expression_statement', 'children': ['104']}; {'id': '104', 'type': 'assignment', 'children': ['105', '106']}; {'id': '105', 'type': 'identifier', 'children': [], 'value': 'suffix'}; {'id': '106', 'type': 'attribute', 'children': ['107', '108']}; {'id': '107', 'type': 'identifier', 'children': [], 'value': 'current'}; {'id': '108', 'type': 'identifier', 'children': [], 'value': 'suffix'}; {'id': '109', 'type': 'while_statement', 'children': ['110', '118']}; {'id': '110', 'type': 'boolean_operator', 'children': ['111', '115'], 'value': 'and'}; {'id': '111', 'type': 'not_operator', 'children': ['112']}; {'id': '112', 'type': 'attribute', 'children': ['113', '114']}; {'id': '113', 'type': 'identifier', 'children': [], 'value': 'suffix'}; {'id': '114', 'type': 'identifier', 'children': [], 'value': 'has_value'}; {'id': '115', 'type': 'attribute', 'children': ['116', '117']}; {'id': '116', 'type': 'identifier', 'children': [], 'value': 'suffix'}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'has_suffix'}; {'id': '118', 'type': 'block', 'children': ['119']}; {'id': '119', 'type': 'expression_statement', 'children': ['120']}; {'id': '120', 'type': 'assignment', 'children': ['121', '122']}; {'id': '121', 'type': 'identifier', 'children': [], 'value': 'suffix'}; {'id': '122', 'type': 'attribute', 'children': ['123', '124']}; {'id': '123', 'type': 'identifier', 'children': [], 'value': 'suffix'}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'suffix'}; {'id': '125', 'type': 'if_statement', 'children': ['126', '129']}; {'id': '126', 'type': 'attribute', 'children': ['127', '128']}; {'id': '127', 'type': 'identifier', 'children': [], 'value': 'suffix'}; {'id': '128', 'type': 'identifier', 'children': [], 'value': 'has_value'}; {'id': '129', 'type': 'block', 'children': ['130']}; {'id': '130', 'type': 'expression_statement', 'children': ['131']}; {'id': '131', 'type': 'assignment', 'children': ['132', '135']}; {'id': '132', 'type': 'attribute', 'children': ['133', '134']}; {'id': '133', 'type': 'identifier', 'children': [], 'value': 'current'}; {'id': '134', 'type': 'identifier', 'children': [], 'value': 'dict_suffix'}; {'id': '135', 'type': 'identifier', 'children': [], 'value': 'suffix'} | def _set_suffix_links(self):
'''
Sets all suffix links in all nodes in this trie.
'''
self._suffix_links_set = True
for current, parent in self.bfs():
if parent is None:
continue
current.longest_prefix = parent.longest_prefix
if parent.has_value:
current.longest_prefix = parent
if current.has_suffix:
continue
suffix = parent
while True:
if not suffix.has_suffix:
current.suffix = self.root
break
else:
suffix = suffix.suffix
if current.uplink in suffix:
current.suffix = suffix[current.uplink]
break
suffix = current.suffix
while not suffix.has_value and suffix.has_suffix:
suffix = suffix.suffix
if suffix.has_value:
current.dict_suffix = suffix |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': '_write_mo'}; {'id': '3', 'type': 'parameters', 'children': ['4']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'mo'}; {'id': '5', 'type': 'block', 'children': ['6', '10', '27', '31', '35', '73', '84', '216', '270', '297', '301']}; {'id': '6', 'type': 'expression_statement', 'children': ['7']}; {'id': '7', 'type': 'assignment', 'children': ['8', '9']}; {'id': '8', 'type': 'identifier', 'children': [], 'value': 'classNotFound'}; {'id': '9', 'type': 'False', 'children': []}; {'id': '10', 'type': 'if_statement', 'children': ['11', '22']}; {'id': '11', 'type': '()', 'children': ['12']}; {'id': '12', 'type': 'comparison_operator', 'children': ['13', '21'], 'value': '=='}; {'id': '13', 'type': 'call', 'children': ['14', '17']}; {'id': '14', 'type': 'attribute', 'children': ['15', '16']}; {'id': '15', 'type': 'identifier', 'children': [], 'value': 'UcsUtils'}; {'id': '16', 'type': 'identifier', 'children': [], 'value': 'FindClassIdInMoMetaIgnoreCase'}; {'id': '17', 'type': 'argument_list', 'children': ['18']}; {'id': '18', 'type': 'attribute', 'children': ['19', '20']}; {'id': '19', 'type': 'identifier', 'children': [], 'value': 'mo'}; {'id': '20', 'type': 'identifier', 'children': [], 'value': 'classId'}; {'id': '21', 'type': 'None', 'children': []}; {'id': '22', 'type': 'block', 'children': ['23']}; {'id': '23', 'type': 'expression_statement', 'children': ['24']}; {'id': '24', 'type': 'assignment', 'children': ['25', '26']}; {'id': '25', 'type': 'identifier', 'children': [], 'value': 'classNotFound'}; {'id': '26', 'type': 'True', 'children': []}; {'id': '27', 'type': 'expression_statement', 'children': ['28']}; {'id': '28', 'type': 'assignment', 'children': ['29', '30']}; {'id': '29', 'type': 'identifier', 'children': [], 'value': 'tabsize'}; {'id': '30', 'type': 'integer', 'children': [], 'value': '8'}; {'id': '31', 'type': 'expression_statement', 'children': ['32']}; {'id': '32', 'type': 'assignment', 'children': ['33', '34']}; {'id': '33', 'type': 'identifier', 'children': [], 'value': 'outstr'}; {'id': '34', 'type': 'string', 'children': [], 'value': '"\\n"'}; {'id': '35', 'type': 'if_statement', 'children': ['36', '37', '56']}; {'id': '36', 'type': 'identifier', 'children': [], 'value': 'classNotFound'}; {'id': '37', 'type': 'block', 'children': ['38']}; {'id': '38', 'type': 'expression_statement', 'children': ['39']}; {'id': '39', 'type': 'augmented_assignment', 'children': ['40', '41'], 'value': '+='}; {'id': '40', 'type': 'identifier', 'children': [], 'value': 'outstr'}; {'id': '41', 'type': 'binary_operator', 'children': ['42', '55'], 'value': '+'}; {'id': '42', 'type': 'binary_operator', 'children': ['43', '44'], 'value': '+'}; {'id': '43', 'type': 'string', 'children': [], 'value': '"Managed Object\\t\\t\\t:\\t"'}; {'id': '44', 'type': 'call', 'children': ['45', '46']}; {'id': '45', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '46', 'type': 'argument_list', 'children': ['47']}; {'id': '47', 'type': 'call', 'children': ['48', '51']}; {'id': '48', 'type': 'attribute', 'children': ['49', '50']}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'UcsUtils'}; {'id': '50', 'type': 'identifier', 'children': [], 'value': 'WordU'}; {'id': '51', 'type': 'argument_list', 'children': ['52']}; {'id': '52', 'type': 'attribute', 'children': ['53', '54']}; {'id': '53', 'type': 'identifier', 'children': [], 'value': 'mo'}; {'id': '54', 'type': 'identifier', 'children': [], 'value': 'classId'}; {'id': '55', 'type': 'string', 'children': [], 'value': '"\\n"'}; {'id': '56', 'type': 'else_clause', 'children': ['57']}; {'id': '57', 'type': 'block', 'children': ['58']}; {'id': '58', 'type': 'expression_statement', 'children': ['59']}; {'id': '59', 'type': 'augmented_assignment', 'children': ['60', '61'], 'value': '+='}; {'id': '60', 'type': 'identifier', 'children': [], 'value': 'outstr'}; {'id': '61', 'type': 'binary_operator', 'children': ['62', '72'], 'value': '+'}; {'id': '62', 'type': 'binary_operator', 'children': ['63', '64'], 'value': '+'}; {'id': '63', 'type': 'string', 'children': [], 'value': '"Managed Object\\t\\t\\t:\\t"'}; {'id': '64', 'type': 'call', 'children': ['65', '66']}; {'id': '65', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '66', 'type': 'argument_list', 'children': ['67']}; {'id': '67', 'type': 'attribute', 'children': ['68', '71']}; {'id': '68', 'type': 'attribute', 'children': ['69', '70']}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'mo'}; {'id': '70', 'type': 'identifier', 'children': [], 'value': 'propMoMeta'}; {'id': '71', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '72', 'type': 'string', 'children': [], 'value': '"\\n"'}; {'id': '73', 'type': 'expression_statement', 'children': ['74']}; {'id': '74', 'type': 'augmented_assignment', 'children': ['75', '76'], 'value': '+='}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'outstr'}; {'id': '76', 'type': 'binary_operator', 'children': ['77', '83'], 'value': '+'}; {'id': '77', 'type': 'binary_operator', 'children': ['78', '79'], 'value': '*'}; {'id': '78', 'type': 'string', 'children': [], 'value': '"-"'}; {'id': '79', 'type': 'call', 'children': ['80', '81']}; {'id': '80', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '81', 'type': 'argument_list', 'children': ['82']}; {'id': '82', 'type': 'string', 'children': [], 'value': '"Managed Object"'}; {'id': '83', 'type': 'string', 'children': [], 'value': '"\\n"'}; {'id': '84', 'type': 'if_statement', 'children': ['85', '88', '159']}; {'id': '85', 'type': '()', 'children': ['86']}; {'id': '86', 'type': 'not_operator', 'children': ['87']}; {'id': '87', 'type': 'identifier', 'children': [], 'value': 'classNotFound'}; {'id': '88', 'type': 'block', 'children': ['89']}; {'id': '89', 'type': 'for_statement', 'children': ['90', '91', '101']}; {'id': '90', 'type': 'identifier', 'children': [], 'value': 'prop'}; {'id': '91', 'type': 'call', 'children': ['92', '95']}; {'id': '92', 'type': 'attribute', 'children': ['93', '94']}; {'id': '93', 'type': 'identifier', 'children': [], 'value': 'UcsUtils'}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'GetUcsPropertyMetaAttributeList'}; {'id': '95', 'type': 'argument_list', 'children': ['96']}; {'id': '96', 'type': 'attribute', 'children': ['97', '100']}; {'id': '97', 'type': 'attribute', 'children': ['98', '99']}; {'id': '98', 'type': 'identifier', 'children': [], 'value': 'mo'}; {'id': '99', 'type': 'identifier', 'children': [], 'value': 'propMoMeta'}; {'id': '100', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '101', 'type': 'block', 'children': ['102', '116', '127', '136']}; {'id': '102', 'type': 'expression_statement', 'children': ['103']}; {'id': '103', 'type': 'assignment', 'children': ['104', '105']}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'propMeta'}; {'id': '105', 'type': 'call', 'children': ['106', '109']}; {'id': '106', 'type': 'attribute', 'children': ['107', '108']}; {'id': '107', 'type': 'identifier', 'children': [], 'value': 'UcsUtils'}; {'id': '108', 'type': 'identifier', 'children': [], 'value': 'GetUcsPropertyMeta'}; {'id': '109', 'type': 'argument_list', 'children': ['110', '115']}; {'id': '110', 'type': 'attribute', 'children': ['111', '114']}; {'id': '111', 'type': 'attribute', 'children': ['112', '113']}; {'id': '112', 'type': 'identifier', 'children': [], 'value': 'mo'}; {'id': '113', 'type': 'identifier', 'children': [], 'value': 'propMoMeta'}; {'id': '114', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '115', 'type': 'identifier', 'children': [], 'value': 'prop'}; {'id': '116', 'type': 'if_statement', 'children': ['117', '125']}; {'id': '117', 'type': '()', 'children': ['118']}; {'id': '118', 'type': 'comparison_operator', 'children': ['119', '122'], 'value': '=='}; {'id': '119', 'type': 'attribute', 'children': ['120', '121']}; {'id': '120', 'type': 'identifier', 'children': [], 'value': 'propMeta'}; {'id': '121', 'type': 'identifier', 'children': [], 'value': 'access'}; {'id': '122', 'type': 'attribute', 'children': ['123', '124']}; {'id': '123', 'type': 'identifier', 'children': [], 'value': 'UcsPropertyMeta'}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'Internal'}; {'id': '125', 'type': 'block', 'children': ['126']}; {'id': '126', 'type': 'continue_statement', 'children': []}; {'id': '127', 'type': 'expression_statement', 'children': ['128']}; {'id': '128', 'type': 'assignment', 'children': ['129', '130']}; {'id': '129', 'type': 'identifier', 'children': [], 'value': 'val'}; {'id': '130', 'type': 'call', 'children': ['131', '134']}; {'id': '131', 'type': 'attribute', 'children': ['132', '133']}; {'id': '132', 'type': 'identifier', 'children': [], 'value': 'mo'}; {'id': '133', 'type': 'identifier', 'children': [], 'value': 'getattr'}; {'id': '134', 'type': 'argument_list', 'children': ['135']}; {'id': '135', 'type': 'identifier', 'children': [], 'value': 'prop'}; {'id': '136', 'type': 'expression_statement', 'children': ['137']}; {'id': '137', 'type': 'augmented_assignment', 'children': ['138', '139'], 'value': '+='}; {'id': '138', 'type': 'identifier', 'children': [], 'value': 'outstr'}; {'id': '139', 'type': 'binary_operator', 'children': ['140', '158'], 'value': '+'}; {'id': '140', 'type': 'binary_operator', 'children': ['141', '154'], 'value': '+'}; {'id': '141', 'type': 'binary_operator', 'children': ['142', '153'], 'value': '+'}; {'id': '142', 'type': 'call', 'children': ['143', '149']}; {'id': '143', 'type': 'attribute', 'children': ['144', '148']}; {'id': '144', 'type': 'call', 'children': ['145', '146']}; {'id': '145', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '146', 'type': 'argument_list', 'children': ['147']}; {'id': '147', 'type': 'identifier', 'children': [], 'value': 'prop'}; {'id': '148', 'type': 'identifier', 'children': [], 'value': 'ljust'}; {'id': '149', 'type': 'argument_list', 'children': ['150']}; {'id': '150', 'type': 'binary_operator', 'children': ['151', '152'], 'value': '*'}; {'id': '151', 'type': 'identifier', 'children': [], 'value': 'tabsize'}; {'id': '152', 'type': 'integer', 'children': [], 'value': '4'}; {'id': '153', 'type': 'string', 'children': [], 'value': "':'"}; {'id': '154', 'type': 'call', 'children': ['155', '156']}; {'id': '155', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '156', 'type': 'argument_list', 'children': ['157']}; {'id': '157', 'type': 'identifier', 'children': [], 'value': 'val'}; {'id': '158', 'type': 'string', 'children': [], 'value': '"\\n"'}; {'id': '159', 'type': 'else_clause', 'children': ['160']}; {'id': '160', 'type': 'block', 'children': ['161']}; {'id': '161', 'type': 'for_statement', 'children': ['162', '163', '166']}; {'id': '162', 'type': 'identifier', 'children': [], 'value': 'prop'}; {'id': '163', 'type': 'attribute', 'children': ['164', '165']}; {'id': '164', 'type': 'identifier', 'children': [], 'value': 'mo'}; {'id': '165', 'type': 'identifier', 'children': [], 'value': '__dict__'}; {'id': '166', 'type': 'block', 'children': ['167', '180', '188']}; {'id': '167', 'type': 'if_statement', 'children': ['168', '178']}; {'id': '168', 'type': '()', 'children': ['169']}; {'id': '169', 'type': 'comparison_operator', 'children': ['170', '171'], 'value': 'in'}; {'id': '170', 'type': 'identifier', 'children': [], 'value': 'prop'}; {'id': '171', 'type': 'list', 'children': ['172', '173', '174', '175', '176', '177'], 'value': "['classId', 'XtraProperty', 'handle', 'propMoMeta', 'dirtyMask', 'child']"}; {'id': '172', 'type': 'string', 'children': [], 'value': "'classId'"}; {'id': '173', 'type': 'string', 'children': [], 'value': "'XtraProperty'"}; {'id': '174', 'type': 'string', 'children': [], 'value': "'handle'"}; {'id': '175', 'type': 'string', 'children': [], 'value': "'propMoMeta'"}; {'id': '176', 'type': 'string', 'children': [], 'value': "'dirtyMask'"}; {'id': '177', 'type': 'string', 'children': [], 'value': "'child'"}; {'id': '178', 'type': 'block', 'children': ['179']}; {'id': '179', 'type': 'continue_statement', 'children': []}; {'id': '180', 'type': 'expression_statement', 'children': ['181']}; {'id': '181', 'type': 'assignment', 'children': ['182', '183']}; {'id': '182', 'type': 'identifier', 'children': [], 'value': 'val'}; {'id': '183', 'type': 'subscript', 'children': ['184', '187']}; {'id': '184', 'type': 'attribute', 'children': ['185', '186']}; {'id': '185', 'type': 'identifier', 'children': [], 'value': 'mo'}; {'id': '186', 'type': 'identifier', 'children': [], 'value': '__dict__'}; {'id': '187', 'type': 'identifier', 'children': [], 'value': 'prop'}; {'id': '188', 'type': 'expression_statement', 'children': ['189']}; {'id': '189', 'type': 'augmented_assignment', 'children': ['190', '191'], 'value': '+='}; {'id': '190', 'type': 'identifier', 'children': [], 'value': 'outstr'}; {'id': '191', 'type': 'binary_operator', 'children': ['192', '215'], 'value': '+'}; {'id': '192', 'type': 'binary_operator', 'children': ['193', '211'], 'value': '+'}; {'id': '193', 'type': 'binary_operator', 'children': ['194', '210'], 'value': '+'}; {'id': '194', 'type': 'call', 'children': ['195', '206']}; {'id': '195', 'type': 'attribute', 'children': ['196', '205']}; {'id': '196', 'type': 'call', 'children': ['197', '198']}; {'id': '197', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '198', 'type': 'argument_list', 'children': ['199']}; {'id': '199', 'type': 'call', 'children': ['200', '203']}; {'id': '200', 'type': 'attribute', 'children': ['201', '202']}; {'id': '201', 'type': 'identifier', 'children': [], 'value': 'UcsUtils'}; {'id': '202', 'type': 'identifier', 'children': [], 'value': 'WordU'}; {'id': '203', 'type': 'argument_list', 'children': ['204']}; {'id': '204', 'type': 'identifier', 'children': [], 'value': 'prop'}; {'id': '205', 'type': 'identifier', 'children': [], 'value': 'ljust'}; {'id': '206', 'type': 'argument_list', 'children': ['207']}; {'id': '207', 'type': 'binary_operator', 'children': ['208', '209'], 'value': '*'}; {'id': '208', 'type': 'identifier', 'children': [], 'value': 'tabsize'}; {'id': '209', 'type': 'integer', 'children': [], 'value': '4'}; {'id': '210', 'type': 'string', 'children': [], 'value': "':'"}; {'id': '211', 'type': 'call', 'children': ['212', '213']}; {'id': '212', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '213', 'type': 'argument_list', 'children': ['214']}; {'id': '214', 'type': 'identifier', 'children': [], 'value': 'val'}; {'id': '215', 'type': 'string', 'children': [], 'value': '"\\n"'}; {'id': '216', 'type': 'if_statement', 'children': ['217', '225']}; {'id': '217', 'type': 'call', 'children': ['218', '223']}; {'id': '218', 'type': 'attribute', 'children': ['219', '222']}; {'id': '219', 'type': 'attribute', 'children': ['220', '221']}; {'id': '220', 'type': 'identifier', 'children': [], 'value': 'mo'}; {'id': '221', 'type': 'identifier', 'children': [], 'value': '__dict__'}; {'id': '222', 'type': 'identifier', 'children': [], 'value': 'has_key'}; {'id': '223', 'type': 'argument_list', 'children': ['224']}; {'id': '224', 'type': 'string', 'children': [], 'value': "'XtraProperty'"}; {'id': '225', 'type': 'block', 'children': ['226']}; {'id': '226', 'type': 'for_statement', 'children': ['227', '228', '233']}; {'id': '227', 'type': 'identifier', 'children': [], 'value': 'xtraProp'}; {'id': '228', 'type': 'subscript', 'children': ['229', '232']}; {'id': '229', 'type': 'attribute', 'children': ['230', '231']}; {'id': '230', 'type': 'identifier', 'children': [], 'value': 'mo'}; {'id': '231', 'type': 'identifier', 'children': [], 'value': '__dict__'}; {'id': '232', 'type': 'string', 'children': [], 'value': "'XtraProperty'"}; {'id': '233', 'type': 'block', 'children': ['234']}; {'id': '234', 'type': 'expression_statement', 'children': ['235']}; {'id': '235', 'type': 'augmented_assignment', 'children': ['236', '237'], 'value': '+='}; {'id': '236', 'type': 'identifier', 'children': [], 'value': 'outstr'}; {'id': '237', 'type': 'binary_operator', 'children': ['238', '269'], 'value': '+'}; {'id': '238', 'type': 'binary_operator', 'children': ['239', '259'], 'value': '+'}; {'id': '239', 'type': 'binary_operator', 'children': ['240', '258'], 'value': '+'}; {'id': '240', 'type': 'binary_operator', 'children': ['241', '242'], 'value': '+'}; {'id': '241', 'type': 'string', 'children': [], 'value': "'[X]'"}; {'id': '242', 'type': 'call', 'children': ['243', '254']}; {'id': '243', 'type': 'attribute', 'children': ['244', '253']}; {'id': '244', 'type': 'call', 'children': ['245', '246']}; {'id': '245', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '246', 'type': 'argument_list', 'children': ['247']}; {'id': '247', 'type': 'call', 'children': ['248', '251']}; {'id': '248', 'type': 'attribute', 'children': ['249', '250']}; {'id': '249', 'type': 'identifier', 'children': [], 'value': 'UcsUtils'}; {'id': '250', 'type': 'identifier', 'children': [], 'value': 'WordU'}; {'id': '251', 'type': 'argument_list', 'children': ['252']}; {'id': '252', 'type': 'identifier', 'children': [], 'value': 'xtraProp'}; {'id': '253', 'type': 'identifier', 'children': [], 'value': 'ljust'}; {'id': '254', 'type': 'argument_list', 'children': ['255']}; {'id': '255', 'type': 'binary_operator', 'children': ['256', '257'], 'value': '*'}; {'id': '256', 'type': 'identifier', 'children': [], 'value': 'tabsize'}; {'id': '257', 'type': 'integer', 'children': [], 'value': '4'}; {'id': '258', 'type': 'string', 'children': [], 'value': "':'"}; {'id': '259', 'type': 'call', 'children': ['260', '261']}; {'id': '260', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '261', 'type': 'argument_list', 'children': ['262']}; {'id': '262', 'type': 'subscript', 'children': ['263', '268']}; {'id': '263', 'type': 'subscript', 'children': ['264', '267']}; {'id': '264', 'type': 'attribute', 'children': ['265', '266']}; {'id': '265', 'type': 'identifier', 'children': [], 'value': 'mo'}; {'id': '266', 'type': 'identifier', 'children': [], 'value': '__dict__'}; {'id': '267', 'type': 'string', 'children': [], 'value': "'XtraProperty'"}; {'id': '268', 'type': 'identifier', 'children': [], 'value': 'xtraProp'}; {'id': '269', 'type': 'string', 'children': [], 'value': '"\\n"'}; {'id': '270', 'type': 'expression_statement', 'children': ['271']}; {'id': '271', 'type': 'augmented_assignment', 'children': ['272', '273'], 'value': '+='}; {'id': '272', 'type': 'identifier', 'children': [], 'value': 'outstr'}; {'id': '273', 'type': 'binary_operator', 'children': ['274', '296'], 'value': '+'}; {'id': '274', 'type': 'binary_operator', 'children': ['275', '288'], 'value': '+'}; {'id': '275', 'type': 'binary_operator', 'children': ['276', '287'], 'value': '+'}; {'id': '276', 'type': 'call', 'children': ['277', '283']}; {'id': '277', 'type': 'attribute', 'children': ['278', '282']}; {'id': '278', 'type': 'call', 'children': ['279', '280']}; {'id': '279', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '280', 'type': 'argument_list', 'children': ['281']}; {'id': '281', 'type': 'string', 'children': [], 'value': '"Ucs"'}; {'id': '282', 'type': 'identifier', 'children': [], 'value': 'ljust'}; {'id': '283', 'type': 'argument_list', 'children': ['284']}; {'id': '284', 'type': 'binary_operator', 'children': ['285', '286'], 'value': '*'}; {'id': '285', 'type': 'identifier', 'children': [], 'value': 'tabsize'}; {'id': '286', 'type': 'integer', 'children': [], 'value': '4'}; {'id': '287', 'type': 'string', 'children': [], 'value': "':'"}; {'id': '288', 'type': 'call', 'children': ['289', '290']}; {'id': '289', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '290', 'type': 'argument_list', 'children': ['291']}; {'id': '291', 'type': 'attribute', 'children': ['292', '295']}; {'id': '292', 'type': 'attribute', 'children': ['293', '294']}; {'id': '293', 'type': 'identifier', 'children': [], 'value': 'mo'}; {'id': '294', 'type': 'identifier', 'children': [], 'value': 'handle'}; {'id': '295', 'type': 'identifier', 'children': [], 'value': '_ucs'}; {'id': '296', 'type': 'string', 'children': [], 'value': '"\\n"'}; {'id': '297', 'type': 'expression_statement', 'children': ['298']}; {'id': '298', 'type': 'augmented_assignment', 'children': ['299', '300'], 'value': '+='}; {'id': '299', 'type': 'identifier', 'children': [], 'value': 'outstr'}; {'id': '300', 'type': 'string', 'children': [], 'value': '"\\n"'}; {'id': '301', 'type': 'return_statement', 'children': ['302']}; {'id': '302', 'type': 'identifier', 'children': [], 'value': 'outstr'} | def _write_mo(mo):
classNotFound = False
if (UcsUtils.FindClassIdInMoMetaIgnoreCase(mo.classId) == None):
classNotFound = True
tabsize = 8
outstr = "\n"
if classNotFound:
outstr += "Managed Object\t\t\t:\t" + str(UcsUtils.WordU(mo.classId)) + "\n"
else:
outstr += "Managed Object\t\t\t:\t" + str(mo.propMoMeta.name) + "\n"
outstr += "-" * len("Managed Object") + "\n"
if (not classNotFound):
for prop in UcsUtils.GetUcsPropertyMetaAttributeList(mo.propMoMeta.name):
propMeta = UcsUtils.GetUcsPropertyMeta(mo.propMoMeta.name, prop)
if (propMeta.access == UcsPropertyMeta.Internal):
continue
val = mo.getattr(prop)
outstr += str(prop).ljust(tabsize * 4) + ':' + str(val) + "\n"
else:
for prop in mo.__dict__:
if (prop in ['classId', 'XtraProperty', 'handle', 'propMoMeta', 'dirtyMask', 'child']):
continue
val = mo.__dict__[prop]
outstr += str(UcsUtils.WordU(prop)).ljust(tabsize * 4) + ':' + str(val) + "\n"
if mo.__dict__.has_key('XtraProperty'):
for xtraProp in mo.__dict__['XtraProperty']:
outstr += '[X]' + str(UcsUtils.WordU(xtraProp)).ljust(tabsize * 4) + ':' + str(
mo.__dict__['XtraProperty'][xtraProp]) + "\n"
outstr += str("Ucs").ljust(tabsize * 4) + ':' + str(mo.handle._ucs) + "\n"
outstr += "\n"
return outstr |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '7']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'LoadFromXml'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '6']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'node'}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'handle'}; {'id': '7', 'type': 'block', 'children': ['8', '15', '183']}; {'id': '8', 'type': 'expression_statement', 'children': ['9']}; {'id': '9', 'type': 'call', 'children': ['10', '13']}; {'id': '10', 'type': 'attribute', 'children': ['11', '12']}; {'id': '11', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'SetHandle'}; {'id': '13', 'type': 'argument_list', 'children': ['14']}; {'id': '14', 'type': 'identifier', 'children': [], 'value': 'handle'}; {'id': '15', 'type': 'if_statement', 'children': ['16', '21']}; {'id': '16', 'type': 'call', 'children': ['17', '20']}; {'id': '17', 'type': 'attribute', 'children': ['18', '19']}; {'id': '18', 'type': 'identifier', 'children': [], 'value': 'node'}; {'id': '19', 'type': 'identifier', 'children': [], 'value': 'hasAttributes'}; {'id': '20', 'type': 'argument_list', 'children': []}; {'id': '21', 'type': 'block', 'children': ['22', '28', '35', '141']}; {'id': '22', 'type': 'expression_statement', 'children': ['23']}; {'id': '23', 'type': 'assignment', 'children': ['24', '25']}; {'id': '24', 'type': 'identifier', 'children': [], 'value': 'attributes'}; {'id': '25', 'type': 'attribute', 'children': ['26', '27']}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'node'}; {'id': '27', 'type': 'identifier', 'children': [], 'value': 'attributes'}; {'id': '28', 'type': 'expression_statement', 'children': ['29']}; {'id': '29', 'type': 'assignment', 'children': ['30', '31']}; {'id': '30', 'type': 'identifier', 'children': [], 'value': 'attCount'}; {'id': '31', 'type': 'call', 'children': ['32', '33']}; {'id': '32', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '33', 'type': 'argument_list', 'children': ['34']}; {'id': '34', 'type': 'identifier', 'children': [], 'value': 'attributes'}; {'id': '35', 'type': 'for_statement', 'children': ['36', '37', '41']}; {'id': '36', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '37', 'type': 'call', 'children': ['38', '39']}; {'id': '38', 'type': 'identifier', 'children': [], 'value': 'range'}; {'id': '39', 'type': 'argument_list', 'children': ['40']}; {'id': '40', 'type': 'identifier', 'children': [], 'value': 'attCount'}; {'id': '41', 'type': 'block', 'children': ['42', '51', '62']}; {'id': '42', 'type': 'expression_statement', 'children': ['43']}; {'id': '43', 'type': 'assignment', 'children': ['44', '45']}; {'id': '44', 'type': 'identifier', 'children': [], 'value': 'attNode'}; {'id': '45', 'type': 'call', 'children': ['46', '49']}; {'id': '46', 'type': 'attribute', 'children': ['47', '48']}; {'id': '47', 'type': 'identifier', 'children': [], 'value': 'attributes'}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'item'}; {'id': '49', 'type': 'argument_list', 'children': ['50']}; {'id': '50', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '51', 'type': 'expression_statement', 'children': ['52']}; {'id': '52', 'type': 'assignment', 'children': ['53', '54']}; {'id': '53', 'type': 'identifier', 'children': [], 'value': 'attr'}; {'id': '54', 'type': 'call', 'children': ['55', '58']}; {'id': '55', 'type': 'attribute', 'children': ['56', '57']}; {'id': '56', 'type': 'identifier', 'children': [], 'value': 'UcsUtils'}; {'id': '57', 'type': 'identifier', 'children': [], 'value': 'WordU'}; {'id': '58', 'type': 'argument_list', 'children': ['59']}; {'id': '59', 'type': 'attribute', 'children': ['60', '61']}; {'id': '60', 'type': 'identifier', 'children': [], 'value': 'attNode'}; {'id': '61', 'type': 'identifier', 'children': [], 'value': 'localName'}; {'id': '62', 'type': 'if_statement', 'children': ['63', '74', '121']}; {'id': '63', 'type': '()', 'children': ['64']}; {'id': '64', 'type': 'comparison_operator', 'children': ['65', '73'], 'value': '!='}; {'id': '65', 'type': 'call', 'children': ['66', '69']}; {'id': '66', 'type': 'attribute', 'children': ['67', '68']}; {'id': '67', 'type': 'identifier', 'children': [], 'value': 'UcsUtils'}; {'id': '68', 'type': 'identifier', 'children': [], 'value': 'FindClassIdInMoMetaIgnoreCase'}; {'id': '69', 'type': 'argument_list', 'children': ['70']}; {'id': '70', 'type': 'attribute', 'children': ['71', '72']}; {'id': '71', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '72', 'type': 'identifier', 'children': [], 'value': 'classId'}; {'id': '73', 'type': 'None', 'children': []}; {'id': '74', 'type': 'block', 'children': ['75']}; {'id': '75', 'type': 'if_statement', 'children': ['76', '87', '101']}; {'id': '76', 'type': '()', 'children': ['77']}; {'id': '77', 'type': 'comparison_operator', 'children': ['78', '79'], 'value': 'in'}; {'id': '78', 'type': 'identifier', 'children': [], 'value': 'attr'}; {'id': '79', 'type': 'call', 'children': ['80', '83']}; {'id': '80', 'type': 'attribute', 'children': ['81', '82']}; {'id': '81', 'type': 'identifier', 'children': [], 'value': 'UcsUtils'}; {'id': '82', 'type': 'identifier', 'children': [], 'value': 'GetUcsPropertyMetaAttributeList'}; {'id': '83', 'type': 'argument_list', 'children': ['84']}; {'id': '84', 'type': 'attribute', 'children': ['85', '86']}; {'id': '85', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '86', 'type': 'identifier', 'children': [], 'value': 'classId'}; {'id': '87', 'type': 'block', 'children': ['88']}; {'id': '88', 'type': 'expression_statement', 'children': ['89']}; {'id': '89', 'type': 'call', 'children': ['90', '93']}; {'id': '90', 'type': 'attribute', 'children': ['91', '92']}; {'id': '91', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '92', 'type': 'identifier', 'children': [], 'value': 'setattr'}; {'id': '93', 'type': 'argument_list', 'children': ['94', '95']}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'attr'}; {'id': '95', 'type': 'call', 'children': ['96', '97']}; {'id': '96', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '97', 'type': 'argument_list', 'children': ['98']}; {'id': '98', 'type': 'attribute', 'children': ['99', '100']}; {'id': '99', 'type': 'identifier', 'children': [], 'value': 'attNode'}; {'id': '100', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '101', 'type': 'else_clause', 'children': ['102']}; {'id': '102', 'type': 'block', 'children': ['103']}; {'id': '103', 'type': 'expression_statement', 'children': ['104']}; {'id': '104', 'type': 'call', 'children': ['105', '108']}; {'id': '105', 'type': 'attribute', 'children': ['106', '107']}; {'id': '106', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '107', 'type': 'identifier', 'children': [], 'value': 'setattr'}; {'id': '108', 'type': 'argument_list', 'children': ['109', '115']}; {'id': '109', 'type': 'call', 'children': ['110', '113']}; {'id': '110', 'type': 'attribute', 'children': ['111', '112']}; {'id': '111', 'type': 'identifier', 'children': [], 'value': 'UcsUtils'}; {'id': '112', 'type': 'identifier', 'children': [], 'value': 'WordU'}; {'id': '113', 'type': 'argument_list', 'children': ['114']}; {'id': '114', 'type': 'identifier', 'children': [], 'value': 'attr'}; {'id': '115', 'type': 'call', 'children': ['116', '117']}; {'id': '116', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '117', 'type': 'argument_list', 'children': ['118']}; {'id': '118', 'type': 'attribute', 'children': ['119', '120']}; {'id': '119', 'type': 'identifier', 'children': [], 'value': 'attNode'}; {'id': '120', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '121', 'type': 'else_clause', 'children': ['122']}; {'id': '122', 'type': 'block', 'children': ['123']}; {'id': '123', 'type': 'expression_statement', 'children': ['124']}; {'id': '124', 'type': 'call', 'children': ['125', '128']}; {'id': '125', 'type': 'attribute', 'children': ['126', '127']}; {'id': '126', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '127', 'type': 'identifier', 'children': [], 'value': 'setattr'}; {'id': '128', 'type': 'argument_list', 'children': ['129', '135']}; {'id': '129', 'type': 'call', 'children': ['130', '133']}; {'id': '130', 'type': 'attribute', 'children': ['131', '132']}; {'id': '131', 'type': 'identifier', 'children': [], 'value': 'UcsUtils'}; {'id': '132', 'type': 'identifier', 'children': [], 'value': 'WordU'}; {'id': '133', 'type': 'argument_list', 'children': ['134']}; {'id': '134', 'type': 'identifier', 'children': [], 'value': 'attr'}; {'id': '135', 'type': 'call', 'children': ['136', '137']}; {'id': '136', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '137', 'type': 'argument_list', 'children': ['138']}; {'id': '138', 'type': 'attribute', 'children': ['139', '140']}; {'id': '139', 'type': 'identifier', 'children': [], 'value': 'attNode'}; {'id': '140', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '141', 'type': 'if_statement', 'children': ['142', '159']}; {'id': '142', 'type': 'boolean_operator', 'children': ['143', '151'], 'value': 'and'}; {'id': '143', 'type': 'comparison_operator', 'children': ['144', '150'], 'value': '=='}; {'id': '144', 'type': 'call', 'children': ['145', '148']}; {'id': '145', 'type': 'attribute', 'children': ['146', '147']}; {'id': '146', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '147', 'type': 'identifier', 'children': [], 'value': 'getattr'}; {'id': '148', 'type': 'argument_list', 'children': ['149']}; {'id': '149', 'type': 'string', 'children': [], 'value': '"Rn"'}; {'id': '150', 'type': 'None', 'children': []}; {'id': '151', 'type': 'comparison_operator', 'children': ['152', '158'], 'value': '!='}; {'id': '152', 'type': 'call', 'children': ['153', '156']}; {'id': '153', 'type': 'attribute', 'children': ['154', '155']}; {'id': '154', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '155', 'type': 'identifier', 'children': [], 'value': 'getattr'}; {'id': '156', 'type': 'argument_list', 'children': ['157']}; {'id': '157', 'type': 'string', 'children': [], 'value': '"Dn"'}; {'id': '158', 'type': 'None', 'children': []}; {'id': '159', 'type': 'block', 'children': ['160']}; {'id': '160', 'type': 'expression_statement', 'children': ['161']}; {'id': '161', 'type': 'call', 'children': ['162', '165']}; {'id': '162', 'type': 'attribute', 'children': ['163', '164']}; {'id': '163', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '164', 'type': 'identifier', 'children': [], 'value': 'setattr'}; {'id': '165', 'type': 'argument_list', 'children': ['166', '167']}; {'id': '166', 'type': 'string', 'children': [], 'value': '"Rn"'}; {'id': '167', 'type': 'call', 'children': ['168', '169']}; {'id': '168', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '169', 'type': 'argument_list', 'children': ['170']}; {'id': '170', 'type': 'call', 'children': ['171', '174']}; {'id': '171', 'type': 'attribute', 'children': ['172', '173']}; {'id': '172', 'type': 'identifier', 'children': [], 'value': 're'}; {'id': '173', 'type': 'identifier', 'children': [], 'value': 'sub'}; {'id': '174', 'type': 'argument_list', 'children': ['175', '176', '177']}; {'id': '175', 'type': 'string', 'children': [], 'value': "r'^.*/'"}; {'id': '176', 'type': 'string', 'children': [], 'value': "''"}; {'id': '177', 'type': 'call', 'children': ['178', '181']}; {'id': '178', 'type': 'attribute', 'children': ['179', '180']}; {'id': '179', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '180', 'type': 'identifier', 'children': [], 'value': 'getattr'}; {'id': '181', 'type': 'argument_list', 'children': ['182']}; {'id': '182', 'type': 'string', 'children': [], 'value': '"Dn"'}; {'id': '183', 'type': 'if_statement', 'children': ['184', '190']}; {'id': '184', 'type': '()', 'children': ['185']}; {'id': '185', 'type': 'call', 'children': ['186', '189']}; {'id': '186', 'type': 'attribute', 'children': ['187', '188']}; {'id': '187', 'type': 'identifier', 'children': [], 'value': 'node'}; {'id': '188', 'type': 'identifier', 'children': [], 'value': 'hasChildNodes'}; {'id': '189', 'type': 'argument_list', 'children': []}; {'id': '190', 'type': 'block', 'children': ['191', '197', '204']}; {'id': '191', 'type': 'expression_statement', 'children': ['192']}; {'id': '192', 'type': 'assignment', 'children': ['193', '194']}; {'id': '193', 'type': 'identifier', 'children': [], 'value': 'childList'}; {'id': '194', 'type': 'attribute', 'children': ['195', '196']}; {'id': '195', 'type': 'identifier', 'children': [], 'value': 'node'}; {'id': '196', 'type': 'identifier', 'children': [], 'value': 'childNodes'}; {'id': '197', 'type': 'expression_statement', 'children': ['198']}; {'id': '198', 'type': 'assignment', 'children': ['199', '200']}; {'id': '199', 'type': 'identifier', 'children': [], 'value': 'childCount'}; {'id': '200', 'type': 'call', 'children': ['201', '202']}; {'id': '201', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '202', 'type': 'argument_list', 'children': ['203']}; {'id': '203', 'type': 'identifier', 'children': [], 'value': 'childList'}; {'id': '204', 'type': 'for_statement', 'children': ['205', '206', '210']}; {'id': '205', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '206', 'type': 'call', 'children': ['207', '208']}; {'id': '207', 'type': 'identifier', 'children': [], 'value': 'range'}; {'id': '208', 'type': 'argument_list', 'children': ['209']}; {'id': '209', 'type': 'identifier', 'children': [], 'value': 'childCount'}; {'id': '210', 'type': 'block', 'children': ['211', '220', '231', '243', '257', '266']}; {'id': '211', 'type': 'expression_statement', 'children': ['212']}; {'id': '212', 'type': 'assignment', 'children': ['213', '214']}; {'id': '213', 'type': 'identifier', 'children': [], 'value': 'childNode'}; {'id': '214', 'type': 'call', 'children': ['215', '218']}; {'id': '215', 'type': 'attribute', 'children': ['216', '217']}; {'id': '216', 'type': 'identifier', 'children': [], 'value': 'childList'}; {'id': '217', 'type': 'identifier', 'children': [], 'value': 'item'}; {'id': '218', 'type': 'argument_list', 'children': ['219']}; {'id': '219', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '220', 'type': 'if_statement', 'children': ['221', '229']}; {'id': '221', 'type': '()', 'children': ['222']}; {'id': '222', 'type': 'comparison_operator', 'children': ['223', '226'], 'value': '!='}; {'id': '223', 'type': 'attribute', 'children': ['224', '225']}; {'id': '224', 'type': 'identifier', 'children': [], 'value': 'childNode'}; {'id': '225', 'type': 'identifier', 'children': [], 'value': 'nodeType'}; {'id': '226', 'type': 'attribute', 'children': ['227', '228']}; {'id': '227', 'type': 'identifier', 'children': [], 'value': 'Node'}; {'id': '228', 'type': 'identifier', 'children': [], 'value': 'ELEMENT_NODE'}; {'id': '229', 'type': 'block', 'children': ['230']}; {'id': '230', 'type': 'continue_statement', 'children': []}; {'id': '231', 'type': 'if_statement', 'children': ['232', '241']}; {'id': '232', 'type': 'comparison_operator', 'children': ['233', '236'], 'value': 'in'}; {'id': '233', 'type': 'attribute', 'children': ['234', '235']}; {'id': '234', 'type': 'identifier', 'children': [], 'value': 'childNode'}; {'id': '235', 'type': 'identifier', 'children': [], 'value': 'localName'}; {'id': '236', 'type': 'attribute', 'children': ['237', '240']}; {'id': '237', 'type': 'attribute', 'children': ['238', '239']}; {'id': '238', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '239', 'type': 'identifier', 'children': [], 'value': 'propMoMeta'}; {'id': '240', 'type': 'identifier', 'children': [], 'value': 'fieldNames'}; {'id': '241', 'type': 'block', 'children': ['242']}; {'id': '242', 'type': 'pass_statement', 'children': []}; {'id': '243', 'type': 'expression_statement', 'children': ['244']}; {'id': '244', 'type': 'assignment', 'children': ['245', '246']}; {'id': '245', 'type': 'identifier', 'children': [], 'value': 'c'}; {'id': '246', 'type': 'call', 'children': ['247', '248']}; {'id': '247', 'type': 'identifier', 'children': [], 'value': 'ManagedObject'}; {'id': '248', 'type': 'argument_list', 'children': ['249']}; {'id': '249', 'type': 'call', 'children': ['250', '253']}; {'id': '250', 'type': 'attribute', 'children': ['251', '252']}; {'id': '251', 'type': 'identifier', 'children': [], 'value': 'UcsUtils'}; {'id': '252', 'type': 'identifier', 'children': [], 'value': 'WordU'}; {'id': '253', 'type': 'argument_list', 'children': ['254']}; {'id': '254', 'type': 'attribute', 'children': ['255', '256']}; {'id': '255', 'type': 'identifier', 'children': [], 'value': 'childNode'}; {'id': '256', 'type': 'identifier', 'children': [], 'value': 'localName'}; {'id': '257', 'type': 'expression_statement', 'children': ['258']}; {'id': '258', 'type': 'call', 'children': ['259', '264']}; {'id': '259', 'type': 'attribute', 'children': ['260', '263']}; {'id': '260', 'type': 'attribute', 'children': ['261', '262']}; {'id': '261', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '262', 'type': 'identifier', 'children': [], 'value': 'child'}; {'id': '263', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '264', 'type': 'argument_list', 'children': ['265']}; {'id': '265', 'type': 'identifier', 'children': [], 'value': 'c'}; {'id': '266', 'type': 'expression_statement', 'children': ['267']}; {'id': '267', 'type': 'call', 'children': ['268', '271']}; {'id': '268', 'type': 'attribute', 'children': ['269', '270']}; {'id': '269', 'type': 'identifier', 'children': [], 'value': 'c'}; {'id': '270', 'type': 'identifier', 'children': [], 'value': 'LoadFromXml'}; {'id': '271', 'type': 'argument_list', 'children': ['272', '273']}; {'id': '272', 'type': 'identifier', 'children': [], 'value': 'childNode'}; {'id': '273', 'type': 'identifier', 'children': [], 'value': 'handle'} | def LoadFromXml(self, node, handle):
self.SetHandle(handle)
if node.hasAttributes():
attributes = node.attributes
attCount = len(attributes)
for i in range(attCount):
attNode = attributes.item(i)
attr = UcsUtils.WordU(attNode.localName)
if (UcsUtils.FindClassIdInMoMetaIgnoreCase(self.classId) != None):
if (attr in UcsUtils.GetUcsPropertyMetaAttributeList(self.classId)):
self.setattr(attr, str(attNode.value))
else:
self.setattr(UcsUtils.WordU(attr), str(attNode.value))
else:
self.setattr(UcsUtils.WordU(attr), str(attNode.value))
if self.getattr("Rn") == None and self.getattr("Dn") != None:
self.setattr("Rn", str(re.sub(r'^.*/', '', self.getattr("Dn"))))
if (node.hasChildNodes()):
childList = node.childNodes
childCount = len(childList)
for i in range(childCount):
childNode = childList.item(i)
if (childNode.nodeType != Node.ELEMENT_NODE):
continue
if childNode.localName in self.propMoMeta.fieldNames:
pass
c = ManagedObject(UcsUtils.WordU(childNode.localName))
self.child.append(c)
c.LoadFromXml(childNode, handle) |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '4']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'GetJavaInstallationPath'}; {'id': '3', 'type': 'parameters', 'children': []}; {'id': '4', 'type': 'block', 'children': ['5', '10']}; {'id': '5', 'type': 'import_statement', 'children': ['6', '8']}; {'id': '6', 'type': 'dotted_name', 'children': ['7']}; {'id': '7', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '8', 'type': 'dotted_name', 'children': ['9']}; {'id': '9', 'type': 'identifier', 'children': [], 'value': 'platform'}; {'id': '10', 'type': 'if_statement', 'children': ['11', '18', '85']}; {'id': '11', 'type': 'comparison_operator', 'children': ['12', '17'], 'value': '=='}; {'id': '12', 'type': 'call', 'children': ['13', '16']}; {'id': '13', 'type': 'attribute', 'children': ['14', '15']}; {'id': '14', 'type': 'identifier', 'children': [], 'value': 'platform'}; {'id': '15', 'type': 'identifier', 'children': [], 'value': 'system'}; {'id': '16', 'type': 'argument_list', 'children': []}; {'id': '17', 'type': 'string', 'children': [], 'value': '"Linux"'}; {'id': '18', 'type': 'block', 'children': ['19', '30']}; {'id': '19', 'type': 'expression_statement', 'children': ['20']}; {'id': '20', 'type': 'assignment', 'children': ['21', '22']}; {'id': '21', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '22', 'type': 'call', 'children': ['23', '28']}; {'id': '23', 'type': 'attribute', 'children': ['24', '27']}; {'id': '24', 'type': 'attribute', 'children': ['25', '26']}; {'id': '25', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'environ'}; {'id': '27', 'type': 'identifier', 'children': [], 'value': 'get'}; {'id': '28', 'type': 'argument_list', 'children': ['29']}; {'id': '29', 'type': 'string', 'children': [], 'value': "'JAVA_HOME'"}; {'id': '30', 'type': 'if_statement', 'children': ['31', '33', '39']}; {'id': '31', 'type': 'not_operator', 'children': ['32']}; {'id': '32', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '33', 'type': 'block', 'children': ['34']}; {'id': '34', 'type': 'raise_statement', 'children': ['35']}; {'id': '35', 'type': 'call', 'children': ['36', '37']}; {'id': '36', 'type': 'identifier', 'children': [], 'value': 'UcsValidationException'}; {'id': '37', 'type': 'argument_list', 'children': ['38']}; {'id': '38', 'type': 'string', 'children': [], 'value': '"Please make sure JAVA is installed and variable JAVA_HOME is set properly."'}; {'id': '39', 'type': 'else_clause', 'children': ['40']}; {'id': '40', 'type': 'block', 'children': ['41', '53', '65']}; {'id': '41', 'type': 'expression_statement', 'children': ['42']}; {'id': '42', 'type': 'assignment', 'children': ['43', '44']}; {'id': '43', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '44', 'type': 'call', 'children': ['45', '50']}; {'id': '45', 'type': 'attribute', 'children': ['46', '49']}; {'id': '46', 'type': 'attribute', 'children': ['47', '48']}; {'id': '47', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '50', 'type': 'argument_list', 'children': ['51', '52']}; {'id': '51', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '52', 'type': 'string', 'children': [], 'value': "'bin'"}; {'id': '53', 'type': 'expression_statement', 'children': ['54']}; {'id': '54', 'type': 'assignment', 'children': ['55', '56']}; {'id': '55', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '56', 'type': 'call', 'children': ['57', '62']}; {'id': '57', 'type': 'attribute', 'children': ['58', '61']}; {'id': '58', 'type': 'attribute', 'children': ['59', '60']}; {'id': '59', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '60', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '61', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '62', 'type': 'argument_list', 'children': ['63', '64']}; {'id': '63', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '64', 'type': 'string', 'children': [], 'value': "'javaws'"}; {'id': '65', 'type': 'if_statement', 'children': ['66', '75', '81']}; {'id': '66', 'type': 'not_operator', 'children': ['67']}; {'id': '67', 'type': 'call', 'children': ['68', '73']}; {'id': '68', 'type': 'attribute', 'children': ['69', '72']}; {'id': '69', 'type': 'attribute', 'children': ['70', '71']}; {'id': '70', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '71', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '72', 'type': 'identifier', 'children': [], 'value': 'exists'}; {'id': '73', 'type': 'argument_list', 'children': ['74']}; {'id': '74', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '75', 'type': 'block', 'children': ['76']}; {'id': '76', 'type': 'raise_statement', 'children': ['77']}; {'id': '77', 'type': 'call', 'children': ['78', '79']}; {'id': '78', 'type': 'identifier', 'children': [], 'value': 'UcsValidationException'}; {'id': '79', 'type': 'argument_list', 'children': ['80']}; {'id': '80', 'type': 'string', 'children': [], 'value': '"javaws is not installed on System."'}; {'id': '81', 'type': 'else_clause', 'children': ['82']}; {'id': '82', 'type': 'block', 'children': ['83']}; {'id': '83', 'type': 'return_statement', 'children': ['84']}; {'id': '84', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '85', 'type': 'elif_clause', 'children': ['86', '101']}; {'id': '86', 'type': 'boolean_operator', 'children': ['87', '94'], 'value': 'or'}; {'id': '87', 'type': 'comparison_operator', 'children': ['88', '93'], 'value': '=='}; {'id': '88', 'type': 'call', 'children': ['89', '92']}; {'id': '89', 'type': 'attribute', 'children': ['90', '91']}; {'id': '90', 'type': 'identifier', 'children': [], 'value': 'platform'}; {'id': '91', 'type': 'identifier', 'children': [], 'value': 'system'}; {'id': '92', 'type': 'argument_list', 'children': []}; {'id': '93', 'type': 'string', 'children': [], 'value': '"Windows"'}; {'id': '94', 'type': 'comparison_operator', 'children': ['95', '100'], 'value': '=='}; {'id': '95', 'type': 'call', 'children': ['96', '99']}; {'id': '96', 'type': 'attribute', 'children': ['97', '98']}; {'id': '97', 'type': 'identifier', 'children': [], 'value': 'platform'}; {'id': '98', 'type': 'identifier', 'children': [], 'value': 'system'}; {'id': '99', 'type': 'argument_list', 'children': []}; {'id': '100', 'type': 'string', 'children': [], 'value': '"Microsoft"'}; {'id': '101', 'type': 'block', 'children': ['102', '113', '127', '141']}; {'id': '102', 'type': 'expression_statement', 'children': ['103']}; {'id': '103', 'type': 'assignment', 'children': ['104', '105']}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '105', 'type': 'call', 'children': ['106', '111']}; {'id': '106', 'type': 'attribute', 'children': ['107', '110']}; {'id': '107', 'type': 'attribute', 'children': ['108', '109']}; {'id': '108', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '109', 'type': 'identifier', 'children': [], 'value': 'environ'}; {'id': '110', 'type': 'identifier', 'children': [], 'value': 'get'}; {'id': '111', 'type': 'argument_list', 'children': ['112']}; {'id': '112', 'type': 'string', 'children': [], 'value': "'JAVA_HOME'"}; {'id': '113', 'type': 'if_statement', 'children': ['114', '117']}; {'id': '114', 'type': 'comparison_operator', 'children': ['115', '116'], 'value': '=='}; {'id': '115', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '116', 'type': 'None', 'children': []}; {'id': '117', 'type': 'block', 'children': ['118']}; {'id': '118', 'type': 'expression_statement', 'children': ['119']}; {'id': '119', 'type': 'assignment', 'children': ['120', '121']}; {'id': '120', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '121', 'type': 'call', 'children': ['122', '125']}; {'id': '122', 'type': 'attribute', 'children': ['123', '124']}; {'id': '123', 'type': 'identifier', 'children': [], 'value': 'UcsUtils'}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'CheckRegistryKey'}; {'id': '125', 'type': 'argument_list', 'children': ['126']}; {'id': '126', 'type': 'string', 'children': [], 'value': 'r"SOFTWARE\\\\JavaSoft\\\\Java Runtime Environment\\\\"'}; {'id': '127', 'type': 'if_statement', 'children': ['128', '131']}; {'id': '128', 'type': 'comparison_operator', 'children': ['129', '130'], 'value': '=='}; {'id': '129', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '130', 'type': 'None', 'children': []}; {'id': '131', 'type': 'block', 'children': ['132']}; {'id': '132', 'type': 'expression_statement', 'children': ['133']}; {'id': '133', 'type': 'assignment', 'children': ['134', '135']}; {'id': '134', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '135', 'type': 'call', 'children': ['136', '139']}; {'id': '136', 'type': 'attribute', 'children': ['137', '138']}; {'id': '137', 'type': 'identifier', 'children': [], 'value': 'UcsUtils'}; {'id': '138', 'type': 'identifier', 'children': [], 'value': 'CheckRegistryKey'}; {'id': '139', 'type': 'argument_list', 'children': ['140']}; {'id': '140', 'type': 'string', 'children': [], 'value': 'r"SOFTWARE\\\\Wow6432Node\\\\JavaSoft\\\\Java Runtime Environment"'}; {'id': '141', 'type': 'if_statement', 'children': ['142', '144', '150']}; {'id': '142', 'type': 'not_operator', 'children': ['143']}; {'id': '143', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '144', 'type': 'block', 'children': ['145']}; {'id': '145', 'type': 'raise_statement', 'children': ['146']}; {'id': '146', 'type': 'call', 'children': ['147', '148']}; {'id': '147', 'type': 'identifier', 'children': [], 'value': 'UcsValidationException'}; {'id': '148', 'type': 'argument_list', 'children': ['149']}; {'id': '149', 'type': 'string', 'children': [], 'value': '"Please make sure JAVA is installed."'}; {'id': '150', 'type': 'else_clause', 'children': ['151']}; {'id': '151', 'type': 'block', 'children': ['152', '164', '176']}; {'id': '152', 'type': 'expression_statement', 'children': ['153']}; {'id': '153', 'type': 'assignment', 'children': ['154', '155']}; {'id': '154', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '155', 'type': 'call', 'children': ['156', '161']}; {'id': '156', 'type': 'attribute', 'children': ['157', '160']}; {'id': '157', 'type': 'attribute', 'children': ['158', '159']}; {'id': '158', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '159', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '160', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '161', 'type': 'argument_list', 'children': ['162', '163']}; {'id': '162', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '163', 'type': 'string', 'children': [], 'value': "'bin'"}; {'id': '164', 'type': 'expression_statement', 'children': ['165']}; {'id': '165', 'type': 'assignment', 'children': ['166', '167']}; {'id': '166', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '167', 'type': 'call', 'children': ['168', '173']}; {'id': '168', 'type': 'attribute', 'children': ['169', '172']}; {'id': '169', 'type': 'attribute', 'children': ['170', '171']}; {'id': '170', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '171', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '172', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '173', 'type': 'argument_list', 'children': ['174', '175']}; {'id': '174', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '175', 'type': 'string', 'children': [], 'value': "'javaws.exe'"}; {'id': '176', 'type': 'if_statement', 'children': ['177', '186', '192']}; {'id': '177', 'type': 'not_operator', 'children': ['178']}; {'id': '178', 'type': 'call', 'children': ['179', '184']}; {'id': '179', 'type': 'attribute', 'children': ['180', '183']}; {'id': '180', 'type': 'attribute', 'children': ['181', '182']}; {'id': '181', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '182', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '183', 'type': 'identifier', 'children': [], 'value': 'exists'}; {'id': '184', 'type': 'argument_list', 'children': ['185']}; {'id': '185', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '186', 'type': 'block', 'children': ['187']}; {'id': '187', 'type': 'raise_statement', 'children': ['188']}; {'id': '188', 'type': 'call', 'children': ['189', '190']}; {'id': '189', 'type': 'identifier', 'children': [], 'value': 'UcsValidationException'}; {'id': '190', 'type': 'argument_list', 'children': ['191']}; {'id': '191', 'type': 'string', 'children': [], 'value': '"javaws.exe is not installed on System."'}; {'id': '192', 'type': 'else_clause', 'children': ['193']}; {'id': '193', 'type': 'block', 'children': ['194']}; {'id': '194', 'type': 'return_statement', 'children': ['195']}; {'id': '195', 'type': 'identifier', 'children': [], 'value': 'path'} | def GetJavaInstallationPath():
import os, platform
if platform.system() == "Linux":
path = os.environ.get('JAVA_HOME')
if not path:
raise UcsValidationException(
"Please make sure JAVA is installed and variable JAVA_HOME is set properly.")
else:
path = os.path.join(path, 'bin')
path = os.path.join(path, 'javaws')
if not os.path.exists(path):
raise UcsValidationException("javaws is not installed on System.")
else:
return path
elif platform.system() == "Windows" or platform.system() == "Microsoft":
path = os.environ.get('JAVA_HOME')
if path == None:
path = UcsUtils.CheckRegistryKey(r"SOFTWARE\\JavaSoft\\Java Runtime Environment\\")
if path == None:
path = UcsUtils.CheckRegistryKey(r"SOFTWARE\\Wow6432Node\\JavaSoft\\Java Runtime Environment")
if not path:
raise UcsValidationException("Please make sure JAVA is installed.")
else:
path = os.path.join(path, 'bin')
path = os.path.join(path, 'javaws.exe')
if not os.path.exists(path):
raise UcsValidationException("javaws.exe is not installed on System.")
else:
return path |
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{'id': '140', 'type': 'if_statement', 'children': ['141', '147']}; {'id': '141', 'type': 'call', 'children': ['142', '145']}; {'id': '142', 'type': 'attribute', 'children': ['143', '144']}; {'id': '143', 'type': 'identifier', 'children': [], 'value': 'moConfigNode'}; {'id': '144', 'type': 'identifier', 'children': [], 'value': 'hasAttribute'}; {'id': '145', 'type': 'argument_list', 'children': ['146']}; {'id': '146', 'type': 'string', 'children': [], 'value': '"ignoreReason"'}; {'id': '147', 'type': 'block', 'children': ['148']}; {'id': '148', 'type': 'expression_statement', 'children': ['149']}; {'id': '149', 'type': 'assignment', 'children': ['150', '151']}; {'id': '150', 'type': 'identifier', 'children': [], 'value': 'ignoreReason'}; {'id': '151', 'type': 'call', 'children': ['152', '155']}; {'id': '152', 'type': 'attribute', 'children': ['153', '154']}; {'id': '153', 'type': 'identifier', 'children': [], 'value': 'moConfigNode'}; {'id': '154', 'type': 'identifier', 'children': [], 'value': 'getAttribute'}; {'id': '155', 'type': 'argument_list', 'children': ['156']}; {'id': '156', 'type': 'string', 'children': [], 'value': '"ignoreReason"'}; {'id': '157', 'type': 'if_statement', 'children': ['158', '164']}; {'id': '158', 'type': 'call', 'children': ['159', '162']}; {'id': '159', 'type': 'attribute', 'children': ['160', '161']}; {'id': '160', 'type': 'identifier', 'children': [], 'value': 'moConfigNode'}; {'id': '161', 'type': 'identifier', 'children': [], 'value': 'hasAttribute'}; {'id': '162', 'type': 'argument_list', 'children': ['163']}; {'id': '163', 'type': 'string', 'children': [], 'value': '"status"'}; {'id': '164', 'type': 'block', 'children': ['165']}; {'id': '165', 'type': 'expression_statement', 'children': ['166']}; {'id': '166', 'type': 'assignment', 'children': ['167', '168']}; {'id': '167', 'type': 'identifier', 'children': [], 'value': 'status'}; {'id': '168', 'type': 'call', 'children': ['169', '172']}; {'id': '169', 'type': 'attribute', 'children': ['170', '171']}; {'id': '170', 'type': 'identifier', 'children': [], 'value': 'moConfigNode'}; {'id': '171', 'type': 'identifier', 'children': [], 'value': 'getAttribute'}; {'id': '172', 'type': 'argument_list', 'children': ['173']}; {'id': '173', 'type': 'string', 'children': [], 'value': '"status"'}; {'id': '174', 'type': 'if_statement', 'children': ['175', '181']}; {'id': '175', 'type': 'call', 'children': ['176', '179']}; {'id': '176', 'type': 'attribute', 'children': ['177', '178']}; {'id': '177', 'type': 'identifier', 'children': [], 'value': 'moConfigNode'}; {'id': '178', 'type': 'identifier', 'children': [], 'value': 'hasAttribute'}; {'id': '179', 'type': 'argument_list', 'children': ['180']}; {'id': '180', 'type': 'string', 'children': [], 'value': '"excludeList"'}; {'id': '181', 'type': 'block', 'children': ['182']}; {'id': '182', 'type': 'expression_statement', 'children': ['183']}; {'id': '183', 'type': 'assignment', 'children': ['184', '185']}; {'id': '184', 'type': 'identifier', 'children': [], 'value': 'excludeList'}; {'id': '185', 'type': 'call', 'children': ['186', '189']}; {'id': '186', 'type': 'attribute', 'children': ['187', '188']}; {'id': '187', 'type': 'identifier', 'children': [], 'value': 'moConfigNode'}; {'id': '188', 'type': 'identifier', 'children': [], 'value': 'getAttribute'}; {'id': '189', 'type': 'argument_list', 'children': ['190']}; {'id': '190', 'type': 'string', 'children': [], 'value': '"excludeList"'}; {'id': '191', 'type': 'expression_statement', 'children': ['192']}; {'id': '192', 'type': 'assignment', 'children': ['193', '194']}; {'id': '193', 'type': 'identifier', 'children': [], 'value': 'moConfig'}; {'id': '194', 'type': 'None', 'children': []}; {'id': '195', 'type': 'if_statement', 'children': ['196', '197']}; {'id': '196', 'type': 'identifier', 'children': [], 'value': 'classId'}; {'id': '197', 'type': 'block', 'children': ['198']}; {'id': '198', 'type': 'expression_statement', 'children': ['199']}; {'id': '199', 'type': 'assignment', 'children': ['200', '201']}; {'id': '200', 'type': 'identifier', 'children': [], 'value': 'moConfig'}; {'id': '201', 'type': 'call', 'children': ['202', '203']}; {'id': '202', 'type': 'identifier', 'children': [], 'value': 'SyncMoConfig'}; {'id': '203', 'type': 'argument_list', 'children': ['204', '205', '206', '207', '208', '209', '210', '211']}; {'id': '204', 'type': 'identifier', 'children': [], 'value': 'classId'}; {'id': '205', 'type': 'identifier', 'children': [], 'value': 'noun'}; {'id': '206', 'type': 'identifier', 'children': [], 'value': 'version'}; {'id': '207', 'type': 'identifier', 'children': [], 'value': 'actionVersion'}; {'id': '208', 'type': 'identifier', 'children': [], 'value': 'action'}; {'id': '209', 'type': 'identifier', 'children': [], 'value': 'ignoreReason'}; {'id': '210', 'type': 'identifier', 'children': [], 'value': 'status'}; {'id': '211', 'type': 'identifier', 'children': [], 'value': 'excludeList'}; {'id': '212', 'type': 'if_statement', 'children': ['213', '214']}; {'id': '213', 'type': 'identifier', 'children': [], 'value': 'moConfig'}; {'id': '214', 'type': 'block', 'children': ['215']}; {'id': '215', 'type': 'if_statement', 'children': ['216', '219', '226']}; {'id': '216', 'type': 'comparison_operator', 'children': ['217', '218'], 'value': 'in'}; {'id': '217', 'type': 'identifier', 'children': [], 'value': 'classId'}; {'id': '218', 'type': 'identifier', 'children': [], 'value': 'moConfigMap'}; {'id': '219', 'type': 'block', 'children': ['220']}; {'id': '220', 'type': 'expression_statement', 'children': ['221']}; {'id': '221', 'type': 'assignment', 'children': ['222', '225']}; {'id': '222', 'type': 'subscript', 'children': ['223', '224']}; {'id': '223', 'type': 'identifier', 'children': [], 'value': 'moConfigMap'}; {'id': '224', 'type': 'identifier', 'children': [], 'value': 'classId'}; {'id': '225', 'type': 'identifier', 'children': [], 'value': 'moConfig'}; {'id': '226', 'type': 'else_clause', 'children': ['227']}; {'id': '227', 'type': 'block', 'children': ['228', '232', '239']}; {'id': '228', 'type': 'expression_statement', 'children': ['229']}; {'id': '229', 'type': 'assignment', 'children': ['230', '231']}; {'id': '230', 'type': 'identifier', 'children': [], 'value': 'moConfigList'}; {'id': '231', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '232', 'type': 'expression_statement', 'children': ['233']}; {'id': '233', 'type': 'call', 'children': ['234', '237']}; {'id': '234', 'type': 'attribute', 'children': ['235', '236']}; {'id': '235', 'type': 'identifier', 'children': [], 'value': 'moConfigList'}; {'id': '236', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '237', 'type': 'argument_list', 'children': ['238']}; {'id': '238', 'type': 'identifier', 'children': [], 'value': 'moConfig'}; {'id': '239', 'type': 'expression_statement', 'children': ['240']}; {'id': '240', 'type': 'assignment', 'children': ['241', '244']}; {'id': '241', 'type': 'subscript', 'children': ['242', '243']}; {'id': '242', 'type': 'identifier', 'children': [], 'value': 'moConfigMap'}; {'id': '243', 'type': 'identifier', 'children': [], 'value': 'classId'}; {'id': '244', 'type': 'identifier', 'children': [], 'value': 'moConfigList'}; {'id': '245', 'type': 'return_statement', 'children': ['246']}; {'id': '246', 'type': 'identifier', 'children': [], 'value': 'moConfigMap'} | def GetSyncMoConfig(ConfigDoc):
moConfigMap = {}
configList = ConfigDoc.getElementsByTagName("mo")
for moConfigNode in configList:
classId = None
noun = None
version = None
actionVersion = None
action = None
ignoreReason = None
status = None
excludeList = None
if moConfigNode.hasAttribute("classid"):
classId = moConfigNode.getAttribute("classid")
if moConfigNode.hasAttribute("noun"):
noun = moConfigNode.getAttribute("noun")
if moConfigNode.hasAttribute("version"):
version = moConfigNode.getAttribute("version")
if moConfigNode.hasAttribute("actionVersion"):
actionVersion = moConfigNode.getAttribute("actionVersion")
if moConfigNode.hasAttribute("action"):
action = moConfigNode.getAttribute("action")
if moConfigNode.hasAttribute("ignoreReason"):
ignoreReason = moConfigNode.getAttribute("ignoreReason")
if moConfigNode.hasAttribute("status"):
status = moConfigNode.getAttribute("status")
if moConfigNode.hasAttribute("excludeList"):
excludeList = moConfigNode.getAttribute("excludeList")
moConfig = None
if classId:
moConfig = SyncMoConfig(classId, noun, version, actionVersion, action, ignoreReason, status,
excludeList)
if moConfig:
if classId in moConfigMap:
moConfigMap[classId] = moConfig
else:
moConfigList = []
moConfigList.append(moConfig)
moConfigMap[classId] = moConfigList
return moConfigMap |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '27']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'duration'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '8', '11', '14', '17']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 't'}; {'id': '5', 'type': 'default_parameter', 'children': ['6', '7']}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'now'}; {'id': '7', 'type': 'None', 'children': []}; {'id': '8', 'type': 'default_parameter', 'children': ['9', '10']}; {'id': '9', 'type': 'identifier', 'children': [], 'value': 'precision'}; {'id': '10', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '11', 'type': 'default_parameter', 'children': ['12', '13']}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'pad'}; {'id': '13', 'type': 'string', 'children': [], 'value': "', '"}; {'id': '14', 'type': 'default_parameter', 'children': ['15', '16']}; {'id': '15', 'type': 'identifier', 'children': [], 'value': 'words'}; {'id': '16', 'type': 'None', 'children': []}; {'id': '17', 'type': 'default_parameter', 'children': ['18', '19']}; {'id': '18', 'type': 'identifier', 'children': [], 'value': 'justnow'}; {'id': '19', 'type': 'call', 'children': ['20', '23']}; {'id': '20', 'type': 'attribute', 'children': ['21', '22']}; {'id': '21', 'type': 'identifier', 'children': [], 'value': 'datetime'}; {'id': '22', 'type': 'identifier', 'children': [], 'value': 'timedelta'}; {'id': '23', 'type': 'argument_list', 'children': ['24']}; {'id': '24', 'type': 'keyword_argument', 'children': ['25', '26']}; {'id': '25', 'type': 'identifier', 'children': [], 'value': 'seconds'}; {'id': '26', 'type': 'integer', 'children': [], 'value': '10'}; {'id': '27', 'type': 'block', 'children': ['28', '30', '41', '48', '63', '84', '100']}; {'id': '28', 'type': 'expression_statement', 'children': ['29']}; {'id': '29', 'type': 'string', 'children': [], 'value': '\'\'\'\n Time delta compared to ``t``. You can override ``now`` to specify what time\n to compare to.\n :param t: timestamp, :class:`datetime.date` or :class:`datetime.datetime`\n object\n :param now: default ``None``, optionally a :class:`datetime.datetime`\n object\n :param precision: default ``1``, number of fragments to return\n :param words: default ``None``, allow words like "yesterday", if set to\n ``None`` this will be enabled if ``precision`` is set to\n ``1``\n :param justnow: default ``datetime.timedelta(seconds=10)``,\n :class:`datetime.timedelta` object passed to :func:`delta`\n representing tolerance for considering argument ``t`` as\n meaning \'just now\'\n >>> import time\n >>> from datetime import datetime\n >>> print(duration(time.time() + 1))\n just now\n >>> print(duration(time.time() + 11))\n 11 seconds from now\n >>> print(duration(time.time() - 1))\n just now\n >>> print(duration(time.time() - 11))\n 11 seconds ago\n >>> print(duration(time.time() - 3601))\n an hour ago\n >>> print(duration(time.time() - 7201))\n 2 hours ago\n >>> print(duration(time.time() - 1234567))\n 2 weeks ago\n >>> print(duration(time.time() + 7200, precision=1))\n 2 hours from now\n >>> print(duration(time.time() - 1234567, precision=3))\n 2 weeks, 6 hours, 56 minutes ago\n >>> print(duration(datetime(2014, 9, 8), now=datetime(2014, 9, 9)))\n yesterday\n >>> print(duration(datetime(2014, 9, 7, 23), now=datetime(2014, 9, 9)))\n 1 day ago\n >>> print(duration(datetime(2014, 9, 10), now=datetime(2014, 9, 9)))\n tomorrow\n >>> print(duration(datetime(2014, 9, 11, 1), now=datetime(2014, 9, 9, 23)))\n 1 day from now\n \'\'\''}; {'id': '30', 'type': 'if_statement', 'children': ['31', '34']}; {'id': '31', 'type': 'comparison_operator', 'children': ['32', '33'], 'value': 'is'}; {'id': '32', 'type': 'identifier', 'children': [], 'value': 'words'}; {'id': '33', 'type': 'None', 'children': []}; {'id': '34', 'type': 'block', 'children': ['35']}; {'id': '35', 'type': 'expression_statement', 'children': ['36']}; {'id': '36', 'type': 'assignment', 'children': ['37', '38']}; {'id': '37', 'type': 'identifier', 'children': [], 'value': 'words'}; {'id': '38', 'type': 'comparison_operator', 'children': ['39', '40'], 'value': '=='}; {'id': '39', 'type': 'identifier', 'children': [], 'value': 'precision'}; {'id': '40', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '41', 'type': 'expression_statement', 'children': ['42']}; {'id': '42', 'type': 'assignment', 'children': ['43', '44']}; {'id': '43', 'type': 'identifier', 'children': [], 'value': 't1'}; {'id': '44', 'type': 'call', 'children': ['45', '46']}; {'id': '45', 'type': 'identifier', 'children': [], 'value': '_to_datetime'}; {'id': '46', 'type': 'argument_list', 'children': ['47']}; {'id': '47', 'type': 'identifier', 'children': [], 'value': 't'}; {'id': '48', 'type': 'expression_statement', 'children': ['49']}; {'id': '49', 'type': 'assignment', 'children': ['50', '51']}; {'id': '50', 'type': 'identifier', 'children': [], 'value': 't2'}; {'id': '51', 'type': 'call', 'children': ['52', '53']}; {'id': '52', 'type': 'identifier', 'children': [], 'value': '_to_datetime'}; {'id': '53', 'type': 'argument_list', 'children': ['54']}; {'id': '54', 'type': 'boolean_operator', 'children': ['55', '56'], 'value': 'or'}; {'id': '55', 'type': 'identifier', 'children': [], 'value': 'now'}; {'id': '56', 'type': 'call', 'children': ['57', '62']}; {'id': '57', 'type': 'attribute', 'children': ['58', '61']}; {'id': '58', 'type': 'attribute', 'children': ['59', '60']}; {'id': '59', 'type': 'identifier', 'children': [], 'value': 'datetime'}; {'id': '60', 'type': 'identifier', 'children': [], 'value': 'datetime'}; {'id': '61', 'type': 'identifier', 'children': [], 'value': 'now'}; {'id': '62', 'type': 'argument_list', 'children': []}; {'id': '63', 'type': 'if_statement', 'children': ['64', '67', '75']}; {'id': '64', 'type': 'comparison_operator', 'children': ['65', '66'], 'value': '<'}; {'id': '65', 'type': 'identifier', 'children': [], 'value': 't1'}; {'id': '66', 'type': 'identifier', 'children': [], 'value': 't2'}; {'id': '67', 'type': 'block', 'children': ['68']}; {'id': '68', 'type': 'expression_statement', 'children': ['69']}; {'id': '69', 'type': 'assignment', 'children': ['70', '71']}; {'id': '70', 'type': 'identifier', 'children': [], 'value': 'format'}; {'id': '71', 'type': 'call', 'children': ['72', '73']}; {'id': '72', 'type': 'identifier', 'children': [], 'value': '_'}; {'id': '73', 'type': 'argument_list', 'children': ['74']}; {'id': '74', 'type': 'string', 'children': [], 'value': "'%s ago'"}; {'id': '75', 'type': 'else_clause', 'children': ['76']}; {'id': '76', 'type': 'block', 'children': ['77']}; {'id': '77', 'type': 'expression_statement', 'children': ['78']}; {'id': '78', 'type': 'assignment', 'children': ['79', '80']}; {'id': '79', 'type': 'identifier', 'children': [], 'value': 'format'}; {'id': '80', 'type': 'call', 'children': ['81', '82']}; {'id': '81', 'type': 'identifier', 'children': [], 'value': '_'}; {'id': '82', 'type': 'argument_list', 'children': ['83']}; {'id': '83', 'type': 'string', 'children': [], 'value': "'%s from now'"}; {'id': '84', 'type': 'expression_statement', 'children': ['85']}; {'id': '85', 'type': 'assignment', 'children': ['86', '89']}; {'id': '86', 'type': 'pattern_list', 'children': ['87', '88']}; {'id': '87', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '88', 'type': 'identifier', 'children': [], 'value': 'remains'}; {'id': '89', 'type': 'call', 'children': ['90', '91']}; {'id': '90', 'type': 'identifier', 'children': [], 'value': 'delta'}; {'id': '91', 'type': 'argument_list', 'children': ['92', '93', '94', '97']}; {'id': '92', 'type': 'identifier', 'children': [], 'value': 't1'}; {'id': '93', 'type': 'identifier', 'children': [], 'value': 't2'}; {'id': '94', 'type': 'keyword_argument', 'children': ['95', '96']}; {'id': '95', 'type': 'identifier', 'children': [], 'value': 'words'}; {'id': '96', 'type': 'identifier', 'children': [], 'value': 'words'}; {'id': '97', 'type': 'keyword_argument', 'children': ['98', '99']}; {'id': '98', 'type': 'identifier', 'children': [], 'value': 'justnow'}; {'id': '99', 'type': 'identifier', 'children': [], 'value': 'justnow'}; {'id': '100', 'type': 'if_statement', 'children': ['101', '124', '127', '167']}; {'id': '101', 'type': 'comparison_operator', 'children': ['102', '103'], 'value': 'in'}; {'id': '102', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '103', 'type': 'tuple', 'children': ['104', '108', '112', '116', '120']}; {'id': '104', 'type': 'call', 'children': ['105', '106']}; {'id': '105', 'type': 'identifier', 'children': [], 'value': '_'}; {'id': '106', 'type': 'argument_list', 'children': ['107']}; {'id': '107', 'type': 'string', 'children': [], 'value': "'just now'"}; {'id': '108', 'type': 'call', 'children': ['109', '110']}; {'id': '109', 'type': 'identifier', 'children': [], 'value': '_'}; {'id': '110', 'type': 'argument_list', 'children': ['111']}; {'id': '111', 'type': 'string', 'children': [], 'value': "'yesterday'"}; {'id': '112', 'type': 'call', 'children': ['113', '114']}; {'id': '113', 'type': 'identifier', 'children': [], 'value': '_'}; {'id': '114', 'type': 'argument_list', 'children': ['115']}; {'id': '115', 'type': 'string', 'children': [], 'value': "'tomorrow'"}; {'id': '116', 'type': 'call', 'children': ['117', '118']}; {'id': '117', 'type': 'identifier', 'children': [], 'value': '_'}; {'id': '118', 'type': 'argument_list', 'children': ['119']}; {'id': '119', 'type': 'string', 'children': [], 'value': "'last week'"}; {'id': '120', 'type': 'call', 'children': ['121', '122']}; {'id': '121', 'type': 'identifier', 'children': [], 'value': '_'}; {'id': '122', 'type': 'argument_list', 'children': ['123']}; {'id': '123', 'type': 'string', 'children': [], 'value': "'next week'"}; {'id': '124', 'type': 'block', 'children': ['125']}; {'id': '125', 'type': 'return_statement', 'children': ['126']}; {'id': '126', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '127', 'type': 'elif_clause', 'children': ['128', '133']}; {'id': '128', 'type': 'boolean_operator', 'children': ['129', '132'], 'value': 'and'}; {'id': '129', 'type': 'comparison_operator', 'children': ['130', '131'], 'value': '>'}; {'id': '130', 'type': 'identifier', 'children': [], 'value': 'precision'}; {'id': '131', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '132', 'type': 'identifier', 'children': [], 'value': 'remains'}; {'id': '133', 'type': 'block', 'children': ['134', '147']}; {'id': '134', 'type': 'expression_statement', 'children': ['135']}; {'id': '135', 'type': 'assignment', 'children': ['136', '137']}; {'id': '136', 'type': 'identifier', 'children': [], 'value': 't3'}; {'id': '137', 'type': 'binary_operator', 'children': ['138', '139'], 'value': '-'}; {'id': '138', 'type': 'identifier', 'children': [], 'value': 't2'}; {'id': '139', 'type': 'call', 'children': ['140', '143']}; {'id': '140', 'type': 'attribute', 'children': ['141', '142']}; {'id': '141', 'type': 'identifier', 'children': [], 'value': 'datetime'}; {'id': '142', 'type': 'identifier', 'children': [], 'value': 'timedelta'}; {'id': '143', 'type': 'argument_list', 'children': ['144']}; {'id': '144', 'type': 'keyword_argument', 'children': ['145', '146']}; {'id': '145', 'type': 'identifier', 'children': [], 'value': 'seconds'}; {'id': '146', 'type': 'identifier', 'children': [], 'value': 'remains'}; {'id': '147', 'type': 'return_statement', 'children': ['148']}; {'id': '148', 'type': 'call', 'children': ['149', '152']}; {'id': '149', 'type': 'attribute', 'children': ['150', '151']}; {'id': '150', 'type': 'identifier', 'children': [], 'value': 'pad'}; {'id': '151', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '152', 'type': 'argument_list', 'children': ['153']}; {'id': '153', 'type': 'list', 'children': ['154', '155'], 'value': '[\n result,\n duration(t2, t3, precision - 1, pad, words=False),\n ]'}; {'id': '154', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '155', 'type': 'call', 'children': ['156', '157']}; {'id': '156', 'type': 'identifier', 'children': [], 'value': 'duration'}; {'id': '157', 'type': 'argument_list', 'children': ['158', '159', '160', '163', '164']}; {'id': '158', 'type': 'identifier', 'children': [], 'value': 't2'}; {'id': '159', 'type': 'identifier', 'children': [], 'value': 't3'}; {'id': '160', 'type': 'binary_operator', 'children': ['161', '162'], 'value': '-'}; {'id': '161', 'type': 'identifier', 'children': [], 'value': 'precision'}; {'id': '162', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '163', 'type': 'identifier', 'children': [], 'value': 'pad'}; {'id': '164', 'type': 'keyword_argument', 'children': ['165', '166']}; {'id': '165', 'type': 'identifier', 'children': [], 'value': 'words'}; {'id': '166', 'type': 'False', 'children': []}; {'id': '167', 'type': 'else_clause', 'children': ['168']}; {'id': '168', 'type': 'block', 'children': ['169']}; {'id': '169', 'type': 'return_statement', 'children': ['170']}; {'id': '170', 'type': 'binary_operator', 'children': ['171', '172'], 'value': '%'}; {'id': '171', 'type': 'identifier', 'children': [], 'value': 'format'}; {'id': '172', 'type': 'tuple', 'children': ['173']}; {'id': '173', 'type': 'identifier', 'children': [], 'value': 'result'} | def duration(t, now=None, precision=1, pad=', ', words=None,
justnow=datetime.timedelta(seconds=10)):
'''
Time delta compared to ``t``. You can override ``now`` to specify what time
to compare to.
:param t: timestamp, :class:`datetime.date` or :class:`datetime.datetime`
object
:param now: default ``None``, optionally a :class:`datetime.datetime`
object
:param precision: default ``1``, number of fragments to return
:param words: default ``None``, allow words like "yesterday", if set to
``None`` this will be enabled if ``precision`` is set to
``1``
:param justnow: default ``datetime.timedelta(seconds=10)``,
:class:`datetime.timedelta` object passed to :func:`delta`
representing tolerance for considering argument ``t`` as
meaning 'just now'
>>> import time
>>> from datetime import datetime
>>> print(duration(time.time() + 1))
just now
>>> print(duration(time.time() + 11))
11 seconds from now
>>> print(duration(time.time() - 1))
just now
>>> print(duration(time.time() - 11))
11 seconds ago
>>> print(duration(time.time() - 3601))
an hour ago
>>> print(duration(time.time() - 7201))
2 hours ago
>>> print(duration(time.time() - 1234567))
2 weeks ago
>>> print(duration(time.time() + 7200, precision=1))
2 hours from now
>>> print(duration(time.time() - 1234567, precision=3))
2 weeks, 6 hours, 56 minutes ago
>>> print(duration(datetime(2014, 9, 8), now=datetime(2014, 9, 9)))
yesterday
>>> print(duration(datetime(2014, 9, 7, 23), now=datetime(2014, 9, 9)))
1 day ago
>>> print(duration(datetime(2014, 9, 10), now=datetime(2014, 9, 9)))
tomorrow
>>> print(duration(datetime(2014, 9, 11, 1), now=datetime(2014, 9, 9, 23)))
1 day from now
'''
if words is None:
words = precision == 1
t1 = _to_datetime(t)
t2 = _to_datetime(now or datetime.datetime.now())
if t1 < t2:
format = _('%s ago')
else:
format = _('%s from now')
result, remains = delta(t1, t2, words=words, justnow=justnow)
if result in (
_('just now'),
_('yesterday'),
_('tomorrow'),
_('last week'),
_('next week'),
):
return result
elif precision > 1 and remains:
t3 = t2 - datetime.timedelta(seconds=remains)
return pad.join([
result,
duration(t2, t3, precision - 1, pad, words=False),
])
else:
return format % (result,) |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '6']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'search'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'query_string'}; {'id': '6', 'type': 'block', 'children': ['7', '15', '23', '29']}; {'id': '7', 'type': 'expression_statement', 'children': ['8']}; {'id': '8', 'type': 'assignment', 'children': ['9', '10']}; {'id': '9', 'type': 'identifier', 'children': [], 'value': 'query'}; {'id': '10', 'type': 'call', 'children': ['11', '14']}; {'id': '11', 'type': 'attribute', 'children': ['12', '13']}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '13', 'type': 'identifier', 'children': [], 'value': 'create_query'}; {'id': '14', 'type': 'argument_list', 'children': []}; {'id': '15', 'type': 'expression_statement', 'children': ['16']}; {'id': '16', 'type': 'assignment', 'children': ['17', '18']}; {'id': '17', 'type': 'identifier', 'children': [], 'value': 'parser'}; {'id': '18', 'type': 'call', 'children': ['19', '20']}; {'id': '19', 'type': 'identifier', 'children': [], 'value': 'QueryParser'}; {'id': '20', 'type': 'argument_list', 'children': ['21', '22']}; {'id': '21', 'type': 'identifier', 'children': [], 'value': 'query_string'}; {'id': '22', 'type': 'identifier', 'children': [], 'value': 'query'}; {'id': '23', 'type': 'expression_statement', 'children': ['24']}; {'id': '24', 'type': 'call', 'children': ['25', '28']}; {'id': '25', 'type': 'attribute', 'children': ['26', '27']}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'parser'}; {'id': '27', 'type': 'identifier', 'children': [], 'value': 'parse'}; {'id': '28', 'type': 'argument_list', 'children': []}; {'id': '29', 'type': 'return_statement', 'children': ['30']}; {'id': '30', 'type': 'call', 'children': ['31', '34']}; {'id': '31', 'type': 'attribute', 'children': ['32', '33']}; {'id': '32', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '33', 'type': 'identifier', 'children': [], 'value': 'query'}; {'id': '34', 'type': 'argument_list', 'children': ['35']}; {'id': '35', 'type': 'identifier', 'children': [], 'value': 'query'} | def search(self, query_string):
query = self.create_query()
parser = QueryParser(query_string, query)
parser.parse()
return self.query(query) |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '9']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'wrap_error'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '7', '8']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'data'}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'renderer_context'}; {'id': '7', 'type': 'identifier', 'children': [], 'value': 'keys_are_fields'}; {'id': '8', 'type': 'identifier', 'children': [], 'value': 'issue_is_title'}; {'id': '9', 'type': 'block', 'children': ['10', '20', '31', '35', '127', '135', '141']}; {'id': '10', 'type': 'expression_statement', 'children': ['11']}; {'id': '11', 'type': 'assignment', 'children': ['12', '13']}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'response'}; {'id': '13', 'type': 'call', 'children': ['14', '17']}; {'id': '14', 'type': 'attribute', 'children': ['15', '16']}; {'id': '15', 'type': 'identifier', 'children': [], 'value': 'renderer_context'}; {'id': '16', 'type': 'identifier', 'children': [], 'value': 'get'}; {'id': '17', 'type': 'argument_list', 'children': ['18', '19']}; {'id': '18', 'type': 'string', 'children': [], 'value': '"response"'}; {'id': '19', 'type': 'None', 'children': []}; {'id': '20', 'type': 'expression_statement', 'children': ['21']}; {'id': '21', 'type': 'assignment', 'children': ['22', '23']}; {'id': '22', 'type': 'identifier', 'children': [], 'value': 'status_code'}; {'id': '23', 'type': 'call', 'children': ['24', '25']}; {'id': '24', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '25', 'type': 'argument_list', 'children': ['26']}; {'id': '26', 'type': 'boolean_operator', 'children': ['27', '28'], 'value': 'and'}; {'id': '27', 'type': 'identifier', 'children': [], 'value': 'response'}; {'id': '28', 'type': 'attribute', 'children': ['29', '30']}; {'id': '29', 'type': 'identifier', 'children': [], 'value': 'response'}; {'id': '30', 'type': 'identifier', 'children': [], 'value': 'status_code'}; {'id': '31', 'type': 'expression_statement', 'children': ['32']}; {'id': '32', 'type': 'assignment', 'children': ['33', '34']}; {'id': '33', 'type': 'identifier', 'children': [], 'value': 'errors'}; {'id': '34', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '35', 'type': 'for_statement', 'children': ['36', '39', '44']}; {'id': '36', 'type': 'pattern_list', 'children': ['37', '38']}; {'id': '37', 'type': 'identifier', 'children': [], 'value': 'field'}; {'id': '38', 'type': 'identifier', 'children': [], 'value': 'issues'}; {'id': '39', 'type': 'call', 'children': ['40', '43']}; {'id': '40', 'type': 'attribute', 'children': ['41', '42']}; {'id': '41', 'type': 'identifier', 'children': [], 'value': 'data'}; {'id': '42', 'type': 'identifier', 'children': [], 'value': 'items'}; {'id': '43', 'type': 'argument_list', 'children': []}; {'id': '44', 'type': 'block', 'children': ['45', '59']}; {'id': '45', 'type': 'if_statement', 'children': ['46', '53']}; {'id': '46', 'type': 'call', 'children': ['47', '48']}; {'id': '47', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '48', 'type': 'argument_list', 'children': ['49', '50']}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'issues'}; {'id': '50', 'type': 'attribute', 'children': ['51', '52']}; {'id': '51', 'type': 'identifier', 'children': [], 'value': 'six'}; {'id': '52', 'type': 'identifier', 'children': [], 'value': 'string_types'}; {'id': '53', 'type': 'block', 'children': ['54']}; {'id': '54', 'type': 'expression_statement', 'children': ['55']}; {'id': '55', 'type': 'assignment', 'children': ['56', '57']}; {'id': '56', 'type': 'identifier', 'children': [], 'value': 'issues'}; {'id': '57', 'type': 'list', 'children': ['58'], 'value': '[issues]'}; {'id': '58', 'type': 'identifier', 'children': [], 'value': 'issues'}; {'id': '59', 'type': 'for_statement', 'children': ['60', '61', '62']}; {'id': '60', 'type': 'identifier', 'children': [], 'value': 'issue'}; {'id': '61', 'type': 'identifier', 'children': [], 'value': 'issues'}; {'id': '62', 'type': 'block', 'children': ['63', '71', '77', '94', '120']}; {'id': '63', 'type': 'expression_statement', 'children': ['64']}; {'id': '64', 'type': 'assignment', 'children': ['65', '66']}; {'id': '65', 'type': 'identifier', 'children': [], 'value': 'error'}; {'id': '66', 'type': 'call', 'children': ['67', '70']}; {'id': '67', 'type': 'attribute', 'children': ['68', '69']}; {'id': '68', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'dict_class'}; {'id': '70', 'type': 'argument_list', 'children': []}; {'id': '71', 'type': 'expression_statement', 'children': ['72']}; {'id': '72', 'type': 'assignment', 'children': ['73', '76']}; {'id': '73', 'type': 'subscript', 'children': ['74', '75']}; {'id': '74', 'type': 'identifier', 'children': [], 'value': 'error'}; {'id': '75', 'type': 'string', 'children': [], 'value': '"status"'}; {'id': '76', 'type': 'identifier', 'children': [], 'value': 'status_code'}; {'id': '77', 'type': 'if_statement', 'children': ['78', '79', '86']}; {'id': '78', 'type': 'identifier', 'children': [], 'value': 'issue_is_title'}; {'id': '79', 'type': 'block', 'children': ['80']}; {'id': '80', 'type': 'expression_statement', 'children': ['81']}; {'id': '81', 'type': 'assignment', 'children': ['82', '85']}; {'id': '82', 'type': 'subscript', 'children': ['83', '84']}; {'id': '83', 'type': 'identifier', 'children': [], 'value': 'error'}; {'id': '84', 'type': 'string', 'children': [], 'value': '"title"'}; {'id': '85', 'type': 'identifier', 'children': [], 'value': 'issue'}; {'id': '86', 'type': 'else_clause', 'children': ['87']}; {'id': '87', 'type': 'block', 'children': ['88']}; {'id': '88', 'type': 'expression_statement', 'children': ['89']}; {'id': '89', 'type': 'assignment', 'children': ['90', '93']}; {'id': '90', 'type': 'subscript', 'children': ['91', '92']}; {'id': '91', 'type': 'identifier', 'children': [], 'value': 'error'}; {'id': '92', 'type': 'string', 'children': [], 'value': '"detail"'}; {'id': '93', 'type': 'identifier', 'children': [], 'value': 'issue'}; {'id': '94', 'type': 'if_statement', 'children': ['95', '96']}; {'id': '95', 'type': 'identifier', 'children': [], 'value': 'keys_are_fields'}; {'id': '96', 'type': 'block', 'children': ['97']}; {'id': '97', 'type': 'if_statement', 'children': ['98', '103', '110']}; {'id': '98', 'type': 'comparison_operator', 'children': ['99', '100'], 'value': 'in'}; {'id': '99', 'type': 'identifier', 'children': [], 'value': 'field'}; {'id': '100', 'type': 'tuple', 'children': ['101', '102']}; {'id': '101', 'type': 'string', 'children': [], 'value': "'non_field_errors'"}; {'id': '102', 'type': 'identifier', 'children': [], 'value': 'NON_FIELD_ERRORS'}; {'id': '103', 'type': 'block', 'children': ['104']}; {'id': '104', 'type': 'expression_statement', 'children': ['105']}; {'id': '105', 'type': 'assignment', 'children': ['106', '109']}; {'id': '106', 'type': 'subscript', 'children': ['107', '108']}; {'id': '107', 'type': 'identifier', 'children': [], 'value': 'error'}; {'id': '108', 'type': 'string', 'children': [], 'value': '"path"'}; {'id': '109', 'type': 'string', 'children': [], 'value': "'/-'"}; {'id': '110', 'type': 'else_clause', 'children': ['111']}; {'id': '111', 'type': 'block', 'children': ['112']}; {'id': '112', 'type': 'expression_statement', 'children': ['113']}; {'id': '113', 'type': 'assignment', 'children': ['114', '117']}; {'id': '114', 'type': 'subscript', 'children': ['115', '116']}; {'id': '115', 'type': 'identifier', 'children': [], 'value': 'error'}; {'id': '116', 'type': 'string', 'children': [], 'value': '"path"'}; {'id': '117', 'type': 'binary_operator', 'children': ['118', '119'], 'value': '+'}; {'id': '118', 'type': 'string', 'children': [], 'value': "'/'"}; {'id': '119', 'type': 'identifier', 'children': [], 'value': 'field'}; {'id': '120', 'type': 'expression_statement', 'children': ['121']}; {'id': '121', 'type': 'call', 'children': ['122', '125']}; {'id': '122', 'type': 'attribute', 'children': ['123', '124']}; {'id': '123', 'type': 'identifier', 'children': [], 'value': 'errors'}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '125', 'type': 'argument_list', 'children': ['126']}; {'id': '126', 'type': 'identifier', 'children': [], 'value': 'error'}; {'id': '127', 'type': 'expression_statement', 'children': ['128']}; {'id': '128', 'type': 'assignment', 'children': ['129', '130']}; {'id': '129', 'type': 'identifier', 'children': [], 'value': 'wrapper'}; {'id': '130', 'type': 'call', 'children': ['131', '134']}; {'id': '131', 'type': 'attribute', 'children': ['132', '133']}; {'id': '132', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '133', 'type': 'identifier', 'children': [], 'value': 'dict_class'}; {'id': '134', 'type': 'argument_list', 'children': []}; {'id': '135', 'type': 'expression_statement', 'children': ['136']}; {'id': '136', 'type': 'assignment', 'children': ['137', '140']}; {'id': '137', 'type': 'subscript', 'children': ['138', '139']}; {'id': '138', 'type': 'identifier', 'children': [], 'value': 'wrapper'}; {'id': '139', 'type': 'string', 'children': [], 'value': '"errors"'}; {'id': '140', 'type': 'identifier', 'children': [], 'value': 'errors'}; {'id': '141', 'type': 'return_statement', 'children': ['142']}; {'id': '142', 'type': 'identifier', 'children': [], 'value': 'wrapper'} | def wrap_error(
self, data, renderer_context, keys_are_fields, issue_is_title):
response = renderer_context.get("response", None)
status_code = str(response and response.status_code)
errors = []
for field, issues in data.items():
if isinstance(issues, six.string_types):
issues = [issues]
for issue in issues:
error = self.dict_class()
error["status"] = status_code
if issue_is_title:
error["title"] = issue
else:
error["detail"] = issue
if keys_are_fields:
if field in ('non_field_errors', NON_FIELD_ERRORS):
error["path"] = '/-'
else:
error["path"] = '/' + field
errors.append(error)
wrapper = self.dict_class()
wrapper["errors"] = errors
return wrapper |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '10']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'lunr'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '7']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'ref'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'fields'}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'documents'}; {'id': '7', 'type': 'default_parameter', 'children': ['8', '9']}; {'id': '8', 'type': 'identifier', 'children': [], 'value': 'languages'}; {'id': '9', 'type': 'None', 'children': []}; {'id': '10', 'type': 'block', 'children': ['11', '115', '122', '150', '186']}; {'id': '11', 'type': 'if_statement', 'children': ['12', '19', '87']}; {'id': '12', 'type': 'boolean_operator', 'children': ['13', '16'], 'value': 'and'}; {'id': '13', 'type': 'comparison_operator', 'children': ['14', '15'], 'value': 'is'}; {'id': '14', 'type': 'identifier', 'children': [], 'value': 'languages'}; {'id': '15', 'type': 'None', 'children': []}; {'id': '16', 'type': 'attribute', 'children': ['17', '18']}; {'id': '17', 'type': 'identifier', 'children': [], 'value': 'lang'}; {'id': '18', 'type': 'identifier', 'children': [], 'value': 'LANGUAGE_SUPPORT'}; {'id': '19', 'type': 'block', 'children': ['20', '32', '46', '78']}; {'id': '20', 'type': 'if_statement', 'children': ['21', '26']}; {'id': '21', 'type': 'call', 'children': ['22', '23']}; {'id': '22', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '23', 'type': 'argument_list', 'children': ['24', '25']}; {'id': '24', 'type': 'identifier', 'children': [], 'value': 'languages'}; {'id': '25', 'type': 'identifier', 'children': [], 'value': 'basestring'}; {'id': '26', 'type': 'block', 'children': ['27']}; {'id': '27', 'type': 'expression_statement', 'children': ['28']}; {'id': '28', 'type': 'assignment', 'children': ['29', '30']}; {'id': '29', 'type': 'identifier', 'children': [], 'value': 'languages'}; {'id': '30', 'type': 'list', 'children': ['31'], 'value': '[languages]'}; {'id': '31', 'type': 'identifier', 'children': [], 'value': 'languages'}; {'id': '32', 'type': 'expression_statement', 'children': ['33']}; {'id': '33', 'type': 'assignment', 'children': ['34', '35']}; {'id': '34', 'type': 'identifier', 'children': [], 'value': 'unsupported_languages'}; {'id': '35', 'type': 'binary_operator', 'children': ['36', '40'], 'value': '-'}; {'id': '36', 'type': 'call', 'children': ['37', '38']}; {'id': '37', 'type': 'identifier', 'children': [], 'value': 'set'}; {'id': '38', 'type': 'argument_list', 'children': ['39']}; {'id': '39', 'type': 'identifier', 'children': [], 'value': 'languages'}; {'id': '40', 'type': 'call', 'children': ['41', '42']}; {'id': '41', 'type': 'identifier', 'children': [], 'value': 'set'}; {'id': '42', 'type': 'argument_list', 'children': ['43']}; {'id': '43', 'type': 'attribute', 'children': ['44', '45']}; {'id': '44', 'type': 'identifier', 'children': [], 'value': 'lang'}; {'id': '45', 'type': 'identifier', 'children': [], 'value': 'SUPPORTED_LANGUAGES'}; {'id': '46', 'type': 'if_statement', 'children': ['47', '48']}; {'id': '47', 'type': 'identifier', 'children': [], 'value': 'unsupported_languages'}; {'id': '48', 'type': 'block', 'children': ['49']}; {'id': '49', 'type': 'raise_statement', 'children': ['50']}; {'id': '50', 'type': 'call', 'children': ['51', '52']}; {'id': '51', 'type': 'identifier', 'children': [], 'value': 'RuntimeError'}; {'id': '52', 'type': 'argument_list', 'children': ['53']}; {'id': '53', 'type': 'call', 'children': ['54', '59']}; {'id': '54', 'type': 'attribute', 'children': ['55', '58']}; {'id': '55', 'type': 'concatenated_string', 'children': ['56', '57']}; {'id': '56', 'type': 'string', 'children': [], 'value': '"The specified languages {} are not supported, "'}; {'id': '57', 'type': 'string', 'children': [], 'value': '"please choose one of {}"'}; {'id': '58', 'type': 'identifier', 'children': [], 'value': 'format'}; {'id': '59', 'type': 'argument_list', 'children': ['60', '66']}; {'id': '60', 'type': 'call', 'children': ['61', '64']}; {'id': '61', 'type': 'attribute', 'children': ['62', '63']}; {'id': '62', 'type': 'string', 'children': [], 'value': '", "'}; {'id': '63', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '64', 'type': 'argument_list', 'children': ['65']}; {'id': '65', 'type': 'identifier', 'children': [], 'value': 'unsupported_languages'}; {'id': '66', 'type': 'call', 'children': ['67', '70']}; {'id': '67', 'type': 'attribute', 'children': ['68', '69']}; {'id': '68', 'type': 'string', 'children': [], 'value': '", "'}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '70', 'type': 'argument_list', 'children': ['71']}; {'id': '71', 'type': 'call', 'children': ['72', '77']}; {'id': '72', 'type': 'attribute', 'children': ['73', '76']}; {'id': '73', 'type': 'attribute', 'children': ['74', '75']}; {'id': '74', 'type': 'identifier', 'children': [], 'value': 'lang'}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'SUPPORTED_LANGUAGES'}; {'id': '76', 'type': 'identifier', 'children': [], 'value': 'keys'}; {'id': '77', 'type': 'argument_list', 'children': []}; {'id': '78', 'type': 'expression_statement', 'children': ['79']}; {'id': '79', 'type': 'assignment', 'children': ['80', '81']}; {'id': '80', 'type': 'identifier', 'children': [], 'value': 'builder'}; {'id': '81', 'type': 'call', 'children': ['82', '85']}; {'id': '82', 'type': 'attribute', 'children': ['83', '84']}; {'id': '83', 'type': 'identifier', 'children': [], 'value': 'lang'}; {'id': '84', 'type': 'identifier', 'children': [], 'value': 'get_nltk_builder'}; {'id': '85', 'type': 'argument_list', 'children': ['86']}; {'id': '86', 'type': 'identifier', 'children': [], 'value': 'languages'}; {'id': '87', 'type': 'else_clause', 'children': ['88']}; {'id': '88', 'type': 'block', 'children': ['89', '95', '106']}; {'id': '89', 'type': 'expression_statement', 'children': ['90']}; {'id': '90', 'type': 'assignment', 'children': ['91', '92']}; {'id': '91', 'type': 'identifier', 'children': [], 'value': 'builder'}; {'id': '92', 'type': 'call', 'children': ['93', '94']}; {'id': '93', 'type': 'identifier', 'children': [], 'value': 'Builder'}; {'id': '94', 'type': 'argument_list', 'children': []}; {'id': '95', 'type': 'expression_statement', 'children': ['96']}; {'id': '96', 'type': 'call', 'children': ['97', '102']}; {'id': '97', 'type': 'attribute', 'children': ['98', '101']}; {'id': '98', 'type': 'attribute', 'children': ['99', '100']}; {'id': '99', 'type': 'identifier', 'children': [], 'value': 'builder'}; {'id': '100', 'type': 'identifier', 'children': [], 'value': 'pipeline'}; {'id': '101', 'type': 'identifier', 'children': [], 'value': 'add'}; {'id': '102', 'type': 'argument_list', 'children': ['103', '104', '105']}; {'id': '103', 'type': 'identifier', 'children': [], 'value': 'trimmer'}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'stop_word_filter'}; {'id': '105', 'type': 'identifier', 'children': [], 'value': 'stemmer'}; {'id': '106', 'type': 'expression_statement', 'children': ['107']}; {'id': '107', 'type': 'call', 'children': ['108', '113']}; {'id': '108', 'type': 'attribute', 'children': ['109', '112']}; {'id': '109', 'type': 'attribute', 'children': ['110', '111']}; {'id': '110', 'type': 'identifier', 'children': [], 'value': 'builder'}; {'id': '111', 'type': 'identifier', 'children': [], 'value': 'search_pipeline'}; {'id': '112', 'type': 'identifier', 'children': [], 'value': 'add'}; {'id': '113', 'type': 'argument_list', 'children': ['114']}; {'id': '114', 'type': 'identifier', 'children': [], 'value': 'stemmer'}; {'id': '115', 'type': 'expression_statement', 'children': ['116']}; {'id': '116', 'type': 'call', 'children': ['117', '120']}; {'id': '117', 'type': 'attribute', 'children': ['118', '119']}; {'id': '118', 'type': 'identifier', 'children': [], 'value': 'builder'}; {'id': '119', 'type': 'identifier', 'children': [], 'value': 'ref'}; {'id': '120', 'type': 'argument_list', 'children': ['121']}; {'id': '121', 'type': 'identifier', 'children': [], 'value': 'ref'}; {'id': '122', 'type': 'for_statement', 'children': ['123', '124', '125']}; {'id': '123', 'type': 'identifier', 'children': [], 'value': 'field'}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'fields'}; {'id': '125', 'type': 'block', 'children': ['126']}; {'id': '126', 'type': 'if_statement', 'children': ['127', '132', '141']}; {'id': '127', 'type': 'call', 'children': ['128', '129']}; {'id': '128', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '129', 'type': 'argument_list', 'children': ['130', '131']}; {'id': '130', 'type': 'identifier', 'children': [], 'value': 'field'}; {'id': '131', 'type': 'identifier', 'children': [], 'value': 'dict'}; {'id': '132', 'type': 'block', 'children': ['133']}; {'id': '133', 'type': 'expression_statement', 'children': ['134']}; {'id': '134', 'type': 'call', 'children': ['135', '138']}; {'id': '135', 'type': 'attribute', 'children': ['136', '137']}; {'id': '136', 'type': 'identifier', 'children': [], 'value': 'builder'}; {'id': '137', 'type': 'identifier', 'children': [], 'value': 'field'}; {'id': '138', 'type': 'argument_list', 'children': ['139']}; {'id': '139', 'type': 'dictionary_splat', 'children': ['140']}; {'id': '140', 'type': 'identifier', 'children': [], 'value': 'field'}; {'id': '141', 'type': 'else_clause', 'children': ['142']}; {'id': '142', 'type': 'block', 'children': ['143']}; {'id': '143', 'type': 'expression_statement', 'children': ['144']}; {'id': '144', 'type': 'call', 'children': ['145', '148']}; {'id': '145', 'type': 'attribute', 'children': ['146', '147']}; {'id': '146', 'type': 'identifier', 'children': [], 'value': 'builder'}; {'id': '147', 'type': 'identifier', 'children': [], 'value': 'field'}; {'id': '148', 'type': 'argument_list', 'children': ['149']}; {'id': '149', 'type': 'identifier', 'children': [], 'value': 'field'}; {'id': '150', 'type': 'for_statement', 'children': ['151', '152', '153']}; {'id': '151', 'type': 'identifier', 'children': [], 'value': 'document'}; {'id': '152', 'type': 'identifier', 'children': [], 'value': 'documents'}; {'id': '153', 'type': 'block', 'children': ['154']}; {'id': '154', 'type': 'if_statement', 'children': ['155', '162', '177']}; {'id': '155', 'type': 'call', 'children': ['156', '157']}; {'id': '156', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '157', 'type': 'argument_list', 'children': ['158', '159']}; {'id': '158', 'type': 'identifier', 'children': [], 'value': 'document'}; {'id': '159', 'type': 'tuple', 'children': ['160', '161']}; {'id': '160', 'type': 'identifier', 'children': [], 'value': 'tuple'}; {'id': '161', 'type': 'identifier', 'children': [], 'value': 'list'}; {'id': '162', 'type': 'block', 'children': ['163']}; {'id': '163', 'type': 'expression_statement', 'children': ['164']}; {'id': '164', 'type': 'call', 'children': ['165', '168']}; {'id': '165', 'type': 'attribute', 'children': ['166', '167']}; {'id': '166', 'type': 'identifier', 'children': [], 'value': 'builder'}; {'id': '167', 'type': 'identifier', 'children': [], 'value': 'add'}; {'id': '168', 'type': 'argument_list', 'children': ['169', '172']}; {'id': '169', 'type': 'subscript', 'children': ['170', '171']}; {'id': '170', 'type': 'identifier', 'children': [], 'value': 'document'}; {'id': '171', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '172', 'type': 'keyword_argument', 'children': ['173', '174']}; {'id': '173', 'type': 'identifier', 'children': [], 'value': 'attributes'}; {'id': '174', 'type': 'subscript', 'children': ['175', '176']}; {'id': '175', 'type': 'identifier', 'children': [], 'value': 'document'}; {'id': '176', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '177', 'type': 'else_clause', 'children': ['178']}; {'id': '178', 'type': 'block', 'children': ['179']}; {'id': '179', 'type': 'expression_statement', 'children': ['180']}; {'id': '180', 'type': 'call', 'children': ['181', '184']}; {'id': '181', 'type': 'attribute', 'children': ['182', '183']}; {'id': '182', 'type': 'identifier', 'children': [], 'value': 'builder'}; {'id': '183', 'type': 'identifier', 'children': [], 'value': 'add'}; {'id': '184', 'type': 'argument_list', 'children': ['185']}; {'id': '185', 'type': 'identifier', 'children': [], 'value': 'document'}; {'id': '186', 'type': 'return_statement', 'children': ['187']}; {'id': '187', 'type': 'call', 'children': ['188', '191']}; {'id': '188', 'type': 'attribute', 'children': ['189', '190']}; {'id': '189', 'type': 'identifier', 'children': [], 'value': 'builder'}; {'id': '190', 'type': 'identifier', 'children': [], 'value': 'build'}; {'id': '191', 'type': 'argument_list', 'children': []} | def lunr(ref, fields, documents, languages=None):
if languages is not None and lang.LANGUAGE_SUPPORT:
if isinstance(languages, basestring):
languages = [languages]
unsupported_languages = set(languages) - set(lang.SUPPORTED_LANGUAGES)
if unsupported_languages:
raise RuntimeError(
"The specified languages {} are not supported, "
"please choose one of {}".format(
", ".join(unsupported_languages),
", ".join(lang.SUPPORTED_LANGUAGES.keys()),
)
)
builder = lang.get_nltk_builder(languages)
else:
builder = Builder()
builder.pipeline.add(trimmer, stop_word_filter, stemmer)
builder.search_pipeline.add(stemmer)
builder.ref(ref)
for field in fields:
if isinstance(field, dict):
builder.field(**field)
else:
builder.field(field)
for document in documents:
if isinstance(document, (tuple, list)):
builder.add(document[0], attributes=document[1])
else:
builder.add(document)
return builder.build() |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '8']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'build_trie'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '7']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'pattern_filename'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'pattern_format'}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'encoding'}; {'id': '7', 'type': 'identifier', 'children': [], 'value': 'on_word_boundaries'}; {'id': '8', 'type': 'block', 'children': ['9', '11', '15', '34', '52', '62', '66', '357', '370']}; {'id': '9', 'type': 'expression_statement', 'children': ['10']}; {'id': '10', 'type': 'string', 'children': [], 'value': "'''\n Constructs a finite state machine for performing string rewriting.\n Arguments:\n - `pattern_filename`:\n - `pattern_format`:\n - `encoding`:\n - `on_word_boundaries`:\n '''"}; {'id': '11', 'type': 'expression_statement', 'children': ['12']}; {'id': '12', 'type': 'assignment', 'children': ['13', '14']}; {'id': '13', 'type': 'identifier', 'children': [], 'value': 'boundaries'}; {'id': '14', 'type': 'identifier', 'children': [], 'value': 'on_word_boundaries'}; {'id': '15', 'type': 'if_statement', 'children': ['16', '22']}; {'id': '16', 'type': 'boolean_operator', 'children': ['17', '20'], 'value': 'or'}; {'id': '17', 'type': 'comparison_operator', 'children': ['18', '19'], 'value': '=='}; {'id': '18', 'type': 'identifier', 'children': [], 'value': 'pattern_format'}; {'id': '19', 'type': 'string', 'children': [], 'value': "'auto'"}; {'id': '20', 'type': 'not_operator', 'children': ['21']}; {'id': '21', 'type': 'identifier', 'children': [], 'value': 'on_word_boundaries'}; {'id': '22', 'type': 'block', 'children': ['23']}; {'id': '23', 'type': 'expression_statement', 'children': ['24']}; {'id': '24', 'type': 'assignment', 'children': ['25', '28']}; {'id': '25', 'type': 'pattern_list', 'children': ['26', '27']}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'tsv'}; {'id': '27', 'type': 'identifier', 'children': [], 'value': 'boundaries'}; {'id': '28', 'type': 'call', 'children': ['29', '30']}; {'id': '29', 'type': 'identifier', 'children': [], 'value': 'detect_pattern_format'}; {'id': '30', 'type': 'argument_list', 'children': ['31', '32', '33']}; {'id': '31', 'type': 'identifier', 'children': [], 'value': 'pattern_filename'}; {'id': '32', 'type': 'identifier', 'children': [], 'value': 'encoding'}; {'id': '33', 'type': 'identifier', 'children': [], 'value': 'on_word_boundaries'}; {'id': '34', 'type': 'if_statement', 'children': ['35', '38']}; {'id': '35', 'type': 'comparison_operator', 'children': ['36', '37'], 'value': '=='}; {'id': '36', 'type': 'identifier', 'children': [], 'value': 'pattern_format'}; {'id': '37', 'type': 'string', 'children': [], 'value': "'auto'"}; {'id': '38', 'type': 'block', 'children': ['39']}; {'id': '39', 'type': 'if_statement', 'children': ['40', '41', '46']}; {'id': '40', 'type': 'identifier', 'children': [], 'value': 'tsv'}; {'id': '41', 'type': 'block', 'children': ['42']}; {'id': '42', 'type': 'expression_statement', 'children': ['43']}; {'id': '43', 'type': 'assignment', 'children': ['44', '45']}; {'id': '44', 'type': 'identifier', 'children': [], 'value': 'pattern_format'}; {'id': '45', 'type': 'string', 'children': [], 'value': "'tsv'"}; {'id': '46', 'type': 'else_clause', 'children': ['47']}; {'id': '47', 'type': 'block', 'children': ['48']}; {'id': '48', 'type': 'expression_statement', 'children': ['49']}; {'id': '49', 'type': 'assignment', 'children': ['50', '51']}; {'id': '50', 'type': 'identifier', 'children': [], 'value': 'pattern_format'}; {'id': '51', 'type': 'string', 'children': [], 'value': "'sed'"}; {'id': '52', 'type': 'expression_statement', 'children': ['53']}; {'id': '53', 'type': 'assignment', 'children': ['54', '55']}; {'id': '54', 'type': 'identifier', 'children': [], 'value': 'trie'}; {'id': '55', 'type': 'call', 'children': ['56', '61']}; {'id': '56', 'type': 'attribute', 'children': ['57', '60']}; {'id': '57', 'type': 'attribute', 'children': ['58', '59']}; {'id': '58', 'type': 'identifier', 'children': [], 'value': 'fsed'}; {'id': '59', 'type': 'identifier', 'children': [], 'value': 'ahocorasick'}; {'id': '60', 'type': 'identifier', 'children': [], 'value': 'AhoCorasickTrie'}; {'id': '61', 'type': 'argument_list', 'children': []}; {'id': '62', 'type': 'expression_statement', 'children': ['63']}; {'id': '63', 'type': 'assignment', 'children': ['64', '65']}; {'id': '64', 'type': 'identifier', 'children': [], 'value': 'num_candidates'}; {'id': '65', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '66', 'type': 'with_statement', 'children': ['67', '76']}; {'id': '67', 'type': 'with_clause', 'children': ['68']}; {'id': '68', 'type': 'with_item', 'children': ['69']}; {'id': '69', 'type': 'as_pattern', 'children': ['70', '74']}; {'id': '70', 'type': 'call', 'children': ['71', '72']}; {'id': '71', 'type': 'identifier', 'children': [], 'value': 'open_file'}; {'id': '72', 'type': 'argument_list', 'children': ['73']}; {'id': '73', 'type': 'identifier', 'children': [], 'value': 'pattern_filename'}; {'id': '74', 'type': 'as_pattern_target', 'children': ['75']}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'pattern_file'}; {'id': '76', 'type': 'block', 'children': ['77']}; {'id': '77', 'type': 'for_statement', 'children': ['78', '81', '85']}; {'id': '78', 'type': 'pattern_list', 'children': ['79', '80']}; {'id': '79', 'type': 'identifier', 'children': [], 'value': 'lineno'}; {'id': '80', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '81', 'type': 'call', 'children': ['82', '83']}; {'id': '82', 'type': 'identifier', 'children': [], 'value': 'enumerate'}; {'id': '83', 'type': 'argument_list', 'children': ['84']}; {'id': '84', 'type': 'identifier', 'children': [], 'value': 'pattern_file'}; {'id': '85', 'type': 'block', 'children': ['86', '100', '109', '290', '294', '322', '329', '336', '351']}; {'id': '86', 'type': 'expression_statement', 'children': ['87']}; {'id': '87', 'type': 'assignment', 'children': ['88', '89']}; {'id': '88', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '89', 'type': 'call', 'children': ['90', '98']}; {'id': '90', 'type': 'attribute', 'children': ['91', '97']}; {'id': '91', 'type': 'call', 'children': ['92', '95']}; {'id': '92', 'type': 'attribute', 'children': ['93', '94']}; {'id': '93', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'decode'}; {'id': '95', 'type': 'argument_list', 'children': ['96']}; {'id': '96', 'type': 'identifier', 'children': [], 'value': 'encoding'}; {'id': '97', 'type': 'identifier', 'children': [], 'value': 'rstrip'}; {'id': '98', 'type': 'argument_list', 'children': ['99']}; {'id': '99', 'type': 'string', 'children': [], 'value': "'\\n'"}; {'id': '100', 'type': 'if_statement', 'children': ['101', '107']}; {'id': '101', 'type': 'not_operator', 'children': ['102']}; {'id': '102', 'type': 'call', 'children': ['103', '106']}; {'id': '103', 'type': 'attribute', 'children': ['104', '105']}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '105', 'type': 'identifier', 'children': [], 'value': 'strip'}; {'id': '106', 'type': 'argument_list', 'children': []}; {'id': '107', 'type': 'block', 'children': ['108']}; {'id': '108', 'type': 'continue_statement', 'children': []}; {'id': '109', 'type': 'if_statement', 'children': ['110', '113', '154']}; {'id': '110', 'type': 'comparison_operator', 'children': ['111', '112'], 'value': '=='}; {'id': '111', 'type': 'identifier', 'children': [], 'value': 'pattern_format'}; {'id': '112', 'type': 'string', 'children': [], 'value': "'tsv'"}; {'id': '113', 'type': 'block', 'children': ['114', '123', '148']}; {'id': '114', 'type': 'expression_statement', 'children': ['115']}; {'id': '115', 'type': 'assignment', 'children': ['116', '117']}; {'id': '116', 'type': 'identifier', 'children': [], 'value': 'fields'}; {'id': '117', 'type': 'call', 'children': ['118', '121']}; {'id': '118', 'type': 'attribute', 'children': ['119', '120']}; {'id': '119', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '120', 'type': 'identifier', 'children': [], 'value': 'split'}; {'id': '121', 'type': 'argument_list', 'children': ['122']}; {'id': '122', 'type': 'string', 'children': [], 'value': "'\\t'"}; {'id': '123', 'type': 'if_statement', 'children': ['124', '130']}; {'id': '124', 'type': 'comparison_operator', 'children': ['125', '129'], 'value': '!='}; {'id': '125', 'type': 'call', 'children': ['126', '127']}; {'id': '126', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '127', 'type': 'argument_list', 'children': ['128']}; {'id': '128', 'type': 'identifier', 'children': [], 'value': 'fields'}; {'id': '129', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '130', 'type': 'block', 'children': ['131', '147']}; {'id': '131', 'type': 'expression_statement', 'children': ['132']}; {'id': '132', 'type': 'call', 'children': ['133', '136']}; {'id': '133', 'type': 'attribute', 'children': ['134', '135']}; {'id': '134', 'type': 'identifier', 'children': [], 'value': 'LOGGER'}; {'id': '135', 'type': 'identifier', 'children': [], 'value': 'warning'}; {'id': '136', 'type': 'argument_list', 'children': ['137']}; {'id': '137', 'type': 'call', 'children': ['138', '144']}; {'id': '138', 'type': 'attribute', 'children': ['139', '143']}; {'id': '139', 'type': '()', 'children': ['140']}; {'id': '140', 'type': 'concatenated_string', 'children': ['141', '142']}; {'id': '141', 'type': 'string', 'children': [], 'value': "'skipping line {} of pattern file (not '"}; {'id': '142', 'type': 'string', 'children': [], 'value': "'in tab-separated format): {}'"}; {'id': '143', 'type': 'identifier', 'children': [], 'value': 'format'}; {'id': '144', 'type': 'argument_list', 'children': ['145', '146']}; {'id': '145', 'type': 'identifier', 'children': [], 'value': 'lineno'}; {'id': '146', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '147', 'type': 'continue_statement', 'children': []}; {'id': '148', 'type': 'expression_statement', 'children': ['149']}; {'id': '149', 'type': 'assignment', 'children': ['150', '153']}; {'id': '150', 'type': 'pattern_list', 'children': ['151', '152']}; {'id': '151', 'type': 'identifier', 'children': [], 'value': 'before'}; {'id': '152', 'type': 'identifier', 'children': [], 'value': 'after'}; {'id': '153', 'type': 'identifier', 'children': [], 'value': 'fields'}; {'id': '154', 'type': 'elif_clause', 'children': ['155', '158']}; {'id': '155', 'type': 'comparison_operator', 'children': ['156', '157'], 'value': '=='}; {'id': '156', 'type': 'identifier', 'children': [], 'value': 'pattern_format'}; {'id': '157', 'type': 'string', 'children': [], 'value': "'sed'"}; {'id': '158', 'type': 'block', 'children': ['159', '165', '173', '264']}; {'id': '159', 'type': 'expression_statement', 'children': ['160']}; {'id': '160', 'type': 'assignment', 'children': ['161', '162']}; {'id': '161', 'type': 'identifier', 'children': [], 'value': 'before'}; {'id': '162', 'type': 'assignment', 'children': ['163', '164']}; {'id': '163', 'type': 'identifier', 'children': [], 'value': 'after'}; {'id': '164', 'type': 'None', 'children': []}; {'id': '165', 'type': 'expression_statement', 'children': ['166']}; {'id': '166', 'type': 'assignment', 'children': ['167', '168']}; {'id': '167', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '168', 'type': 'call', 'children': ['169', '172']}; {'id': '169', 'type': 'attribute', 'children': ['170', '171']}; {'id': '170', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '171', 'type': 'identifier', 'children': [], 'value': 'lstrip'}; {'id': '172', 'type': 'argument_list', 'children': []}; {'id': '173', 'type': 'if_statement', 'children': ['174', '179']}; {'id': '174', 'type': 'comparison_operator', 'children': ['175', '178'], 'value': '=='}; {'id': '175', 'type': 'subscript', 'children': ['176', '177']}; {'id': '176', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '177', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '178', 'type': 'string', 'children': [], 'value': "'s'"}; {'id': '179', 'type': 'block', 'children': ['180', '186', '197', '212']}; {'id': '180', 'type': 'expression_statement', 'children': ['181']}; {'id': '181', 'type': 'assignment', 'children': ['182', '183']}; {'id': '182', 'type': 'identifier', 'children': [], 'value': 'delim'}; {'id': '183', 'type': 'subscript', 'children': ['184', '185']}; {'id': '184', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '185', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '186', 'type': 'if_statement', 'children': ['187', '190']}; {'id': '187', 'type': 'comparison_operator', 'children': ['188', '189'], 'value': 'in'}; {'id': '188', 'type': 'identifier', 'children': [], 'value': 'delim'}; {'id': '189', 'type': 'string', 'children': [], 'value': "'.^$*+?[](){}|\\\\'"}; {'id': '190', 'type': 'block', 'children': ['191']}; {'id': '191', 'type': 'expression_statement', 'children': ['192']}; {'id': '192', 'type': 'assignment', 'children': ['193', '194']}; {'id': '193', 'type': 'identifier', 'children': [], 'value': 'delim'}; {'id': '194', 'type': 'binary_operator', 'children': ['195', '196'], 'value': '+'}; {'id': '195', 'type': 'string', 'children': [], 'value': "'\\\\'"}; {'id': '196', 'type': 'identifier', 'children': [], 'value': 'delim'}; {'id': '197', 'type': 'expression_statement', 'children': ['198']}; {'id': '198', 'type': 'assignment', 'children': ['199', '200']}; {'id': '199', 'type': 'identifier', 'children': [], 'value': 'fields'}; {'id': '200', 'type': 'call', 'children': ['201', '204']}; {'id': '201', 'type': 'attribute', 'children': ['202', '203']}; {'id': '202', 'type': 'identifier', 'children': [], 'value': 're'}; {'id': '203', 'type': 'identifier', 'children': [], 'value': 'split'}; {'id': '204', 'type': 'argument_list', 'children': ['205', '211']}; {'id': '205', 'type': 'call', 'children': ['206', '209']}; {'id': '206', 'type': 'attribute', 'children': ['207', '208']}; {'id': '207', 'type': 'string', 'children': [], 'value': "r'(?<!\\\\){}'"}; {'id': '208', 'type': 'identifier', 'children': [], 'value': 'format'}; {'id': '209', 'type': 'argument_list', 'children': ['210']}; {'id': '210', 'type': 'identifier', 'children': [], 'value': 'delim'}; {'id': '211', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '212', 'type': 'if_statement', 'children': ['213', '219']}; {'id': '213', 'type': 'comparison_operator', 'children': ['214', '218'], 'value': '=='}; {'id': '214', 'type': 'call', 'children': ['215', '216']}; {'id': '215', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '216', 'type': 'argument_list', 'children': ['217']}; {'id': '217', 'type': 'identifier', 'children': [], 'value': 'fields'}; {'id': '218', 'type': 'integer', 'children': [], 'value': '4'}; {'id': '219', 'type': 'block', 'children': ['220', '232', '248']}; {'id': '220', 'type': 'expression_statement', 'children': ['221']}; {'id': '221', 'type': 'assignment', 'children': ['222', '225']}; {'id': '222', 'type': 'pattern_list', 'children': ['223', '224']}; {'id': '223', 'type': 'identifier', 'children': [], 'value': 'before'}; {'id': '224', 'type': 'identifier', 'children': [], 'value': 'after'}; {'id': '225', 'type': 'expression_list', 'children': ['226', '229']}; {'id': '226', 'type': 'subscript', 'children': ['227', '228']}; {'id': '227', 'type': 'identifier', 'children': [], 'value': 'fields'}; {'id': '228', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '229', 'type': 'subscript', 'children': ['230', '231']}; {'id': '230', 'type': 'identifier', 'children': [], 'value': 'fields'}; {'id': '231', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '232', 'type': 'expression_statement', 'children': ['233']}; {'id': '233', 'type': 'assignment', 'children': ['234', '235']}; {'id': '234', 'type': 'identifier', 'children': [], 'value': 'before'}; {'id': '235', 'type': 'call', 'children': ['236', '239']}; {'id': '236', 'type': 'attribute', 'children': ['237', '238']}; {'id': '237', 'type': 'identifier', 'children': [], 'value': 're'}; {'id': '238', 'type': 'identifier', 'children': [], 'value': 'sub'}; {'id': '239', 'type': 'argument_list', 'children': ['240', '246', '247']}; {'id': '240', 'type': 'call', 'children': ['241', '244']}; {'id': '241', 'type': 'attribute', 'children': ['242', '243']}; {'id': '242', 'type': 'string', 'children': [], 'value': "r'(?<!\\\\)\\\\{}'"}; {'id': '243', 'type': 'identifier', 'children': [], 'value': 'format'}; {'id': '244', 'type': 'argument_list', 'children': ['245']}; {'id': '245', 'type': 'identifier', 'children': [], 'value': 'delim'}; {'id': '246', 'type': 'identifier', 'children': [], 'value': 'delim'}; {'id': '247', 'type': 'identifier', 'children': [], 'value': 'before'}; {'id': '248', 'type': 'expression_statement', 'children': ['249']}; {'id': '249', 'type': 'assignment', 'children': ['250', '251']}; {'id': '250', 'type': 'identifier', 'children': [], 'value': 'after'}; {'id': '251', 'type': 'call', 'children': ['252', '255']}; {'id': '252', 'type': 'attribute', 'children': ['253', '254']}; {'id': '253', 'type': 'identifier', 'children': [], 'value': 're'}; {'id': '254', 'type': 'identifier', 'children': [], 'value': 'sub'}; {'id': '255', 'type': 'argument_list', 'children': ['256', '262', '263']}; {'id': '256', 'type': 'call', 'children': ['257', '260']}; {'id': '257', 'type': 'attribute', 'children': ['258', '259']}; {'id': '258', 'type': 'string', 'children': [], 'value': "r'(?<!\\\\)\\\\{}'"}; {'id': '259', 'type': 'identifier', 'children': [], 'value': 'format'}; {'id': '260', 'type': 'argument_list', 'children': ['261']}; {'id': '261', 'type': 'identifier', 'children': [], 'value': 'delim'}; {'id': '262', 'type': 'identifier', 'children': [], 'value': 'delim'}; {'id': '263', 'type': 'identifier', 'children': [], 'value': 'after'}; {'id': '264', 'type': 'if_statement', 'children': ['265', '272']}; {'id': '265', 'type': 'boolean_operator', 'children': ['266', '269'], 'value': 'or'}; {'id': '266', 'type': 'comparison_operator', 'children': ['267', '268'], 'value': 'is'}; {'id': '267', 'type': 'identifier', 'children': [], 'value': 'before'}; {'id': '268', 'type': 'None', 'children': []}; {'id': '269', 'type': 'comparison_operator', 'children': ['270', '271'], 'value': 'is'}; {'id': '270', 'type': 'identifier', 'children': [], 'value': 'after'}; {'id': '271', 'type': 'None', 'children': []}; {'id': '272', 'type': 'block', 'children': ['273', '289']}; {'id': '273', 'type': 'expression_statement', 'children': ['274']}; {'id': '274', 'type': 'call', 'children': ['275', '278']}; {'id': '275', 'type': 'attribute', 'children': ['276', '277']}; {'id': '276', 'type': 'identifier', 'children': [], 'value': 'LOGGER'}; {'id': '277', 'type': 'identifier', 'children': [], 'value': 'warning'}; {'id': '278', 'type': 'argument_list', 'children': ['279']}; {'id': '279', 'type': 'call', 'children': ['280', '286']}; {'id': '280', 'type': 'attribute', 'children': ['281', '285']}; {'id': '281', 'type': '()', 'children': ['282']}; {'id': '282', 'type': 'concatenated_string', 'children': ['283', '284']}; {'id': '283', 'type': 'string', 'children': [], 'value': "'skipping line {} of pattern file (not '"}; {'id': '284', 'type': 'string', 'children': [], 'value': "'in sed format): {}'"}; {'id': '285', 'type': 'identifier', 'children': [], 'value': 'format'}; {'id': '286', 'type': 'argument_list', 'children': ['287', '288']}; {'id': '287', 'type': 'identifier', 'children': [], 'value': 'lineno'}; {'id': '288', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '289', 'type': 'continue_statement', 'children': []}; {'id': '290', 'type': 'expression_statement', 'children': ['291']}; {'id': '291', 'type': 'augmented_assignment', 'children': ['292', '293'], 'value': '+='}; {'id': '292', 'type': 'identifier', 'children': [], 'value': 'num_candidates'}; {'id': '293', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '294', 'type': 'if_statement', 'children': ['295', '304']}; {'id': '295', 'type': 'boolean_operator', 'children': ['296', '297'], 'value': 'and'}; {'id': '296', 'type': 'identifier', 'children': [], 'value': 'on_word_boundaries'}; {'id': '297', 'type': 'comparison_operator', 'children': ['298', '299'], 'value': '!='}; {'id': '298', 'type': 'identifier', 'children': [], 'value': 'before'}; {'id': '299', 'type': 'call', 'children': ['300', '303']}; {'id': '300', 'type': 'attribute', 'children': ['301', '302']}; {'id': '301', 'type': 'identifier', 'children': [], 'value': 'before'}; {'id': '302', 'type': 'identifier', 'children': [], 'value': 'strip'}; {'id': '303', 'type': 'argument_list', 'children': []}; {'id': '304', 'type': 'block', 'children': ['305']}; {'id': '305', 'type': 'expression_statement', 'children': ['306']}; {'id': '306', 'type': 'call', 'children': ['307', '310']}; {'id': '307', 'type': 'attribute', 'children': ['308', '309']}; {'id': '308', 'type': 'identifier', 'children': [], 'value': 'LOGGER'}; {'id': '309', 'type': 'identifier', 'children': [], 'value': 'warning'}; {'id': '310', 'type': 'argument_list', 'children': ['311']}; {'id': '311', 'type': 'call', 'children': ['312', '319']}; {'id': '312', 'type': 'attribute', 'children': ['313', '318']}; {'id': '313', 'type': '()', 'children': ['314']}; {'id': '314', 'type': 'concatenated_string', 'children': ['315', '316', '317']}; {'id': '315', 'type': 'string', 'children': [], 'value': "'before pattern on line {} padded whitespace; '"}; {'id': '316', 'type': 'string', 'children': [], 'value': "'this may interact strangely with the --words '"}; {'id': '317', 'type': 'string', 'children': [], 'value': "'option: {}'"}; {'id': '318', 'type': 'identifier', 'children': [], 'value': 'format'}; {'id': '319', 'type': 'argument_list', 'children': ['320', '321']}; {'id': '320', 'type': 'identifier', 'children': [], 'value': 'lineno'}; {'id': '321', 'type': 'identifier', 'children': [], 'value': 'line'}; {'id': '322', 'type': 'expression_statement', 'children': ['323']}; {'id': '323', 'type': 'assignment', 'children': ['324', '325']}; {'id': '324', 'type': 'identifier', 'children': [], 'value': 'before'}; {'id': '325', 'type': 'call', 'children': ['326', '327']}; {'id': '326', 'type': 'identifier', 'children': [], 'value': 'sub_escapes'}; {'id': '327', 'type': 'argument_list', 'children': ['328']}; {'id': '328', 'type': 'identifier', 'children': [], 'value': 'before'}; {'id': '329', 'type': 'expression_statement', 'children': ['330']}; {'id': '330', 'type': 'assignment', 'children': ['331', '332']}; {'id': '331', 'type': 'identifier', 'children': [], 'value': 'after'}; {'id': '332', 'type': 'call', 'children': ['333', '334']}; {'id': '333', 'type': 'identifier', 'children': [], 'value': 'sub_escapes'}; {'id': '334', 'type': 'argument_list', 'children': ['335']}; {'id': '335', 'type': 'identifier', 'children': [], 'value': 'after'}; {'id': '336', 'type': 'if_statement', 'children': ['337', '338']}; {'id': '337', 'type': 'identifier', 'children': [], 'value': 'boundaries'}; {'id': '338', 'type': 'block', 'children': ['339']}; {'id': '339', 'type': 'expression_statement', 'children': ['340']}; {'id': '340', 'type': 'assignment', 'children': ['341', '342']}; {'id': '341', 'type': 'identifier', 'children': [], 'value': 'before'}; {'id': '342', 'type': 'call', 'children': ['343', '348']}; {'id': '343', 'type': 'attribute', 'children': ['344', '347']}; {'id': '344', 'type': 'attribute', 'children': ['345', '346']}; {'id': '345', 'type': 'identifier', 'children': [], 'value': 'fsed'}; {'id': '346', 'type': 'identifier', 'children': [], 'value': 'ahocorasick'}; {'id': '347', 'type': 'identifier', 'children': [], 'value': 'boundary_transform'}; {'id': '348', 'type': 'argument_list', 'children': ['349', '350']}; {'id': '349', 'type': 'identifier', 'children': [], 'value': 'before'}; {'id': '350', 'type': 'identifier', 'children': [], 'value': 'on_word_boundaries'}; {'id': '351', 'type': 'expression_statement', 'children': ['352']}; {'id': '352', 'type': 'assignment', 'children': ['353', '356']}; {'id': '353', 'type': 'subscript', 'children': ['354', '355']}; {'id': '354', 'type': 'identifier', 'children': [], 'value': 'trie'}; {'id': '355', 'type': 'identifier', 'children': [], 'value': 'before'}; {'id': '356', 'type': 'identifier', 'children': [], 'value': 'after'}; {'id': '357', 'type': 'expression_statement', 'children': ['358']}; {'id': '358', 'type': 'call', 'children': ['359', '362']}; {'id': '359', 'type': 'attribute', 'children': ['360', '361']}; {'id': '360', 'type': 'identifier', 'children': [], 'value': 'LOGGER'}; {'id': '361', 'type': 'identifier', 'children': [], 'value': 'info'}; {'id': '362', 'type': 'argument_list', 'children': ['363']}; {'id': '363', 'type': 'call', 'children': ['364', '367']}; {'id': '364', 'type': 'attribute', 'children': ['365', '366']}; {'id': '365', 'type': 'string', 'children': [], 'value': "'{} patterns loaded from {}'"}; {'id': '366', 'type': 'identifier', 'children': [], 'value': 'format'}; {'id': '367', 'type': 'argument_list', 'children': ['368', '369']}; {'id': '368', 'type': 'identifier', 'children': [], 'value': 'num_candidates'}; {'id': '369', 'type': 'identifier', 'children': [], 'value': 'pattern_filename'}; {'id': '370', 'type': 'return_statement', 'children': ['371']}; {'id': '371', 'type': 'expression_list', 'children': ['372', '373']}; {'id': '372', 'type': 'identifier', 'children': [], 'value': 'trie'}; {'id': '373', 'type': 'identifier', 'children': [], 'value': 'boundaries'} | def build_trie(pattern_filename, pattern_format, encoding, on_word_boundaries):
'''
Constructs a finite state machine for performing string rewriting.
Arguments:
- `pattern_filename`:
- `pattern_format`:
- `encoding`:
- `on_word_boundaries`:
'''
boundaries = on_word_boundaries
if pattern_format == 'auto' or not on_word_boundaries:
tsv, boundaries = detect_pattern_format(pattern_filename, encoding,
on_word_boundaries)
if pattern_format == 'auto':
if tsv:
pattern_format = 'tsv'
else:
pattern_format = 'sed'
trie = fsed.ahocorasick.AhoCorasickTrie()
num_candidates = 0
with open_file(pattern_filename) as pattern_file:
for lineno, line in enumerate(pattern_file):
line = line.decode(encoding).rstrip('\n')
if not line.strip():
continue
if pattern_format == 'tsv':
fields = line.split('\t')
if len(fields) != 2:
LOGGER.warning(('skipping line {} of pattern file (not '
'in tab-separated format): {}').format(lineno, line))
continue
before, after = fields
elif pattern_format == 'sed':
before = after = None
line = line.lstrip()
if line[0] == 's':
delim = line[1]
if delim in '.^$*+?[](){}|\\':
delim = '\\' + delim
fields = re.split(r'(?<!\\){}'.format(delim), line)
if len(fields) == 4:
before, after = fields[1], fields[2]
before = re.sub(r'(?<!\\)\\{}'.format(delim), delim, before)
after = re.sub(r'(?<!\\)\\{}'.format(delim), delim, after)
if before is None or after is None:
LOGGER.warning(('skipping line {} of pattern file (not '
'in sed format): {}').format(lineno, line))
continue
num_candidates += 1
if on_word_boundaries and before != before.strip():
LOGGER.warning(('before pattern on line {} padded whitespace; '
'this may interact strangely with the --words '
'option: {}').format(lineno, line))
before = sub_escapes(before)
after = sub_escapes(after)
if boundaries:
before = fsed.ahocorasick.boundary_transform(before, on_word_boundaries)
trie[before] = after
LOGGER.info('{} patterns loaded from {}'.format(num_candidates,
pattern_filename))
return trie, boundaries |
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{'id': '45', 'type': 'expression_statement', 'children': ['46']}; {'id': '46', 'type': 'call', 'children': ['47', '50']}; {'id': '47', 'type': 'attribute', 'children': ['48', '49']}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'parser'}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'add_argument'}; {'id': '50', 'type': 'argument_list', 'children': ['51', '52', '55']}; {'id': '51', 'type': 'string', 'children': [], 'value': '"--columns"'}; {'id': '52', 'type': 'keyword_argument', 'children': ['53', '54']}; {'id': '53', 'type': 'identifier', 'children': [], 'value': 'dest'}; {'id': '54', 'type': 'string', 'children': [], 'value': '"columns_file"'}; {'id': '55', 'type': 'keyword_argument', 'children': ['56', '57']}; {'id': '56', 'type': 'identifier', 'children': [], 'value': 'help'}; {'id': '57', 'type': 'string', 'children': [], 'value': '"the JSON file specifying the columns to be output"'}; {'id': '58', 'type': 'if_statement', 'children': ['59', '68']}; {'id': '59', 'type': 'boolean_operator', 'children': ['60', '64'], 'value': 'and'}; {'id': '60', 'type': '()', 'children': ['61']}; {'id': '61', 'type': 'comparison_operator', 'children': ['62', '63'], 'value': 'not'}; {'id': '62', 'type': 'string', 'children': [], 'value': '"-i"'}; {'id': '63', 'type': 'identifier', 'children': [], 'value': 'exclude_args'}; {'id': '64', 'type': '()', 'children': ['65']}; {'id': '65', 'type': 'comparison_operator', 'children': ['66', '67'], 'value': 'not'}; {'id': '66', 'type': 'string', 'children': [], 'value': '"--input"'}; {'id': '67', 'type': 'identifier', 'children': [], 'value': 'exclude_args'}; {'id': '68', 'type': 'block', 'children': ['69']}; {'id': '69', 'type': 'expression_statement', 'children': ['70']}; {'id': '70', 'type': 'call', 'children': ['71', '74']}; {'id': '71', 'type': 'attribute', 'children': ['72', '73']}; {'id': '72', 'type': 'identifier', 'children': [], 'value': 'parser'}; {'id': '73', 'type': 'identifier', 'children': [], 'value': 'add_argument'}; {'id': '74', 'type': 'argument_list', 'children': ['75', '76', '77', '80']}; 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{'id': '89', 'type': '()', 'children': ['90']}; {'id': '90', 'type': 'comparison_operator', 'children': ['91', '92'], 'value': 'not'}; {'id': '91', 'type': 'string', 'children': [], 'value': '"--column"'}; {'id': '92', 'type': 'identifier', 'children': [], 'value': 'exclude_args'}; {'id': '93', 'type': 'block', 'children': ['94']}; {'id': '94', 'type': 'expression_statement', 'children': ['95']}; {'id': '95', 'type': 'call', 'children': ['96', '99']}; {'id': '96', 'type': 'attribute', 'children': ['97', '98']}; {'id': '97', 'type': 'identifier', 'children': [], 'value': 'parser'}; {'id': '98', 'type': 'identifier', 'children': [], 'value': 'add_argument'}; {'id': '99', 'type': 'argument_list', 'children': ['100', '101', '102']}; {'id': '100', 'type': 'string', 'children': [], 'value': '"-c"'}; {'id': '101', 'type': 'string', 'children': [], 'value': '"--column"'}; {'id': '102', 'type': 'keyword_argument', 'children': ['103', '104']}; {'id': '103', 'type': 'identifier', 'children': [], 'value': 'action'}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'ColumnsAction'}; {'id': '105', 'type': 'if_statement', 'children': ['106', '109']}; {'id': '106', 'type': 'comparison_operator', 'children': ['107', '108'], 'value': 'not'}; {'id': '107', 'type': 'string', 'children': [], 'value': '"--pattern"'}; {'id': '108', 'type': 'identifier', 'children': [], 'value': 'exclude_args'}; {'id': '109', 'type': 'block', 'children': ['110']}; {'id': '110', 'type': 'expression_statement', 'children': ['111']}; {'id': '111', 'type': 'call', 'children': ['112', '115']}; {'id': '112', 'type': 'attribute', 'children': ['113', '114']}; {'id': '113', 'type': 'identifier', 'children': [], 'value': 'parser'}; {'id': '114', 'type': 'identifier', 'children': [], 'value': 'add_argument'}; {'id': '115', 'type': 'argument_list', 'children': ['116', '117', '120']}; {'id': '116', 'type': 'string', 'children': [], 'value': '"--pattern"'}; {'id': '117', 'type': 'keyword_argument', 'children': ['118', '119']}; 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{'id': '133', 'type': 'argument_list', 'children': ['134', '135']}; {'id': '134', 'type': 'string', 'children': [], 'value': '"--max-length"'}; {'id': '135', 'type': 'keyword_argument', 'children': ['136', '137']}; {'id': '136', 'type': 'identifier', 'children': [], 'value': 'action'}; {'id': '137', 'type': 'identifier', 'children': [], 'value': 'ColumnsAction'}; {'id': '138', 'type': 'if_statement', 'children': ['139', '142']}; {'id': '139', 'type': 'comparison_operator', 'children': ['140', '141'], 'value': 'not'}; {'id': '140', 'type': 'string', 'children': [], 'value': '"--strip"'}; {'id': '141', 'type': 'identifier', 'children': [], 'value': 'exclude_args'}; {'id': '142', 'type': 'block', 'children': ['143']}; {'id': '143', 'type': 'expression_statement', 'children': ['144']}; {'id': '144', 'type': 'call', 'children': ['145', '148']}; {'id': '145', 'type': 'attribute', 'children': ['146', '147']}; {'id': '146', 'type': 'identifier', 'children': [], 'value': 'parser'}; {'id': '147', 'type': 'identifier', 'children': [], 'value': 'add_argument'}; {'id': '148', 'type': 'argument_list', 'children': ['149', '150', '153']}; {'id': '149', 'type': 'string', 'children': [], 'value': '"--strip"'}; {'id': '150', 'type': 'keyword_argument', 'children': ['151', '152']}; {'id': '151', 'type': 'identifier', 'children': [], 'value': 'nargs'}; {'id': '152', 'type': 'string', 'children': [], 'value': '"?"'}; {'id': '153', 'type': 'keyword_argument', 'children': ['154', '155']}; {'id': '154', 'type': 'identifier', 'children': [], 'value': 'action'}; {'id': '155', 'type': 'identifier', 'children': [], 'value': 'ColumnsAction'}; {'id': '156', 'type': 'if_statement', 'children': ['157', '160']}; {'id': '157', 'type': 'comparison_operator', 'children': ['158', '159'], 'value': 'not'}; {'id': '158', 'type': 'string', 'children': [], 'value': '"--deduplicate"'}; {'id': '159', 'type': 'identifier', 'children': [], 'value': 'exclude_args'}; {'id': '160', 'type': 'block', 'children': ['161']}; {'id': '161', 'type': 'expression_statement', 'children': ['162']}; {'id': '162', 'type': 'call', 'children': ['163', '166']}; {'id': '163', 'type': 'attribute', 'children': ['164', '165']}; {'id': '164', 'type': 'identifier', 'children': [], 'value': 'parser'}; {'id': '165', 'type': 'identifier', 'children': [], 'value': 'add_argument'}; {'id': '166', 'type': 'argument_list', 'children': ['167', '168', '171']}; {'id': '167', 'type': 'string', 'children': [], 'value': '"--deduplicate"'}; {'id': '168', 'type': 'keyword_argument', 'children': ['169', '170']}; {'id': '169', 'type': 'identifier', 'children': [], 'value': 'nargs'}; {'id': '170', 'type': 'string', 'children': [], 'value': "'?'"}; {'id': '171', 'type': 'keyword_argument', 'children': ['172', '173']}; {'id': '172', 'type': 'identifier', 'children': [], 'value': 'action'}; {'id': '173', 'type': 'identifier', 'children': [], 'value': 'ColumnsAction'}; {'id': '174', 'type': 'if_statement', 'children': ['175', '178']}; {'id': '175', 'type': 'comparison_operator', 'children': ['176', '177'], 'value': 'not'}; {'id': '176', 'type': 'string', 'children': [], 'value': '"--case-sensitive"'}; {'id': '177', 'type': 'identifier', 'children': [], 'value': 'exclude_args'}; {'id': '178', 'type': 'block', 'children': ['179']}; {'id': '179', 'type': 'expression_statement', 'children': ['180']}; {'id': '180', 'type': 'call', 'children': ['181', '184']}; {'id': '181', 'type': 'attribute', 'children': ['182', '183']}; {'id': '182', 'type': 'identifier', 'children': [], 'value': 'parser'}; {'id': '183', 'type': 'identifier', 'children': [], 'value': 'add_argument'}; {'id': '184', 'type': 'argument_list', 'children': ['185', '186', '189']}; {'id': '185', 'type': 'string', 'children': [], 'value': '"--case-sensitive"'}; {'id': '186', 'type': 'keyword_argument', 'children': ['187', '188']}; {'id': '187', 'type': 'identifier', 'children': [], 'value': 'nargs'}; {'id': '188', 'type': 'string', 'children': [], 'value': "'?'"}; {'id': '189', 'type': 'keyword_argument', 'children': ['190', '191']}; {'id': '190', 'type': 'identifier', 'children': [], 'value': 'action'}; {'id': '191', 'type': 'identifier', 'children': [], 'value': 'ColumnsAction'}; {'id': '192', 'type': 'if_statement', 'children': ['193', '196']}; {'id': '193', 'type': 'comparison_operator', 'children': ['194', '195'], 'value': 'not'}; {'id': '194', 'type': 'string', 'children': [], 'value': '"--unique"'}; {'id': '195', 'type': 'identifier', 'children': [], 'value': 'exclude_args'}; {'id': '196', 'type': 'block', 'children': ['197']}; {'id': '197', 'type': 'expression_statement', 'children': ['198']}; {'id': '198', 'type': 'call', 'children': ['199', '202']}; {'id': '199', 'type': 'attribute', 'children': ['200', '201']}; {'id': '200', 'type': 'identifier', 'children': [], 'value': 'parser'}; {'id': '201', 'type': 'identifier', 'children': [], 'value': 'add_argument'}; {'id': '202', 'type': 'argument_list', 'children': ['203', '204', '207']}; {'id': '203', 'type': 'string', 'children': [], 'value': '"--unique"'}; {'id': '204', 'type': 'keyword_argument', 'children': ['205', '206']}; {'id': '205', 'type': 'identifier', 'children': [], 'value': 'nargs'}; {'id': '206', 'type': 'string', 'children': [], 'value': '"?"'}; {'id': '207', 'type': 'keyword_argument', 'children': ['208', '209']}; {'id': '208', 'type': 'identifier', 'children': [], 'value': 'action'}; {'id': '209', 'type': 'identifier', 'children': [], 'value': 'ColumnsAction'}; {'id': '210', 'type': 'if_statement', 'children': ['211', '220']}; {'id': '211', 'type': 'boolean_operator', 'children': ['212', '216'], 'value': 'and'}; {'id': '212', 'type': '()', 'children': ['213']}; {'id': '213', 'type': 'comparison_operator', 'children': ['214', '215'], 'value': 'not'}; {'id': '214', 'type': 'string', 'children': [], 'value': '"-p"'}; {'id': '215', 'type': 'identifier', 'children': [], 'value': 'exclude_args'}; {'id': '216', 'type': '()', 'children': ['217']}; {'id': '217', 'type': 'comparison_operator', 'children': ['218', '219'], 'value': 'not'}; {'id': '218', 'type': 'string', 'children': [], 'value': '"--pretty"'}; {'id': '219', 'type': 'identifier', 'children': [], 'value': 'exclude_args'}; {'id': '220', 'type': 'block', 'children': ['221']}; {'id': '221', 'type': 'expression_statement', 'children': ['222']}; {'id': '222', 'type': 'call', 'children': ['223', '226']}; {'id': '223', 'type': 'attribute', 'children': ['224', '225']}; {'id': '224', 'type': 'identifier', 'children': [], 'value': 'parser'}; {'id': '225', 'type': 'identifier', 'children': [], 'value': 'add_argument'}; {'id': '226', 'type': 'argument_list', 'children': ['227', '228', '229']}; {'id': '227', 'type': 'string', 'children': [], 'value': '"-p"'}; {'id': '228', 'type': 'string', 'children': [], 'value': '"--pretty"'}; {'id': '229', 'type': 'keyword_argument', 'children': ['230', '231']}; {'id': '230', 'type': 'identifier', 'children': [], 'value': 'action'}; {'id': '231', 'type': 'string', 'children': [], 'value': '"store_true"'}; {'id': '232', 'type': 'return_statement', 'children': ['233']}; {'id': '233', 'type': 'identifier', 'children': [], 'value': 'parser'} | def make_parser(add_help=True, exclude_args=None):
if exclude_args is None:
exclude_args = []
parser = argparse.ArgumentParser(add_help=add_help)
parser.description = ("Filter, transform and export a list of JSON "
"objects on stdin to JSON or CSV on stdout")
if "--columns" not in exclude_args:
parser.add_argument(
"--columns", dest="columns_file",
help="the JSON file specifying the columns to be output",
)
if ("-i" not in exclude_args) and ("--input" not in exclude_args):
parser.add_argument(
"-i", "--input",
help="read input from the given file instead of from stdin",
dest='input_data',
)
if ("-c" not in exclude_args) and ("--column" not in exclude_args):
parser.add_argument("-c", "--column", action=ColumnsAction)
if "--pattern" not in exclude_args:
parser.add_argument("--pattern", action=ColumnsAction, nargs='+')
if "--max-length" not in exclude_args:
parser.add_argument("--max-length", action=ColumnsAction)
if "--strip" not in exclude_args:
parser.add_argument("--strip", nargs="?", action=ColumnsAction)
if "--deduplicate" not in exclude_args:
parser.add_argument("--deduplicate", nargs='?', action=ColumnsAction)
if "--case-sensitive" not in exclude_args:
parser.add_argument(
"--case-sensitive", nargs='?', action=ColumnsAction)
if "--unique" not in exclude_args:
parser.add_argument("--unique", nargs="?", action=ColumnsAction)
if ("-p" not in exclude_args) and ("--pretty" not in exclude_args):
parser.add_argument("-p", "--pretty", action="store_true")
return parser |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '10']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'parse'}; {'id': '3', 'type': 'parameters', 'children': ['4', '7']}; {'id': '4', 'type': 'default_parameter', 'children': ['5', '6']}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'parser'}; {'id': '6', 'type': 'None', 'children': []}; {'id': '7', 'type': 'default_parameter', 'children': ['8', '9']}; {'id': '8', 'type': 'identifier', 'children': [], 'value': 'args'}; {'id': '9', 'type': 'None', 'children': []}; {'id': '10', 'type': 'block', 'children': ['11', '21', '45', '70', '115', '165']}; {'id': '11', 'type': 'if_statement', 'children': ['12', '14']}; {'id': '12', 'type': 'not_operator', 'children': ['13']}; {'id': '13', 'type': 'identifier', 'children': [], 'value': 'parser'}; {'id': '14', 'type': 'block', 'children': ['15']}; {'id': '15', 'type': 'expression_statement', 'children': ['16']}; {'id': '16', 'type': 'assignment', 'children': ['17', '18']}; {'id': '17', 'type': 'identifier', 'children': [], 'value': 'parser'}; {'id': '18', 'type': 'call', 'children': ['19', '20']}; {'id': '19', 'type': 'identifier', 'children': [], 'value': 'make_parser'}; {'id': '20', 'type': 'argument_list', 'children': []}; {'id': '21', 'type': 'try_statement', 'children': ['22', '32']}; {'id': '22', 'type': 'block', 'children': ['23']}; {'id': '23', 'type': 'expression_statement', 'children': ['24']}; {'id': '24', 'type': 'assignment', 'children': ['25', '26']}; {'id': '25', 'type': 'identifier', 'children': [], 'value': 'parsed_args'}; {'id': '26', 'type': 'call', 'children': ['27', '30']}; {'id': '27', 'type': 'attribute', 'children': ['28', '29']}; {'id': '28', 'type': 'identifier', 'children': [], 'value': 'parser'}; {'id': '29', 'type': 'identifier', 'children': [], 'value': 'parse_args'}; {'id': '30', 'type': 'argument_list', 'children': ['31']}; {'id': '31', 'type': 'identifier', 'children': [], 'value': 'args'}; {'id': '32', 'type': 'except_clause', 'children': ['33', '37']}; {'id': '33', 'type': 'as_pattern', 'children': ['34', '35']}; {'id': '34', 'type': 'identifier', 'children': [], 'value': 'SystemExit'}; {'id': '35', 'type': 'as_pattern_target', 'children': ['36']}; {'id': '36', 'type': 'identifier', 'children': [], 'value': 'err'}; {'id': '37', 'type': 'block', 'children': ['38']}; {'id': '38', 'type': 'raise_statement', 'children': ['39']}; {'id': '39', 'type': 'call', 'children': ['40', '41']}; {'id': '40', 'type': 'identifier', 'children': [], 'value': 'CommandLineExit'}; {'id': '41', 'type': 'argument_list', 'children': ['42']}; {'id': '42', 'type': 'attribute', 'children': ['43', '44']}; {'id': '43', 'type': 'identifier', 'children': [], 'value': 'err'}; {'id': '44', 'type': 'identifier', 'children': [], 'value': 'code'}; {'id': '45', 'type': 'try_statement', 'children': ['46', '53']}; {'id': '46', 'type': 'block', 'children': ['47']}; {'id': '47', 'type': 'expression_statement', 'children': ['48']}; {'id': '48', 'type': 'assignment', 'children': ['49', '50']}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'columns'}; {'id': '50', 'type': 'attribute', 'children': ['51', '52']}; {'id': '51', 'type': 'identifier', 'children': [], 'value': 'parsed_args'}; {'id': '52', 'type': 'identifier', 'children': [], 'value': 'columns'}; {'id': '53', 'type': 'except_clause', 'children': ['54', '55']}; {'id': '54', 'type': 'identifier', 'children': [], 'value': 'AttributeError'}; {'id': '55', 'type': 'block', 'children': ['56', '64']}; {'id': '56', 'type': 'expression_statement', 'children': ['57']}; {'id': '57', 'type': 'assignment', 'children': ['58', '59']}; {'id': '58', 'type': 'identifier', 'children': [], 'value': 'columns'}; {'id': '59', 'type': 'call', 'children': ['60', '63']}; {'id': '60', 'type': 'attribute', 'children': ['61', '62']}; {'id': '61', 'type': 'identifier', 'children': [], 'value': 'collections'}; {'id': '62', 'type': 'identifier', 'children': [], 'value': 'OrderedDict'}; {'id': '63', 'type': 'argument_list', 'children': []}; {'id': '64', 'type': 'expression_statement', 'children': ['65']}; {'id': '65', 'type': 'assignment', 'children': ['66', '69']}; {'id': '66', 'type': 'attribute', 'children': ['67', '68']}; {'id': '67', 'type': 'identifier', 'children': [], 'value': 'parsed_args'}; {'id': '68', 'type': 'identifier', 'children': [], 'value': 'columns'}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'columns'}; {'id': '70', 'type': 'for_statement', 'children': ['71', '74', '79']}; {'id': '71', 'type': 'pattern_list', 'children': ['72', '73']}; {'id': '72', 'type': 'identifier', 'children': [], 'value': 'title'}; {'id': '73', 'type': 'identifier', 'children': [], 'value': 'spec'}; {'id': '74', 'type': 'call', 'children': ['75', '78']}; {'id': '75', 'type': 'attribute', 'children': ['76', '77']}; {'id': '76', 'type': 'identifier', 'children': [], 'value': 'columns'}; {'id': '77', 'type': 'identifier', 'children': [], 'value': 'items'}; {'id': '78', 'type': 'argument_list', 'children': []}; {'id': '79', 'type': 'block', 'children': ['80', '95']}; {'id': '80', 'type': 'if_statement', 'children': ['81', '84']}; {'id': '81', 'type': 'comparison_operator', 'children': ['82', '83'], 'value': 'not'}; {'id': '82', 'type': 'string', 'children': [], 'value': '"pattern"'}; {'id': '83', 'type': 'identifier', 'children': [], 'value': 'spec'}; {'id': '84', 'type': 'block', 'children': ['85']}; {'id': '85', 'type': 'raise_statement', 'children': ['86']}; {'id': '86', 'type': 'call', 'children': ['87', '88']}; {'id': '87', 'type': 'identifier', 'children': [], 'value': 'ColumnWithoutPatternError'}; {'id': '88', 'type': 'argument_list', 'children': ['89']}; {'id': '89', 'type': 'call', 'children': ['90', '93']}; {'id': '90', 'type': 'attribute', 'children': ['91', '92']}; {'id': '91', 'type': 'string', 'children': [], 'value': '\'Column "{0}" needs a pattern\''}; {'id': '92', 'type': 'identifier', 'children': [], 'value': 'format'}; {'id': '93', 'type': 'argument_list', 'children': ['94']}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'title'}; {'id': '95', 'type': 'if_statement', 'children': ['96', '104']}; {'id': '96', 'type': 'comparison_operator', 'children': ['97', '103'], 'value': '=='}; {'id': '97', 'type': 'call', 'children': ['98', '99']}; {'id': '98', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '99', 'type': 'argument_list', 'children': ['100']}; {'id': '100', 'type': 'subscript', 'children': ['101', '102']}; {'id': '101', 'type': 'identifier', 'children': [], 'value': 'spec'}; {'id': '102', 'type': 'string', 'children': [], 'value': '"pattern"'}; {'id': '103', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '104', 'type': 'block', 'children': ['105']}; {'id': '105', 'type': 'expression_statement', 'children': ['106']}; {'id': '106', 'type': 'assignment', 'children': ['107', '110']}; {'id': '107', 'type': 'subscript', 'children': ['108', '109']}; {'id': '108', 'type': 'identifier', 'children': [], 'value': 'spec'}; {'id': '109', 'type': 'string', 'children': [], 'value': '"pattern"'}; {'id': '110', 'type': 'subscript', 'children': ['111', '114']}; {'id': '111', 'type': 'subscript', 'children': ['112', '113']}; {'id': '112', 'type': 'identifier', 'children': [], 'value': 'spec'}; {'id': '113', 'type': 'string', 'children': [], 'value': '"pattern"'}; {'id': '114', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '115', 'type': 'if_statement', 'children': ['116', '121', '127', '143', '161']}; {'id': '116', 'type': 'boolean_operator', 'children': ['117', '118'], 'value': 'and'}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'columns'}; {'id': '118', 'type': 'attribute', 'children': ['119', '120']}; {'id': '119', 'type': 'identifier', 'children': [], 'value': 'parsed_args'}; {'id': '120', 'type': 'identifier', 'children': [], 'value': 'columns_file'}; {'id': '121', 'type': 'block', 'children': ['122']}; {'id': '122', 'type': 'raise_statement', 'children': ['123']}; {'id': '123', 'type': 'call', 'children': ['124', '125']}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'ColumnsAndColumnsFileError'}; {'id': '125', 'type': 'argument_list', 'children': ['126']}; {'id': '126', 'type': 'string', 'children': [], 'value': '"You can\'t use the --column and --columns options together (yet)"'}; {'id': '127', 'type': 'elif_clause', 'children': ['128', '134']}; {'id': '128', 'type': 'boolean_operator', 'children': ['129', '132'], 'value': 'and'}; {'id': '129', 'type': 'attribute', 'children': ['130', '131']}; {'id': '130', 'type': 'identifier', 'children': [], 'value': 'parsed_args'}; {'id': '131', 'type': 'identifier', 'children': [], 'value': 'columns_file'}; {'id': '132', 'type': 'not_operator', 'children': ['133']}; {'id': '133', 'type': 'identifier', 'children': [], 'value': 'columns'}; {'id': '134', 'type': 'block', 'children': ['135']}; {'id': '135', 'type': 'expression_statement', 'children': ['136']}; {'id': '136', 'type': 'assignment', 'children': ['137', '140']}; {'id': '137', 'type': 'attribute', 'children': ['138', '139']}; {'id': '138', 'type': 'identifier', 'children': [], 'value': 'parsed_args'}; {'id': '139', 'type': 'identifier', 'children': [], 'value': 'columns'}; {'id': '140', 'type': 'attribute', 'children': ['141', '142']}; {'id': '141', 'type': 'identifier', 'children': [], 'value': 'parsed_args'}; {'id': '142', 'type': 'identifier', 'children': [], 'value': 'columns_file'}; {'id': '143', 'type': 'elif_clause', 'children': ['144', '153']}; {'id': '144', 'type': 'boolean_operator', 'children': ['145', '148'], 'value': 'and'}; {'id': '145', 'type': '()', 'children': ['146']}; {'id': '146', 'type': 'not_operator', 'children': ['147']}; {'id': '147', 'type': 'identifier', 'children': [], 'value': 'columns'}; {'id': '148', 'type': '()', 'children': ['149']}; {'id': '149', 'type': 'not_operator', 'children': ['150']}; {'id': '150', 'type': 'attribute', 'children': ['151', '152']}; {'id': '151', 'type': 'identifier', 'children': [], 'value': 'parsed_args'}; {'id': '152', 'type': 'identifier', 'children': [], 'value': 'columns_file'}; {'id': '153', 'type': 'block', 'children': ['154']}; {'id': '154', 'type': 'raise_statement', 'children': ['155']}; {'id': '155', 'type': 'call', 'children': ['156', '157']}; {'id': '156', 'type': 'identifier', 'children': [], 'value': 'NoColumnsError'}; {'id': '157', 'type': 'argument_list', 'children': ['158']}; {'id': '158', 'type': 'concatenated_string', 'children': ['159', '160']}; {'id': '159', 'type': 'string', 'children': [], 'value': '"You must give either a --columns or at least one -c/--column "'}; {'id': '160', 'type': 'string', 'children': [], 'value': '"argument"'}; {'id': '161', 'type': 'else_clause', 'children': ['162']}; {'id': '162', 'type': 'block', 'children': ['163']}; {'id': '163', 'type': 'assert_statement', 'children': ['164']}; {'id': '164', 'type': 'identifier', 'children': [], 'value': 'columns'}; {'id': '165', 'type': 'return_statement', 'children': ['166']}; {'id': '166', 'type': 'identifier', 'children': [], 'value': 'parsed_args'} | def parse(parser=None, args=None):
if not parser:
parser = make_parser()
try:
parsed_args = parser.parse_args(args)
except SystemExit as err:
raise CommandLineExit(err.code)
try:
columns = parsed_args.columns
except AttributeError:
columns = collections.OrderedDict()
parsed_args.columns = columns
for title, spec in columns.items():
if "pattern" not in spec:
raise ColumnWithoutPatternError(
'Column "{0}" needs a pattern'.format(title))
if len(spec["pattern"]) == 1:
spec["pattern"] = spec["pattern"][0]
if columns and parsed_args.columns_file:
raise ColumnsAndColumnsFileError(
"You can't use the --column and --columns options together (yet)")
elif parsed_args.columns_file and not columns:
parsed_args.columns = parsed_args.columns_file
elif (not columns) and (not parsed_args.columns_file):
raise NoColumnsError(
"You must give either a --columns or at least one -c/--column "
"argument")
else:
assert columns
return parsed_args |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '21']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'read_value'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '9', '12', '15', '18']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'ftype'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'prompt'}; {'id': '6', 'type': 'default_parameter', 'children': ['7', '8']}; {'id': '7', 'type': 'identifier', 'children': [], 'value': 'default'}; {'id': '8', 'type': 'None', 'children': []}; {'id': '9', 'type': 'default_parameter', 'children': ['10', '11']}; {'id': '10', 'type': 'identifier', 'children': [], 'value': 'minval'}; {'id': '11', 'type': 'None', 'children': []}; {'id': '12', 'type': 'default_parameter', 'children': ['13', '14']}; {'id': '13', 'type': 'identifier', 'children': [], 'value': 'maxval'}; {'id': '14', 'type': 'None', 'children': []}; {'id': '15', 'type': 'default_parameter', 'children': ['16', '17']}; {'id': '16', 'type': 'identifier', 'children': [], 'value': 'allowed_single_chars'}; {'id': '17', 'type': 'None', 'children': []}; {'id': '18', 'type': 'default_parameter', 'children': ['19', '20']}; {'id': '19', 'type': 'identifier', 'children': [], 'value': 'question_mark'}; {'id': '20', 'type': 'True', 'children': []}; {'id': '21', 'type': 'block', 'children': ['22', '26', '39', '76', '113', '178', '182', '391']}; {'id': '22', 'type': 'expression_statement', 'children': ['23']}; {'id': '23', 'type': 'assignment', 'children': ['24', '25']}; {'id': '24', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '25', 'type': 'None', 'children': []}; {'id': '26', 'type': 'if_statement', 'children': ['27', '28', '33']}; {'id': '27', 'type': 'identifier', 'children': [], 'value': 'question_mark'}; {'id': '28', 'type': 'block', 'children': ['29']}; {'id': '29', 'type': 'expression_statement', 'children': ['30']}; {'id': '30', 'type': 'assignment', 'children': ['31', '32']}; {'id': '31', 'type': 'identifier', 'children': [], 'value': 'cquestion_mark'}; {'id': '32', 'type': 'string', 'children': [], 'value': "' ? '"}; {'id': '33', 'type': 'else_clause', 'children': ['34']}; {'id': '34', 'type': 'block', 'children': ['35']}; {'id': '35', 'type': 'expression_statement', 'children': ['36']}; {'id': '36', 'type': 'assignment', 'children': ['37', '38']}; {'id': '37', 'type': 'identifier', 'children': [], 'value': 'cquestion_mark'}; {'id': '38', 'type': 'string', 'children': [], 'value': "''"}; {'id': '39', 'type': 'if_statement', 'children': ['40', '43', '70']}; {'id': '40', 'type': 'comparison_operator', 'children': ['41', '42'], 'value': 'is'}; {'id': '41', 'type': 'identifier', 'children': [], 'value': 'minval'}; {'id': '42', 'type': 'None', 'children': []}; {'id': '43', 'type': 'block', 'children': ['44']}; {'id': '44', 'type': 'try_statement', 'children': ['45', '53']}; {'id': '45', 'type': 'block', 'children': ['46']}; {'id': '46', 'type': 'expression_statement', 'children': ['47']}; {'id': '47', 'type': 'assignment', 'children': ['48', '49']}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'iminval'}; {'id': '49', 'type': 'call', 'children': ['50', '51']}; {'id': '50', 'type': 'identifier', 'children': [], 'value': 'ftype'}; {'id': '51', 'type': 'argument_list', 'children': ['52']}; {'id': '52', 'type': 'identifier', 'children': [], 'value': 'minval'}; {'id': '53', 'type': 'except_clause', 'children': ['54', '55']}; {'id': '54', 'type': 'identifier', 'children': [], 'value': 'ValueError'}; {'id': '55', 'type': 'block', 'children': ['56']}; {'id': '56', 'type': 'raise_statement', 'children': ['57']}; {'id': '57', 'type': 'call', 'children': ['58', '59']}; {'id': '58', 'type': 'identifier', 'children': [], 'value': 'ValueError'}; {'id': '59', 'type': 'argument_list', 'children': ['60']}; {'id': '60', 'type': 'binary_operator', 'children': ['61', '69'], 'value': '+'}; {'id': '61', 'type': 'binary_operator', 'children': ['62', '68'], 'value': '+'}; {'id': '62', 'type': 'binary_operator', 'children': ['63', '64'], 'value': '+'}; {'id': '63', 'type': 'string', 'children': [], 'value': '"\'"'}; {'id': '64', 'type': 'call', 'children': ['65', '66']}; {'id': '65', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '66', 'type': 'argument_list', 'children': ['67']}; {'id': '67', 'type': 'identifier', 'children': [], 'value': 'minval'}; {'id': '68', 'type': 'string', 'children': [], 'value': '"\' cannot "'}; {'id': '69', 'type': 'string', 'children': [], 'value': '"be used as an minval in readi()"'}; {'id': '70', 'type': 'else_clause', 'children': ['71']}; {'id': '71', 'type': 'block', 'children': ['72']}; {'id': '72', 'type': 'expression_statement', 'children': ['73']}; {'id': '73', 'type': 'assignment', 'children': ['74', '75']}; {'id': '74', 'type': 'identifier', 'children': [], 'value': 'iminval'}; {'id': '75', 'type': 'None', 'children': []}; {'id': '76', 'type': 'if_statement', 'children': ['77', '80', '107']}; {'id': '77', 'type': 'comparison_operator', 'children': ['78', '79'], 'value': 'is'}; {'id': '78', 'type': 'identifier', 'children': [], 'value': 'maxval'}; {'id': '79', 'type': 'None', 'children': []}; {'id': '80', 'type': 'block', 'children': ['81']}; {'id': '81', 'type': 'try_statement', 'children': ['82', '90']}; {'id': '82', 'type': 'block', 'children': ['83']}; {'id': '83', 'type': 'expression_statement', 'children': ['84']}; {'id': '84', 'type': 'assignment', 'children': ['85', '86']}; {'id': '85', 'type': 'identifier', 'children': [], 'value': 'imaxval'}; {'id': '86', 'type': 'call', 'children': ['87', '88']}; {'id': '87', 'type': 'identifier', 'children': [], 'value': 'ftype'}; {'id': '88', 'type': 'argument_list', 'children': ['89']}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'maxval'}; {'id': '90', 'type': 'except_clause', 'children': ['91', '92']}; {'id': '91', 'type': 'identifier', 'children': [], 'value': 'ValueError'}; {'id': '92', 'type': 'block', 'children': ['93']}; {'id': '93', 'type': 'raise_statement', 'children': ['94']}; {'id': '94', 'type': 'call', 'children': ['95', '96']}; {'id': '95', 'type': 'identifier', 'children': [], 'value': 'ValueError'}; {'id': '96', 'type': 'argument_list', 'children': ['97']}; {'id': '97', 'type': 'binary_operator', 'children': ['98', '106'], 'value': '+'}; {'id': '98', 'type': 'binary_operator', 'children': ['99', '105'], 'value': '+'}; {'id': '99', 'type': 'binary_operator', 'children': ['100', '101'], 'value': '+'}; {'id': '100', 'type': 'string', 'children': [], 'value': '"\'"'}; {'id': '101', 'type': 'call', 'children': ['102', '103']}; {'id': '102', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '103', 'type': 'argument_list', 'children': ['104']}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'maxval'}; {'id': '105', 'type': 'string', 'children': [], 'value': '"\' cannot "'}; {'id': '106', 'type': 'string', 'children': [], 'value': '"be used as an maxval in readi()"'}; {'id': '107', 'type': 'else_clause', 'children': ['108']}; {'id': '108', 'type': 'block', 'children': ['109']}; {'id': '109', 'type': 'expression_statement', 'children': ['110']}; {'id': '110', 'type': 'assignment', 'children': ['111', '112']}; {'id': '111', 'type': 'identifier', 'children': [], 'value': 'imaxval'}; {'id': '112', 'type': 'None', 'children': []}; {'id': '113', 'type': 'if_statement', 'children': ['114', '121', '126', '142', '158']}; {'id': '114', 'type': 'boolean_operator', 'children': ['115', '118'], 'value': 'and'}; {'id': '115', 'type': 'comparison_operator', 'children': ['116', '117'], 'value': 'is'}; {'id': '116', 'type': 'identifier', 'children': [], 'value': 'minval'}; {'id': '117', 'type': 'None', 'children': []}; {'id': '118', 'type': 'comparison_operator', 'children': ['119', '120'], 'value': 'is'}; {'id': '119', 'type': 'identifier', 'children': [], 'value': 'maxval'}; {'id': '120', 'type': 'None', 'children': []}; {'id': '121', 'type': 'block', 'children': ['122']}; {'id': '122', 'type': 'expression_statement', 'children': ['123']}; {'id': '123', 'type': 'assignment', 'children': ['124', '125']}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'cminmax'}; {'id': '125', 'type': 'string', 'children': [], 'value': "''"}; {'id': '126', 'type': 'elif_clause', 'children': ['127', '130']}; {'id': '127', 'type': 'comparison_operator', 'children': ['128', '129'], 'value': 'is'}; {'id': '128', 'type': 'identifier', 'children': [], 'value': 'minval'}; {'id': '129', 'type': 'None', 'children': []}; {'id': '130', 'type': 'block', 'children': ['131']}; {'id': '131', 'type': 'expression_statement', 'children': ['132']}; {'id': '132', 'type': 'assignment', 'children': ['133', '134']}; {'id': '133', 'type': 'identifier', 'children': [], 'value': 'cminmax'}; {'id': '134', 'type': 'binary_operator', 'children': ['135', '141'], 'value': '+'}; {'id': '135', 'type': 'binary_operator', 'children': ['136', '137'], 'value': '+'}; {'id': '136', 'type': 'string', 'children': [], 'value': "' (number <= '"}; {'id': '137', 'type': 'call', 'children': ['138', '139']}; {'id': '138', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '139', 'type': 'argument_list', 'children': ['140']}; {'id': '140', 'type': 'identifier', 'children': [], 'value': 'imaxval'}; {'id': '141', 'type': 'string', 'children': [], 'value': "')'"}; {'id': '142', 'type': 'elif_clause', 'children': ['143', '146']}; {'id': '143', 'type': 'comparison_operator', 'children': ['144', '145'], 'value': 'is'}; {'id': '144', 'type': 'identifier', 'children': [], 'value': 'maxval'}; {'id': '145', 'type': 'None', 'children': []}; {'id': '146', 'type': 'block', 'children': ['147']}; {'id': '147', 'type': 'expression_statement', 'children': ['148']}; {'id': '148', 'type': 'assignment', 'children': ['149', '150']}; {'id': '149', 'type': 'identifier', 'children': [], 'value': 'cminmax'}; {'id': '150', 'type': 'binary_operator', 'children': ['151', '157'], 'value': '+'}; {'id': '151', 'type': 'binary_operator', 'children': ['152', '153'], 'value': '+'}; {'id': '152', 'type': 'string', 'children': [], 'value': "' (number >= '"}; {'id': '153', 'type': 'call', 'children': ['154', '155']}; {'id': '154', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '155', 'type': 'argument_list', 'children': ['156']}; {'id': '156', 'type': 'identifier', 'children': [], 'value': 'iminval'}; {'id': '157', 'type': 'string', 'children': [], 'value': "')'"}; {'id': '158', 'type': 'else_clause', 'children': ['159']}; {'id': '159', 'type': 'block', 'children': ['160']}; {'id': '160', 'type': 'expression_statement', 'children': ['161']}; {'id': '161', 'type': 'assignment', 'children': ['162', '163']}; {'id': '162', 'type': 'identifier', 'children': [], 'value': 'cminmax'}; {'id': '163', 'type': 'binary_operator', 'children': ['164', '177'], 'value': '+'}; {'id': '164', 'type': 'binary_operator', 'children': ['165', '173'], 'value': '+'}; {'id': '165', 'type': 'binary_operator', 'children': ['166', '172'], 'value': '+'}; {'id': '166', 'type': 'binary_operator', 'children': ['167', '168'], 'value': '+'}; {'id': '167', 'type': 'string', 'children': [], 'value': "' ('"}; {'id': '168', 'type': 'call', 'children': ['169', '170']}; {'id': '169', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '170', 'type': 'argument_list', 'children': ['171']}; {'id': '171', 'type': 'identifier', 'children': [], 'value': 'minval'}; {'id': '172', 'type': 'string', 'children': [], 'value': "' <= number <= '"}; {'id': '173', 'type': 'call', 'children': ['174', '175']}; {'id': '174', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '175', 'type': 'argument_list', 'children': ['176']}; {'id': '176', 'type': 'identifier', 'children': [], 'value': 'maxval'}; {'id': '177', 'type': 'string', 'children': [], 'value': "')'"}; {'id': '178', 'type': 'expression_statement', 'children': ['179']}; {'id': '179', 'type': 'assignment', 'children': ['180', '181']}; {'id': '180', 'type': 'identifier', 'children': [], 'value': 'loop'}; {'id': '181', 'type': 'True', 'children': []}; {'id': '182', 'type': 'while_statement', 'children': ['183', '184']}; {'id': '183', 'type': 'identifier', 'children': [], 'value': 'loop'}; {'id': '184', 'type': 'block', 'children': ['185', '241', '255', '271', '291']}; {'id': '185', 'type': 'if_statement', 'children': ['186', '189', '210']}; {'id': '186', 'type': 'comparison_operator', 'children': ['187', '188'], 'value': 'is'}; {'id': '187', 'type': 'identifier', 'children': [], 'value': 'default'}; {'id': '188', 'type': 'None', 'children': []}; {'id': '189', 'type': 'block', 'children': ['190', '202']}; {'id': '190', 'type': 'expression_statement', 'children': ['191']}; {'id': '191', 'type': 'call', 'children': ['192', '193']}; {'id': '192', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '193', 'type': 'argument_list', 'children': ['194', '199']}; {'id': '194', 'type': 'binary_operator', 'children': ['195', '198'], 'value': '+'}; {'id': '195', 'type': 'binary_operator', 'children': ['196', '197'], 'value': '+'}; {'id': '196', 'type': 'identifier', 'children': [], 'value': 'prompt'}; {'id': '197', 'type': 'identifier', 'children': [], 'value': 'cminmax'}; {'id': '198', 'type': 'identifier', 'children': [], 'value': 'cquestion_mark'}; {'id': '199', 'type': 'keyword_argument', 'children': ['200', '201']}; {'id': '200', 'type': 'identifier', 'children': [], 'value': 'end'}; {'id': '201', 'type': 'string', 'children': [], 'value': "''"}; {'id': '202', 'type': 'expression_statement', 'children': ['203']}; {'id': '203', 'type': 'call', 'children': ['204', '209']}; {'id': '204', 'type': 'attribute', 'children': ['205', '208']}; {'id': '205', 'type': 'attribute', 'children': ['206', '207']}; {'id': '206', 'type': 'identifier', 'children': [], 'value': 'sys'}; {'id': '207', 'type': 'identifier', 'children': [], 'value': 'stdout'}; {'id': '208', 'type': 'identifier', 'children': [], 'value': 'flush'}; {'id': '209', 'type': 'argument_list', 'children': []}; {'id': '210', 'type': 'else_clause', 'children': ['211']}; {'id': '211', 'type': 'block', 'children': ['212', '233']}; {'id': '212', 'type': 'expression_statement', 'children': ['213']}; {'id': '213', 'type': 'call', 'children': ['214', '215']}; {'id': '214', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '215', 'type': 'argument_list', 'children': ['216', '230']}; {'id': '216', 'type': 'binary_operator', 'children': ['217', '229'], 'value': '+'}; {'id': '217', 'type': 'binary_operator', 'children': ['218', '228'], 'value': '+'}; {'id': '218', 'type': 'binary_operator', 'children': ['219', '224'], 'value': '+'}; {'id': '219', 'type': 'binary_operator', 'children': ['220', '223'], 'value': '+'}; {'id': '220', 'type': 'binary_operator', 'children': ['221', '222'], 'value': '+'}; {'id': '221', 'type': 'identifier', 'children': [], 'value': 'prompt'}; {'id': '222', 'type': 'identifier', 'children': [], 'value': 'cminmax'}; {'id': '223', 'type': 'string', 'children': [], 'value': "' ['"}; {'id': '224', 'type': 'call', 'children': ['225', '226']}; {'id': '225', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '226', 'type': 'argument_list', 'children': ['227']}; {'id': '227', 'type': 'identifier', 'children': [], 'value': 'default'}; {'id': '228', 'type': 'string', 'children': [], 'value': "']'"}; {'id': '229', 'type': 'identifier', 'children': [], 'value': 'cquestion_mark'}; {'id': '230', 'type': 'keyword_argument', 'children': ['231', '232']}; {'id': '231', 'type': 'identifier', 'children': [], 'value': 'end'}; {'id': '232', 'type': 'string', 'children': [], 'value': "''"}; {'id': '233', 'type': 'expression_statement', 'children': ['234']}; {'id': '234', 'type': 'call', 'children': ['235', '240']}; {'id': '235', 'type': 'attribute', 'children': ['236', '239']}; {'id': '236', 'type': 'attribute', 'children': ['237', '238']}; {'id': '237', 'type': 'identifier', 'children': [], 'value': 'sys'}; {'id': '238', 'type': 'identifier', 'children': [], 'value': 'stdout'}; {'id': '239', 'type': 'identifier', 'children': [], 'value': 'flush'}; {'id': '240', 'type': 'argument_list', 'children': []}; {'id': '241', 'type': 'expression_statement', 'children': ['242']}; {'id': '242', 'type': 'assignment', 'children': ['243', '244']}; {'id': '243', 'type': 'identifier', 'children': [], 'value': 'cresult'}; {'id': '244', 'type': 'call', 'children': ['245', '254']}; {'id': '245', 'type': 'attribute', 'children': ['246', '253']}; {'id': '246', 'type': 'call', 'children': ['247', '252']}; {'id': '247', 'type': 'attribute', 'children': ['248', '251']}; {'id': '248', 'type': 'attribute', 'children': ['249', '250']}; {'id': '249', 'type': 'identifier', 'children': [], 'value': 'sys'}; {'id': '250', 'type': 'identifier', 'children': [], 'value': 'stdin'}; {'id': '251', 'type': 'identifier', 'children': [], 'value': 'readline'}; {'id': '252', 'type': 'argument_list', 'children': []}; {'id': '253', 'type': 'identifier', 'children': [], 'value': 'strip'}; {'id': '254', 'type': 'argument_list', 'children': []}; {'id': '255', 'type': 'if_statement', 'children': ['256', '263']}; {'id': '256', 'type': 'boolean_operator', 'children': ['257', '260'], 'value': 'and'}; {'id': '257', 'type': 'comparison_operator', 'children': ['258', '259'], 'value': '=='}; {'id': '258', 'type': 'identifier', 'children': [], 'value': 'cresult'}; {'id': '259', 'type': 'string', 'children': [], 'value': "''"}; {'id': '260', 'type': 'comparison_operator', 'children': ['261', '262'], 'value': 'is'}; {'id': '261', 'type': 'identifier', 'children': [], 'value': 'default'}; {'id': '262', 'type': 'None', 'children': []}; {'id': '263', 'type': 'block', 'children': ['264']}; {'id': '264', 'type': 'expression_statement', 'children': ['265']}; {'id': '265', 'type': 'assignment', 'children': ['266', '267']}; {'id': '266', 'type': 'identifier', 'children': [], 'value': 'cresult'}; {'id': '267', 'type': 'call', 'children': ['268', '269']}; {'id': '268', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '269', 'type': 'argument_list', 'children': ['270']}; {'id': '270', 'type': 'identifier', 'children': [], 'value': 'default'}; {'id': '271', 'type': 'if_statement', 'children': ['272', '278']}; {'id': '272', 'type': 'comparison_operator', 'children': ['273', '277'], 'value': '=='}; {'id': '273', 'type': 'call', 'children': ['274', '275']}; {'id': '274', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '275', 'type': 'argument_list', 'children': ['276']}; {'id': '276', 'type': 'identifier', 'children': [], 'value': 'cresult'}; {'id': '277', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '278', 'type': 'block', 'children': ['279']}; {'id': '279', 'type': 'if_statement', 'children': ['280', '283']}; {'id': '280', 'type': 'comparison_operator', 'children': ['281', '282'], 'value': 'is'}; {'id': '281', 'type': 'identifier', 'children': [], 'value': 'allowed_single_chars'}; {'id': '282', 'type': 'None', 'children': []}; {'id': '283', 'type': 'block', 'children': ['284']}; {'id': '284', 'type': 'if_statement', 'children': ['285', '288']}; {'id': '285', 'type': 'comparison_operator', 'children': ['286', '287'], 'value': 'in'}; {'id': '286', 'type': 'identifier', 'children': [], 'value': 'cresult'}; {'id': '287', 'type': 'identifier', 'children': [], 'value': 'allowed_single_chars'}; {'id': '288', 'type': 'block', 'children': ['289']}; {'id': '289', 'type': 'return_statement', 'children': ['290']}; {'id': '290', 'type': 'identifier', 'children': [], 'value': 'cresult'}; {'id': '291', 'type': 'try_statement', 'children': ['292', '300', '315']}; {'id': '292', 'type': 'block', 'children': ['293']}; {'id': '293', 'type': 'expression_statement', 'children': ['294']}; {'id': '294', 'type': 'assignment', 'children': ['295', '296']}; {'id': '295', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '296', 'type': 'call', 'children': ['297', '298']}; {'id': '297', 'type': 'identifier', 'children': [], 'value': 'ftype'}; {'id': '298', 'type': 'argument_list', 'children': ['299']}; {'id': '299', 'type': 'identifier', 'children': [], 'value': 'cresult'}; {'id': '300', 'type': 'except_clause', 'children': ['301', '302']}; {'id': '301', 'type': 'identifier', 'children': [], 'value': 'ValueError'}; {'id': '302', 'type': 'block', 'children': ['303']}; {'id': '303', 'type': 'expression_statement', 'children': ['304']}; {'id': '304', 'type': 'call', 'children': ['305', '306']}; {'id': '305', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '306', 'type': 'argument_list', 'children': ['307']}; {'id': '307', 'type': 'binary_operator', 'children': ['308', '314'], 'value': '+'}; {'id': '308', 'type': 'binary_operator', 'children': ['309', '310'], 'value': '+'}; {'id': '309', 'type': 'string', 'children': [], 'value': '"*** Error: invalid "'}; {'id': '310', 'type': 'call', 'children': ['311', '312']}; {'id': '311', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '312', 'type': 'argument_list', 'children': ['313']}; {'id': '313', 'type': 'identifier', 'children': [], 'value': 'ftype'}; {'id': '314', 'type': 'string', 'children': [], 'value': '" value. Try again!"'}; {'id': '315', 'type': 'else_clause', 'children': ['316']}; {'id': '316', 'type': 'block', 'children': ['317']}; {'id': '317', 'type': 'if_statement', 'children': ['318', '325', '330', '351', '372']}; {'id': '318', 'type': 'boolean_operator', 'children': ['319', '322'], 'value': 'and'}; {'id': '319', 'type': 'comparison_operator', 'children': ['320', '321'], 'value': 'is'}; {'id': '320', 'type': 'identifier', 'children': [], 'value': 'minval'}; {'id': '321', 'type': 'None', 'children': []}; {'id': '322', 'type': 'comparison_operator', 'children': ['323', '324'], 'value': 'is'}; {'id': '323', 'type': 'identifier', 'children': [], 'value': 'maxval'}; {'id': '324', 'type': 'None', 'children': []}; {'id': '325', 'type': 'block', 'children': ['326']}; {'id': '326', 'type': 'expression_statement', 'children': ['327']}; {'id': '327', 'type': 'assignment', 'children': ['328', '329']}; {'id': '328', 'type': 'identifier', 'children': [], 'value': 'loop'}; {'id': '329', 'type': 'False', 'children': []}; {'id': '330', 'type': 'elif_clause', 'children': ['331', '334']}; {'id': '331', 'type': 'comparison_operator', 'children': ['332', '333'], 'value': 'is'}; {'id': '332', 'type': 'identifier', 'children': [], 'value': 'minval'}; {'id': '333', 'type': 'None', 'children': []}; {'id': '334', 'type': 'block', 'children': ['335']}; {'id': '335', 'type': 'if_statement', 'children': ['336', '339', '344']}; {'id': '336', 'type': 'comparison_operator', 'children': ['337', '338'], 'value': '<='}; {'id': '337', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '338', 'type': 'identifier', 'children': [], 'value': 'imaxval'}; {'id': '339', 'type': 'block', 'children': ['340']}; {'id': '340', 'type': 'expression_statement', 'children': ['341']}; {'id': '341', 'type': 'assignment', 'children': ['342', '343']}; {'id': '342', 'type': 'identifier', 'children': [], 'value': 'loop'}; {'id': '343', 'type': 'False', 'children': []}; {'id': '344', 'type': 'else_clause', 'children': ['345']}; {'id': '345', 'type': 'block', 'children': ['346']}; {'id': '346', 'type': 'expression_statement', 'children': ['347']}; {'id': '347', 'type': 'call', 'children': ['348', '349']}; {'id': '348', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '349', 'type': 'argument_list', 'children': ['350']}; {'id': '350', 'type': 'string', 'children': [], 'value': '"*** Error: number out of range. Try again!"'}; {'id': '351', 'type': 'elif_clause', 'children': ['352', '355']}; {'id': '352', 'type': 'comparison_operator', 'children': ['353', '354'], 'value': 'is'}; {'id': '353', 'type': 'identifier', 'children': [], 'value': 'maxval'}; {'id': '354', 'type': 'None', 'children': []}; {'id': '355', 'type': 'block', 'children': ['356']}; {'id': '356', 'type': 'if_statement', 'children': ['357', '360', '365']}; {'id': '357', 'type': 'comparison_operator', 'children': ['358', '359'], 'value': '>='}; {'id': '358', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '359', 'type': 'identifier', 'children': [], 'value': 'iminval'}; {'id': '360', 'type': 'block', 'children': ['361']}; {'id': '361', 'type': 'expression_statement', 'children': ['362']}; {'id': '362', 'type': 'assignment', 'children': ['363', '364']}; {'id': '363', 'type': 'identifier', 'children': [], 'value': 'loop'}; {'id': '364', 'type': 'False', 'children': []}; {'id': '365', 'type': 'else_clause', 'children': ['366']}; {'id': '366', 'type': 'block', 'children': ['367']}; {'id': '367', 'type': 'expression_statement', 'children': ['368']}; {'id': '368', 'type': 'call', 'children': ['369', '370']}; {'id': '369', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '370', 'type': 'argument_list', 'children': ['371']}; {'id': '371', 'type': 'string', 'children': [], 'value': '"*** Error: number out of range. Try again!"'}; {'id': '372', 'type': 'else_clause', 'children': ['373']}; {'id': '373', 'type': 'block', 'children': ['374']}; {'id': '374', 'type': 'if_statement', 'children': ['375', '379', '384']}; {'id': '375', 'type': 'comparison_operator', 'children': ['376', '377', '378'], 'value': '<='}; {'id': '376', 'type': 'identifier', 'children': [], 'value': 'iminval'}; {'id': '377', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '378', 'type': 'identifier', 'children': [], 'value': 'imaxval'}; {'id': '379', 'type': 'block', 'children': ['380']}; {'id': '380', 'type': 'expression_statement', 'children': ['381']}; {'id': '381', 'type': 'assignment', 'children': ['382', '383']}; {'id': '382', 'type': 'identifier', 'children': [], 'value': 'loop'}; {'id': '383', 'type': 'False', 'children': []}; {'id': '384', 'type': 'else_clause', 'children': ['385']}; {'id': '385', 'type': 'block', 'children': ['386']}; {'id': '386', 'type': 'expression_statement', 'children': ['387']}; {'id': '387', 'type': 'call', 'children': ['388', '389']}; {'id': '388', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '389', 'type': 'argument_list', 'children': ['390']}; {'id': '390', 'type': 'string', 'children': [], 'value': '"*** Error: number out of range. Try again!"'}; {'id': '391', 'type': 'return_statement', 'children': ['392']}; {'id': '392', 'type': 'identifier', 'children': [], 'value': 'result'} | def read_value(ftype, prompt, default=None, minval=None, maxval=None,
allowed_single_chars=None, question_mark=True):
result = None
if question_mark:
cquestion_mark = ' ? '
else:
cquestion_mark = ''
if minval is not None:
try:
iminval = ftype(minval)
except ValueError:
raise ValueError("'" + str(minval) + "' cannot " +
"be used as an minval in readi()")
else:
iminval = None
if maxval is not None:
try:
imaxval = ftype(maxval)
except ValueError:
raise ValueError("'" + str(maxval) + "' cannot " +
"be used as an maxval in readi()")
else:
imaxval = None
if minval is None and maxval is None:
cminmax = ''
elif minval is None:
cminmax = ' (number <= ' + str(imaxval) + ')'
elif maxval is None:
cminmax = ' (number >= ' + str(iminval) + ')'
else:
cminmax = ' (' + str(minval) + ' <= number <= ' + str(maxval) + ')'
loop = True
while loop:
if default is None:
print(prompt + cminmax + cquestion_mark, end='')
sys.stdout.flush()
else:
print(prompt + cminmax + ' [' + str(default) + ']' +
cquestion_mark, end='')
sys.stdout.flush()
cresult = sys.stdin.readline().strip()
if cresult == '' and default is not None:
cresult = str(default)
if len(cresult) == 1:
if allowed_single_chars is not None:
if cresult in allowed_single_chars:
return cresult
try:
result = ftype(cresult)
except ValueError:
print("*** Error: invalid " + str(ftype) + " value. Try again!")
else:
if minval is None and maxval is None:
loop = False
elif minval is None:
if result <= imaxval:
loop = False
else:
print("*** Error: number out of range. Try again!")
elif maxval is None:
if result >= iminval:
loop = False
else:
print("*** Error: number out of range. Try again!")
else:
if iminval <= result <= imaxval:
loop = False
else:
print("*** Error: number out of range. Try again!")
return result |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '6']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'select_configuration'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'obresult'}; {'id': '6', 'type': 'block', 'children': ['7', '16', '23', '31', '41']}; {'id': '7', 'type': 'expression_statement', 'children': ['8']}; {'id': '8', 'type': 'assignment', 'children': ['9', '10']}; {'id': '9', 'type': 'identifier', 'children': [], 'value': 'logger'}; {'id': '10', 'type': 'call', 'children': ['11', '14']}; {'id': '11', 'type': 'attribute', 'children': ['12', '13']}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'logging'}; {'id': '13', 'type': 'identifier', 'children': [], 'value': 'getLogger'}; {'id': '14', 'type': 'argument_list', 'children': ['15']}; {'id': '15', 'type': 'identifier', 'children': [], 'value': '__name__'}; {'id': '16', 'type': 'expression_statement', 'children': ['17']}; {'id': '17', 'type': 'call', 'children': ['18', '21']}; {'id': '18', 'type': 'attribute', 'children': ['19', '20']}; {'id': '19', 'type': 'identifier', 'children': [], 'value': 'logger'}; {'id': '20', 'type': 'identifier', 'children': [], 'value': 'debug'}; {'id': '21', 'type': 'argument_list', 'children': ['22']}; {'id': '22', 'type': 'string', 'children': [], 'value': "'calling default configuration selector'"}; {'id': '23', 'type': 'expression_statement', 'children': ['24']}; {'id': '24', 'type': 'assignment', 'children': ['25', '26']}; {'id': '25', 'type': 'identifier', 'children': [], 'value': 'ref'}; {'id': '26', 'type': 'call', 'children': ['27', '30']}; {'id': '27', 'type': 'attribute', 'children': ['28', '29']}; {'id': '28', 'type': 'identifier', 'children': [], 'value': 'obresult'}; {'id': '29', 'type': 'identifier', 'children': [], 'value': 'get_sample_frame'}; {'id': '30', 'type': 'argument_list', 'children': []}; {'id': '31', 'type': 'expression_statement', 'children': ['32']}; {'id': '32', 'type': 'assignment', 'children': ['33', '34']}; {'id': '33', 'type': 'identifier', 'children': [], 'value': 'extr'}; {'id': '34', 'type': 'subscript', 'children': ['35', '40']}; {'id': '35', 'type': 'attribute', 'children': ['36', '39']}; {'id': '36', 'type': 'attribute', 'children': ['37', '38']}; {'id': '37', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '38', 'type': 'identifier', 'children': [], 'value': 'datamodel'}; {'id': '39', 'type': 'identifier', 'children': [], 'value': 'extractor_map'}; {'id': '40', 'type': 'string', 'children': [], 'value': "'fits'"}; {'id': '41', 'type': 'if_statement', 'children': ['42', '43', '180']}; {'id': '42', 'type': 'identifier', 'children': [], 'value': 'ref'}; {'id': '43', 'type': 'block', 'children': ['44', '54', '111', '121']}; {'id': '44', 'type': 'expression_statement', 'children': ['45']}; {'id': '45', 'type': 'assignment', 'children': ['46', '47']}; {'id': '46', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '47', 'type': 'call', 'children': ['48', '51']}; {'id': '48', 'type': 'attribute', 'children': ['49', '50']}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'extr'}; {'id': '50', 'type': 'identifier', 'children': [], 'value': 'extract'}; {'id': '51', 'type': 'argument_list', 'children': ['52', '53']}; {'id': '52', 'type': 'string', 'children': [], 'value': "'insconf'"}; {'id': '53', 'type': 'identifier', 'children': [], 'value': 'ref'}; {'id': '54', 'type': 'if_statement', 'children': ['55', '56']}; {'id': '55', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '56', 'type': 'block', 'children': ['57', '65']}; {'id': '57', 'type': 'expression_statement', 'children': ['58']}; {'id': '58', 'type': 'call', 'children': ['59', '62']}; {'id': '59', 'type': 'attribute', 'children': ['60', '61']}; {'id': '60', 'type': 'identifier', 'children': [], 'value': 'logger'}; {'id': '61', 'type': 'identifier', 'children': [], 'value': 'debug'}; {'id': '62', 'type': 'argument_list', 'children': ['63', '64']}; {'id': '63', 'type': 'string', 'children': [], 'value': "'found insconf config uuid=%s'"}; {'id': '64', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '65', 'type': 'if_statement', 'children': ['66', '71', '78']}; {'id': '66', 'type': 'comparison_operator', 'children': ['67', '68'], 'value': 'in'}; {'id': '67', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '68', 'type': 'attribute', 'children': ['69', '70']}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '70', 'type': 'identifier', 'children': [], 'value': 'configurations'}; {'id': '71', 'type': 'block', 'children': ['72']}; {'id': '72', 'type': 'return_statement', 'children': ['73']}; {'id': '73', 'type': 'subscript', 'children': ['74', '77']}; {'id': '74', 'type': 'attribute', 'children': ['75', '76']}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '76', 'type': 'identifier', 'children': [], 'value': 'configurations'}; {'id': '77', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '78', 'type': 'else_clause', 'children': ['79']}; {'id': '79', 'type': 'block', 'children': ['80']}; {'id': '80', 'type': 'for_statement', 'children': ['81', '82', '89', '99']}; {'id': '81', 'type': 'identifier', 'children': [], 'value': 'conf'}; {'id': '82', 'type': 'call', 'children': ['83', '88']}; {'id': '83', 'type': 'attribute', 'children': ['84', '87']}; {'id': '84', 'type': 'attribute', 'children': ['85', '86']}; {'id': '85', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '86', 'type': 'identifier', 'children': [], 'value': 'configurations'}; {'id': '87', 'type': 'identifier', 'children': [], 'value': 'values'}; {'id': '88', 'type': 'argument_list', 'children': []}; {'id': '89', 'type': 'block', 'children': ['90']}; {'id': '90', 'type': 'if_statement', 'children': ['91', '96']}; {'id': '91', 'type': 'comparison_operator', 'children': ['92', '95'], 'value': '=='}; {'id': '92', 'type': 'attribute', 'children': ['93', '94']}; {'id': '93', 'type': 'identifier', 'children': [], 'value': 'conf'}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '95', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '96', 'type': 'block', 'children': ['97']}; {'id': '97', 'type': 'return_statement', 'children': ['98']}; {'id': '98', 'type': 'identifier', 'children': [], 'value': 'conf'}; {'id': '99', 'type': 'else_clause', 'children': ['100']}; {'id': '100', 'type': 'block', 'children': ['101']}; {'id': '101', 'type': 'raise_statement', 'children': ['102']}; {'id': '102', 'type': 'call', 'children': ['103', '104']}; {'id': '103', 'type': 'identifier', 'children': [], 'value': 'KeyError'}; {'id': '104', 'type': 'argument_list', 'children': ['105']}; {'id': '105', 'type': 'call', 'children': ['106', '109']}; {'id': '106', 'type': 'attribute', 'children': ['107', '108']}; {'id': '107', 'type': 'string', 'children': [], 'value': "'insconf {} does not match any config'"}; {'id': '108', 'type': 'identifier', 'children': [], 'value': 'format'}; {'id': '109', 'type': 'argument_list', 'children': ['110']}; {'id': '110', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '111', 'type': 'expression_statement', 'children': ['112']}; {'id': '112', 'type': 'assignment', 'children': ['113', '114']}; {'id': '113', 'type': 'identifier', 'children': [], 'value': 'date_obs'}; {'id': '114', 'type': 'call', 'children': ['115', '118']}; {'id': '115', 'type': 'attribute', 'children': ['116', '117']}; {'id': '116', 'type': 'identifier', 'children': [], 'value': 'extr'}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'extract'}; {'id': '118', 'type': 'argument_list', 'children': ['119', '120']}; {'id': '119', 'type': 'string', 'children': [], 'value': "'observation_date'"}; {'id': '120', 'type': 'identifier', 'children': [], 'value': 'ref'}; {'id': '121', 'type': 'for_statement', 'children': ['122', '125', '132']}; {'id': '122', 'type': 'pattern_list', 'children': ['123', '124']}; {'id': '123', 'type': 'identifier', 'children': [], 'value': 'key'}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'conf'}; {'id': '125', 'type': 'call', 'children': ['126', '131']}; {'id': '126', 'type': 'attribute', 'children': ['127', '130']}; {'id': '127', 'type': 'attribute', 'children': ['128', '129']}; {'id': '128', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '129', 'type': 'identifier', 'children': [], 'value': 'configurations'}; {'id': '130', 'type': 'identifier', 'children': [], 'value': 'items'}; {'id': '131', 'type': 'argument_list', 'children': []}; {'id': '132', 'type': 'block', 'children': ['133', '139', '160']}; {'id': '133', 'type': 'if_statement', 'children': ['134', '137']}; {'id': '134', 'type': 'comparison_operator', 'children': ['135', '136'], 'value': '=='}; {'id': '135', 'type': 'identifier', 'children': [], 'value': 'key'}; {'id': '136', 'type': 'string', 'children': [], 'value': "'default'"}; {'id': '137', 'type': 'block', 'children': ['138']}; {'id': '138', 'type': 'continue_statement', 'children': []}; {'id': '139', 'type': 'if_statement', 'children': ['140', '145', '154']}; {'id': '140', 'type': 'comparison_operator', 'children': ['141', '144'], 'value': 'is'}; {'id': '141', 'type': 'attribute', 'children': ['142', '143']}; {'id': '142', 'type': 'identifier', 'children': [], 'value': 'conf'}; {'id': '143', 'type': 'identifier', 'children': [], 'value': 'date_end'}; {'id': '144', 'type': 'None', 'children': []}; {'id': '145', 'type': 'block', 'children': ['146']}; {'id': '146', 'type': 'expression_statement', 'children': ['147']}; {'id': '147', 'type': 'assignment', 'children': ['148', '149']}; {'id': '148', 'type': 'identifier', 'children': [], 'value': 'upper_t'}; {'id': '149', 'type': 'comparison_operator', 'children': ['150', '151'], 'value': '<'}; {'id': '150', 'type': 'identifier', 'children': [], 'value': 'date_obs'}; {'id': '151', 'type': 'attribute', 'children': ['152', '153']}; {'id': '152', 'type': 'identifier', 'children': [], 'value': 'conf'}; {'id': '153', 'type': 'identifier', 'children': [], 'value': 'date_end'}; {'id': '154', 'type': 'else_clause', 'children': ['155']}; {'id': '155', 'type': 'block', 'children': ['156']}; {'id': '156', 'type': 'expression_statement', 'children': ['157']}; {'id': '157', 'type': 'assignment', 'children': ['158', '159']}; {'id': '158', 'type': 'identifier', 'children': [], 'value': 'upper_t'}; {'id': '159', 'type': 'True', 'children': []}; {'id': '160', 'type': 'if_statement', 'children': ['161', '169']}; {'id': '161', 'type': 'boolean_operator', 'children': ['162', '163'], 'value': 'and'}; {'id': '162', 'type': 'identifier', 'children': [], 'value': 'upper_t'}; {'id': '163', 'type': '()', 'children': ['164']}; {'id': '164', 'type': 'comparison_operator', 'children': ['165', '166'], 'value': '>='}; {'id': '165', 'type': 'identifier', 'children': [], 'value': 'date_obs'}; {'id': '166', 'type': 'attribute', 'children': ['167', '168']}; {'id': '167', 'type': 'identifier', 'children': [], 'value': 'conf'}; {'id': '168', 'type': 'identifier', 'children': [], 'value': 'date_start'}; {'id': '169', 'type': 'block', 'children': ['170', '178']}; {'id': '170', 'type': 'expression_statement', 'children': ['171']}; {'id': '171', 'type': 'call', 'children': ['172', '175']}; {'id': '172', 'type': 'attribute', 'children': ['173', '174']}; {'id': '173', 'type': 'identifier', 'children': [], 'value': 'logger'}; {'id': '174', 'type': 'identifier', 'children': [], 'value': 'debug'}; {'id': '175', 'type': 'argument_list', 'children': ['176', '177']}; {'id': '176', 'type': 'string', 'children': [], 'value': "'found date match, config uuid=%s'"}; {'id': '177', 'type': 'identifier', 'children': [], 'value': 'key'}; {'id': '178', 'type': 'return_statement', 'children': ['179']}; {'id': '179', 'type': 'identifier', 'children': [], 'value': 'conf'}; {'id': '180', 'type': 'else_clause', 'children': ['181']}; {'id': '181', 'type': 'block', 'children': ['182', '189']}; {'id': '182', 'type': 'expression_statement', 'children': ['183']}; {'id': '183', 'type': 'call', 'children': ['184', '187']}; {'id': '184', 'type': 'attribute', 'children': ['185', '186']}; {'id': '185', 'type': 'identifier', 'children': [], 'value': 'logger'}; {'id': '186', 'type': 'identifier', 'children': [], 'value': 'debug'}; {'id': '187', 'type': 'argument_list', 'children': ['188']}; {'id': '188', 'type': 'string', 'children': [], 'value': "'no match, using default configuration'"}; {'id': '189', 'type': 'return_statement', 'children': ['190']}; {'id': '190', 'type': 'subscript', 'children': ['191', '194']}; {'id': '191', 'type': 'attribute', 'children': ['192', '193']}; {'id': '192', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '193', 'type': 'identifier', 'children': [], 'value': 'configurations'}; {'id': '194', 'type': 'string', 'children': [], 'value': "'default'"} | def select_configuration(self, obresult):
logger = logging.getLogger(__name__)
logger.debug('calling default configuration selector')
ref = obresult.get_sample_frame()
extr = self.datamodel.extractor_map['fits']
if ref:
result = extr.extract('insconf', ref)
if result:
logger.debug('found insconf config uuid=%s', result)
if result in self.configurations:
return self.configurations[result]
else:
for conf in self.configurations.values():
if conf.name == result:
return conf
else:
raise KeyError('insconf {} does not match any config'.format(result))
date_obs = extr.extract('observation_date', ref)
for key, conf in self.configurations.items():
if key == 'default':
continue
if conf.date_end is not None:
upper_t = date_obs < conf.date_end
else:
upper_t = True
if upper_t and (date_obs >= conf.date_start):
logger.debug('found date match, config uuid=%s', key)
return conf
else:
logger.debug('no match, using default configuration')
return self.configurations['default'] |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '14']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'pause_debugplot'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '8', '11']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'debugplot'}; {'id': '5', 'type': 'default_parameter', 'children': ['6', '7']}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'optional_prompt'}; {'id': '7', 'type': 'None', 'children': []}; {'id': '8', 'type': 'default_parameter', 'children': ['9', '10']}; {'id': '9', 'type': 'identifier', 'children': [], 'value': 'pltshow'}; {'id': '10', 'type': 'False', 'children': []}; {'id': '11', 'type': 'default_parameter', 'children': ['12', '13']}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'tight_layout'}; {'id': '13', 'type': 'True', 'children': []}; {'id': '14', 'type': 'block', 'children': ['15', '26', '50', '187']}; {'id': '15', 'type': 'if_statement', 'children': ['16', '19']}; {'id': '16', 'type': 'comparison_operator', 'children': ['17', '18'], 'value': 'not'}; {'id': '17', 'type': 'identifier', 'children': [], 'value': 'debugplot'}; {'id': '18', 'type': 'identifier', 'children': [], 'value': 'DEBUGPLOT_CODES'}; {'id': '19', 'type': 'block', 'children': ['20']}; {'id': '20', 'type': 'raise_statement', 'children': ['21']}; {'id': '21', 'type': 'call', 'children': ['22', '23']}; {'id': '22', 'type': 'identifier', 'children': [], 'value': 'ValueError'}; {'id': '23', 'type': 'argument_list', 'children': ['24', '25']}; {'id': '24', 'type': 'string', 'children': [], 'value': "'Invalid debugplot value:'"}; {'id': '25', 'type': 'identifier', 'children': [], 'value': 'debugplot'}; {'id': '26', 'type': 'if_statement', 'children': ['27', '30', '40']}; {'id': '27', 'type': 'comparison_operator', 'children': ['28', '29'], 'value': '<'}; {'id': '28', 'type': 'identifier', 'children': [], 'value': 'debugplot'}; {'id': '29', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '30', 'type': 'block', 'children': ['31', '36']}; {'id': '31', 'type': 'expression_statement', 'children': ['32']}; {'id': '32', 'type': 'assignment', 'children': ['33', '34']}; {'id': '33', 'type': 'identifier', 'children': [], 'value': 'debugplot_'}; {'id': '34', 'type': 'unary_operator', 'children': ['35'], 'value': '-'}; {'id': '35', 'type': 'identifier', 'children': [], 'value': 'debugplot'}; {'id': '36', 'type': 'expression_statement', 'children': ['37']}; {'id': '37', 'type': 'assignment', 'children': ['38', '39']}; {'id': '38', 'type': 'identifier', 'children': [], 'value': 'pltclose'}; {'id': '39', 'type': 'True', 'children': []}; {'id': '40', 'type': 'else_clause', 'children': ['41']}; {'id': '41', 'type': 'block', 'children': ['42', '46']}; {'id': '42', 'type': 'expression_statement', 'children': ['43']}; {'id': '43', 'type': 'assignment', 'children': ['44', '45']}; {'id': '44', 'type': 'identifier', 'children': [], 'value': 'debugplot_'}; {'id': '45', 'type': 'identifier', 'children': [], 'value': 'debugplot'}; {'id': '46', 'type': 'expression_statement', 'children': ['47']}; {'id': '47', 'type': 'assignment', 'children': ['48', '49']}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'pltclose'}; {'id': '49', 'type': 'False', 'children': []}; {'id': '50', 'type': 'if_statement', 'children': ['51', '52', '132']}; {'id': '51', 'type': 'identifier', 'children': [], 'value': 'pltshow'}; {'id': '52', 'type': 'block', 'children': ['53']}; {'id': '53', 'type': 'if_statement', 'children': ['54', '63']}; {'id': '54', 'type': 'comparison_operator', 'children': ['55', '56'], 'value': 'in'}; {'id': '55', 'type': 'identifier', 'children': [], 'value': 'debugplot_'}; {'id': '56', 'type': 'list', 'children': ['57', '58', '59', '60', '61', '62'], 'value': '[1, 2, 11, 12, 21, 22]'}; {'id': '57', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '58', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '59', 'type': 'integer', 'children': [], 'value': '11'}; {'id': '60', 'type': 'integer', 'children': [], 'value': '12'}; {'id': '61', 'type': 'integer', 'children': [], 'value': '21'}; {'id': '62', 'type': 'integer', 'children': [], 'value': '22'}; {'id': '63', 'type': 'block', 'children': ['64', '73']}; {'id': '64', 'type': 'if_statement', 'children': ['65', '66']}; {'id': '65', 'type': 'identifier', 'children': [], 'value': 'tight_layout'}; {'id': '66', 'type': 'block', 'children': ['67']}; {'id': '67', 'type': 'expression_statement', 'children': ['68']}; {'id': '68', 'type': 'call', 'children': ['69', '72']}; {'id': '69', 'type': 'attribute', 'children': ['70', '71']}; {'id': '70', 'type': 'identifier', 'children': [], 'value': 'plt'}; {'id': '71', 'type': 'identifier', 'children': [], 'value': 'tight_layout'}; {'id': '72', 'type': 'argument_list', 'children': []}; {'id': '73', 'type': 'if_statement', 'children': ['74', '80', '97']}; {'id': '74', 'type': 'comparison_operator', 'children': ['75', '76'], 'value': 'in'}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'debugplot_'}; {'id': '76', 'type': 'list', 'children': ['77', '78', '79'], 'value': '[1, 11, 21]'}; {'id': '77', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '78', 'type': 'integer', 'children': [], 'value': '11'}; {'id': '79', 'type': 'integer', 'children': [], 'value': '21'}; {'id': '80', 'type': 'block', 'children': ['81', '90']}; {'id': '81', 'type': 'expression_statement', 'children': ['82']}; {'id': '82', 'type': 'call', 'children': ['83', '86']}; {'id': '83', 'type': 'attribute', 'children': ['84', '85']}; {'id': '84', 'type': 'identifier', 'children': [], 'value': 'plt'}; {'id': '85', 'type': 'identifier', 'children': [], 'value': 'show'}; {'id': '86', 'type': 'argument_list', 'children': ['87']}; {'id': '87', 'type': 'keyword_argument', 'children': ['88', '89']}; {'id': '88', 'type': 'identifier', 'children': [], 'value': 'block'}; {'id': '89', 'type': 'False', 'children': []}; {'id': '90', 'type': 'expression_statement', 'children': ['91']}; {'id': '91', 'type': 'call', 'children': ['92', '95']}; {'id': '92', 'type': 'attribute', 'children': ['93', '94']}; {'id': '93', 'type': 'identifier', 'children': [], 'value': 'plt'}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'pause'}; {'id': '95', 'type': 'argument_list', 'children': ['96']}; {'id': '96', 'type': 'float', 'children': [], 'value': '0.2'}; {'id': '97', 'type': 'elif_clause', 'children': ['98', '104']}; {'id': '98', 'type': 'comparison_operator', 'children': ['99', '100'], 'value': 'in'}; {'id': '99', 'type': 'identifier', 'children': [], 'value': 'debugplot_'}; {'id': '100', 'type': 'list', 'children': ['101', '102', '103'], 'value': '[2, 12, 22]'}; {'id': '101', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '102', 'type': 'integer', 'children': [], 'value': '12'}; {'id': '103', 'type': 'integer', 'children': [], 'value': '22'}; {'id': '104', 'type': 'block', 'children': ['105', '113', '121', '127']}; {'id': '105', 'type': 'expression_statement', 'children': ['106']}; {'id': '106', 'type': 'call', 'children': ['107', '108']}; {'id': '107', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '108', 'type': 'argument_list', 'children': ['109', '110']}; {'id': '109', 'type': 'string', 'children': [], 'value': '\'Press "q" to continue...\''}; {'id': '110', 'type': 'keyword_argument', 'children': ['111', '112']}; {'id': '111', 'type': 'identifier', 'children': [], 'value': 'end'}; {'id': '112', 'type': 'string', 'children': [], 'value': "''"}; {'id': '113', 'type': 'expression_statement', 'children': ['114']}; {'id': '114', 'type': 'call', 'children': ['115', '120']}; {'id': '115', 'type': 'attribute', 'children': ['116', '119']}; {'id': '116', 'type': 'attribute', 'children': ['117', '118']}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'sys'}; {'id': '118', 'type': 'identifier', 'children': [], 'value': 'stdout'}; {'id': '119', 'type': 'identifier', 'children': [], 'value': 'flush'}; {'id': '120', 'type': 'argument_list', 'children': []}; {'id': '121', 'type': 'expression_statement', 'children': ['122']}; {'id': '122', 'type': 'call', 'children': ['123', '126']}; {'id': '123', 'type': 'attribute', 'children': ['124', '125']}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'plt'}; {'id': '125', 'type': 'identifier', 'children': [], 'value': 'show'}; {'id': '126', 'type': 'argument_list', 'children': []}; {'id': '127', 'type': 'expression_statement', 'children': ['128']}; {'id': '128', 'type': 'call', 'children': ['129', '130']}; {'id': '129', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '130', 'type': 'argument_list', 'children': ['131']}; {'id': '131', 'type': 'string', 'children': [], 'value': "''"}; {'id': '132', 'type': 'else_clause', 'children': ['133']}; {'id': '133', 'type': 'block', 'children': ['134']}; {'id': '134', 'type': 'if_statement', 'children': ['135', '141']}; {'id': '135', 'type': 'comparison_operator', 'children': ['136', '137'], 'value': 'in'}; {'id': '136', 'type': 'identifier', 'children': [], 'value': 'debugplot_'}; {'id': '137', 'type': 'list', 'children': ['138', '139', '140'], 'value': '[2, 12, 22]'}; {'id': '138', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '139', 'type': 'integer', 'children': [], 'value': '12'}; {'id': '140', 'type': 'integer', 'children': [], 'value': '22'}; {'id': '141', 'type': 'block', 'children': ['142', '165', '173']}; {'id': '142', 'type': 'if_statement', 'children': ['143', '146', '155']}; {'id': '143', 'type': 'comparison_operator', 'children': ['144', '145'], 'value': 'is'}; {'id': '144', 'type': 'identifier', 'children': [], 'value': 'optional_prompt'}; {'id': '145', 'type': 'None', 'children': []}; {'id': '146', 'type': 'block', 'children': ['147']}; {'id': '147', 'type': 'expression_statement', 'children': ['148']}; {'id': '148', 'type': 'call', 'children': ['149', '150']}; {'id': '149', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '150', 'type': 'argument_list', 'children': ['151', '152']}; {'id': '151', 'type': 'string', 'children': [], 'value': "'Press <RETURN> to continue...'"}; {'id': '152', 'type': 'keyword_argument', 'children': ['153', '154']}; {'id': '153', 'type': 'identifier', 'children': [], 'value': 'end'}; {'id': '154', 'type': 'string', 'children': [], 'value': "''"}; {'id': '155', 'type': 'else_clause', 'children': ['156']}; {'id': '156', 'type': 'block', 'children': ['157']}; {'id': '157', 'type': 'expression_statement', 'children': ['158']}; {'id': '158', 'type': 'call', 'children': ['159', '160']}; {'id': '159', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '160', 'type': 'argument_list', 'children': ['161', '162']}; {'id': '161', 'type': 'identifier', 'children': [], 'value': 'optional_prompt'}; {'id': '162', 'type': 'keyword_argument', 'children': ['163', '164']}; {'id': '163', 'type': 'identifier', 'children': [], 'value': 'end'}; {'id': '164', 'type': 'string', 'children': [], 'value': "''"}; {'id': '165', 'type': 'expression_statement', 'children': ['166']}; {'id': '166', 'type': 'call', 'children': ['167', '172']}; {'id': '167', 'type': 'attribute', 'children': ['168', '171']}; {'id': '168', 'type': 'attribute', 'children': ['169', '170']}; {'id': '169', 'type': 'identifier', 'children': [], 'value': 'sys'}; {'id': '170', 'type': 'identifier', 'children': [], 'value': 'stdout'}; {'id': '171', 'type': 'identifier', 'children': [], 'value': 'flush'}; {'id': '172', 'type': 'argument_list', 'children': []}; {'id': '173', 'type': 'expression_statement', 'children': ['174']}; {'id': '174', 'type': 'assignment', 'children': ['175', '176']}; {'id': '175', 'type': 'identifier', 'children': [], 'value': 'cdummy'}; {'id': '176', 'type': 'call', 'children': ['177', '186']}; {'id': '177', 'type': 'attribute', 'children': ['178', '185']}; {'id': '178', 'type': 'call', 'children': ['179', '184']}; {'id': '179', 'type': 'attribute', 'children': ['180', '183']}; {'id': '180', 'type': 'attribute', 'children': ['181', '182']}; {'id': '181', 'type': 'identifier', 'children': [], 'value': 'sys'}; {'id': '182', 'type': 'identifier', 'children': [], 'value': 'stdin'}; {'id': '183', 'type': 'identifier', 'children': [], 'value': 'readline'}; {'id': '184', 'type': 'argument_list', 'children': []}; {'id': '185', 'type': 'identifier', 'children': [], 'value': 'strip'}; {'id': '186', 'type': 'argument_list', 'children': []}; {'id': '187', 'type': 'if_statement', 'children': ['188', '199']}; {'id': '188', 'type': 'boolean_operator', 'children': ['189', '198'], 'value': 'and'}; {'id': '189', 'type': 'comparison_operator', 'children': ['190', '191'], 'value': 'in'}; {'id': '190', 'type': 'identifier', 'children': [], 'value': 'debugplot_'}; {'id': '191', 'type': 'list', 'children': ['192', '193', '194', '195', '196', '197'], 'value': '[1, 2, 11, 12, 21, 22]'}; {'id': '192', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '193', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '194', 'type': 'integer', 'children': [], 'value': '11'}; {'id': '195', 'type': 'integer', 'children': [], 'value': '12'}; {'id': '196', 'type': 'integer', 'children': [], 'value': '21'}; {'id': '197', 'type': 'integer', 'children': [], 'value': '22'}; {'id': '198', 'type': 'identifier', 'children': [], 'value': 'pltclose'}; {'id': '199', 'type': 'block', 'children': ['200']}; {'id': '200', 'type': 'expression_statement', 'children': ['201']}; {'id': '201', 'type': 'call', 'children': ['202', '205']}; {'id': '202', 'type': 'attribute', 'children': ['203', '204']}; {'id': '203', 'type': 'identifier', 'children': [], 'value': 'plt'}; {'id': '204', 'type': 'identifier', 'children': [], 'value': 'close'}; {'id': '205', 'type': 'argument_list', 'children': []} | def pause_debugplot(debugplot, optional_prompt=None, pltshow=False,
tight_layout=True):
if debugplot not in DEBUGPLOT_CODES:
raise ValueError('Invalid debugplot value:', debugplot)
if debugplot < 0:
debugplot_ = -debugplot
pltclose = True
else:
debugplot_ = debugplot
pltclose = False
if pltshow:
if debugplot_ in [1, 2, 11, 12, 21, 22]:
if tight_layout:
plt.tight_layout()
if debugplot_ in [1, 11, 21]:
plt.show(block=False)
plt.pause(0.2)
elif debugplot_ in [2, 12, 22]:
print('Press "q" to continue...', end='')
sys.stdout.flush()
plt.show()
print('')
else:
if debugplot_ in [2, 12, 22]:
if optional_prompt is None:
print('Press <RETURN> to continue...', end='')
else:
print(optional_prompt, end='')
sys.stdout.flush()
cdummy = sys.stdin.readline().strip()
if debugplot_ in [1, 2, 11, 12, 21, 22] and pltclose:
plt.close() |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '8']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'mode_half_sample'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'a'}; {'id': '5', 'type': 'default_parameter', 'children': ['6', '7']}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'is_sorted'}; {'id': '7', 'type': 'False', 'children': []}; {'id': '8', 'type': 'block', 'children': ['9', '11', '20', '39', '46']}; {'id': '9', 'type': 'expression_statement', 'children': ['10']}; {'id': '10', 'type': 'string', 'children': [], 'value': '\'\'\'\n Estimate the mode using the Half Sample mode.\n A method to estimate the mode, as described in\n D. R. Bickel and R. Frühwirth (contributed equally),\n "On a fast, robust estimator of the mode: Comparisons to other\n robust estimators with applications,"\n Computational Statistics and Data Analysis 50, 3500-3530 (2006).\n Example\n =======\n >> import numpy as np\n >> np.random.seed(1392838)\n >> a = np.random.normal(1000, 200, size=1000)\n >> a[:100] = np.random.normal(2000, 300, size=100)\n >> b = np.sort(a)\n >> mode_half_sample(b, is_sorted=True)\n 1041.9327885039545\n \'\'\''}; {'id': '11', 'type': 'expression_statement', 'children': ['12']}; {'id': '12', 'type': 'assignment', 'children': ['13', '14']}; {'id': '13', 'type': 'identifier', 'children': [], 'value': 'a'}; {'id': '14', 'type': 'call', 'children': ['15', '18']}; {'id': '15', 'type': 'attribute', 'children': ['16', '17']}; {'id': '16', 'type': 'identifier', 'children': [], 'value': 'np'}; {'id': '17', 'type': 'identifier', 'children': [], 'value': 'asanyarray'}; {'id': '18', 'type': 'argument_list', 'children': ['19']}; {'id': '19', 'type': 'identifier', 'children': [], 'value': 'a'}; {'id': '20', 'type': 'if_statement', 'children': ['21', '23', '33']}; {'id': '21', 'type': 'not_operator', 'children': ['22']}; {'id': '22', 'type': 'identifier', 'children': [], 'value': 'is_sorted'}; {'id': '23', 'type': 'block', 'children': ['24']}; {'id': '24', 'type': 'expression_statement', 'children': ['25']}; {'id': '25', 'type': 'assignment', 'children': ['26', '27']}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'sdata'}; {'id': '27', 'type': 'call', 'children': ['28', '31']}; {'id': '28', 'type': 'attribute', 'children': ['29', '30']}; {'id': '29', 'type': 'identifier', 'children': [], 'value': 'np'}; {'id': '30', 'type': 'identifier', 'children': [], 'value': 'sort'}; {'id': '31', 'type': 'argument_list', 'children': ['32']}; {'id': '32', 'type': 'identifier', 'children': [], 'value': 'a'}; {'id': '33', 'type': 'else_clause', 'children': ['34']}; {'id': '34', 'type': 'block', 'children': ['35']}; {'id': '35', 'type': 'expression_statement', 'children': ['36']}; {'id': '36', 'type': 'assignment', 'children': ['37', '38']}; {'id': '37', 'type': 'identifier', 'children': [], 'value': 'sdata'}; {'id': '38', 'type': 'identifier', 'children': [], 'value': 'a'}; {'id': '39', 'type': 'expression_statement', 'children': ['40']}; {'id': '40', 'type': 'assignment', 'children': ['41', '42']}; {'id': '41', 'type': 'identifier', 'children': [], 'value': 'n'}; {'id': '42', 'type': 'call', 'children': ['43', '44']}; {'id': '43', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '44', 'type': 'argument_list', 'children': ['45']}; {'id': '45', 'type': 'identifier', 'children': [], 'value': 'sdata'}; {'id': '46', 'type': 'if_statement', 'children': ['47', '50', '55', '71', '131']}; {'id': '47', 'type': 'comparison_operator', 'children': ['48', '49'], 'value': '=='}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'n'}; {'id': '49', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '50', 'type': 'block', 'children': ['51']}; {'id': '51', 'type': 'return_statement', 'children': ['52']}; {'id': '52', 'type': 'subscript', 'children': ['53', '54']}; {'id': '53', 'type': 'identifier', 'children': [], 'value': 'sdata'}; {'id': '54', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '55', 'type': 'elif_clause', 'children': ['56', '59']}; {'id': '56', 'type': 'comparison_operator', 'children': ['57', '58'], 'value': '=='}; {'id': '57', 'type': 'identifier', 'children': [], 'value': 'n'}; {'id': '58', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '59', 'type': 'block', 'children': ['60']}; {'id': '60', 'type': 'return_statement', 'children': ['61']}; {'id': '61', 'type': 'binary_operator', 'children': ['62', '63'], 'value': '*'}; {'id': '62', 'type': 'float', 'children': [], 'value': '0.5'}; {'id': '63', 'type': '()', 'children': ['64']}; {'id': '64', 'type': 'binary_operator', 'children': ['65', '68'], 'value': '+'}; {'id': '65', 'type': 'subscript', 'children': ['66', '67']}; {'id': '66', 'type': 'identifier', 'children': [], 'value': 'sdata'}; {'id': '67', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '68', 'type': 'subscript', 'children': ['69', '70']}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'sdata'}; {'id': '70', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '71', 'type': 'elif_clause', 'children': ['72', '75']}; {'id': '72', 'type': 'comparison_operator', 'children': ['73', '74'], 'value': '=='}; {'id': '73', 'type': 'identifier', 'children': [], 'value': 'n'}; {'id': '74', 'type': 'integer', 'children': [], 'value': '3'}; {'id': '75', 'type': 'block', 'children': ['76', '93']}; {'id': '76', 'type': 'expression_statement', 'children': ['77']}; {'id': '77', 'type': 'assignment', 'children': ['78', '79']}; {'id': '78', 'type': 'identifier', 'children': [], 'value': 'ind'}; {'id': '79', 'type': 'binary_operator', 'children': ['80', '90'], 'value': '-'}; {'id': '80', 'type': 'binary_operator', 'children': ['81', '85'], 'value': '+'}; {'id': '81', 'type': 'unary_operator', 'children': ['82'], 'value': '-'}; {'id': '82', 'type': 'subscript', 'children': ['83', '84']}; {'id': '83', 'type': 'identifier', 'children': [], 'value': 'sdata'}; {'id': '84', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '85', 'type': 'binary_operator', 'children': ['86', '87'], 'value': '*'}; {'id': '86', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '87', 'type': 'subscript', 'children': ['88', '89']}; {'id': '88', 'type': 'identifier', 'children': [], 'value': 'sdata'}; {'id': '89', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '90', 'type': 'subscript', 'children': ['91', '92']}; {'id': '91', 'type': 'identifier', 'children': [], 'value': 'sdata'}; {'id': '92', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '93', 'type': 'if_statement', 'children': ['94', '97', '109', '125']}; {'id': '94', 'type': 'comparison_operator', 'children': ['95', '96'], 'value': '<'}; {'id': '95', 'type': 'identifier', 'children': [], 'value': 'ind'}; {'id': '96', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '97', 'type': 'block', 'children': ['98']}; {'id': '98', 'type': 'return_statement', 'children': ['99']}; {'id': '99', 'type': 'binary_operator', 'children': ['100', '101'], 'value': '*'}; {'id': '100', 'type': 'float', 'children': [], 'value': '0.5'}; {'id': '101', 'type': '()', 'children': ['102']}; {'id': '102', 'type': 'binary_operator', 'children': ['103', '106'], 'value': '+'}; {'id': '103', 'type': 'subscript', 'children': ['104', '105']}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'sdata'}; {'id': '105', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '106', 'type': 'subscript', 'children': ['107', '108']}; {'id': '107', 'type': 'identifier', 'children': [], 'value': 'sdata'}; {'id': '108', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '109', 'type': 'elif_clause', 'children': ['110', '113']}; {'id': '110', 'type': 'comparison_operator', 'children': ['111', '112'], 'value': '>'}; {'id': '111', 'type': 'identifier', 'children': [], 'value': 'ind'}; {'id': '112', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '113', 'type': 'block', 'children': ['114']}; {'id': '114', 'type': 'return_statement', 'children': ['115']}; {'id': '115', 'type': 'binary_operator', 'children': ['116', '117'], 'value': '*'}; {'id': '116', 'type': 'float', 'children': [], 'value': '0.5'}; {'id': '117', 'type': '()', 'children': ['118']}; {'id': '118', 'type': 'binary_operator', 'children': ['119', '122'], 'value': '+'}; {'id': '119', 'type': 'subscript', 'children': ['120', '121']}; {'id': '120', 'type': 'identifier', 'children': [], 'value': 'sdata'}; {'id': '121', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '122', 'type': 'subscript', 'children': ['123', '124']}; {'id': '123', 'type': 'identifier', 'children': [], 'value': 'sdata'}; {'id': '124', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '125', 'type': 'else_clause', 'children': ['126']}; {'id': '126', 'type': 'block', 'children': ['127']}; {'id': '127', 'type': 'return_statement', 'children': ['128']}; {'id': '128', 'type': 'subscript', 'children': ['129', '130']}; {'id': '129', 'type': 'identifier', 'children': [], 'value': 'sdata'}; {'id': '130', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '131', 'type': 'else_clause', 'children': ['132']}; {'id': '132', 'type': 'block', 'children': ['133', '147', '169', '177']}; {'id': '133', 'type': 'expression_statement', 'children': ['134']}; {'id': '134', 'type': 'assignment', 'children': ['135', '136']}; {'id': '135', 'type': 'identifier', 'children': [], 'value': 'N'}; {'id': '136', 'type': 'call', 'children': ['137', '138']}; {'id': '137', 'type': 'identifier', 'children': [], 'value': 'int'}; {'id': '138', 'type': 'argument_list', 'children': ['139']}; {'id': '139', 'type': 'call', 'children': ['140', '143']}; {'id': '140', 'type': 'attribute', 'children': ['141', '142']}; {'id': '141', 'type': 'identifier', 'children': [], 'value': 'math'}; {'id': '142', 'type': 'identifier', 'children': [], 'value': 'ceil'}; {'id': '143', 'type': 'argument_list', 'children': ['144']}; {'id': '144', 'type': 'binary_operator', 'children': ['145', '146'], 'value': '/'}; {'id': '145', 'type': 'identifier', 'children': [], 'value': 'n'}; {'id': '146', 'type': 'float', 'children': [], 'value': '2.0'}; {'id': '147', 'type': 'expression_statement', 'children': ['148']}; {'id': '148', 'type': 'assignment', 'children': ['149', '150']}; {'id': '149', 'type': 'identifier', 'children': [], 'value': 'w'}; {'id': '150', 'type': 'binary_operator', 'children': ['151', '159'], 'value': '-'}; {'id': '151', 'type': 'subscript', 'children': ['152', '153']}; {'id': '152', 'type': 'identifier', 'children': [], 'value': 'sdata'}; {'id': '153', 'type': 'slice', 'children': ['154', '158']}; {'id': '154', 'type': '()', 'children': ['155']}; {'id': '155', 'type': 'binary_operator', 'children': ['156', '157'], 'value': '-'}; {'id': '156', 'type': 'identifier', 'children': [], 'value': 'N'}; {'id': '157', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '158', 'type': 'colon', 'children': []}; {'id': '159', 'type': 'subscript', 'children': ['160', '161']}; {'id': '160', 'type': 'identifier', 'children': [], 'value': 'sdata'}; {'id': '161', 'type': 'slice', 'children': ['162', '163']}; {'id': '162', 'type': 'colon', 'children': []}; {'id': '163', 'type': '()', 'children': ['164']}; {'id': '164', 'type': 'binary_operator', 'children': ['165', '168'], 'value': '+'}; {'id': '165', 'type': 'binary_operator', 'children': ['166', '167'], 'value': '-'}; {'id': '166', 'type': 'identifier', 'children': [], 'value': 'n'}; {'id': '167', 'type': 'identifier', 'children': [], 'value': 'N'}; {'id': '168', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '169', 'type': 'expression_statement', 'children': ['170']}; {'id': '170', 'type': 'assignment', 'children': ['171', '172']}; {'id': '171', 'type': 'identifier', 'children': [], 'value': 'ar'}; {'id': '172', 'type': 'call', 'children': ['173', '176']}; {'id': '173', 'type': 'attribute', 'children': ['174', '175']}; {'id': '174', 'type': 'identifier', 'children': [], 'value': 'w'}; {'id': '175', 'type': 'identifier', 'children': [], 'value': 'argmin'}; {'id': '176', 'type': 'argument_list', 'children': []}; {'id': '177', 'type': 'return_statement', 'children': ['178']}; {'id': '178', 'type': 'call', 'children': ['179', '180']}; {'id': '179', 'type': 'identifier', 'children': [], 'value': 'mode_half_sample'}; {'id': '180', 'type': 'argument_list', 'children': ['181', '189']}; {'id': '181', 'type': 'subscript', 'children': ['182', '183']}; {'id': '182', 'type': 'identifier', 'children': [], 'value': 'sdata'}; {'id': '183', 'type': 'slice', 'children': ['184', '185', '186']}; {'id': '184', 'type': 'identifier', 'children': [], 'value': 'ar'}; {'id': '185', 'type': 'colon', 'children': []}; {'id': '186', 'type': 'binary_operator', 'children': ['187', '188'], 'value': '+'}; {'id': '187', 'type': 'identifier', 'children': [], 'value': 'ar'}; {'id': '188', 'type': 'identifier', 'children': [], 'value': 'N'}; {'id': '189', 'type': 'keyword_argument', 'children': ['190', '191']}; {'id': '190', 'type': 'identifier', 'children': [], 'value': 'is_sorted'}; {'id': '191', 'type': 'True', 'children': []} | def mode_half_sample(a, is_sorted=False):
'''
Estimate the mode using the Half Sample mode.
A method to estimate the mode, as described in
D. R. Bickel and R. Frühwirth (contributed equally),
"On a fast, robust estimator of the mode: Comparisons to other
robust estimators with applications,"
Computational Statistics and Data Analysis 50, 3500-3530 (2006).
Example
=======
>> import numpy as np
>> np.random.seed(1392838)
>> a = np.random.normal(1000, 200, size=1000)
>> a[:100] = np.random.normal(2000, 300, size=100)
>> b = np.sort(a)
>> mode_half_sample(b, is_sorted=True)
1041.9327885039545
'''
a = np.asanyarray(a)
if not is_sorted:
sdata = np.sort(a)
else:
sdata = a
n = len(sdata)
if n == 1:
return sdata[0]
elif n == 2:
return 0.5 * (sdata[0] + sdata[1])
elif n == 3:
ind = -sdata[0] + 2 * sdata[1] - sdata[2]
if ind < 0:
return 0.5 * (sdata[0] + sdata[1])
elif ind > 0:
return 0.5 * (sdata[1] + sdata[2])
else:
return sdata[1]
else:
N = int(math.ceil(n / 2.0))
w = sdata[(N-1):] - sdata[:(n-N+1)]
ar = w.argmin()
return mode_half_sample(sdata[ar:ar+N], is_sorted=True) |
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{'id': '15', 'type': 'expression_statement', 'children': ['16']}; {'id': '16', 'type': 'assignment', 'children': ['17', '20']}; {'id': '17', 'type': 'pattern_list', 'children': ['18', '19']}; {'id': '18', 'type': 'identifier', 'children': [], 'value': 'regex'}; {'id': '19', 'type': 'identifier', 'children': [], 'value': 'template'}; {'id': '20', 'type': 'subscript', 'children': ['21', '22']}; {'id': '21', 'type': 'identifier', 'children': [], 'value': '_RE_AUTHORS_UID'}; {'id': '22', 'type': 'identifier', 'children': [], 'value': '_schema'}; {'id': '23', 'type': 'expression_statement', 'children': ['24']}; {'id': '24', 'type': 'assignment', 'children': ['25', '26']}; {'id': '25', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '26', 'type': 'call', 'children': ['27', '30']}; {'id': '27', 'type': 'attribute', 'children': ['28', '29']}; {'id': '28', 'type': 'identifier', 'children': [], 'value': 'regex'}; {'id': '29', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '30', 'type': 'argument_list', 'children': ['31']}; {'id': '31', 'type': 'identifier', 'children': [], 'value': '_uid'}; {'id': '32', 'type': 'if_statement', 'children': ['33', '34']}; {'id': '33', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '34', 'type': 'block', 'children': ['35']}; {'id': '35', 'type': 'return_statement', 'children': ['36']}; {'id': '36', 'type': 'call', 'children': ['37', '40']}; {'id': '37', 'type': 'attribute', 'children': ['38', '39']}; {'id': '38', 'type': 'identifier', 'children': [], 'value': 'template'}; {'id': '39', 'type': 'identifier', 'children': [], 'value': 'format'}; {'id': '40', 'type': 'argument_list', 'children': ['41']}; {'id': '41', 'type': 'call', 'children': ['42', '45']}; {'id': '42', 'type': 'attribute', 'children': ['43', '44']}; {'id': '43', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '44', 'type': 'identifier', 'children': [], 'value': 'group'}; {'id': '45', 'type': 'argument_list', 'children': ['46']}; {'id': '46', 'type': 'string', 'children': [], 'value': "'uid'"}; {'id': '47', 'type': 'if_statement', 'children': ['48', '60']}; {'id': '48', 'type': 'boolean_operator', 'children': ['49', '55'], 'value': 'and'}; {'id': '49', 'type': 'call', 'children': ['50', '53']}; {'id': '50', 'type': 'attribute', 'children': ['51', '52']}; {'id': '51', 'type': 'identifier', 'children': [], 'value': 'idutils'}; {'id': '52', 'type': 'identifier', 'children': [], 'value': 'is_orcid'}; {'id': '53', 'type': 'argument_list', 'children': ['54']}; {'id': '54', 'type': 'identifier', 'children': [], 'value': 'uid'}; {'id': '55', 'type': 'comparison_operator', 'children': ['56', '57'], 'value': 'in'}; {'id': '56', 'type': 'identifier', 'children': [], 'value': 'schema'}; {'id': '57', 'type': 'tuple', 'children': ['58', '59']}; {'id': '58', 'type': 'None', 'children': []}; {'id': '59', 'type': 'string', 'children': [], 'value': "'ORCID'"}; {'id': '60', 'type': 'block', 'children': ['61']}; {'id': '61', 'type': 'return_statement', 'children': ['62']}; {'id': '62', 'type': 'expression_list', 'children': ['63', '69']}; {'id': '63', 'type': 'call', 'children': ['64', '67']}; {'id': '64', 'type': 'attribute', 'children': ['65', '66']}; {'id': '65', 'type': 'identifier', 'children': [], 'value': 'idutils'}; {'id': '66', 'type': 'identifier', 'children': [], 'value': 'normalize_orcid'}; {'id': '67', 'type': 'argument_list', 'children': ['68']}; {'id': '68', 'type': 'identifier', 'children': [], 'value': 'uid'}; {'id': '69', 'type': 'string', 'children': [], 'value': "'ORCID'"}; {'id': '70', 'type': 'if_statement', 'children': ['71', '76']}; {'id': '71', 'type': 'boolean_operator', 'children': ['72', '73'], 'value': 'and'}; {'id': '72', 'type': 'identifier', 'children': [], 'value': 'schema'}; {'id': '73', 'type': 'comparison_operator', 'children': ['74', '75'], 'value': 'not'}; {'id': '74', 'type': 'identifier', 'children': [], 'value': 'schema'}; {'id': '75', 'type': 'identifier', 'children': [], 'value': '_RE_AUTHORS_UID'}; {'id': '76', 'type': 'block', 'children': ['77']}; {'id': '77', 'type': 'raise_statement', 'children': ['78']}; {'id': '78', 'type': 'call', 'children': ['79', '80']}; {'id': '79', 'type': 'identifier', 'children': [], 'value': 'UnknownUIDSchema'}; {'id': '80', 'type': 'argument_list', 'children': ['81']}; {'id': '81', 'type': 'identifier', 'children': [], 'value': 'uid'}; {'id': '82', 'type': 'if_statement', 'children': ['83', '84']}; {'id': '83', 'type': 'identifier', 'children': [], 'value': 'schema'}; {'id': '84', 'type': 'block', 'children': ['85', '93']}; {'id': '85', 'type': 'expression_statement', 'children': ['86']}; {'id': '86', 'type': 'assignment', 'children': ['87', '88']}; {'id': '87', 'type': 'identifier', 'children': [], 'value': 'normalized_uid'}; {'id': '88', 'type': 'call', 'children': ['89', '90']}; {'id': '89', 'type': 'identifier', 'children': [], 'value': '_get_uid_normalized_in_schema'}; {'id': '90', 'type': 'argument_list', 'children': ['91', '92']}; {'id': '91', 'type': 'identifier', 'children': [], 'value': 'uid'}; {'id': '92', 'type': 'identifier', 'children': [], 'value': 'schema'}; {'id': '93', 'type': 'if_statement', 'children': ['94', '95', '100']}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'normalized_uid'}; {'id': '95', 'type': 'block', 'children': ['96']}; {'id': '96', 'type': 'return_statement', 'children': ['97']}; {'id': '97', 'type': 'expression_list', 'children': ['98', '99']}; {'id': '98', 'type': 'identifier', 'children': [], 'value': 'normalized_uid'}; {'id': '99', 'type': 'identifier', 'children': [], 'value': 'schema'}; {'id': '100', 'type': 'else_clause', 'children': ['101']}; {'id': '101', 'type': 'block', 'children': ['102']}; {'id': '102', 'type': 'raise_statement', 'children': ['103']}; {'id': '103', 'type': 'call', 'children': ['104', '105']}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'SchemaUIDConflict'}; {'id': '105', 'type': 'argument_list', 'children': ['106', '107']}; {'id': '106', 'type': 'identifier', 'children': [], 'value': 'schema'}; {'id': '107', 'type': 'identifier', 'children': [], 'value': 'uid'}; {'id': '108', 'type': 'expression_statement', 'children': ['109']}; {'id': '109', 'type': 'assignment', 'children': ['110', '113']}; {'id': '110', 'type': 'pattern_list', 'children': ['111', '112']}; {'id': '111', 'type': 'identifier', 'children': [], 'value': 'match_schema'}; {'id': '112', 'type': 'identifier', 'children': [], 'value': 'normalized_uid'}; {'id': '113', 'type': 'expression_list', 'children': ['114', '115']}; {'id': '114', 'type': 'None', 'children': []}; {'id': '115', 'type': 'None', 'children': []}; {'id': '116', 'type': 'for_statement', 'children': ['117', '118', '119']}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'candidate_schema'}; {'id': '118', 'type': 'identifier', 'children': [], 'value': '_RE_AUTHORS_UID'}; {'id': '119', 'type': 'block', 'children': ['120', '128']}; {'id': '120', 'type': 'expression_statement', 'children': ['121']}; {'id': '121', 'type': 'assignment', 'children': ['122', '123']}; {'id': '122', 'type': 'identifier', 'children': [], 'value': 'candidate_uid'}; {'id': '123', 'type': 'call', 'children': ['124', '125']}; {'id': '124', 'type': 'identifier', 'children': [], 'value': '_get_uid_normalized_in_schema'}; {'id': '125', 'type': 'argument_list', 'children': ['126', '127']}; {'id': '126', 'type': 'identifier', 'children': [], 'value': 'uid'}; {'id': '127', 'type': 'identifier', 'children': [], 'value': 'candidate_schema'}; {'id': '128', 'type': 'if_statement', 'children': ['129', '130']}; {'id': '129', 'type': 'identifier', 'children': [], 'value': 'candidate_uid'}; {'id': '130', 'type': 'block', 'children': ['131', '139', '143']}; {'id': '131', 'type': 'if_statement', 'children': ['132', '133']}; {'id': '132', 'type': 'identifier', 'children': [], 'value': 'match_schema'}; {'id': '133', 'type': 'block', 'children': ['134']}; {'id': '134', 'type': 'raise_statement', 'children': ['135']}; {'id': '135', 'type': 'call', 'children': ['136', '137']}; {'id': '136', 'type': 'identifier', 'children': [], 'value': 'UnknownUIDSchema'}; {'id': '137', 'type': 'argument_list', 'children': ['138']}; {'id': '138', 'type': 'identifier', 'children': [], 'value': 'uid'}; {'id': '139', 'type': 'expression_statement', 'children': ['140']}; {'id': '140', 'type': 'assignment', 'children': ['141', '142']}; {'id': '141', 'type': 'identifier', 'children': [], 'value': 'match_schema'}; {'id': '142', 'type': 'identifier', 'children': [], 'value': 'candidate_schema'}; {'id': '143', 'type': 'expression_statement', 'children': ['144']}; {'id': '144', 'type': 'assignment', 'children': ['145', '146']}; {'id': '145', 'type': 'identifier', 'children': [], 'value': 'normalized_uid'}; {'id': '146', 'type': 'identifier', 'children': [], 'value': 'candidate_uid'}; {'id': '147', 'type': 'if_statement', 'children': ['148', '149']}; {'id': '148', 'type': 'identifier', 'children': [], 'value': 'match_schema'}; {'id': '149', 'type': 'block', 'children': ['150']}; {'id': '150', 'type': 'return_statement', 'children': ['151']}; {'id': '151', 'type': 'expression_list', 'children': ['152', '153']}; {'id': '152', 'type': 'identifier', 'children': [], 'value': 'normalized_uid'}; {'id': '153', 'type': 'identifier', 'children': [], 'value': 'match_schema'}; {'id': '154', 'type': 'raise_statement', 'children': ['155']}; {'id': '155', 'type': 'call', 'children': ['156', '157']}; {'id': '156', 'type': 'identifier', 'children': [], 'value': 'UnknownUIDSchema'}; {'id': '157', 'type': 'argument_list', 'children': ['158']}; {'id': '158', 'type': 'identifier', 'children': [], 'value': 'uid'} | def author_id_normalize_and_schema(uid, schema=None):
def _get_uid_normalized_in_schema(_uid, _schema):
regex, template = _RE_AUTHORS_UID[_schema]
match = regex.match(_uid)
if match:
return template.format(match.group('uid'))
if idutils.is_orcid(uid) and schema in (None, 'ORCID'):
return idutils.normalize_orcid(uid), 'ORCID'
if schema and schema not in _RE_AUTHORS_UID:
raise UnknownUIDSchema(uid)
if schema:
normalized_uid = _get_uid_normalized_in_schema(uid, schema)
if normalized_uid:
return normalized_uid, schema
else:
raise SchemaUIDConflict(schema, uid)
match_schema, normalized_uid = None, None
for candidate_schema in _RE_AUTHORS_UID:
candidate_uid = _get_uid_normalized_in_schema(uid, candidate_schema)
if candidate_uid:
if match_schema:
raise UnknownUIDSchema(uid)
match_schema = candidate_schema
normalized_uid = candidate_uid
if match_schema:
return normalized_uid, match_schema
raise UnknownUIDSchema(uid) |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '8']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'get_schema_path'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'schema'}; {'id': '5', 'type': 'default_parameter', 'children': ['6', '7']}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'resolved'}; {'id': '7', 'type': 'False', 'children': []}; {'id': '8', 'type': 'block', 'children': ['9', '39', '101', '108', '180']}; {'id': '9', 'type': 'function_definition', 'children': ['10', '11', '13']}; {'id': '10', 'type': 'function_name', 'children': [], 'value': '_strip_first_path_elem'}; {'id': '11', 'type': 'parameters', 'children': ['12']}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '13', 'type': 'block', 'children': ['14', '32']}; {'id': '14', 'type': 'expression_statement', 'children': ['15']}; {'id': '15', 'type': 'assignment', 'children': ['16', '17']}; {'id': '16', 'type': 'identifier', 'children': [], 'value': 'stripped_path'}; {'id': '17', 'type': 'subscript', 'children': ['18', '29']}; {'id': '18', 'type': 'call', 'children': ['19', '22']}; {'id': '19', 'type': 'attribute', 'children': ['20', '21']}; {'id': '20', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '21', 'type': 'identifier', 'children': [], 'value': 'split'}; {'id': '22', 'type': 'argument_list', 'children': ['23', '28']}; {'id': '23', 'type': 'attribute', 'children': ['24', '27']}; {'id': '24', 'type': 'attribute', 'children': ['25', '26']}; {'id': '25', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '27', 'type': 'identifier', 'children': [], 'value': 'sep'}; {'id': '28', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '29', 'type': 'slice', 'children': ['30', '31']}; {'id': '30', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '31', 'type': 'colon', 'children': []}; {'id': '32', 'type': 'return_statement', 'children': ['33']}; {'id': '33', 'type': 'call', 'children': ['34', '37']}; {'id': '34', 'type': 'attribute', 'children': ['35', '36']}; {'id': '35', 'type': 'string', 'children': [], 'value': "''"}; {'id': '36', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '37', 'type': 'argument_list', 'children': ['38']}; {'id': '38', 'type': 'identifier', 'children': [], 'value': 'stripped_path'}; {'id': '39', 'type': 'function_definition', 'children': ['40', '41', '43']}; {'id': '40', 'type': 'function_name', 'children': [], 'value': '_schema_to_normalized_path'}; {'id': '41', 'type': 'parameters', 'children': ['42']}; {'id': '42', 'type': 'identifier', 'children': [], 'value': 'schema'}; {'id': '43', 'type': 'block', 'children': ['44', '66', '86', '99']}; {'id': '44', 'type': 'expression_statement', 'children': ['45']}; {'id': '45', 'type': 'assignment', 'children': ['46', '47']}; {'id': '46', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '47', 'type': 'call', 'children': ['48', '53']}; {'id': '48', 'type': 'attribute', 'children': ['49', '52']}; {'id': '49', 'type': 'attribute', 'children': ['50', '51']}; {'id': '50', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '51', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '52', 'type': 'identifier', 'children': [], 'value': 'normpath'}; {'id': '53', 'type': 'argument_list', 'children': ['54']}; {'id': '54', 'type': 'binary_operator', 'children': ['55', '60'], 'value': '+'}; {'id': '55', 'type': 'attribute', 'children': ['56', '59']}; {'id': '56', 'type': 'attribute', 'children': ['57', '58']}; {'id': '57', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '58', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '59', 'type': 'identifier', 'children': [], 'value': 'sep'}; {'id': '60', 'type': 'attribute', 'children': ['61', '65']}; {'id': '61', 'type': 'call', 'children': ['62', '63']}; {'id': '62', 'type': 'identifier', 'children': [], 'value': 'urlsplit'}; {'id': '63', 'type': 'argument_list', 'children': ['64']}; {'id': '64', 'type': 'identifier', 'children': [], 'value': 'schema'}; {'id': '65', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '66', 'type': 'if_statement', 'children': ['67', '77']}; {'id': '67', 'type': 'call', 'children': ['68', '71']}; {'id': '68', 'type': 'attribute', 'children': ['69', '70']}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '70', 'type': 'identifier', 'children': [], 'value': 'startswith'}; {'id': '71', 'type': 'argument_list', 'children': ['72']}; {'id': '72', 'type': 'attribute', 'children': ['73', '76']}; {'id': '73', 'type': 'attribute', 'children': ['74', '75']}; {'id': '74', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '76', 'type': 'identifier', 'children': [], 'value': 'sep'}; {'id': '77', 'type': 'block', 'children': ['78']}; {'id': '78', 'type': 'expression_statement', 'children': ['79']}; {'id': '79', 'type': 'assignment', 'children': ['80', '81']}; {'id': '80', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '81', 'type': 'subscript', 'children': ['82', '83']}; {'id': '82', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '83', 'type': 'slice', 'children': ['84', '85']}; {'id': '84', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '85', 'type': 'colon', 'children': []}; {'id': '86', 'type': 'if_statement', 'children': ['87', '94']}; {'id': '87', 'type': 'not_operator', 'children': ['88']}; {'id': '88', 'type': 'call', 'children': ['89', '92']}; {'id': '89', 'type': 'attribute', 'children': ['90', '91']}; {'id': '90', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '91', 'type': 'identifier', 'children': [], 'value': 'endswith'}; {'id': '92', 'type': 'argument_list', 'children': ['93']}; {'id': '93', 'type': 'string', 'children': [], 'value': "'.json'"}; {'id': '94', 'type': 'block', 'children': ['95']}; {'id': '95', 'type': 'expression_statement', 'children': ['96']}; {'id': '96', 'type': 'augmented_assignment', 'children': ['97', '98'], 'value': '+='}; {'id': '97', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '98', 'type': 'string', 'children': [], 'value': "'.json'"}; {'id': '99', 'type': 'return_statement', 'children': ['100']}; {'id': '100', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '101', 'type': 'expression_statement', 'children': ['102']}; {'id': '102', 'type': 'assignment', 'children': ['103', '104']}; {'id': '103', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '104', 'type': 'call', 'children': ['105', '106']}; {'id': '105', 'type': 'identifier', 'children': [], 'value': '_schema_to_normalized_path'}; {'id': '106', 'type': 'argument_list', 'children': ['107']}; {'id': '107', 'type': 'identifier', 'children': [], 'value': 'schema'}; {'id': '108', 'type': 'while_statement', 'children': ['109', '110']}; {'id': '109', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '110', 'type': 'block', 'children': ['111', '154', '173']}; {'id': '111', 'type': 'if_statement', 'children': ['112', '113', '133']}; {'id': '112', 'type': 'identifier', 'children': [], 'value': 'resolved'}; {'id': '113', 'type': 'block', 'children': ['114']}; {'id': '114', 'type': 'expression_statement', 'children': ['115']}; {'id': '115', 'type': 'assignment', 'children': ['116', '117']}; {'id': '116', 'type': 'identifier', 'children': [], 'value': 'schema_path'}; {'id': '117', 'type': 'call', 'children': ['118', '123']}; {'id': '118', 'type': 'attribute', 'children': ['119', '122']}; {'id': '119', 'type': 'attribute', 'children': ['120', '121']}; {'id': '120', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '121', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '122', 'type': 'identifier', 'children': [], 'value': 'abspath'}; {'id': '123', 'type': 'argument_list', 'children': ['124']}; {'id': '124', 'type': 'call', 'children': ['125', '130']}; {'id': '125', 'type': 'attribute', 'children': ['126', '129']}; {'id': '126', 'type': 'attribute', 'children': ['127', '128']}; {'id': '127', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '128', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '129', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '130', 'type': 'argument_list', 'children': ['131', '132']}; {'id': '131', 'type': 'identifier', 'children': [], 'value': '_resolved_schema_root_path'}; {'id': '132', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '133', 'type': 'else_clause', 'children': ['134']}; {'id': '134', 'type': 'block', 'children': ['135']}; {'id': '135', 'type': 'expression_statement', 'children': ['136']}; {'id': '136', 'type': 'assignment', 'children': ['137', '138']}; {'id': '137', 'type': 'identifier', 'children': [], 'value': 'schema_path'}; {'id': '138', 'type': 'call', 'children': ['139', '144']}; {'id': '139', 'type': 'attribute', 'children': ['140', '143']}; {'id': '140', 'type': 'attribute', 'children': ['141', '142']}; {'id': '141', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '142', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '143', 'type': 'identifier', 'children': [], 'value': 'abspath'}; {'id': '144', 'type': 'argument_list', 'children': ['145']}; {'id': '145', 'type': 'call', 'children': ['146', '151']}; {'id': '146', 'type': 'attribute', 'children': ['147', '150']}; {'id': '147', 'type': 'attribute', 'children': ['148', '149']}; {'id': '148', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '149', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '150', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '151', 'type': 'argument_list', 'children': ['152', '153']}; {'id': '152', 'type': 'identifier', 'children': [], 'value': '_schema_root_path'}; {'id': '153', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '154', 'type': 'if_statement', 'children': ['155', '163']}; {'id': '155', 'type': 'call', 'children': ['156', '161']}; {'id': '156', 'type': 'attribute', 'children': ['157', '160']}; {'id': '157', 'type': 'attribute', 'children': ['158', '159']}; {'id': '158', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '159', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '160', 'type': 'identifier', 'children': [], 'value': 'exists'}; {'id': '161', 'type': 'argument_list', 'children': ['162']}; {'id': '162', 'type': 'identifier', 'children': [], 'value': 'schema_path'}; {'id': '163', 'type': 'block', 'children': ['164']}; {'id': '164', 'type': 'return_statement', 'children': ['165']}; {'id': '165', 'type': 'call', 'children': ['166', '171']}; {'id': '166', 'type': 'attribute', 'children': ['167', '170']}; {'id': '167', 'type': 'attribute', 'children': ['168', '169']}; {'id': '168', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '169', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '170', 'type': 'identifier', 'children': [], 'value': 'abspath'}; {'id': '171', 'type': 'argument_list', 'children': ['172']}; {'id': '172', 'type': 'identifier', 'children': [], 'value': 'schema_path'}; {'id': '173', 'type': 'expression_statement', 'children': ['174']}; {'id': '174', 'type': 'assignment', 'children': ['175', '176']}; {'id': '175', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '176', 'type': 'call', 'children': ['177', '178']}; {'id': '177', 'type': 'identifier', 'children': [], 'value': '_strip_first_path_elem'}; {'id': '178', 'type': 'argument_list', 'children': ['179']}; {'id': '179', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '180', 'type': 'raise_statement', 'children': ['181']}; {'id': '181', 'type': 'call', 'children': ['182', '183']}; {'id': '182', 'type': 'identifier', 'children': [], 'value': 'SchemaNotFound'}; {'id': '183', 'type': 'argument_list', 'children': ['184']}; {'id': '184', 'type': 'keyword_argument', 'children': ['185', '186']}; {'id': '185', 'type': 'identifier', 'children': [], 'value': 'schema'}; {'id': '186', 'type': 'identifier', 'children': [], 'value': 'schema'} | def get_schema_path(schema, resolved=False):
def _strip_first_path_elem(path):
stripped_path = path.split(os.path.sep, 1)[1:]
return ''.join(stripped_path)
def _schema_to_normalized_path(schema):
path = os.path.normpath(os.path.sep + urlsplit(schema).path)
if path.startswith(os.path.sep):
path = path[1:]
if not path.endswith('.json'):
path += '.json'
return path
path = _schema_to_normalized_path(schema)
while path:
if resolved:
schema_path = os.path.abspath(os.path.join(_resolved_schema_root_path, path))
else:
schema_path = os.path.abspath(os.path.join(_schema_root_path, path))
if os.path.exists(schema_path):
return os.path.abspath(schema_path)
path = _strip_first_path_elem(path)
raise SchemaNotFound(schema=schema) |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'get_license_from_url'}; {'id': '3', 'type': 'parameters', 'children': ['4']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'url'}; {'id': '5', 'type': 'block', 'children': ['6', '11', '21', '167']}; {'id': '6', 'type': 'if_statement', 'children': ['7', '9']}; {'id': '7', 'type': 'not_operator', 'children': ['8']}; {'id': '8', 'type': 'identifier', 'children': [], 'value': 'url'}; {'id': '9', 'type': 'block', 'children': ['10']}; {'id': '10', 'type': 'return_statement', 'children': []}; {'id': '11', 'type': 'expression_statement', 'children': ['12']}; {'id': '12', 'type': 'assignment', 'children': ['13', '14']}; {'id': '13', 'type': 'identifier', 'children': [], 'value': 'split_url'}; {'id': '14', 'type': 'call', 'children': ['15', '16']}; {'id': '15', 'type': 'identifier', 'children': [], 'value': 'urlsplit'}; {'id': '16', 'type': 'argument_list', 'children': ['17', '18']}; {'id': '17', 'type': 'identifier', 'children': [], 'value': 'url'}; {'id': '18', 'type': 'keyword_argument', 'children': ['19', '20']}; {'id': '19', 'type': 'identifier', 'children': [], 'value': 'scheme'}; {'id': '20', 'type': 'string', 'children': [], 'value': "'http'"}; {'id': '21', 'type': 'if_statement', 'children': ['22', '31', '121', '160']}; {'id': '22', 'type': 'comparison_operator', 'children': ['23', '30'], 'value': '=='}; {'id': '23', 'type': 'call', 'children': ['24', '29']}; {'id': '24', 'type': 'attribute', 'children': ['25', '28']}; {'id': '25', 'type': 'attribute', 'children': ['26', '27']}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'split_url'}; {'id': '27', 'type': 'identifier', 'children': [], 'value': 'netloc'}; {'id': '28', 'type': 'identifier', 'children': [], 'value': 'lower'}; {'id': '29', 'type': 'argument_list', 'children': []}; {'id': '30', 'type': 'string', 'children': [], 'value': "'creativecommons.org'"}; {'id': '31', 'type': 'block', 'children': ['32']}; {'id': '32', 'type': 'if_statement', 'children': ['33', '38', '83']}; {'id': '33', 'type': 'comparison_operator', 'children': ['34', '35'], 'value': 'in'}; {'id': '34', 'type': 'string', 'children': [], 'value': "'publicdomain'"}; {'id': '35', 'type': 'attribute', 'children': ['36', '37']}; {'id': '36', 'type': 'identifier', 'children': [], 'value': 'split_url'}; {'id': '37', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '38', 'type': 'block', 'children': ['39', '50']}; {'id': '39', 'type': 'expression_statement', 'children': ['40']}; {'id': '40', 'type': 'assignment', 'children': ['41', '42']}; {'id': '41', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '42', 'type': 'call', 'children': ['43', '46']}; {'id': '43', 'type': 'attribute', 'children': ['44', '45']}; {'id': '44', 'type': 'identifier', 'children': [], 'value': '_RE_PUBLIC_DOMAIN_URL'}; {'id': '45', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '46', 'type': 'argument_list', 'children': ['47']}; {'id': '47', 'type': 'attribute', 'children': ['48', '49']}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'split_url'}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '50', 'type': 'if_statement', 'children': ['51', '54', '60']}; {'id': '51', 'type': 'comparison_operator', 'children': ['52', '53'], 'value': 'is'}; {'id': '52', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '53', 'type': 'None', 'children': []}; {'id': '54', 'type': 'block', 'children': ['55']}; {'id': '55', 'type': 'expression_statement', 'children': ['56']}; {'id': '56', 'type': 'assignment', 'children': ['57', '58']}; {'id': '57', 'type': 'identifier', 'children': [], 'value': 'license'}; {'id': '58', 'type': 'list', 'children': ['59'], 'value': "['public domain']"}; {'id': '59', 'type': 'string', 'children': [], 'value': "'public domain'"}; {'id': '60', 'type': 'else_clause', 'children': ['61']}; {'id': '61', 'type': 'block', 'children': ['62', '67']}; {'id': '62', 'type': 'expression_statement', 'children': ['63']}; {'id': '63', 'type': 'assignment', 'children': ['64', '65']}; {'id': '64', 'type': 'identifier', 'children': [], 'value': 'license'}; {'id': '65', 'type': 'list', 'children': ['66'], 'value': "['CC0']"}; {'id': '66', 'type': 'string', 'children': [], 'value': "'CC0'"}; {'id': '67', 'type': 'expression_statement', 'children': ['68']}; {'id': '68', 'type': 'call', 'children': ['69', '72']}; {'id': '69', 'type': 'attribute', 'children': ['70', '71']}; {'id': '70', 'type': 'identifier', 'children': [], 'value': 'license'}; {'id': '71', 'type': 'identifier', 'children': [], 'value': 'extend'}; {'id': '72', 'type': 'generator_expression', 'children': ['73', '74', '81']}; {'id': '73', 'type': 'identifier', 'children': [], 'value': 'part'}; {'id': '74', 'type': 'for_in_clause', 'children': ['75', '76']}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'part'}; {'id': '76', 'type': 'call', 'children': ['77', '80']}; {'id': '77', 'type': 'attribute', 'children': ['78', '79']}; {'id': '78', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '79', 'type': 'identifier', 'children': [], 'value': 'groups'}; {'id': '80', 'type': 'argument_list', 'children': []}; {'id': '81', 'type': 'if_clause', 'children': ['82']}; {'id': '82', 'type': 'identifier', 'children': [], 'value': 'part'}; {'id': '83', 'type': 'else_clause', 'children': ['84']}; {'id': '84', 'type': 'block', 'children': ['85', '90', '101']}; {'id': '85', 'type': 'expression_statement', 'children': ['86']}; {'id': '86', 'type': 'assignment', 'children': ['87', '88']}; {'id': '87', 'type': 'identifier', 'children': [], 'value': 'license'}; {'id': '88', 'type': 'list', 'children': ['89'], 'value': "['CC']"}; {'id': '89', 'type': 'string', 'children': [], 'value': "'CC'"}; {'id': '90', 'type': 'expression_statement', 'children': ['91']}; {'id': '91', 'type': 'assignment', 'children': ['92', '93']}; {'id': '92', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '93', 'type': 'call', 'children': ['94', '97']}; {'id': '94', 'type': 'attribute', 'children': ['95', '96']}; {'id': '95', 'type': 'identifier', 'children': [], 'value': '_RE_LICENSE_URL'}; {'id': '96', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '97', 'type': 'argument_list', 'children': ['98']}; {'id': '98', 'type': 'attribute', 'children': ['99', '100']}; {'id': '99', 'type': 'identifier', 'children': [], 'value': 'split_url'}; {'id': '100', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '101', 'type': 'expression_statement', 'children': ['102']}; {'id': '102', 'type': 'call', 'children': ['103', '106']}; {'id': '103', 'type': 'attribute', 'children': ['104', '105']}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'license'}; {'id': '105', 'type': 'identifier', 'children': [], 'value': 'extend'}; {'id': '106', 'type': 'generator_expression', 'children': ['107', '112', '119']}; {'id': '107', 'type': 'call', 'children': ['108', '111']}; {'id': '108', 'type': 'attribute', 'children': ['109', '110']}; {'id': '109', 'type': 'identifier', 'children': [], 'value': 'part'}; {'id': '110', 'type': 'identifier', 'children': [], 'value': 'upper'}; {'id': '111', 'type': 'argument_list', 'children': []}; {'id': '112', 'type': 'for_in_clause', 'children': ['113', '114']}; {'id': '113', 'type': 'identifier', 'children': [], 'value': 'part'}; {'id': '114', 'type': 'call', 'children': ['115', '118']}; {'id': '115', 'type': 'attribute', 'children': ['116', '117']}; {'id': '116', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'groups'}; {'id': '118', 'type': 'argument_list', 'children': []}; {'id': '119', 'type': 'if_clause', 'children': ['120']}; {'id': '120', 'type': 'identifier', 'children': [], 'value': 'part'}; {'id': '121', 'type': 'elif_clause', 'children': ['122', '127']}; {'id': '122', 'type': 'comparison_operator', 'children': ['123', '126'], 'value': '=='}; {'id': '123', 'type': 'attribute', 'children': ['124', '125']}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'split_url'}; {'id': '125', 'type': 'identifier', 'children': [], 'value': 'netloc'}; {'id': '126', 'type': 'string', 'children': [], 'value': "'arxiv.org'"}; {'id': '127', 'type': 'block', 'children': ['128', '133', '144']}; {'id': '128', 'type': 'expression_statement', 'children': ['129']}; {'id': '129', 'type': 'assignment', 'children': ['130', '131']}; {'id': '130', 'type': 'identifier', 'children': [], 'value': 'license'}; {'id': '131', 'type': 'list', 'children': ['132'], 'value': "['arXiv']"}; {'id': '132', 'type': 'string', 'children': [], 'value': "'arXiv'"}; {'id': '133', 'type': 'expression_statement', 'children': ['134']}; {'id': '134', 'type': 'assignment', 'children': ['135', '136']}; {'id': '135', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '136', 'type': 'call', 'children': ['137', '140']}; {'id': '137', 'type': 'attribute', 'children': ['138', '139']}; {'id': '138', 'type': 'identifier', 'children': [], 'value': '_RE_LICENSE_URL'}; {'id': '139', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '140', 'type': 'argument_list', 'children': ['141']}; {'id': '141', 'type': 'attribute', 'children': ['142', '143']}; {'id': '142', 'type': 'identifier', 'children': [], 'value': 'split_url'}; {'id': '143', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '144', 'type': 'expression_statement', 'children': ['145']}; {'id': '145', 'type': 'call', 'children': ['146', '149']}; {'id': '146', 'type': 'attribute', 'children': ['147', '148']}; {'id': '147', 'type': 'identifier', 'children': [], 'value': 'license'}; {'id': '148', 'type': 'identifier', 'children': [], 'value': 'extend'}; {'id': '149', 'type': 'generator_expression', 'children': ['150', '151', '158']}; {'id': '150', 'type': 'identifier', 'children': [], 'value': 'part'}; {'id': '151', 'type': 'for_in_clause', 'children': ['152', '153']}; {'id': '152', 'type': 'identifier', 'children': [], 'value': 'part'}; {'id': '153', 'type': 'call', 'children': ['154', '157']}; {'id': '154', 'type': 'attribute', 'children': ['155', '156']}; {'id': '155', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '156', 'type': 'identifier', 'children': [], 'value': 'groups'}; {'id': '157', 'type': 'argument_list', 'children': []}; {'id': '158', 'type': 'if_clause', 'children': ['159']}; {'id': '159', 'type': 'identifier', 'children': [], 'value': 'part'}; {'id': '160', 'type': 'else_clause', 'children': ['161']}; {'id': '161', 'type': 'block', 'children': ['162']}; {'id': '162', 'type': 'raise_statement', 'children': ['163']}; {'id': '163', 'type': 'call', 'children': ['164', '165']}; {'id': '164', 'type': 'identifier', 'children': [], 'value': 'ValueError'}; {'id': '165', 'type': 'argument_list', 'children': ['166']}; {'id': '166', 'type': 'string', 'children': [], 'value': "'Unknown license URL'"}; {'id': '167', 'type': 'return_statement', 'children': ['168']}; {'id': '168', 'type': 'call', 'children': ['169', '172']}; {'id': '169', 'type': 'attribute', 'children': ['170', '171']}; {'id': '170', 'type': 'string', 'children': [], 'value': "u' '"}; {'id': '171', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '172', 'type': 'argument_list', 'children': ['173']}; {'id': '173', 'type': 'identifier', 'children': [], 'value': 'license'} | def get_license_from_url(url):
if not url:
return
split_url = urlsplit(url, scheme='http')
if split_url.netloc.lower() == 'creativecommons.org':
if 'publicdomain' in split_url.path:
match = _RE_PUBLIC_DOMAIN_URL.match(split_url.path)
if match is None:
license = ['public domain']
else:
license = ['CC0']
license.extend(part for part in match.groups() if part)
else:
license = ['CC']
match = _RE_LICENSE_URL.match(split_url.path)
license.extend(part.upper() for part in match.groups() if part)
elif split_url.netloc == 'arxiv.org':
license = ['arXiv']
match = _RE_LICENSE_URL.match(split_url.path)
license.extend(part for part in match.groups() if part)
else:
raise ValueError('Unknown license URL')
return u' '.join(license) |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'convert_old_publication_info_to_new'}; {'id': '3', 'type': 'parameters', 'children': ['4']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'publication_infos'}; {'id': '5', 'type': 'block', 'children': ['6', '10', '14', '280', '302']}; {'id': '6', 'type': 'expression_statement', 'children': ['7']}; {'id': '7', 'type': 'assignment', 'children': ['8', '9']}; {'id': '8', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '9', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '10', 'type': 'expression_statement', 'children': ['11']}; {'id': '11', 'type': 'assignment', 'children': ['12', '13']}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'hidden_publication_infos'}; {'id': '13', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '14', 'type': 'for_statement', 'children': ['15', '16', '17']}; {'id': '15', 'type': 'identifier', 'children': [], 'value': 'publication_info'}; {'id': '16', 'type': 'identifier', 'children': [], 'value': 'publication_infos'}; {'id': '17', 'type': 'block', 'children': ['18', '27', '36', '62', '71', '148', '251', '261']}; {'id': '18', 'type': 'expression_statement', 'children': ['19']}; {'id': '19', 'type': 'assignment', 'children': ['20', '21']}; {'id': '20', 'type': 'identifier', 'children': [], 'value': '_publication_info'}; {'id': '21', 'type': 'call', 'children': ['22', '25']}; {'id': '22', 'type': 'attribute', 'children': ['23', '24']}; {'id': '23', 'type': 'identifier', 'children': [], 'value': 'copy'}; {'id': '24', 'type': 'identifier', 'children': [], 'value': 'deepcopy'}; {'id': '25', 'type': 'argument_list', 'children': ['26']}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'publication_info'}; {'id': '27', 'type': 'expression_statement', 'children': ['28']}; {'id': '28', 'type': 'assignment', 'children': ['29', '30']}; {'id': '29', 'type': 'identifier', 'children': [], 'value': 'journal_title'}; {'id': '30', 'type': 'call', 'children': ['31', '34']}; {'id': '31', 'type': 'attribute', 'children': ['32', '33']}; {'id': '32', 'type': 'identifier', 'children': [], 'value': '_publication_info'}; {'id': '33', 'type': 'identifier', 'children': [], 'value': 'get'}; {'id': '34', 'type': 'argument_list', 'children': ['35']}; {'id': '35', 'type': 'string', 'children': [], 'value': "'journal_title'"}; {'id': '36', 'type': 'try_statement', 'children': ['37', '58']}; {'id': '37', 'type': 'block', 'children': ['38', '44', '50', '57']}; {'id': '38', 'type': 'expression_statement', 'children': ['39']}; {'id': '39', 'type': 'assignment', 'children': ['40', '41']}; {'id': '40', 'type': 'identifier', 'children': [], 'value': 'journal_title'}; {'id': '41', 'type': 'subscript', 'children': ['42', '43']}; {'id': '42', 'type': 'identifier', 'children': [], 'value': '_JOURNALS_RENAMED_OLD_TO_NEW'}; {'id': '43', 'type': 'identifier', 'children': [], 'value': 'journal_title'}; {'id': '44', 'type': 'expression_statement', 'children': ['45']}; {'id': '45', 'type': 'assignment', 'children': ['46', '49']}; {'id': '46', 'type': 'subscript', 'children': ['47', '48']}; {'id': '47', 'type': 'identifier', 'children': [], 'value': '_publication_info'}; {'id': '48', 'type': 'string', 'children': [], 'value': "'journal_title'"}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'journal_title'}; {'id': '50', 'type': 'expression_statement', 'children': ['51']}; {'id': '51', 'type': 'call', 'children': ['52', '55']}; {'id': '52', 'type': 'attribute', 'children': ['53', '54']}; {'id': '53', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '54', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '55', 'type': 'argument_list', 'children': ['56']}; {'id': '56', 'type': 'identifier', 'children': [], 'value': '_publication_info'}; {'id': '57', 'type': 'continue_statement', 'children': []}; {'id': '58', 'type': 'except_clause', 'children': ['59', '60']}; {'id': '59', 'type': 'identifier', 'children': [], 'value': 'KeyError'}; {'id': '60', 'type': 'block', 'children': ['61']}; {'id': '61', 'type': 'pass_statement', 'children': []}; {'id': '62', 'type': 'expression_statement', 'children': ['63']}; {'id': '63', 'type': 'assignment', 'children': ['64', '65']}; {'id': '64', 'type': 'identifier', 'children': [], 'value': 'journal_volume'}; {'id': '65', 'type': 'call', 'children': ['66', '69']}; {'id': '66', 'type': 'attribute', 'children': ['67', '68']}; {'id': '67', 'type': 'identifier', 'children': [], 'value': '_publication_info'}; {'id': '68', 'type': 'identifier', 'children': [], 'value': 'get'}; {'id': '69', 'type': 'argument_list', 'children': ['70']}; {'id': '70', 'type': 'string', 'children': [], 'value': "'journal_volume'"}; {'id': '71', 'type': 'if_statement', 'children': ['72', '84']}; {'id': '72', 'type': 'boolean_operator', 'children': ['73', '78'], 'value': 'and'}; {'id': '73', 'type': 'boolean_operator', 'children': ['74', '77'], 'value': 'and'}; {'id': '74', 'type': 'comparison_operator', 'children': ['75', '76'], 'value': 'in'}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'journal_title'}; {'id': '76', 'type': 'identifier', 'children': [], 'value': '_JOURNALS_WITH_YEAR_ADDED_TO_VOLUME'}; {'id': '77', 'type': 'identifier', 'children': [], 'value': 'journal_volume'}; {'id': '78', 'type': 'comparison_operator', 'children': ['79', '83'], 'value': '=='}; {'id': '79', 'type': 'call', 'children': ['80', '81']}; {'id': '80', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '81', 'type': 'argument_list', 'children': ['82']}; {'id': '82', 'type': 'identifier', 'children': [], 'value': 'journal_volume'}; {'id': '83', 'type': 'integer', 'children': [], 'value': '4'}; {'id': '84', 'type': 'block', 'children': ['85', '140', '147']}; {'id': '85', 'type': 'try_statement', 'children': ['86', '100', '104']}; {'id': '86', 'type': 'block', 'children': ['87']}; {'id': '87', 'type': 'expression_statement', 'children': ['88']}; {'id': '88', 'type': 'assignment', 'children': ['89', '90']}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'was_last_century'}; {'id': '90', 'type': 'comparison_operator', 'children': ['91', '99'], 'value': '>'}; {'id': '91', 'type': 'call', 'children': ['92', '93']}; {'id': '92', 'type': 'identifier', 'children': [], 'value': 'int'}; {'id': '93', 'type': 'argument_list', 'children': ['94']}; {'id': '94', 'type': 'subscript', 'children': ['95', '96']}; {'id': '95', 'type': 'identifier', 'children': [], 'value': 'journal_volume'}; {'id': '96', 'type': 'slice', 'children': ['97', '98']}; {'id': '97', 'type': 'colon', 'children': []}; {'id': '98', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '99', 'type': 'integer', 'children': [], 'value': '50'}; {'id': '100', 'type': 'except_clause', 'children': ['101', '102']}; {'id': '101', 'type': 'identifier', 'children': [], 'value': 'ValueError'}; {'id': '102', 'type': 'block', 'children': ['103']}; {'id': '103', 'type': 'pass_statement', 'children': []}; {'id': '104', 'type': 'else_clause', 'children': ['105']}; {'id': '105', 'type': 'block', 'children': ['106', '130']}; {'id': '106', 'type': 'expression_statement', 'children': ['107']}; {'id': '107', 'type': 'assignment', 'children': ['108', '111']}; {'id': '108', 'type': 'subscript', 'children': ['109', '110']}; {'id': '109', 'type': 'identifier', 'children': [], 'value': '_publication_info'}; {'id': '110', 'type': 'string', 'children': [], 'value': "'year'"}; {'id': '111', 'type': 'call', 'children': ['112', '113']}; {'id': '112', 'type': 'identifier', 'children': [], 'value': 'int'}; {'id': '113', 'type': 'argument_list', 'children': ['114']}; {'id': '114', 'type': 'conditional_expression', 'children': ['115', '122', '123'], 'value': 'if'}; {'id': '115', 'type': 'binary_operator', 'children': ['116', '117'], 'value': '+'}; {'id': '116', 'type': 'string', 'children': [], 'value': "'19'"}; {'id': '117', 'type': 'subscript', 'children': ['118', '119']}; {'id': '118', 'type': 'identifier', 'children': [], 'value': 'journal_volume'}; {'id': '119', 'type': 'slice', 'children': ['120', '121']}; {'id': '120', 'type': 'colon', 'children': []}; {'id': '121', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '122', 'type': 'identifier', 'children': [], 'value': 'was_last_century'}; {'id': '123', 'type': 'binary_operator', 'children': ['124', '125'], 'value': '+'}; {'id': '124', 'type': 'string', 'children': [], 'value': "'20'"}; {'id': '125', 'type': 'subscript', 'children': ['126', '127']}; {'id': '126', 'type': 'identifier', 'children': [], 'value': 'journal_volume'}; {'id': '127', 'type': 'slice', 'children': ['128', '129']}; {'id': '128', 'type': 'colon', 'children': []}; {'id': '129', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '130', 'type': 'expression_statement', 'children': ['131']}; {'id': '131', 'type': 'assignment', 'children': ['132', '135']}; {'id': '132', 'type': 'subscript', 'children': ['133', '134']}; {'id': '133', 'type': 'identifier', 'children': [], 'value': '_publication_info'}; {'id': '134', 'type': 'string', 'children': [], 'value': "'journal_volume'"}; {'id': '135', 'type': 'subscript', 'children': ['136', '137']}; {'id': '136', 'type': 'identifier', 'children': [], 'value': 'journal_volume'}; {'id': '137', 'type': 'slice', 'children': ['138', '139']}; {'id': '138', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '139', 'type': 'colon', 'children': []}; {'id': '140', 'type': 'expression_statement', 'children': ['141']}; {'id': '141', 'type': 'call', 'children': ['142', '145']}; {'id': '142', 'type': 'attribute', 'children': ['143', '144']}; {'id': '143', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '144', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '145', 'type': 'argument_list', 'children': ['146']}; {'id': '146', 'type': 'identifier', 'children': [], 'value': '_publication_info'}; {'id': '147', 'type': 'continue_statement', 'children': []}; {'id': '148', 'type': 'if_statement', 'children': ['149', '160']}; {'id': '149', 'type': 'boolean_operator', 'children': ['150', '153'], 'value': 'and'}; {'id': '150', 'type': 'boolean_operator', 'children': ['151', '152'], 'value': 'and'}; {'id': '151', 'type': 'identifier', 'children': [], 'value': 'journal_title'}; {'id': '152', 'type': 'identifier', 'children': [], 'value': 'journal_volume'}; {'id': '153', 'type': 'comparison_operator', 'children': ['154', '159'], 'value': 'not'}; {'id': '154', 'type': 'call', 'children': ['155', '158']}; {'id': '155', 'type': 'attribute', 'children': ['156', '157']}; {'id': '156', 'type': 'identifier', 'children': [], 'value': 'journal_title'}; {'id': '157', 'type': 'identifier', 'children': [], 'value': 'lower'}; {'id': '158', 'type': 'argument_list', 'children': []}; {'id': '159', 'type': 'identifier', 'children': [], 'value': 'JOURNALS_IGNORED_IN_OLD_TO_NEW'}; {'id': '160', 'type': 'block', 'children': ['161', '170', '179', '185']}; {'id': '161', 'type': 'expression_statement', 'children': ['162']}; {'id': '162', 'type': 'assignment', 'children': ['163', '164']}; {'id': '163', 'type': 'identifier', 'children': [], 'value': 'volume_starts_with_a_letter'}; {'id': '164', 'type': 'call', 'children': ['165', '168']}; {'id': '165', 'type': 'attribute', 'children': ['166', '167']}; {'id': '166', 'type': 'identifier', 'children': [], 'value': '_RE_VOLUME_STARTS_WITH_A_LETTER'}; {'id': '167', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '168', 'type': 'argument_list', 'children': ['169']}; {'id': '169', 'type': 'identifier', 'children': [], 'value': 'journal_volume'}; {'id': '170', 'type': 'expression_statement', 'children': ['171']}; {'id': '171', 'type': 'assignment', 'children': ['172', '173']}; {'id': '172', 'type': 'identifier', 'children': [], 'value': 'volume_ends_with_a_letter'}; {'id': '173', 'type': 'call', 'children': ['174', '177']}; {'id': '174', 'type': 'attribute', 'children': ['175', '176']}; {'id': '175', 'type': 'identifier', 'children': [], 'value': '_RE_VOLUME_ENDS_WITH_A_LETTER'}; {'id': '176', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '177', 'type': 'argument_list', 'children': ['178']}; {'id': '178', 'type': 'identifier', 'children': [], 'value': 'journal_volume'}; {'id': '179', 'type': 'expression_statement', 'children': ['180']}; {'id': '180', 'type': 'assignment', 'children': ['181', '182']}; {'id': '181', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '182', 'type': 'boolean_operator', 'children': ['183', '184'], 'value': 'or'}; {'id': '183', 'type': 'identifier', 'children': [], 'value': 'volume_starts_with_a_letter'}; {'id': '184', 'type': 'identifier', 'children': [], 'value': 'volume_ends_with_a_letter'}; {'id': '185', 'type': 'if_statement', 'children': ['186', '187']}; {'id': '186', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '187', 'type': 'block', 'children': ['188', '196', '240']}; {'id': '188', 'type': 'expression_statement', 'children': ['189']}; {'id': '189', 'type': 'call', 'children': ['190', '193']}; {'id': '190', 'type': 'attribute', 'children': ['191', '192']}; {'id': '191', 'type': 'identifier', 'children': [], 'value': '_publication_info'}; {'id': '192', 'type': 'identifier', 'children': [], 'value': 'pop'}; {'id': '193', 'type': 'argument_list', 'children': ['194', '195']}; {'id': '194', 'type': 'string', 'children': [], 'value': "'journal_record'"}; {'id': '195', 'type': 'None', 'children': []}; {'id': '196', 'type': 'if_statement', 'children': ['197', '204', '211']}; {'id': '197', 'type': 'comparison_operator', 'children': ['198', '199'], 'value': 'in'}; {'id': '198', 'type': 'identifier', 'children': [], 'value': 'journal_title'}; {'id': '199', 'type': 'call', 'children': ['200', '203']}; {'id': '200', 'type': 'attribute', 'children': ['201', '202']}; {'id': '201', 'type': 'identifier', 'children': [], 'value': '_JOURNALS_RENAMED_OLD_TO_NEW'}; {'id': '202', 'type': 'identifier', 'children': [], 'value': 'values'}; {'id': '203', 'type': 'argument_list', 'children': []}; {'id': '204', 'type': 'block', 'children': ['205']}; {'id': '205', 'type': 'expression_statement', 'children': ['206']}; {'id': '206', 'type': 'assignment', 'children': ['207', '210']}; {'id': '207', 'type': 'subscript', 'children': ['208', '209']}; {'id': '208', 'type': 'identifier', 'children': [], 'value': '_publication_info'}; {'id': '209', 'type': 'string', 'children': [], 'value': "'journal_title'"}; {'id': '210', 'type': 'identifier', 'children': [], 'value': 'journal_title'}; {'id': '211', 'type': 'else_clause', 'children': ['212']}; {'id': '212', 'type': 'block', 'children': ['213']}; {'id': '213', 'type': 'expression_statement', 'children': ['214']}; {'id': '214', 'type': 'assignment', 'children': ['215', '218']}; {'id': '215', 'type': 'subscript', 'children': ['216', '217']}; {'id': '216', 'type': 'identifier', 'children': [], 'value': '_publication_info'}; {'id': '217', 'type': 'string', 'children': [], 'value': "'journal_title'"}; {'id': '218', 'type': 'call', 'children': ['219', '222']}; {'id': '219', 'type': 'attribute', 'children': ['220', '221']}; {'id': '220', 'type': 'string', 'children': [], 'value': "''"}; {'id': '221', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '222', 'type': 'argument_list', 'children': ['223']}; {'id': '223', 'type': 'list', 'children': ['224', '225', '234'], 'value': "[\n journal_title,\n '' if journal_title.endswith('.') else ' ',\n match.group('letter'),\n ]"}; {'id': '224', 'type': 'identifier', 'children': [], 'value': 'journal_title'}; {'id': '225', 'type': 'conditional_expression', 'children': ['226', '227', '233'], 'value': 'if'}; {'id': '226', 'type': 'string', 'children': [], 'value': "''"}; {'id': '227', 'type': 'call', 'children': ['228', '231']}; {'id': '228', 'type': 'attribute', 'children': ['229', '230']}; {'id': '229', 'type': 'identifier', 'children': [], 'value': 'journal_title'}; {'id': '230', 'type': 'identifier', 'children': [], 'value': 'endswith'}; {'id': '231', 'type': 'argument_list', 'children': ['232']}; {'id': '232', 'type': 'string', 'children': [], 'value': "'.'"}; {'id': '233', 'type': 'string', 'children': [], 'value': "' '"}; {'id': '234', 'type': 'call', 'children': ['235', '238']}; {'id': '235', 'type': 'attribute', 'children': ['236', '237']}; {'id': '236', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '237', 'type': 'identifier', 'children': [], 'value': 'group'}; {'id': '238', 'type': 'argument_list', 'children': ['239']}; {'id': '239', 'type': 'string', 'children': [], 'value': "'letter'"}; {'id': '240', 'type': 'expression_statement', 'children': ['241']}; {'id': '241', 'type': 'assignment', 'children': ['242', '245']}; {'id': '242', 'type': 'subscript', 'children': ['243', '244']}; {'id': '243', 'type': 'identifier', 'children': [], 'value': '_publication_info'}; {'id': '244', 'type': 'string', 'children': [], 'value': "'journal_volume'"}; {'id': '245', 'type': 'call', 'children': ['246', '249']}; {'id': '246', 'type': 'attribute', 'children': ['247', '248']}; {'id': '247', 'type': 'identifier', 'children': [], 'value': 'match'}; {'id': '248', 'type': 'identifier', 'children': [], 'value': 'group'}; {'id': '249', 'type': 'argument_list', 'children': ['250']}; {'id': '250', 'type': 'string', 'children': [], 'value': "'volume'"}; {'id': '251', 'type': 'expression_statement', 'children': ['252']}; {'id': '252', 'type': 'assignment', 'children': ['253', '254']}; {'id': '253', 'type': 'identifier', 'children': [], 'value': 'hidden'}; {'id': '254', 'type': 'call', 'children': ['255', '258']}; {'id': '255', 'type': 'attribute', 'children': ['256', '257']}; {'id': '256', 'type': 'identifier', 'children': [], 'value': '_publication_info'}; {'id': '257', 'type': 'identifier', 'children': [], 'value': 'pop'}; {'id': '258', 'type': 'argument_list', 'children': ['259', '260']}; {'id': '259', 'type': 'string', 'children': [], 'value': "'hidden'"}; {'id': '260', 'type': 'None', 'children': []}; {'id': '261', 'type': 'if_statement', 'children': ['262', '263', '271']}; {'id': '262', 'type': 'identifier', 'children': [], 'value': 'hidden'}; {'id': '263', 'type': 'block', 'children': ['264']}; {'id': '264', 'type': 'expression_statement', 'children': ['265']}; {'id': '265', 'type': 'call', 'children': ['266', '269']}; {'id': '266', 'type': 'attribute', 'children': ['267', '268']}; {'id': '267', 'type': 'identifier', 'children': [], 'value': 'hidden_publication_infos'}; {'id': '268', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '269', 'type': 'argument_list', 'children': ['270']}; {'id': '270', 'type': 'identifier', 'children': [], 'value': '_publication_info'}; {'id': '271', 'type': 'else_clause', 'children': ['272']}; {'id': '272', 'type': 'block', 'children': ['273']}; {'id': '273', 'type': 'expression_statement', 'children': ['274']}; {'id': '274', 'type': 'call', 'children': ['275', '278']}; {'id': '275', 'type': 'attribute', 'children': ['276', '277']}; {'id': '276', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '277', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '278', 'type': 'argument_list', 'children': ['279']}; {'id': '279', 'type': 'identifier', 'children': [], 'value': '_publication_info'}; {'id': '280', 'type': 'for_statement', 'children': ['281', '282', '283']}; {'id': '281', 'type': 'identifier', 'children': [], 'value': 'publication_info'}; {'id': '282', 'type': 'identifier', 'children': [], 'value': 'hidden_publication_infos'}; {'id': '283', 'type': 'block', 'children': ['284']}; {'id': '284', 'type': 'if_statement', 'children': ['285', '288']}; {'id': '285', 'type': 'comparison_operator', 'children': ['286', '287'], 'value': 'not'}; {'id': '286', 'type': 'identifier', 'children': [], 'value': 'publication_info'}; {'id': '287', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '288', 'type': 'block', 'children': ['289', '295']}; {'id': '289', 'type': 'expression_statement', 'children': ['290']}; {'id': '290', 'type': 'assignment', 'children': ['291', '294']}; {'id': '291', 'type': 'subscript', 'children': ['292', '293']}; {'id': '292', 'type': 'identifier', 'children': [], 'value': 'publication_info'}; {'id': '293', 'type': 'string', 'children': [], 'value': "'hidden'"}; {'id': '294', 'type': 'True', 'children': []}; {'id': '295', 'type': 'expression_statement', 'children': ['296']}; {'id': '296', 'type': 'call', 'children': ['297', '300']}; {'id': '297', 'type': 'attribute', 'children': ['298', '299']}; {'id': '298', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '299', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '300', 'type': 'argument_list', 'children': ['301']}; {'id': '301', 'type': 'identifier', 'children': [], 'value': 'publication_info'}; {'id': '302', 'type': 'return_statement', 'children': ['303']}; {'id': '303', 'type': 'identifier', 'children': [], 'value': 'result'} | def convert_old_publication_info_to_new(publication_infos):
result = []
hidden_publication_infos = []
for publication_info in publication_infos:
_publication_info = copy.deepcopy(publication_info)
journal_title = _publication_info.get('journal_title')
try:
journal_title = _JOURNALS_RENAMED_OLD_TO_NEW[journal_title]
_publication_info['journal_title'] = journal_title
result.append(_publication_info)
continue
except KeyError:
pass
journal_volume = _publication_info.get('journal_volume')
if journal_title in _JOURNALS_WITH_YEAR_ADDED_TO_VOLUME and journal_volume and len(journal_volume) == 4:
try:
was_last_century = int(journal_volume[:2]) > 50
except ValueError:
pass
else:
_publication_info['year'] = int('19' + journal_volume[:2] if was_last_century else '20' + journal_volume[:2])
_publication_info['journal_volume'] = journal_volume[2:]
result.append(_publication_info)
continue
if journal_title and journal_volume and journal_title.lower() not in JOURNALS_IGNORED_IN_OLD_TO_NEW:
volume_starts_with_a_letter = _RE_VOLUME_STARTS_WITH_A_LETTER.match(journal_volume)
volume_ends_with_a_letter = _RE_VOLUME_ENDS_WITH_A_LETTER.match(journal_volume)
match = volume_starts_with_a_letter or volume_ends_with_a_letter
if match:
_publication_info.pop('journal_record', None)
if journal_title in _JOURNALS_RENAMED_OLD_TO_NEW.values():
_publication_info['journal_title'] = journal_title
else:
_publication_info['journal_title'] = ''.join([
journal_title,
'' if journal_title.endswith('.') else ' ',
match.group('letter'),
])
_publication_info['journal_volume'] = match.group('volume')
hidden = _publication_info.pop('hidden', None)
if hidden:
hidden_publication_infos.append(_publication_info)
else:
result.append(_publication_info)
for publication_info in hidden_publication_infos:
if publication_info not in result:
publication_info['hidden'] = True
result.append(publication_info)
return result |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '11']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'construct_reference_system'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '8']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'symbols'}; {'id': '5', 'type': 'default_parameter', 'children': ['6', '7']}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'candidates'}; {'id': '7', 'type': 'None', 'children': []}; {'id': '8', 'type': 'default_parameter', 'children': ['9', '10']}; {'id': '9', 'type': 'identifier', 'children': [], 'value': 'options'}; {'id': '10', 'type': 'None', 'children': []}; {'id': '11', 'type': 'block', 'children': ['12', '33', '37', '50', '88', '92', '213', '217', '228']}; {'id': '12', 'type': 'if_statement', 'children': ['13', '22', '27']}; {'id': '13', 'type': 'boolean_operator', 'children': ['14', '19'], 'value': 'and'}; {'id': '14', 'type': 'call', 'children': ['15', '16']}; {'id': '15', 'type': 'identifier', 'children': [], 'value': 'hasattr'}; {'id': '16', 'type': 'argument_list', 'children': ['17', '18']}; {'id': '17', 'type': 'identifier', 'children': [], 'value': 'options'}; {'id': '18', 'type': 'string', 'children': [], 'value': "'no_hydrogen'"}; {'id': '19', 'type': 'attribute', 'children': ['20', '21']}; {'id': '20', 'type': 'identifier', 'children': [], 'value': 'options'}; {'id': '21', 'type': 'identifier', 'children': [], 'value': 'no_hydrogen'}; {'id': '22', 'type': 'block', 'children': ['23']}; {'id': '23', 'type': 'expression_statement', 'children': ['24']}; {'id': '24', 'type': 'assignment', 'children': ['25', '26']}; {'id': '25', 'type': 'identifier', 'children': [], 'value': 'add_hydrogen'}; {'id': '26', 'type': 'False', 'children': []}; {'id': '27', 'type': 'else_clause', 'children': ['28']}; {'id': '28', 'type': 'block', 'children': ['29']}; {'id': '29', 'type': 'expression_statement', 'children': ['30']}; {'id': '30', 'type': 'assignment', 'children': ['31', '32']}; {'id': '31', 'type': 'identifier', 'children': [], 'value': 'add_hydrogen'}; {'id': '32', 'type': 'True', 'children': []}; {'id': '33', 'type': 'expression_statement', 'children': ['34']}; {'id': '34', 'type': 'assignment', 'children': ['35', '36']}; {'id': '35', 'type': 'identifier', 'children': [], 'value': 'references'}; {'id': '36', 'type': 'dictionary', 'children': []}; {'id': '37', 'type': 'expression_statement', 'children': ['38']}; {'id': '38', 'type': 'assignment', 'children': ['39', '40']}; {'id': '39', 'type': 'identifier', 'children': [], 'value': 'sorted_candidates'}; {'id': '40', 'type': 'list', 'children': ['41', '42', '43', '44', '45', '46', '47', '48', '49'], 'value': "[\n 'H2',\n 'H2O',\n 'NH3',\n 'N2',\n 'CH4',\n 'CO',\n 'H2S',\n 'HCl',\n 'O2']"}; {'id': '41', 'type': 'string', 'children': [], 'value': "'H2'"}; {'id': '42', 'type': 'string', 'children': [], 'value': "'H2O'"}; {'id': '43', 'type': 'string', 'children': [], 'value': "'NH3'"}; {'id': '44', 'type': 'string', 'children': [], 'value': "'N2'"}; {'id': '45', 'type': 'string', 'children': [], 'value': "'CH4'"}; {'id': '46', 'type': 'string', 'children': [], 'value': "'CO'"}; {'id': '47', 'type': 'string', 'children': [], 'value': "'H2S'"}; {'id': '48', 'type': 'string', 'children': [], 'value': "'HCl'"}; {'id': '49', 'type': 'string', 'children': [], 'value': "'O2'"}; {'id': '50', 'type': 'if_statement', 'children': ['51', '54', '59']}; {'id': '51', 'type': 'comparison_operator', 'children': ['52', '53'], 'value': 'is'}; {'id': '52', 'type': 'identifier', 'children': [], 'value': 'candidates'}; {'id': '53', 'type': 'None', 'children': []}; {'id': '54', 'type': 'block', 'children': ['55']}; {'id': '55', 'type': 'expression_statement', 'children': ['56']}; {'id': '56', 'type': 'assignment', 'children': ['57', '58']}; {'id': '57', 'type': 'identifier', 'children': [], 'value': 'candidates'}; {'id': '58', 'type': 'identifier', 'children': [], 'value': 'sorted_candidates'}; {'id': '59', 'type': 'else_clause', 'children': ['60']}; {'id': '60', 'type': 'block', 'children': ['61', '73']}; {'id': '61', 'type': 'expression_statement', 'children': ['62']}; {'id': '62', 'type': 'assignment', 'children': ['63', '64']}; {'id': '63', 'type': 'identifier', 'children': [], 'value': 'odd_candidates'}; {'id': '64', 'type': 'list_comprehension', 'children': ['65', '66', '69']}; {'id': '65', 'type': 'identifier', 'children': [], 'value': 'c'}; {'id': '66', 'type': 'for_in_clause', 'children': ['67', '68']}; {'id': '67', 'type': 'identifier', 'children': [], 'value': 'c'}; {'id': '68', 'type': 'identifier', 'children': [], 'value': 'candidates'}; {'id': '69', 'type': 'if_clause', 'children': ['70']}; {'id': '70', 'type': 'comparison_operator', 'children': ['71', '72'], 'value': 'not'}; {'id': '71', 'type': 'identifier', 'children': [], 'value': 'c'}; {'id': '72', 'type': 'identifier', 'children': [], 'value': 'sorted_candidates'}; {'id': '73', 'type': 'expression_statement', 'children': ['74']}; {'id': '74', 'type': 'assignment', 'children': ['75', '76']}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'candidates'}; {'id': '76', 'type': 'binary_operator', 'children': ['77', '86', '87'], 'value': '+'}; {'id': '77', 'type': 'list_comprehension', 'children': ['78', '79', '82']}; {'id': '78', 'type': 'identifier', 'children': [], 'value': 'c'}; {'id': '79', 'type': 'for_in_clause', 'children': ['80', '81']}; {'id': '80', 'type': 'identifier', 'children': [], 'value': 'c'}; {'id': '81', 'type': 'identifier', 'children': [], 'value': 'sorted_candidates'}; {'id': '82', 'type': 'if_clause', 'children': ['83']}; {'id': '83', 'type': 'comparison_operator', 'children': ['84', '85'], 'value': 'in'}; {'id': '84', 'type': 'identifier', 'children': [], 'value': 'c'}; {'id': '85', 'type': 'identifier', 'children': [], 'value': 'candidates'}; {'id': '86', 'type': 'line_continuation', 'children': [], 'value': '\\'}; {'id': '87', 'type': 'identifier', 'children': [], 'value': 'odd_candidates'}; {'id': '88', 'type': 'expression_statement', 'children': ['89']}; {'id': '89', 'type': 'assignment', 'children': ['90', '91']}; {'id': '90', 'type': 'identifier', 'children': [], 'value': 'added_symbols'}; {'id': '91', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '92', 'type': 'for_statement', 'children': ['93', '94', '95']}; {'id': '93', 'type': 'identifier', 'children': [], 'value': 'symbol'}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'symbols'}; {'id': '95', 'type': 'block', 'children': ['96', '103']}; {'id': '96', 'type': 'expression_statement', 'children': ['97']}; {'id': '97', 'type': 'call', 'children': ['98', '101']}; {'id': '98', 'type': 'attribute', 'children': ['99', '100']}; {'id': '99', 'type': 'identifier', 'children': [], 'value': 'added_symbols'}; {'id': '100', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '101', 'type': 'argument_list', 'children': ['102']}; {'id': '102', 'type': 'identifier', 'children': [], 'value': 'symbol'}; {'id': '103', 'type': 'for_statement', 'children': ['104', '105', '106', '174']}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'candidate'}; {'id': '105', 'type': 'identifier', 'children': [], 'value': 'candidates'}; {'id': '106', 'type': 'block', 'children': ['107', '118']}; {'id': '107', 'type': 'expression_statement', 'children': ['108']}; {'id': '108', 'type': 'assignment', 'children': ['109', '110']}; {'id': '109', 'type': 'identifier', 'children': [], 'value': '_symbols'}; {'id': '110', 'type': 'call', 'children': ['111', '116']}; {'id': '111', 'type': 'attribute', 'children': ['112', '115']}; {'id': '112', 'type': 'attribute', 'children': ['113', '114']}; {'id': '113', 'type': 'identifier', 'children': [], 'value': 'ase'}; {'id': '114', 'type': 'identifier', 'children': [], 'value': 'symbols'}; {'id': '115', 'type': 'identifier', 'children': [], 'value': 'string2symbols'}; {'id': '116', 'type': 'argument_list', 'children': ['117']}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'candidate'}; {'id': '118', 'type': 'if_statement', 'children': ['119', '166']}; {'id': '119', 'type': 'boolean_operator', 'children': ['120', '158', '159'], 'value': 'and'}; {'id': '120', 'type': 'boolean_operator', 'children': ['121', '139', '140'], 'value': 'and'}; {'id': '121', 'type': 'comparison_operator', 'children': ['122', '126'], 'value': '<='}; {'id': '122', 'type': 'call', 'children': ['123', '124']}; {'id': '123', 'type': 'identifier', 'children': [], 'value': 'set'}; {'id': '124', 'type': 'argument_list', 'children': ['125']}; {'id': '125', 'type': 'identifier', 'children': [], 'value': 'added_symbols'}; {'id': '126', 'type': 'call', 'children': ['127', '128']}; {'id': '127', 'type': 'identifier', 'children': [], 'value': 'set'}; {'id': '128', 'type': 'argument_list', 'children': ['129']}; {'id': '129', 'type': 'binary_operator', 'children': ['130', '138'], 'value': '+'}; {'id': '130', 'type': 'call', 'children': ['131', '132']}; {'id': '131', 'type': 'identifier', 'children': [], 'value': 'list'}; {'id': '132', 'type': 'argument_list', 'children': ['133']}; {'id': '133', 'type': 'call', 'children': ['134', '137']}; {'id': '134', 'type': 'attribute', 'children': ['135', '136']}; {'id': '135', 'type': 'identifier', 'children': [], 'value': 'references'}; {'id': '136', 'type': 'identifier', 'children': [], 'value': 'keys'}; {'id': '137', 'type': 'argument_list', 'children': []}; {'id': '138', 'type': 'identifier', 'children': [], 'value': '_symbols'}; {'id': '139', 'type': 'line_continuation', 'children': [], 'value': '\\'}; {'id': '140', 'type': 'comparison_operator', 'children': ['141', '154'], 'value': '<='}; {'id': '141', 'type': 'call', 'children': ['142', '143']}; {'id': '142', 'type': 'identifier', 'children': [], 'value': 'set'}; {'id': '143', 'type': 'argument_list', 'children': ['144']}; {'id': '144', 'type': 'binary_operator', 'children': ['145', '153'], 'value': '+'}; {'id': '145', 'type': 'call', 'children': ['146', '147']}; {'id': '146', 'type': 'identifier', 'children': [], 'value': 'list'}; {'id': '147', 'type': 'argument_list', 'children': ['148']}; {'id': '148', 'type': 'call', 'children': ['149', '152']}; {'id': '149', 'type': 'attribute', 'children': ['150', '151']}; {'id': '150', 'type': 'identifier', 'children': [], 'value': 'references'}; {'id': '151', 'type': 'identifier', 'children': [], 'value': 'keys'}; {'id': '152', 'type': 'argument_list', 'children': []}; {'id': '153', 'type': 'identifier', 'children': [], 'value': '_symbols'}; {'id': '154', 'type': 'call', 'children': ['155', '156']}; {'id': '155', 'type': 'identifier', 'children': [], 'value': 'set'}; {'id': '156', 'type': 'argument_list', 'children': ['157']}; {'id': '157', 'type': 'identifier', 'children': [], 'value': 'symbols'}; {'id': '158', 'type': 'line_continuation', 'children': [], 'value': '\\'}; {'id': '159', 'type': 'comparison_operator', 'children': ['160', '161'], 'value': 'not'}; {'id': '160', 'type': 'identifier', 'children': [], 'value': 'candidate'}; {'id': '161', 'type': 'call', 'children': ['162', '165']}; {'id': '162', 'type': 'attribute', 'children': ['163', '164']}; {'id': '163', 'type': 'identifier', 'children': [], 'value': 'references'}; {'id': '164', 'type': 'identifier', 'children': [], 'value': 'values'}; {'id': '165', 'type': 'argument_list', 'children': []}; {'id': '166', 'type': 'block', 'children': ['167', '173']}; {'id': '167', 'type': 'expression_statement', 'children': ['168']}; {'id': '168', 'type': 'assignment', 'children': ['169', '172']}; {'id': '169', 'type': 'subscript', 'children': ['170', '171']}; {'id': '170', 'type': 'identifier', 'children': [], 'value': 'references'}; {'id': '171', 'type': 'identifier', 'children': [], 'value': 'symbol'}; {'id': '172', 'type': 'identifier', 'children': [], 'value': 'candidate'}; {'id': '173', 'type': 'break_statement', 'children': []}; {'id': '174', 'type': 'else_clause', 'children': ['175']}; {'id': '175', 'type': 'block', 'children': ['176']}; {'id': '176', 'type': 'raise_statement', 'children': ['177']}; {'id': '177', 'type': 'call', 'children': ['178', '179']}; {'id': '178', 'type': 'identifier', 'children': [], 'value': 'UserWarning'}; {'id': '179', 'type': 'argument_list', 'children': ['180']}; {'id': '180', 'type': 'call', 'children': ['181', '190']}; {'id': '181', 'type': 'attribute', 'children': ['182', '189']}; {'id': '182', 'type': '()', 'children': ['183']}; {'id': '183', 'type': 'concatenated_string', 'children': ['184', '185', '186', '187', '188']}; {'id': '184', 'type': 'string', 'children': [], 'value': '"No candidate satisfied {symbol}. Add more candidates\\n"'}; {'id': '185', 'type': 'string', 'children': [], 'value': '" Symbols {symbols}\\n"'}; {'id': '186', 'type': 'string', 'children': [], 'value': '" _Symbols {_symbols}\\n"'}; {'id': '187', 'type': 'string', 'children': [], 'value': '" References {references}\\n"'}; {'id': '188', 'type': 'string', 'children': [], 'value': '" Candidates {candidates}\\n"'}; {'id': '189', 'type': 'identifier', 'children': [], 'value': 'format'}; {'id': '190', 'type': 'argument_list', 'children': ['191', '194', '197', '200', '203']}; {'id': '191', 'type': 'keyword_argument', 'children': ['192', '193']}; {'id': '192', 'type': 'identifier', 'children': [], 'value': 'symbol'}; {'id': '193', 'type': 'identifier', 'children': [], 'value': 'symbol'}; {'id': '194', 'type': 'keyword_argument', 'children': ['195', '196']}; {'id': '195', 'type': 'identifier', 'children': [], 'value': 'symbols'}; {'id': '196', 'type': 'identifier', 'children': [], 'value': 'symbols'}; {'id': '197', 'type': 'keyword_argument', 'children': ['198', '199']}; {'id': '198', 'type': 'identifier', 'children': [], 'value': '_symbols'}; {'id': '199', 'type': 'identifier', 'children': [], 'value': '_symbols'}; {'id': '200', 'type': 'keyword_argument', 'children': ['201', '202']}; {'id': '201', 'type': 'identifier', 'children': [], 'value': 'candidates'}; {'id': '202', 'type': 'identifier', 'children': [], 'value': 'candidates'}; {'id': '203', 'type': 'keyword_argument', 'children': ['204', '205']}; {'id': '204', 'type': 'identifier', 'children': [], 'value': 'references'}; {'id': '205', 'type': 'call', 'children': ['206', '207']}; {'id': '206', 'type': 'identifier', 'children': [], 'value': 'list'}; {'id': '207', 'type': 'argument_list', 'children': ['208']}; {'id': '208', 'type': 'call', 'children': ['209', '212']}; {'id': '209', 'type': 'attribute', 'children': ['210', '211']}; {'id': '210', 'type': 'identifier', 'children': [], 'value': 'references'}; {'id': '211', 'type': 'identifier', 'children': [], 'value': 'keys'}; {'id': '212', 'type': 'argument_list', 'children': []}; {'id': '213', 'type': 'expression_statement', 'children': ['214']}; {'id': '214', 'type': 'assignment', 'children': ['215', '216']}; {'id': '215', 'type': 'identifier', 'children': [], 'value': 'sorted_references'}; {'id': '216', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '217', 'type': 'expression_statement', 'children': ['218']}; {'id': '218', 'type': 'assignment', 'children': ['219', '220']}; {'id': '219', 'type': 'identifier', 'children': [], 'value': 'references'}; {'id': '220', 'type': 'call', 'children': ['221', '222']}; {'id': '221', 'type': 'identifier', 'children': [], 'value': 'list'}; {'id': '222', 'type': 'argument_list', 'children': ['223']}; {'id': '223', 'type': 'call', 'children': ['224', '227']}; {'id': '224', 'type': 'attribute', 'children': ['225', '226']}; {'id': '225', 'type': 'identifier', 'children': [], 'value': 'references'}; {'id': '226', 'type': 'identifier', 'children': [], 'value': 'items'}; {'id': '227', 'type': 'argument_list', 'children': []}; {'id': '228', 'type': 'return_statement', 'children': ['229']}; {'id': '229', 'type': 'identifier', 'children': [], 'value': 'references'} | def construct_reference_system(
symbols,
candidates=None,
options=None,
):
if hasattr(options, 'no_hydrogen') and options.no_hydrogen:
add_hydrogen = False
else:
add_hydrogen = True
references = {}
sorted_candidates = [
'H2',
'H2O',
'NH3',
'N2',
'CH4',
'CO',
'H2S',
'HCl',
'O2']
if candidates is None:
candidates = sorted_candidates
else:
odd_candidates = [c for c in candidates if c not in sorted_candidates]
candidates = [c for c in sorted_candidates if c in candidates] \
+ odd_candidates
added_symbols = []
for symbol in symbols:
added_symbols.append(symbol)
for candidate in candidates:
_symbols = ase.symbols.string2symbols(candidate)
if set(added_symbols) <= set(list(references.keys()) + _symbols) \
and set(list(references.keys()) + _symbols) <= set(symbols) \
and candidate not in references.values():
references[symbol] = candidate
break
else:
raise UserWarning((
"No candidate satisfied {symbol}. Add more candidates\n"
" Symbols {symbols}\n"
" _Symbols {_symbols}\n"
" References {references}\n"
" Candidates {candidates}\n"
).format(
symbol=symbol,
symbols=symbols,
_symbols=_symbols,
candidates=candidates,
references=list(references.keys()),
))
sorted_references = []
references = list(references.items())
return references |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '11']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'gen_triplets_master'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '8']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'wv_master'}; {'id': '5', 'type': 'default_parameter', 'children': ['6', '7']}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'geometry'}; {'id': '7', 'type': 'None', 'children': []}; {'id': '8', 'type': 'default_parameter', 'children': ['9', '10']}; {'id': '9', 'type': 'identifier', 'children': [], 'value': 'debugplot'}; {'id': '10', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '11', 'type': 'block', 'children': ['12', '18', '24', '66', '79', '87', '94', '133', '142', '186', '195', '201', '211', '365']}; {'id': '12', 'type': 'expression_statement', 'children': ['13']}; {'id': '13', 'type': 'assignment', 'children': ['14', '15']}; {'id': '14', 'type': 'identifier', 'children': [], 'value': 'nlines_master'}; {'id': '15', 'type': 'attribute', 'children': ['16', '17']}; {'id': '16', 'type': 'identifier', 'children': [], 'value': 'wv_master'}; {'id': '17', 'type': 'identifier', 'children': [], 'value': 'size'}; {'id': '18', 'type': 'expression_statement', 'children': ['19']}; {'id': '19', 'type': 'assignment', 'children': ['20', '21']}; {'id': '20', 'type': 'identifier', 'children': [], 'value': 'wv_previous'}; {'id': '21', 'type': 'subscript', 'children': ['22', '23']}; {'id': '22', 'type': 'identifier', 'children': [], 'value': 'wv_master'}; {'id': '23', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '24', 'type': 'for_statement', 'children': ['25', '26', '31']}; {'id': '25', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '26', 'type': 'call', 'children': ['27', '28']}; {'id': '27', 'type': 'identifier', 'children': [], 'value': 'range'}; {'id': '28', 'type': 'argument_list', 'children': ['29', '30']}; {'id': '29', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '30', 'type': 'identifier', 'children': [], 'value': 'nlines_master'}; {'id': '31', 'type': 'block', 'children': ['32', '60']}; {'id': '32', 'type': 'if_statement', 'children': ['33', '38']}; {'id': '33', 'type': 'comparison_operator', 'children': ['34', '35'], 'value': '>='}; {'id': '34', 'type': 'identifier', 'children': [], 'value': 'wv_previous'}; {'id': '35', 'type': 'subscript', 'children': ['36', '37']}; {'id': '36', 'type': 'identifier', 'children': [], 'value': 'wv_master'}; {'id': '37', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '38', 'type': 'block', 'children': ['39']}; {'id': '39', 'type': 'raise_statement', 'children': ['40']}; {'id': '40', 'type': 'call', 'children': ['41', '42']}; {'id': '41', 'type': 'identifier', 'children': [], 'value': 'ValueError'}; {'id': '42', 'type': 'argument_list', 'children': ['43']}; {'id': '43', 'type': 'binary_operator', 'children': ['44', '59'], 'value': '+'}; {'id': '44', 'type': 'binary_operator', 'children': ['45', '53'], 'value': '+'}; {'id': '45', 'type': 'binary_operator', 'children': ['46', '52'], 'value': '+'}; {'id': '46', 'type': 'binary_operator', 'children': ['47', '48'], 'value': '+'}; {'id': '47', 'type': 'string', 'children': [], 'value': "'Wavelengths:\\n--> '"}; {'id': '48', 'type': 'call', 'children': ['49', '50']}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '50', 'type': 'argument_list', 'children': ['51']}; {'id': '51', 'type': 'identifier', 'children': [], 'value': 'wv_previous'}; {'id': '52', 'type': 'string', 'children': [], 'value': "'\\n--> '"}; {'id': '53', 'type': 'call', 'children': ['54', '55']}; {'id': '54', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '55', 'type': 'argument_list', 'children': ['56']}; {'id': '56', 'type': 'subscript', 'children': ['57', '58']}; {'id': '57', 'type': 'identifier', 'children': [], 'value': 'wv_master'}; {'id': '58', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '59', 'type': 'string', 'children': [], 'value': "'\\nin master table are duplicated or not sorted'"}; {'id': '60', 'type': 'expression_statement', 'children': ['61']}; {'id': '61', 'type': 'assignment', 'children': ['62', '63']}; {'id': '62', 'type': 'identifier', 'children': [], 'value': 'wv_previous'}; {'id': '63', 'type': 'subscript', 'children': ['64', '65']}; {'id': '64', 'type': 'identifier', 'children': [], 'value': 'wv_master'}; {'id': '65', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '66', 'type': 'expression_statement', 'children': ['67']}; {'id': '67', 'type': 'assignment', 'children': ['68', '69']}; {'id': '68', 'type': 'identifier', 'children': [], 'value': 'iter_comb_triplets'}; {'id': '69', 'type': 'call', 'children': ['70', '73']}; {'id': '70', 'type': 'attribute', 'children': ['71', '72']}; {'id': '71', 'type': 'identifier', 'children': [], 'value': 'itertools'}; {'id': '72', 'type': 'identifier', 'children': [], 'value': 'combinations'}; {'id': '73', 'type': 'argument_list', 'children': ['74', '78']}; {'id': '74', 'type': 'call', 'children': ['75', '76']}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'range'}; {'id': '76', 'type': 'argument_list', 'children': ['77']}; {'id': '77', 'type': 'identifier', 'children': [], 'value': 'nlines_master'}; {'id': '78', 'type': 'integer', 'children': [], 'value': '3'}; {'id': '79', 'type': 'expression_statement', 'children': ['80']}; {'id': '80', 'type': 'assignment', 'children': ['81', '82']}; {'id': '81', 'type': 'identifier', 'children': [], 'value': 'triplets_master_list'}; {'id': '82', 'type': 'list_comprehension', 'children': ['83', '84']}; {'id': '83', 'type': 'identifier', 'children': [], 'value': 'val'}; {'id': '84', 'type': 'for_in_clause', 'children': ['85', '86']}; {'id': '85', 'type': 'identifier', 'children': [], 'value': 'val'}; {'id': '86', 'type': 'identifier', 'children': [], 'value': 'iter_comb_triplets'}; {'id': '87', 'type': 'expression_statement', 'children': ['88']}; {'id': '88', 'type': 'assignment', 'children': ['89', '90']}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'ntriplets_master'}; {'id': '90', 'type': 'call', 'children': ['91', '92']}; {'id': '91', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '92', 'type': 'argument_list', 'children': ['93']}; {'id': '93', 'type': 'identifier', 'children': [], 'value': 'triplets_master_list'}; {'id': '94', 'type': 'if_statement', 'children': ['95', '105', '126']}; {'id': '95', 'type': 'comparison_operator', 'children': ['96', '97'], 'value': '=='}; {'id': '96', 'type': 'identifier', 'children': [], 'value': 'ntriplets_master'}; {'id': '97', 'type': 'call', 'children': ['98', '99']}; {'id': '98', 'type': 'identifier', 'children': [], 'value': 'comb'}; {'id': '99', 'type': 'argument_list', 'children': ['100', '101', '102']}; {'id': '100', 'type': 'identifier', 'children': [], 'value': 'nlines_master'}; {'id': '101', 'type': 'integer', 'children': [], 'value': '3'}; {'id': '102', 'type': 'keyword_argument', 'children': ['103', '104']}; {'id': '103', 'type': 'identifier', 'children': [], 'value': 'exact'}; {'id': '104', 'type': 'True', 'children': []}; {'id': '105', 'type': 'block', 'children': ['106']}; {'id': '106', 'type': 'if_statement', 'children': ['107', '113']}; {'id': '107', 'type': 'comparison_operator', 'children': ['108', '112'], 'value': '>='}; {'id': '108', 'type': 'call', 'children': ['109', '110']}; {'id': '109', 'type': 'identifier', 'children': [], 'value': 'abs'}; {'id': '110', 'type': 'argument_list', 'children': ['111']}; {'id': '111', 'type': 'identifier', 'children': [], 'value': 'debugplot'}; {'id': '112', 'type': 'integer', 'children': [], 'value': '10'}; {'id': '113', 'type': 'block', 'children': ['114', '120']}; {'id': '114', 'type': 'expression_statement', 'children': ['115']}; {'id': '115', 'type': 'call', 'children': ['116', '117']}; {'id': '116', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '117', 'type': 'argument_list', 'children': ['118', '119']}; {'id': '118', 'type': 'string', 'children': [], 'value': "'>>> Total number of lines in master table:'"}; {'id': '119', 'type': 'identifier', 'children': [], 'value': 'nlines_master'}; {'id': '120', 'type': 'expression_statement', 'children': ['121']}; {'id': '121', 'type': 'call', 'children': ['122', '123']}; {'id': '122', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '123', 'type': 'argument_list', 'children': ['124', '125']}; {'id': '124', 'type': 'string', 'children': [], 'value': "'>>> Number of triplets in master table...:'"}; {'id': '125', 'type': 'identifier', 'children': [], 'value': 'ntriplets_master'}; {'id': '126', 'type': 'else_clause', 'children': ['127']}; {'id': '127', 'type': 'block', 'children': ['128']}; {'id': '128', 'type': 'raise_statement', 'children': ['129']}; {'id': '129', 'type': 'call', 'children': ['130', '131']}; {'id': '130', 'type': 'identifier', 'children': [], 'value': 'ValueError'}; {'id': '131', 'type': 'argument_list', 'children': ['132']}; {'id': '132', 'type': 'string', 'children': [], 'value': "'Invalid number of combinations'"}; {'id': '133', 'type': 'expression_statement', 'children': ['134']}; {'id': '134', 'type': 'assignment', 'children': ['135', '136']}; {'id': '135', 'type': 'identifier', 'children': [], 'value': 'ratios_master'}; {'id': '136', 'type': 'call', 'children': ['137', '140']}; {'id': '137', 'type': 'attribute', 'children': ['138', '139']}; {'id': '138', 'type': 'identifier', 'children': [], 'value': 'np'}; {'id': '139', 'type': 'identifier', 'children': [], 'value': 'zeros'}; {'id': '140', 'type': 'argument_list', 'children': ['141']}; {'id': '141', 'type': 'identifier', 'children': [], 'value': 'ntriplets_master'}; {'id': '142', 'type': 'for_statement', 'children': ['143', '146', '150']}; {'id': '143', 'type': 'pattern_list', 'children': ['144', '145']}; {'id': '144', 'type': 'identifier', 'children': [], 'value': 'index'}; {'id': '145', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '146', 'type': 'call', 'children': ['147', '148']}; {'id': '147', 'type': 'identifier', 'children': [], 'value': 'enumerate'}; {'id': '148', 'type': 'argument_list', 'children': ['149']}; {'id': '149', 'type': 'identifier', 'children': [], 'value': 'triplets_master_list'}; {'id': '150', 'type': 'block', 'children': ['151', '158', '168', '178']}; {'id': '151', 'type': 'expression_statement', 'children': ['152']}; {'id': '152', 'type': 'assignment', 'children': ['153', '157']}; {'id': '153', 'type': 'pattern_list', 'children': ['154', '155', '156']}; {'id': '154', 'type': 'identifier', 'children': [], 'value': 'i1'}; {'id': '155', 'type': 'identifier', 'children': [], 'value': 'i2'}; {'id': '156', 'type': 'identifier', 'children': [], 'value': 'i3'}; {'id': '157', 'type': 'identifier', 'children': [], 'value': 'value'}; {'id': '158', 'type': 'expression_statement', 'children': ['159']}; {'id': '159', 'type': 'assignment', 'children': ['160', '161']}; {'id': '160', 'type': 'identifier', 'children': [], 'value': 'delta1'}; {'id': '161', 'type': 'binary_operator', 'children': ['162', '165'], 'value': '-'}; {'id': '162', 'type': 'subscript', 'children': ['163', '164']}; {'id': '163', 'type': 'identifier', 'children': [], 'value': 'wv_master'}; {'id': '164', 'type': 'identifier', 'children': [], 'value': 'i2'}; {'id': '165', 'type': 'subscript', 'children': ['166', '167']}; {'id': '166', 'type': 'identifier', 'children': [], 'value': 'wv_master'}; {'id': '167', 'type': 'identifier', 'children': [], 'value': 'i1'}; {'id': '168', 'type': 'expression_statement', 'children': ['169']}; {'id': '169', 'type': 'assignment', 'children': ['170', '171']}; {'id': '170', 'type': 'identifier', 'children': [], 'value': 'delta2'}; {'id': '171', 'type': 'binary_operator', 'children': ['172', '175'], 'value': '-'}; {'id': '172', 'type': 'subscript', 'children': ['173', '174']}; {'id': '173', 'type': 'identifier', 'children': [], 'value': 'wv_master'}; {'id': '174', 'type': 'identifier', 'children': [], 'value': 'i3'}; {'id': '175', 'type': 'subscript', 'children': ['176', '177']}; {'id': '176', 'type': 'identifier', 'children': [], 'value': 'wv_master'}; {'id': '177', 'type': 'identifier', 'children': [], 'value': 'i1'}; {'id': '178', 'type': 'expression_statement', 'children': ['179']}; {'id': '179', 'type': 'assignment', 'children': ['180', '183']}; {'id': '180', 'type': 'subscript', 'children': ['181', '182']}; {'id': '181', 'type': 'identifier', 'children': [], 'value': 'ratios_master'}; {'id': '182', 'type': 'identifier', 'children': [], 'value': 'index'}; {'id': '183', 'type': 'binary_operator', 'children': ['184', '185'], 'value': '/'}; {'id': '184', 'type': 'identifier', 'children': [], 'value': 'delta1'}; {'id': '185', 'type': 'identifier', 'children': [], 'value': 'delta2'}; {'id': '186', 'type': 'expression_statement', 'children': ['187']}; {'id': '187', 'type': 'assignment', 'children': ['188', '189']}; {'id': '188', 'type': 'identifier', 'children': [], 'value': 'isort_ratios_master'}; {'id': '189', 'type': 'call', 'children': ['190', '193']}; {'id': '190', 'type': 'attribute', 'children': ['191', '192']}; {'id': '191', 'type': 'identifier', 'children': [], 'value': 'np'}; {'id': '192', 'type': 'identifier', 'children': [], 'value': 'argsort'}; {'id': '193', 'type': 'argument_list', 'children': ['194']}; {'id': '194', 'type': 'identifier', 'children': [], 'value': 'ratios_master'}; {'id': '195', 'type': 'expression_statement', 'children': ['196']}; {'id': '196', 'type': 'assignment', 'children': ['197', '198']}; {'id': '197', 'type': 'identifier', 'children': [], 'value': 'ratios_master_sorted'}; {'id': '198', 'type': 'subscript', 'children': ['199', '200']}; {'id': '199', 'type': 'identifier', 'children': [], 'value': 'ratios_master'}; {'id': '200', 'type': 'identifier', 'children': [], 'value': 'isort_ratios_master'}; {'id': '201', 'type': 'expression_statement', 'children': ['202']}; {'id': '202', 'type': 'assignment', 'children': ['203', '204']}; {'id': '203', 'type': 'identifier', 'children': [], 'value': 'triplets_master_sorted_list'}; {'id': '204', 'type': 'list_comprehension', 'children': ['205', '208']}; {'id': '205', 'type': 'subscript', 'children': ['206', '207']}; {'id': '206', 'type': 'identifier', 'children': [], 'value': 'triplets_master_list'}; {'id': '207', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '208', 'type': 'for_in_clause', 'children': ['209', '210']}; {'id': '209', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '210', 'type': 'identifier', 'children': [], 'value': 'isort_ratios_master'}; {'id': '211', 'type': 'if_statement', 'children': ['212', '220']}; {'id': '212', 'type': 'comparison_operator', 'children': ['213', '217'], 'value': 'in'}; {'id': '213', 'type': 'call', 'children': ['214', '215']}; {'id': '214', 'type': 'identifier', 'children': [], 'value': 'abs'}; {'id': '215', 'type': 'argument_list', 'children': ['216']}; {'id': '216', 'type': 'identifier', 'children': [], 'value': 'debugplot'}; {'id': '217', 'type': 'list', 'children': ['218', '219'], 'value': '[21, 22]'}; {'id': '218', 'type': 'integer', 'children': [], 'value': '21'}; {'id': '219', 'type': 'integer', 'children': [], 'value': '22'}; {'id': '220', 'type': 'block', 'children': ['221', '232', '246', '254', '262', '271', '284', '302', '316', '323', '330', '349', '354']}; {'id': '221', 'type': 'expression_statement', 'children': ['222']}; {'id': '222', 'type': 'assignment', 'children': ['223', '224']}; {'id': '223', 'type': 'identifier', 'children': [], 'value': 'bins_in'}; {'id': '224', 'type': 'call', 'children': ['225', '228']}; {'id': '225', 'type': 'attribute', 'children': ['226', '227']}; {'id': '226', 'type': 'identifier', 'children': [], 'value': 'np'}; {'id': '227', 'type': 'identifier', 'children': [], 'value': 'linspace'}; {'id': '228', 'type': 'argument_list', 'children': ['229', '230', '231']}; {'id': '229', 'type': 'float', 'children': [], 'value': '0.0'}; {'id': '230', 'type': 'float', 'children': [], 'value': '1.0'}; {'id': '231', 'type': 'integer', 'children': [], 'value': '41'}; {'id': '232', 'type': 'expression_statement', 'children': ['233']}; {'id': '233', 'type': 'assignment', 'children': ['234', '237']}; {'id': '234', 'type': 'pattern_list', 'children': ['235', '236']}; {'id': '235', 'type': 'identifier', 'children': [], 'value': 'hist'}; {'id': '236', 'type': 'identifier', 'children': [], 'value': 'bins_out'}; {'id': '237', 'type': 'call', 'children': ['238', '241']}; {'id': '238', 'type': 'attribute', 'children': ['239', '240']}; {'id': '239', 'type': 'identifier', 'children': [], 'value': 'np'}; {'id': '240', 'type': 'identifier', 'children': [], 'value': 'histogram'}; {'id': '241', 'type': 'argument_list', 'children': ['242', '243']}; {'id': '242', 'type': 'identifier', 'children': [], 'value': 'ratios_master'}; {'id': '243', 'type': 'keyword_argument', 'children': ['244', '245']}; {'id': '244', 'type': 'identifier', 'children': [], 'value': 'bins'}; {'id': '245', 'type': 'identifier', 'children': [], 'value': 'bins_in'}; {'id': '246', 'type': 'import_from_statement', 'children': ['247', '252']}; {'id': '247', 'type': 'dotted_name', 'children': ['248', '249', '250', '251']}; {'id': '248', 'type': 'identifier', 'children': [], 'value': 'numina'}; {'id': '249', 'type': 'identifier', 'children': [], 'value': 'array'}; {'id': '250', 'type': 'identifier', 'children': [], 'value': 'display'}; {'id': '251', 'type': 'identifier', 'children': [], 'value': 'matplotlib_qt'}; {'id': '252', 'type': 'dotted_name', 'children': ['253']}; {'id': '253', 'type': 'identifier', 'children': [], 'value': 'plt'}; {'id': '254', 'type': 'expression_statement', 'children': ['255']}; {'id': '255', 'type': 'assignment', 'children': ['256', '257']}; {'id': '256', 'type': 'identifier', 'children': [], 'value': 'fig'}; {'id': '257', 'type': 'call', 'children': ['258', '261']}; {'id': '258', 'type': 'attribute', 'children': ['259', '260']}; {'id': '259', 'type': 'identifier', 'children': [], 'value': 'plt'}; {'id': '260', 'type': 'identifier', 'children': [], 'value': 'figure'}; {'id': '261', 'type': 'argument_list', 'children': []}; {'id': '262', 'type': 'expression_statement', 'children': ['263']}; {'id': '263', 'type': 'assignment', 'children': ['264', '265']}; {'id': '264', 'type': 'identifier', 'children': [], 'value': 'ax'}; {'id': '265', 'type': 'call', 'children': ['266', '269']}; {'id': '266', 'type': 'attribute', 'children': ['267', '268']}; {'id': '267', 'type': 'identifier', 'children': [], 'value': 'fig'}; {'id': '268', 'type': 'identifier', 'children': [], 'value': 'add_subplot'}; {'id': '269', 'type': 'argument_list', 'children': ['270']}; {'id': '270', 'type': 'integer', 'children': [], 'value': '111'}; {'id': '271', 'type': 'expression_statement', 'children': ['272']}; {'id': '272', 'type': 'assignment', 'children': ['273', '274']}; {'id': '273', 'type': 'identifier', 'children': [], 'value': 'width_hist'}; {'id': '274', 'type': 'binary_operator', 'children': ['275', '276'], 'value': '*'}; {'id': '275', 'type': 'float', 'children': [], 'value': '0.8'}; {'id': '276', 'type': '()', 'children': ['277']}; {'id': '277', 'type': 'binary_operator', 'children': ['278', '281'], 'value': '-'}; {'id': '278', 'type': 'subscript', 'children': ['279', '280']}; {'id': '279', 'type': 'identifier', 'children': [], 'value': 'bins_out'}; {'id': '280', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '281', 'type': 'subscript', 'children': ['282', '283']}; {'id': '282', 'type': 'identifier', 'children': [], 'value': 'bins_out'}; {'id': '283', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '284', 'type': 'expression_statement', 'children': ['285']}; {'id': '285', 'type': 'assignment', 'children': ['286', '287']}; {'id': '286', 'type': 'identifier', 'children': [], 'value': 'center'}; {'id': '287', 'type': 'binary_operator', 'children': ['288', '301'], 'value': '/'}; {'id': '288', 'type': '()', 'children': ['289']}; {'id': '289', 'type': 'binary_operator', 'children': ['290', '296'], 'value': '+'}; {'id': '290', 'type': 'subscript', 'children': ['291', '292']}; {'id': '291', 'type': 'identifier', 'children': [], 'value': 'bins_out'}; {'id': '292', 'type': 'slice', 'children': ['293', '294']}; {'id': '293', 'type': 'colon', 'children': []}; {'id': '294', 'type': 'unary_operator', 'children': ['295'], 'value': '-'}; {'id': '295', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '296', 'type': 'subscript', 'children': ['297', '298']}; {'id': '297', 'type': 'identifier', 'children': [], 'value': 'bins_out'}; {'id': '298', 'type': 'slice', 'children': ['299', '300']}; {'id': '299', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '300', 'type': 'colon', 'children': []}; {'id': '301', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '302', 'type': 'expression_statement', 'children': ['303']}; {'id': '303', 'type': 'call', 'children': ['304', '307']}; {'id': '304', 'type': 'attribute', 'children': ['305', '306']}; {'id': '305', 'type': 'identifier', 'children': [], 'value': 'ax'}; {'id': '306', 'type': 'identifier', 'children': [], 'value': 'bar'}; {'id': '307', 'type': 'argument_list', 'children': ['308', '309', '310', '313']}; {'id': '308', 'type': 'identifier', 'children': [], 'value': 'center'}; {'id': '309', 'type': 'identifier', 'children': [], 'value': 'hist'}; {'id': '310', 'type': 'keyword_argument', 'children': ['311', '312']}; {'id': '311', 'type': 'identifier', 'children': [], 'value': 'align'}; {'id': '312', 'type': 'string', 'children': [], 'value': "'center'"}; 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{'id': '328', 'type': 'argument_list', 'children': ['329']}; {'id': '329', 'type': 'string', 'children': [], 'value': "'Number of triplets'"}; {'id': '330', 'type': 'expression_statement', 'children': ['331']}; {'id': '331', 'type': 'call', 'children': ['332', '335']}; {'id': '332', 'type': 'attribute', 'children': ['333', '334']}; {'id': '333', 'type': 'identifier', 'children': [], 'value': 'ax'}; {'id': '334', 'type': 'identifier', 'children': [], 'value': 'set_title'}; {'id': '335', 'type': 'argument_list', 'children': ['336']}; {'id': '336', 'type': 'binary_operator', 'children': ['337', '345'], 'value': '+'}; {'id': '337', 'type': 'binary_operator', 'children': ['338', '344'], 'value': '+'}; {'id': '338', 'type': 'binary_operator', 'children': ['339', '340'], 'value': '+'}; {'id': '339', 'type': 'string', 'children': [], 'value': '"Number of lines/triplets: "'}; {'id': '340', 'type': 'call', 'children': ['341', '342']}; {'id': '341', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '342', 'type': 'argument_list', 'children': ['343']}; {'id': '343', 'type': 'identifier', 'children': [], 'value': 'nlines_master'}; {'id': '344', 'type': 'string', 'children': [], 'value': '"/"'}; {'id': '345', 'type': 'call', 'children': ['346', '347']}; {'id': '346', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '347', 'type': 'argument_list', 'children': ['348']}; {'id': '348', 'type': 'identifier', 'children': [], 'value': 'ntriplets_master'}; {'id': '349', 'type': 'expression_statement', 'children': ['350']}; {'id': '350', 'type': 'call', 'children': ['351', '352']}; {'id': '351', 'type': 'identifier', 'children': [], 'value': 'set_window_geometry'}; {'id': '352', 'type': 'argument_list', 'children': ['353']}; {'id': '353', 'type': 'identifier', 'children': [], 'value': 'geometry'}; {'id': '354', 'type': 'expression_statement', 'children': ['355']}; {'id': '355', 'type': 'call', 'children': ['356', '357']}; {'id': '356', 'type': 'identifier', 'children': [], 'value': 'pause_debugplot'}; {'id': '357', 'type': 'argument_list', 'children': ['358', '359', '362']}; {'id': '358', 'type': 'identifier', 'children': [], 'value': 'debugplot'}; {'id': '359', 'type': 'keyword_argument', 'children': ['360', '361']}; {'id': '360', 'type': 'identifier', 'children': [], 'value': 'pltshow'}; {'id': '361', 'type': 'True', 'children': []}; {'id': '362', 'type': 'keyword_argument', 'children': ['363', '364']}; {'id': '363', 'type': 'identifier', 'children': [], 'value': 'tight_layout'}; {'id': '364', 'type': 'True', 'children': []}; {'id': '365', 'type': 'return_statement', 'children': ['366']}; {'id': '366', 'type': 'expression_list', 'children': ['367', '368', '369']}; {'id': '367', 'type': 'identifier', 'children': [], 'value': 'ntriplets_master'}; {'id': '368', 'type': 'identifier', 'children': [], 'value': 'ratios_master_sorted'}; {'id': '369', 'type': 'identifier', 'children': [], 'value': 'triplets_master_sorted_list'} | def gen_triplets_master(wv_master, geometry=None, debugplot=0):
nlines_master = wv_master.size
wv_previous = wv_master[0]
for i in range(1, nlines_master):
if wv_previous >= wv_master[i]:
raise ValueError('Wavelengths:\n--> ' +
str(wv_previous) + '\n--> ' + str(wv_master[i]) +
'\nin master table are duplicated or not sorted')
wv_previous = wv_master[i]
iter_comb_triplets = itertools.combinations(range(nlines_master), 3)
triplets_master_list = [val for val in iter_comb_triplets]
ntriplets_master = len(triplets_master_list)
if ntriplets_master == comb(nlines_master, 3, exact=True):
if abs(debugplot) >= 10:
print('>>> Total number of lines in master table:',
nlines_master)
print('>>> Number of triplets in master table...:',
ntriplets_master)
else:
raise ValueError('Invalid number of combinations')
ratios_master = np.zeros(ntriplets_master)
for index, value in enumerate(triplets_master_list):
i1, i2, i3 = value
delta1 = wv_master[i2] - wv_master[i1]
delta2 = wv_master[i3] - wv_master[i1]
ratios_master[index] = delta1 / delta2
isort_ratios_master = np.argsort(ratios_master)
ratios_master_sorted = ratios_master[isort_ratios_master]
triplets_master_sorted_list = [triplets_master_list[i]
for i in isort_ratios_master]
if abs(debugplot) in [21, 22]:
bins_in = np.linspace(0.0, 1.0, 41)
hist, bins_out = np.histogram(ratios_master, bins=bins_in)
from numina.array.display.matplotlib_qt import plt
fig = plt.figure()
ax = fig.add_subplot(111)
width_hist = 0.8*(bins_out[1]-bins_out[0])
center = (bins_out[:-1]+bins_out[1:])/2
ax.bar(center, hist, align='center', width=width_hist)
ax.set_xlabel('distance ratio in each triplet')
ax.set_ylabel('Number of triplets')
ax.set_title("Number of lines/triplets: " +
str(nlines_master) + "/" + str(ntriplets_master))
set_window_geometry(geometry)
pause_debugplot(debugplot, pltshow=True, tight_layout=True)
return ntriplets_master, ratios_master_sorted, triplets_master_sorted_list |
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{'id': '180', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '181', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '182', 'type': 'subscript', 'children': ['183', '184']}; {'id': '183', 'type': 'identifier', 'children': [], 'value': 'wv_master'}; {'id': '184', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '185', 'type': 'expression_statement', 'children': ['186']}; {'id': '186', 'type': 'assignment', 'children': ['187', '192']}; {'id': '187', 'type': 'subscript', 'children': ['188', '189']}; {'id': '188', 'type': 'identifier', 'children': [], 'value': 'wv_unused'}; {'id': '189', 'type': 'binary_operator', 'children': ['190', '191'], 'value': '-'}; {'id': '190', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '191', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '192', 'type': 'False', 'children': []}; {'id': '193', 'type': 'else_clause', 'children': ['194']}; {'id': '194', 'type': 'block', 'children': ['195']}; {'id': '195', 'type': 'if_statement', 'children': ['196', '203']}; 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{'id': '210', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '211', 'type': 'subscript', 'children': ['212', '213']}; {'id': '212', 'type': 'identifier', 'children': [], 'value': 'wv_master'}; {'id': '213', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '214', 'type': 'else_clause', 'children': ['215']}; {'id': '215', 'type': 'block', 'children': ['216', '231', '244']}; {'id': '216', 'type': 'expression_statement', 'children': ['217']}; {'id': '217', 'type': 'assignment', 'children': ['218', '219']}; {'id': '218', 'type': 'identifier', 'children': [], 'value': 'delta_wv1'}; {'id': '219', 'type': 'call', 'children': ['220', '221']}; {'id': '220', 'type': 'identifier', 'children': [], 'value': 'abs'}; {'id': '221', 'type': 'argument_list', 'children': ['222']}; {'id': '222', 'type': 'binary_operator', 'children': ['223', '226'], 'value': '-'}; {'id': '223', 'type': 'subscript', 'children': ['224', '225']}; {'id': '224', 'type': 'identifier', 'children': [], 'value': 'wv_master'}; {'id': '225', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '226', 'type': 'subscript', 'children': ['227', '228']}; {'id': '227', 'type': 'identifier', 'children': [], 'value': 'wv_expected_all_peaks'}; {'id': '228', 'type': 'binary_operator', 'children': ['229', '230'], 'value': '-'}; {'id': '229', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '230', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '231', 'type': 'expression_statement', 'children': ['232']}; {'id': '232', 'type': 'assignment', 'children': ['233', '234']}; {'id': '233', 'type': 'identifier', 'children': [], 'value': 'delta_wv2'}; {'id': '234', 'type': 'call', 'children': ['235', '236']}; {'id': '235', 'type': 'identifier', 'children': [], 'value': 'abs'}; {'id': '236', 'type': 'argument_list', 'children': ['237']}; {'id': '237', 'type': 'binary_operator', 'children': ['238', '241'], 'value': '-'}; {'id': '238', 'type': 'subscript', 'children': ['239', '240']}; {'id': '239', 'type': 'identifier', 'children': [], 'value': 'wv_master'}; {'id': '240', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '241', 'type': 'subscript', 'children': ['242', '243']}; {'id': '242', 'type': 'identifier', 'children': [], 'value': 'wv_expected_all_peaks'}; {'id': '243', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '244', 'type': 'if_statement', 'children': ['245', '248', '300']}; {'id': '245', 'type': 'comparison_operator', 'children': ['246', '247'], 'value': '<'}; {'id': '246', 'type': 'identifier', 'children': [], 'value': 'delta_wv1'}; {'id': '247', 'type': 'identifier', 'children': [], 'value': 'delta_wv2'}; {'id': '248', 'type': 'block', 'children': ['249']}; {'id': '249', 'type': 'if_statement', 'children': ['250', '253']}; {'id': '250', 'type': 'comparison_operator', 'children': ['251', '252'], 'value': '<'}; {'id': '251', 'type': 'identifier', 'children': [], 'value': 'delta_wv1'}; {'id': '252', 'type': 'identifier', 'children': [], 'value': 'delta_wv_max'}; {'id': '253', 'type': 'block', 'children': ['254']}; {'id': '254', 'type': 'if_statement', 'children': ['255', '260', '279']}; {'id': '255', 'type': 'subscript', 'children': ['256', '257']}; {'id': '256', 'type': 'identifier', 'children': [], 'value': 'wv_unused'}; {'id': '257', 'type': 'binary_operator', 'children': ['258', '259'], 'value': '-'}; {'id': '258', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '259', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '260', 'type': 'block', 'children': ['261', '271']}; {'id': '261', 'type': 'expression_statement', 'children': ['262']}; {'id': '262', 'type': 'assignment', 'children': ['263', '268']}; {'id': '263', 'type': 'subscript', 'children': ['264', '265']}; {'id': '264', 'type': 'identifier', 'children': [], 'value': 'wv_verified_all_peaks'}; {'id': '265', 'type': 'binary_operator', 'children': ['266', '267'], 'value': '-'}; {'id': '266', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '267', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '268', 'type': 'subscript', 'children': ['269', '270']}; {'id': '269', 'type': 'identifier', 'children': [], 'value': 'wv_master'}; {'id': '270', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '271', 'type': 'expression_statement', 'children': ['272']}; {'id': '272', 'type': 'assignment', 'children': ['273', '278']}; {'id': '273', 'type': 'subscript', 'children': ['274', '275']}; {'id': '274', 'type': 'identifier', 'children': [], 'value': 'wv_unused'}; {'id': '275', 'type': 'binary_operator', 'children': ['276', '277'], 'value': '-'}; {'id': '276', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '277', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '278', 'type': 'False', 'children': []}; {'id': '279', 'type': 'else_clause', 'children': ['280']}; {'id': '280', 'type': 'block', 'children': ['281']}; {'id': '281', 'type': 'if_statement', 'children': ['282', '289']}; {'id': '282', 'type': 'comparison_operator', 'children': ['283', '284'], 'value': '<'}; {'id': '283', 'type': 'identifier', 'children': [], 'value': 'delta_wv1'}; {'id': '284', 'type': 'subscript', 'children': ['285', '286']}; {'id': '285', 'type': 'identifier', 'children': [], 'value': 'minimum_delta_wv'}; {'id': '286', 'type': 'binary_operator', 'children': ['287', '288'], 'value': '-'}; {'id': '287', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '288', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '289', 'type': 'block', 'children': ['290']}; {'id': '290', 'type': 'expression_statement', 'children': ['291']}; {'id': '291', 'type': 'assignment', 'children': ['292', '297']}; {'id': '292', 'type': 'subscript', 'children': ['293', '294']}; {'id': '293', 'type': 'identifier', 'children': [], 'value': 'wv_verified_all_peaks'}; {'id': '294', 'type': 'binary_operator', 'children': ['295', '296'], 'value': '-'}; {'id': '295', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '296', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '297', 'type': 'subscript', 'children': ['298', '299']}; {'id': '298', 'type': 'identifier', 'children': [], 'value': 'wv_master'}; {'id': '299', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '300', 'type': 'else_clause', 'children': ['301']}; {'id': '301', 'type': 'block', 'children': ['302']}; {'id': '302', 'type': 'if_statement', 'children': ['303', '306']}; {'id': '303', 'type': 'comparison_operator', 'children': ['304', '305'], 'value': '<'}; {'id': '304', 'type': 'identifier', 'children': [], 'value': 'delta_wv2'}; {'id': '305', 'type': 'identifier', 'children': [], 'value': 'delta_wv_max'}; {'id': '306', 'type': 'block', 'children': ['307']}; {'id': '307', 'type': 'if_statement', 'children': ['308', '311', '326']}; {'id': '308', 'type': 'subscript', 'children': ['309', '310']}; {'id': '309', 'type': 'identifier', 'children': [], 'value': 'wv_unused'}; {'id': '310', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '311', 'type': 'block', 'children': ['312', '320']}; {'id': '312', 'type': 'expression_statement', 'children': ['313']}; {'id': '313', 'type': 'assignment', 'children': ['314', '317']}; {'id': '314', 'type': 'subscript', 'children': ['315', '316']}; {'id': '315', 'type': 'identifier', 'children': [], 'value': 'wv_verified_all_peaks'}; {'id': '316', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '317', 'type': 'subscript', 'children': ['318', '319']}; {'id': '318', 'type': 'identifier', 'children': [], 'value': 'wv_master'}; {'id': '319', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '320', 'type': 'expression_statement', 'children': ['321']}; {'id': '321', 'type': 'assignment', 'children': ['322', '325']}; {'id': '322', 'type': 'subscript', 'children': ['323', '324']}; {'id': '323', 'type': 'identifier', 'children': [], 'value': 'wv_unused'}; {'id': '324', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '325', 'type': 'False', 'children': []}; {'id': '326', 'type': 'else_clause', 'children': ['327']}; {'id': '327', 'type': 'block', 'children': ['328']}; {'id': '328', 'type': 'if_statement', 'children': ['329', '334']}; {'id': '329', 'type': 'comparison_operator', 'children': ['330', '331'], 'value': '<'}; {'id': '330', 'type': 'identifier', 'children': [], 'value': 'delta_wv2'}; {'id': '331', 'type': 'subscript', 'children': ['332', '333']}; {'id': '332', 'type': 'identifier', 'children': [], 'value': 'minimum_delta_wv'}; {'id': '333', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '334', 'type': 'block', 'children': ['335']}; {'id': '335', 'type': 'expression_statement', 'children': ['336']}; {'id': '336', 'type': 'assignment', 'children': ['337', '340']}; {'id': '337', 'type': 'subscript', 'children': ['338', '339']}; {'id': '338', 'type': 'identifier', 'children': [], 'value': 'wv_verified_all_peaks'}; {'id': '339', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '340', 'type': 'subscript', 'children': ['341', '342']}; {'id': '341', 'type': 'identifier', 'children': [], 'value': 'wv_master'}; {'id': '342', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '343', 'type': 'return_statement', 'children': ['344']}; {'id': '344', 'type': 'identifier', 'children': [], 'value': 'wv_verified_all_peaks'} | def match_wv_arrays(wv_master, wv_expected_all_peaks, delta_wv_max):
wv_verified_all_peaks = np.zeros_like(wv_expected_all_peaks)
wv_unused = np.ones_like(wv_expected_all_peaks, dtype=bool)
minimum_delta_wv = np.ones_like(wv_expected_all_peaks, dtype=float)
minimum_delta_wv *= np.infty
for i in range(len(wv_master)):
j = np.searchsorted(wv_expected_all_peaks, wv_master[i])
if j == 0:
delta_wv = abs(wv_master[i] - wv_expected_all_peaks[j])
if delta_wv < delta_wv_max:
if wv_unused[j]:
wv_verified_all_peaks[j] = wv_master[i]
wv_unused[j] = False
minimum_delta_wv[j] = delta_wv
else:
if delta_wv < minimum_delta_wv[j]:
wv_verified_all_peaks[j] = wv_master[i]
minimum_delta_wv[j] = delta_wv
elif j == len(wv_expected_all_peaks):
delta_wv = abs(wv_master[i] - wv_expected_all_peaks[j-1])
if delta_wv < delta_wv_max:
if wv_unused[j-1]:
wv_verified_all_peaks[j-1] = wv_master[i]
wv_unused[j-1] = False
else:
if delta_wv < minimum_delta_wv[j-1]:
wv_verified_all_peaks[j-1] = wv_master[i]
else:
delta_wv1 = abs(wv_master[i] - wv_expected_all_peaks[j-1])
delta_wv2 = abs(wv_master[i] - wv_expected_all_peaks[j])
if delta_wv1 < delta_wv2:
if delta_wv1 < delta_wv_max:
if wv_unused[j-1]:
wv_verified_all_peaks[j-1] = wv_master[i]
wv_unused[j-1] = False
else:
if delta_wv1 < minimum_delta_wv[j-1]:
wv_verified_all_peaks[j-1] = wv_master[i]
else:
if delta_wv2 < delta_wv_max:
if wv_unused[j]:
wv_verified_all_peaks[j] = wv_master[i]
wv_unused[j] = False
else:
if delta_wv2 < minimum_delta_wv[j]:
wv_verified_all_peaks[j] = wv_master[i]
return wv_verified_all_peaks |
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{'id': '108', 'type': 'argument_list', 'children': []}; {'id': '109', 'type': 'identifier', 'children': [], 'value': 'key'}; {'id': '110', 'type': 'if_statement', 'children': ['111', '114']}; {'id': '111', 'type': 'comparison_operator', 'children': ['112', '113'], 'value': 'is'}; {'id': '112', 'type': 'identifier', 'children': [], 'value': 'parent_record'}; {'id': '113', 'type': 'None', 'children': []}; {'id': '114', 'type': 'block', 'children': ['115', '122']}; {'id': '115', 'type': 'expression_statement', 'children': ['116']}; {'id': '116', 'type': 'assignment', 'children': ['117', '118']}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'parent_item'}; {'id': '118', 'type': 'dictionary', 'children': ['119']}; {'id': '119', 'type': 'pair', 'children': ['120', '121']}; {'id': '120', 'type': 'string', 'children': [], 'value': "'$ref'"}; {'id': '121', 'type': 'identifier', 'children': [], 'value': 'parent_record'}; {'id': '122', 'type': 'expression_statement', 'children': ['123']}; {'id': '123', 'type': 'assignment', 'children': ['124', '127']}; {'id': '124', 'type': 'subscript', 'children': ['125', '126']}; {'id': '125', 'type': 'identifier', 'children': [], 'value': 'publication_item'}; {'id': '126', 'type': 'string', 'children': [], 'value': "'parent_record'"}; {'id': '127', 'type': 'identifier', 'children': [], 'value': 'parent_item'}; {'id': '128', 'type': 'if_statement', 'children': ['129', '132']}; {'id': '129', 'type': 'comparison_operator', 'children': ['130', '131'], 'value': 'is'}; {'id': '130', 'type': 'identifier', 'children': [], 'value': 'parent_isbn'}; {'id': '131', 'type': 'None', 'children': []}; {'id': '132', 'type': 'block', 'children': ['133']}; {'id': '133', 'type': 'expression_statement', 'children': ['134']}; {'id': '134', 'type': 'assignment', 'children': ['135', '138']}; {'id': '135', 'type': 'subscript', 'children': ['136', '137']}; {'id': '136', 'type': 'identifier', 'children': [], 'value': 'publication_item'}; {'id': '137', 'type': 'string', 'children': [], 'value': "'parent_isbn'"}; {'id': '138', 'type': 'call', 'children': ['139', '140']}; {'id': '139', 'type': 'identifier', 'children': [], 'value': 'normalize_isbn'}; {'id': '140', 'type': 'argument_list', 'children': ['141']}; {'id': '141', 'type': 'identifier', 'children': [], 'value': 'parent_isbn'}; {'id': '142', 'type': 'if_statement', 'children': ['143', '146']}; {'id': '143', 'type': 'boolean_operator', 'children': ['144', '145'], 'value': 'and'}; {'id': '144', 'type': 'identifier', 'children': [], 'value': 'page_start'}; {'id': '145', 'type': 'identifier', 'children': [], 'value': 'page_end'}; {'id': '146', 'type': 'block', 'children': ['147']}; {'id': '147', 'type': 'try_statement', 'children': ['148', '166']}; {'id': '148', 'type': 'block', 'children': ['149']}; {'id': '149', 'type': 'expression_statement', 'children': ['150']}; {'id': '150', 'type': 'call', 'children': ['151', '154']}; {'id': '151', 'type': 'attribute', 'children': ['152', '153']}; {'id': '152', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '153', 'type': 'identifier', 'children': [], 'value': 'add_number_of_pages'}; {'id': '154', 'type': 'argument_list', 'children': ['155']}; {'id': '155', 'type': 'binary_operator', 'children': ['156', '165'], 'value': '+'}; {'id': '156', 'type': 'binary_operator', 'children': ['157', '161'], 'value': '-'}; {'id': '157', 'type': 'call', 'children': ['158', '159']}; {'id': '158', 'type': 'identifier', 'children': [], 'value': 'int'}; {'id': '159', 'type': 'argument_list', 'children': ['160']}; {'id': '160', 'type': 'identifier', 'children': [], 'value': 'page_end'}; {'id': '161', 'type': 'call', 'children': ['162', '163']}; {'id': '162', 'type': 'identifier', 'children': [], 'value': 'int'}; {'id': '163', 'type': 'argument_list', 'children': ['164']}; {'id': '164', 'type': 'identifier', 'children': [], 'value': 'page_start'}; {'id': '165', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '166', 'type': 'except_clause', 'children': ['167', '170']}; {'id': '167', 'type': 'tuple', 'children': ['168', '169']}; {'id': '168', 'type': 'identifier', 'children': [], 'value': 'TypeError'}; {'id': '169', 'type': 'identifier', 'children': [], 'value': 'ValueError'}; {'id': '170', 'type': 'block', 'children': ['171']}; {'id': '171', 'type': 'pass_statement', 'children': []}; {'id': '172', 'type': 'expression_statement', 'children': ['173']}; {'id': '173', 'type': 'call', 'children': ['174', '177']}; {'id': '174', 'type': 'attribute', 'children': ['175', '176']}; {'id': '175', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '176', 'type': 'identifier', 'children': [], 'value': '_append_to'}; {'id': '177', 'type': 'argument_list', 'children': ['178', '179']}; {'id': '178', 'type': 'string', 'children': [], 'value': "'publication_info'"}; {'id': '179', 'type': 'identifier', 'children': [], 'value': 'publication_item'}; {'id': '180', 'type': 'if_statement', 'children': ['181', '189']}; {'id': '181', 'type': 'call', 'children': ['182', '183']}; {'id': '182', 'type': 'identifier', 'children': [], 'value': 'is_citeable'}; {'id': '183', 'type': 'argument_list', 'children': ['184']}; {'id': '184', 'type': 'subscript', 'children': ['185', '188']}; {'id': '185', 'type': 'attribute', 'children': ['186', '187']}; {'id': '186', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '187', 'type': 'identifier', 'children': [], 'value': 'record'}; {'id': '188', 'type': 'string', 'children': [], 'value': "'publication_info'"}; {'id': '189', 'type': 'block', 'children': ['190']}; {'id': '190', 'type': 'expression_statement', 'children': ['191']}; {'id': '191', 'type': 'call', 'children': ['192', '195']}; {'id': '192', 'type': 'attribute', 'children': ['193', '194']}; {'id': '193', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '194', 'type': 'identifier', 'children': [], 'value': 'set_citeable'}; {'id': '195', 'type': 'argument_list', 'children': ['196']}; {'id': '196', 'type': 'True', 'children': []} | def add_publication_info(
self,
year=None,
cnum=None,
artid=None,
page_end=None,
page_start=None,
journal_issue=None,
journal_title=None,
journal_volume=None,
pubinfo_freetext=None,
material=None,
parent_record=None,
parent_isbn=None,
):
if journal_title and all(
not field for field in (cnum, artid, journal_issue,
journal_volume, page_start, page_end)):
self.add_public_note('Submitted to {}'.format(journal_title))
return
publication_item = {}
for key in ('cnum', 'artid', 'page_end', 'page_start',
'journal_issue', 'journal_title',
'journal_volume', 'year', 'pubinfo_freetext', 'material'):
if locals()[key] is not None:
publication_item[key] = locals()[key]
if parent_record is not None:
parent_item = {'$ref': parent_record}
publication_item['parent_record'] = parent_item
if parent_isbn is not None:
publication_item['parent_isbn'] = normalize_isbn(parent_isbn)
if page_start and page_end:
try:
self.add_number_of_pages(
int(page_end) - int(page_start) + 1
)
except (TypeError, ValueError):
pass
self._append_to('publication_info', publication_item)
if is_citeable(self.record['publication_info']):
self.set_citeable(True) |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '13']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'compute_operation'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '7', '8', '9', '10', '11', '12']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'file1'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'file2'}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '7', 'type': 'identifier', 'children': [], 'value': 'output'}; {'id': '8', 'type': 'identifier', 'children': [], 'value': 'display'}; {'id': '9', 'type': 'identifier', 'children': [], 'value': 'args_z1z2'}; {'id': '10', 'type': 'identifier', 'children': [], 'value': 'args_bbox'}; {'id': '11', 'type': 'identifier', 'children': [], 'value': 'args_keystitle'}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'args_geometry'}; {'id': '13', 'type': 'block', 'children': ['14', '50', '56', '62', '89', '125', '131', '137', '164', '174', '184', '240', '257', '267']}; {'id': '14', 'type': 'with_statement', 'children': ['15', '26']}; {'id': '15', 'type': 'with_clause', 'children': ['16']}; {'id': '16', 'type': 'with_item', 'children': ['17']}; {'id': '17', 'type': 'as_pattern', 'children': ['18', '24']}; {'id': '18', 'type': 'call', 'children': ['19', '22']}; {'id': '19', 'type': 'attribute', 'children': ['20', '21']}; {'id': '20', 'type': 'identifier', 'children': [], 'value': 'fits'}; {'id': '21', 'type': 'identifier', 'children': [], 'value': 'open'}; {'id': '22', 'type': 'argument_list', 'children': ['23']}; {'id': '23', 'type': 'identifier', 'children': [], 'value': 'file1'}; {'id': '24', 'type': 'as_pattern_target', 'children': ['25']}; {'id': '25', 'type': 'identifier', 'children': [], 'value': 'hdulist'}; {'id': '26', 'type': 'block', 'children': ['27', '35']}; {'id': '27', 'type': 'expression_statement', 'children': ['28']}; {'id': '28', 'type': 'assignment', 'children': ['29', '30']}; {'id': '29', 'type': 'identifier', 'children': [], 'value': 'image_header1'}; {'id': '30', 'type': 'attribute', 'children': ['31', '34']}; {'id': '31', 'type': 'subscript', 'children': ['32', '33']}; {'id': '32', 'type': 'identifier', 'children': [], 'value': 'hdulist'}; {'id': '33', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '34', 'type': 'identifier', 'children': [], 'value': 'header'}; {'id': '35', 'type': 'expression_statement', 'children': ['36']}; {'id': '36', 'type': 'assignment', 'children': ['37', '38']}; {'id': '37', 'type': 'identifier', 'children': [], 'value': 'image1'}; {'id': '38', 'type': 'call', 'children': ['39', '46']}; {'id': '39', 'type': 'attribute', 'children': ['40', '45']}; {'id': '40', 'type': 'attribute', 'children': ['41', '44']}; {'id': '41', 'type': 'subscript', 'children': ['42', '43']}; {'id': '42', 'type': 'identifier', 'children': [], 'value': 'hdulist'}; {'id': '43', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '44', 'type': 'identifier', 'children': [], 'value': 'data'}; {'id': '45', 'type': 'identifier', 'children': [], 'value': 'astype'}; {'id': '46', 'type': 'argument_list', 'children': ['47']}; {'id': '47', 'type': 'attribute', 'children': ['48', '49']}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'np'}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'float'}; {'id': '50', 'type': 'expression_statement', 'children': ['51']}; {'id': '51', 'type': 'assignment', 'children': ['52', '53']}; {'id': '52', 'type': 'identifier', 'children': [], 'value': 'naxis1'}; {'id': '53', 'type': 'subscript', 'children': ['54', '55']}; {'id': '54', 'type': 'identifier', 'children': [], 'value': 'image_header1'}; {'id': '55', 'type': 'string', 'children': [], 'value': "'naxis1'"}; {'id': '56', 'type': 'expression_statement', 'children': ['57']}; {'id': '57', 'type': 'assignment', 'children': ['58', '59']}; {'id': '58', 'type': 'identifier', 'children': [], 'value': 'naxis2'}; {'id': '59', 'type': 'subscript', 'children': ['60', '61']}; {'id': '60', 'type': 'identifier', 'children': [], 'value': 'image_header1'}; {'id': '61', 'type': 'string', 'children': [], 'value': "'naxis2'"}; {'id': '62', 'type': 'if_statement', 'children': ['63', '66']}; {'id': '63', 'type': 'comparison_operator', 'children': ['64', '65'], 'value': '=='}; {'id': '64', 'type': 'identifier', 'children': [], 'value': 'display'}; {'id': '65', 'type': 'string', 'children': [], 'value': "'all'"}; {'id': '66', 'type': 'block', 'children': ['67']}; {'id': '67', 'type': 'expression_statement', 'children': ['68']}; {'id': '68', 'type': 'call', 'children': ['69', '70']}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'ximshow_file'}; {'id': '70', 'type': 'argument_list', 'children': ['71', '74', '77', '80', '83', '86']}; {'id': '71', 'type': 'attribute', 'children': ['72', '73']}; {'id': '72', 'type': 'identifier', 'children': [], 'value': 'file1'}; {'id': '73', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '74', 'type': 'keyword_argument', 'children': ['75', '76']}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'args_z1z2'}; {'id': '76', 'type': 'identifier', 'children': [], 'value': 'args_z1z2'}; {'id': '77', 'type': 'keyword_argument', 'children': ['78', '79']}; {'id': '78', 'type': 'identifier', 'children': [], 'value': 'args_bbox'}; {'id': '79', 'type': 'identifier', 'children': [], 'value': 'args_bbox'}; {'id': '80', 'type': 'keyword_argument', 'children': ['81', '82']}; {'id': '81', 'type': 'identifier', 'children': [], 'value': 'args_keystitle'}; {'id': '82', 'type': 'identifier', 'children': [], 'value': 'args_keystitle'}; {'id': '83', 'type': 'keyword_argument', 'children': ['84', '85']}; {'id': '84', 'type': 'identifier', 'children': [], 'value': 'args_geometry'}; {'id': '85', 'type': 'identifier', 'children': [], 'value': 'args_geometry'}; {'id': '86', 'type': 'keyword_argument', 'children': ['87', '88']}; {'id': '87', 'type': 'identifier', 'children': [], 'value': 'debugplot'}; {'id': '88', 'type': 'integer', 'children': [], 'value': '12'}; {'id': '89', 'type': 'with_statement', 'children': ['90', '101']}; {'id': '90', 'type': 'with_clause', 'children': ['91']}; {'id': '91', 'type': 'with_item', 'children': ['92']}; {'id': '92', 'type': 'as_pattern', 'children': ['93', '99']}; {'id': '93', 'type': 'call', 'children': ['94', '97']}; {'id': '94', 'type': 'attribute', 'children': ['95', '96']}; {'id': '95', 'type': 'identifier', 'children': [], 'value': 'fits'}; {'id': '96', 'type': 'identifier', 'children': [], 'value': 'open'}; {'id': '97', 'type': 'argument_list', 'children': ['98']}; {'id': '98', 'type': 'identifier', 'children': [], 'value': 'file2'}; {'id': '99', 'type': 'as_pattern_target', 'children': ['100']}; {'id': '100', 'type': 'identifier', 'children': [], 'value': 'hdulist'}; {'id': '101', 'type': 'block', 'children': ['102', '110']}; {'id': '102', 'type': 'expression_statement', 'children': ['103']}; {'id': '103', 'type': 'assignment', 'children': ['104', '105']}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'image_header2'}; {'id': '105', 'type': 'attribute', 'children': ['106', '109']}; {'id': '106', 'type': 'subscript', 'children': ['107', '108']}; {'id': '107', 'type': 'identifier', 'children': [], 'value': 'hdulist'}; {'id': '108', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '109', 'type': 'identifier', 'children': [], 'value': 'header'}; {'id': '110', 'type': 'expression_statement', 'children': ['111']}; {'id': '111', 'type': 'assignment', 'children': ['112', '113']}; {'id': '112', 'type': 'identifier', 'children': [], 'value': 'image2'}; {'id': '113', 'type': 'call', 'children': ['114', '121']}; {'id': '114', 'type': 'attribute', 'children': ['115', '120']}; {'id': '115', 'type': 'attribute', 'children': ['116', '119']}; {'id': '116', 'type': 'subscript', 'children': ['117', '118']}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'hdulist'}; {'id': '118', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '119', 'type': 'identifier', 'children': [], 'value': 'data'}; {'id': '120', 'type': 'identifier', 'children': [], 'value': 'astype'}; {'id': '121', 'type': 'argument_list', 'children': ['122']}; {'id': '122', 'type': 'attribute', 'children': ['123', '124']}; {'id': '123', 'type': 'identifier', 'children': [], 'value': 'np'}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'float'}; {'id': '125', 'type': 'expression_statement', 'children': ['126']}; {'id': '126', 'type': 'assignment', 'children': ['127', '128']}; {'id': '127', 'type': 'identifier', 'children': [], 'value': 'naxis1_'}; {'id': '128', 'type': 'subscript', 'children': ['129', '130']}; {'id': '129', 'type': 'identifier', 'children': [], 'value': 'image_header2'}; {'id': '130', 'type': 'string', 'children': [], 'value': "'naxis1'"}; {'id': '131', 'type': 'expression_statement', 'children': ['132']}; {'id': '132', 'type': 'assignment', 'children': ['133', '134']}; {'id': '133', 'type': 'identifier', 'children': [], 'value': 'naxis2_'}; {'id': '134', 'type': 'subscript', 'children': ['135', '136']}; {'id': '135', 'type': 'identifier', 'children': [], 'value': 'image_header2'}; {'id': '136', 'type': 'string', 'children': [], 'value': "'naxis2'"}; {'id': '137', 'type': 'if_statement', 'children': ['138', '141']}; {'id': '138', 'type': 'comparison_operator', 'children': ['139', '140'], 'value': '=='}; {'id': '139', 'type': 'identifier', 'children': [], 'value': 'display'}; {'id': '140', 'type': 'string', 'children': [], 'value': "'all'"}; {'id': '141', 'type': 'block', 'children': ['142']}; {'id': '142', 'type': 'expression_statement', 'children': ['143']}; {'id': '143', 'type': 'call', 'children': ['144', '145']}; {'id': '144', 'type': 'identifier', 'children': [], 'value': 'ximshow_file'}; {'id': '145', 'type': 'argument_list', 'children': ['146', '149', '152', '155', '158', '161']}; {'id': '146', 'type': 'attribute', 'children': ['147', '148']}; {'id': '147', 'type': 'identifier', 'children': [], 'value': 'file2'}; {'id': '148', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '149', 'type': 'keyword_argument', 'children': ['150', '151']}; {'id': '150', 'type': 'identifier', 'children': [], 'value': 'args_z1z2'}; {'id': '151', 'type': 'identifier', 'children': [], 'value': 'args_z1z2'}; {'id': '152', 'type': 'keyword_argument', 'children': ['153', '154']}; {'id': '153', 'type': 'identifier', 'children': [], 'value': 'args_bbox'}; {'id': '154', 'type': 'identifier', 'children': [], 'value': 'args_bbox'}; {'id': '155', 'type': 'keyword_argument', 'children': ['156', '157']}; {'id': '156', 'type': 'identifier', 'children': [], 'value': 'args_keystitle'}; {'id': '157', 'type': 'identifier', 'children': [], 'value': 'args_keystitle'}; {'id': '158', 'type': 'keyword_argument', 'children': ['159', '160']}; {'id': '159', 'type': 'identifier', 'children': [], 'value': 'args_geometry'}; {'id': '160', 'type': 'identifier', 'children': [], 'value': 'args_geometry'}; {'id': '161', 'type': 'keyword_argument', 'children': ['162', '163']}; {'id': '162', 'type': 'identifier', 'children': [], 'value': 'debugplot'}; {'id': '163', 'type': 'integer', 'children': [], 'value': '12'}; {'id': '164', 'type': 'if_statement', 'children': ['165', '168']}; {'id': '165', 'type': 'comparison_operator', 'children': ['166', '167'], 'value': '!='}; {'id': '166', 'type': 'identifier', 'children': [], 'value': 'naxis1'}; {'id': '167', 'type': 'identifier', 'children': [], 'value': 'naxis1_'}; {'id': '168', 'type': 'block', 'children': ['169']}; {'id': '169', 'type': 'raise_statement', 'children': ['170']}; {'id': '170', 'type': 'call', 'children': ['171', '172']}; {'id': '171', 'type': 'identifier', 'children': [], 'value': 'ValueError'}; {'id': '172', 'type': 'argument_list', 'children': ['173']}; {'id': '173', 'type': 'string', 'children': [], 'value': '"NAXIS1 values are different."'}; {'id': '174', 'type': 'if_statement', 'children': ['175', '178']}; {'id': '175', 'type': 'comparison_operator', 'children': ['176', '177'], 'value': '!='}; {'id': '176', 'type': 'identifier', 'children': [], 'value': 'naxis2'}; {'id': '177', 'type': 'identifier', 'children': [], 'value': 'naxis2_'}; {'id': '178', 'type': 'block', 'children': ['179']}; {'id': '179', 'type': 'raise_statement', 'children': ['180']}; {'id': '180', 'type': 'call', 'children': ['181', '182']}; {'id': '181', 'type': 'identifier', 'children': [], 'value': 'ValueError'}; {'id': '182', 'type': 'argument_list', 'children': ['183']}; {'id': '183', 'type': 'string', 'children': [], 'value': '"NAXIS2 values are different."'}; {'id': '184', 'type': 'if_statement', 'children': ['185', '188', '195', '206', '217', '228']}; {'id': '185', 'type': 'comparison_operator', 'children': ['186', '187'], 'value': '=='}; {'id': '186', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '187', 'type': 'string', 'children': [], 'value': '"+"'}; {'id': '188', 'type': 'block', 'children': ['189']}; {'id': '189', 'type': 'expression_statement', 'children': ['190']}; {'id': '190', 'type': 'assignment', 'children': ['191', '192']}; {'id': '191', 'type': 'identifier', 'children': [], 'value': 'solution'}; {'id': '192', 'type': 'binary_operator', 'children': ['193', '194'], 'value': '+'}; {'id': '193', 'type': 'identifier', 'children': [], 'value': 'image1'}; {'id': '194', 'type': 'identifier', 'children': [], 'value': 'image2'}; {'id': '195', 'type': 'elif_clause', 'children': ['196', '199']}; {'id': '196', 'type': 'comparison_operator', 'children': ['197', '198'], 'value': '=='}; {'id': '197', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '198', 'type': 'string', 'children': [], 'value': '"-"'}; {'id': '199', 'type': 'block', 'children': ['200']}; {'id': '200', 'type': 'expression_statement', 'children': ['201']}; {'id': '201', 'type': 'assignment', 'children': ['202', '203']}; {'id': '202', 'type': 'identifier', 'children': [], 'value': 'solution'}; {'id': '203', 'type': 'binary_operator', 'children': ['204', '205'], 'value': '-'}; {'id': '204', 'type': 'identifier', 'children': [], 'value': 'image1'}; {'id': '205', 'type': 'identifier', 'children': [], 'value': 'image2'}; {'id': '206', 'type': 'elif_clause', 'children': ['207', '210']}; {'id': '207', 'type': 'comparison_operator', 'children': ['208', '209'], 'value': '=='}; {'id': '208', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '209', 'type': 'string', 'children': [], 'value': '"*"'}; {'id': '210', 'type': 'block', 'children': ['211']}; {'id': '211', 'type': 'expression_statement', 'children': ['212']}; {'id': '212', 'type': 'assignment', 'children': ['213', '214']}; {'id': '213', 'type': 'identifier', 'children': [], 'value': 'solution'}; {'id': '214', 'type': 'binary_operator', 'children': ['215', '216'], 'value': '*'}; {'id': '215', 'type': 'identifier', 'children': [], 'value': 'image1'}; {'id': '216', 'type': 'identifier', 'children': [], 'value': 'image2'}; {'id': '217', 'type': 'elif_clause', 'children': ['218', '221']}; {'id': '218', 'type': 'comparison_operator', 'children': ['219', '220'], 'value': '=='}; {'id': '219', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '220', 'type': 'string', 'children': [], 'value': '"/"'}; {'id': '221', 'type': 'block', 'children': ['222']}; {'id': '222', 'type': 'expression_statement', 'children': ['223']}; {'id': '223', 'type': 'assignment', 'children': ['224', '225']}; {'id': '224', 'type': 'identifier', 'children': [], 'value': 'solution'}; {'id': '225', 'type': 'binary_operator', 'children': ['226', '227'], 'value': '/'}; {'id': '226', 'type': 'identifier', 'children': [], 'value': 'image1'}; {'id': '227', 'type': 'identifier', 'children': [], 'value': 'image2'}; {'id': '228', 'type': 'else_clause', 'children': ['229']}; {'id': '229', 'type': 'block', 'children': ['230']}; {'id': '230', 'type': 'raise_statement', 'children': ['231']}; {'id': '231', 'type': 'call', 'children': ['232', '233']}; {'id': '232', 'type': 'identifier', 'children': [], 'value': 'ValueError'}; {'id': '233', 'type': 'argument_list', 'children': ['234']}; {'id': '234', 'type': 'binary_operator', 'children': ['235', '236'], 'value': '+'}; {'id': '235', 'type': 'string', 'children': [], 'value': '"Unexpected operation="'}; {'id': '236', 'type': 'call', 'children': ['237', '238']}; {'id': '237', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '238', 'type': 'argument_list', 'children': ['239']}; {'id': '239', 'type': 'identifier', 'children': [], 'value': 'operation'}; {'id': '240', 'type': 'expression_statement', 'children': ['241']}; {'id': '241', 'type': 'assignment', 'children': ['242', '243']}; {'id': '242', 'type': 'identifier', 'children': [], 'value': 'hdu'}; {'id': '243', 'type': 'call', 'children': ['244', '247']}; {'id': '244', 'type': 'attribute', 'children': ['245', '246']}; {'id': '245', 'type': 'identifier', 'children': [], 'value': 'fits'}; {'id': '246', 'type': 'identifier', 'children': [], 'value': 'PrimaryHDU'}; {'id': '247', 'type': 'argument_list', 'children': ['248', '256']}; {'id': '248', 'type': 'call', 'children': ['249', '252']}; {'id': '249', 'type': 'attribute', 'children': ['250', '251']}; {'id': '250', 'type': 'identifier', 'children': [], 'value': 'solution'}; {'id': '251', 'type': 'identifier', 'children': [], 'value': 'astype'}; {'id': '252', 'type': 'argument_list', 'children': ['253']}; {'id': '253', 'type': 'attribute', 'children': ['254', '255']}; {'id': '254', 'type': 'identifier', 'children': [], 'value': 'np'}; {'id': '255', 'type': 'identifier', 'children': [], 'value': 'float'}; {'id': '256', 'type': 'identifier', 'children': [], 'value': 'image_header1'}; {'id': '257', 'type': 'expression_statement', 'children': ['258']}; {'id': '258', 'type': 'call', 'children': ['259', '262']}; {'id': '259', 'type': 'attribute', 'children': ['260', '261']}; {'id': '260', 'type': 'identifier', 'children': [], 'value': 'hdu'}; {'id': '261', 'type': 'identifier', 'children': [], 'value': 'writeto'}; {'id': '262', 'type': 'argument_list', 'children': ['263', '264']}; {'id': '263', 'type': 'identifier', 'children': [], 'value': 'output'}; {'id': '264', 'type': 'keyword_argument', 'children': ['265', '266']}; {'id': '265', 'type': 'identifier', 'children': [], 'value': 'overwrite'}; {'id': '266', 'type': 'True', 'children': []}; {'id': '267', 'type': 'if_statement', 'children': ['268', '273']}; {'id': '268', 'type': 'comparison_operator', 'children': ['269', '270'], 'value': 'in'}; {'id': '269', 'type': 'identifier', 'children': [], 'value': 'display'}; {'id': '270', 'type': 'list', 'children': ['271', '272'], 'value': "['all', 'result']"}; {'id': '271', 'type': 'string', 'children': [], 'value': "'all'"}; {'id': '272', 'type': 'string', 'children': [], 'value': "'result'"}; {'id': '273', 'type': 'block', 'children': ['274']}; {'id': '274', 'type': 'expression_statement', 'children': ['275']}; {'id': '275', 'type': 'call', 'children': ['276', '277']}; {'id': '276', 'type': 'identifier', 'children': [], 'value': 'ximshow_file'}; {'id': '277', 'type': 'argument_list', 'children': ['278', '281', '284', '287', '290', '293']}; {'id': '278', 'type': 'attribute', 'children': ['279', '280']}; {'id': '279', 'type': 'identifier', 'children': [], 'value': 'output'}; {'id': '280', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '281', 'type': 'keyword_argument', 'children': ['282', '283']}; {'id': '282', 'type': 'identifier', 'children': [], 'value': 'args_z1z2'}; {'id': '283', 'type': 'identifier', 'children': [], 'value': 'args_z1z2'}; {'id': '284', 'type': 'keyword_argument', 'children': ['285', '286']}; {'id': '285', 'type': 'identifier', 'children': [], 'value': 'args_bbox'}; {'id': '286', 'type': 'identifier', 'children': [], 'value': 'args_bbox'}; {'id': '287', 'type': 'keyword_argument', 'children': ['288', '289']}; {'id': '288', 'type': 'identifier', 'children': [], 'value': 'args_keystitle'}; {'id': '289', 'type': 'identifier', 'children': [], 'value': 'args_keystitle'}; {'id': '290', 'type': 'keyword_argument', 'children': ['291', '292']}; {'id': '291', 'type': 'identifier', 'children': [], 'value': 'args_geometry'}; {'id': '292', 'type': 'identifier', 'children': [], 'value': 'args_geometry'}; {'id': '293', 'type': 'keyword_argument', 'children': ['294', '295']}; {'id': '294', 'type': 'identifier', 'children': [], 'value': 'debugplot'}; {'id': '295', 'type': 'integer', 'children': [], 'value': '12'} | def compute_operation(file1, file2, operation, output, display,
args_z1z2, args_bbox, args_keystitle, args_geometry):
with fits.open(file1) as hdulist:
image_header1 = hdulist[0].header
image1 = hdulist[0].data.astype(np.float)
naxis1 = image_header1['naxis1']
naxis2 = image_header1['naxis2']
if display == 'all':
ximshow_file(file1.name,
args_z1z2=args_z1z2, args_bbox=args_bbox,
args_keystitle=args_keystitle,
args_geometry=args_geometry,
debugplot=12)
with fits.open(file2) as hdulist:
image_header2 = hdulist[0].header
image2 = hdulist[0].data.astype(np.float)
naxis1_ = image_header2['naxis1']
naxis2_ = image_header2['naxis2']
if display == 'all':
ximshow_file(file2.name,
args_z1z2=args_z1z2, args_bbox=args_bbox,
args_keystitle=args_keystitle,
args_geometry=args_geometry,
debugplot=12)
if naxis1 != naxis1_:
raise ValueError("NAXIS1 values are different.")
if naxis2 != naxis2_:
raise ValueError("NAXIS2 values are different.")
if operation == "+":
solution = image1 + image2
elif operation == "-":
solution = image1 - image2
elif operation == "*":
solution = image1 * image2
elif operation == "/":
solution = image1 / image2
else:
raise ValueError("Unexpected operation=" + str(operation))
hdu = fits.PrimaryHDU(solution.astype(np.float), image_header1)
hdu.writeto(output, overwrite=True)
if display in ['all', 'result']:
ximshow_file(output.name,
args_z1z2=args_z1z2, args_bbox=args_bbox,
args_keystitle=args_keystitle,
args_geometry=args_geometry,
debugplot=12) |
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{'id': '184', 'type': 'conditional_expression', 'children': ['185', '191', '192'], 'value': 'if'}; {'id': '185', 'type': 'call', 'children': ['186', '189']}; {'id': '186', 'type': 'attribute', 'children': ['187', '188']}; {'id': '187', 'type': 'identifier', 'children': [], 'value': 'np'}; {'id': '188', 'type': 'identifier', 'children': [], 'value': 'max'}; {'id': '189', 'type': 'argument_list', 'children': ['190']}; {'id': '190', 'type': 'identifier', 'children': [], 'value': 'xx'}; {'id': '191', 'type': 'identifier', 'children': [], 'value': 'ok'}; {'id': '192', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '193', 'type': 'pair', 'children': ['194', '195']}; {'id': '194', 'type': 'string', 'children': [], 'value': "'std'"}; {'id': '195', 'type': 'conditional_expression', 'children': ['196', '202', '203'], 'value': 'if'}; {'id': '196', 'type': 'call', 'children': ['197', '200']}; {'id': '197', 'type': 'attribute', 'children': ['198', '199']}; {'id': '198', 'type': 'identifier', 'children': [], 'value': 'np'}; {'id': '199', 'type': 'identifier', 'children': [], 'value': 'std'}; {'id': '200', 'type': 'argument_list', 'children': ['201']}; {'id': '201', 'type': 'identifier', 'children': [], 'value': 'xx'}; {'id': '202', 'type': 'identifier', 'children': [], 'value': 'ok'}; {'id': '203', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '204', 'type': 'pair', 'children': ['205', '206']}; {'id': '205', 'type': 'string', 'children': [], 'value': "'robust_std'"}; {'id': '206', 'type': 'conditional_expression', 'children': ['207', '211', '212'], 'value': 'if'}; {'id': '207', 'type': 'call', 'children': ['208', '209']}; {'id': '208', 'type': 'identifier', 'children': [], 'value': 'robust_std'}; {'id': '209', 'type': 'argument_list', 'children': ['210']}; {'id': '210', 'type': 'identifier', 'children': [], 'value': 'xx'}; {'id': '211', 'type': 'identifier', 'children': [], 'value': 'ok'}; {'id': '212', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '213', 'type': 'pair', 'children': ['214', '215']}; {'id': '214', 'type': 'string', 'children': [], 'value': "'percentile15'"}; {'id': '215', 'type': 'conditional_expression', 'children': ['216', '223', '224'], 'value': 'if'}; {'id': '216', 'type': 'call', 'children': ['217', '220']}; {'id': '217', 'type': 'attribute', 'children': ['218', '219']}; {'id': '218', 'type': 'identifier', 'children': [], 'value': 'np'}; {'id': '219', 'type': 'identifier', 'children': [], 'value': 'percentile'}; {'id': '220', 'type': 'argument_list', 'children': ['221', '222']}; {'id': '221', 'type': 'identifier', 'children': [], 'value': 'xx'}; {'id': '222', 'type': 'float', 'children': [], 'value': '15.86553'}; {'id': '223', 'type': 'identifier', 'children': [], 'value': 'ok'}; {'id': '224', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '225', 'type': 'pair', 'children': ['226', '227']}; {'id': '226', 'type': 'string', 'children': [], 'value': "'percentile84'"}; {'id': '227', 'type': 'conditional_expression', 'children': ['228', '235', '236'], 'value': 'if'}; {'id': '228', 'type': 'call', 'children': ['229', '232']}; {'id': '229', 'type': 'attribute', 'children': ['230', '231']}; {'id': '230', 'type': 'identifier', 'children': [], 'value': 'np'}; {'id': '231', 'type': 'identifier', 'children': [], 'value': 'percentile'}; {'id': '232', 'type': 'argument_list', 'children': ['233', '234']}; {'id': '233', 'type': 'identifier', 'children': [], 'value': 'xx'}; {'id': '234', 'type': 'float', 'children': [], 'value': '84.13447'}; {'id': '235', 'type': 'identifier', 'children': [], 'value': 'ok'}; {'id': '236', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '237', 'type': 'if_statement', 'children': ['238', '239']}; {'id': '238', 'type': 'identifier', 'children': [], 'value': 'debug'}; {'id': '239', 'type': 'block', 'children': ['240', '245', '250', '255', '263', '271', '279', '287', '295', '303', '311', '316', '324', '332', '340', '348']}; {'id': '240', 'type': 'expression_statement', 'children': ['241']}; {'id': '241', 'type': 'call', 'children': ['242', '243']}; {'id': '242', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '243', 'type': 'argument_list', 'children': ['244']}; {'id': '244', 'type': 'string', 'children': [], 'value': "'>>> ========================================'"}; {'id': '245', 'type': 'expression_statement', 'children': ['246']}; {'id': '246', 'type': 'call', 'children': ['247', '248']}; {'id': '247', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '248', 'type': 'argument_list', 'children': ['249']}; {'id': '249', 'type': 'string', 'children': [], 'value': "'>>> STATISTICAL SUMMARY:'"}; {'id': '250', 'type': 'expression_statement', 'children': ['251']}; {'id': '251', 'type': 'call', 'children': ['252', '253']}; {'id': '252', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '253', 'type': 'argument_list', 'children': ['254']}; {'id': '254', 'type': 'string', 'children': [], 'value': "'>>> ----------------------------------------'"}; {'id': '255', 'type': 'expression_statement', 'children': ['256']}; {'id': '256', 'type': 'call', 'children': ['257', '258']}; {'id': '257', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '258', 'type': 'argument_list', 'children': ['259', '260']}; {'id': '259', 'type': 'string', 'children': [], 'value': "'>>> Number of points.........:'"}; {'id': '260', 'type': 'subscript', 'children': ['261', '262']}; {'id': '261', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '262', 'type': 'string', 'children': [], 'value': "'npoints'"}; {'id': '263', 'type': 'expression_statement', 'children': ['264']}; {'id': '264', 'type': 'call', 'children': ['265', '266']}; {'id': '265', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '266', 'type': 'argument_list', 'children': ['267', '268']}; {'id': '267', 'type': 'string', 'children': [], 'value': "'>>> Minimum..................:'"}; {'id': '268', 'type': 'subscript', 'children': ['269', '270']}; {'id': '269', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '270', 'type': 'string', 'children': [], 'value': "'minimum'"}; {'id': '271', 'type': 'expression_statement', 'children': ['272']}; {'id': '272', 'type': 'call', 'children': ['273', '274']}; {'id': '273', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '274', 'type': 'argument_list', 'children': ['275', '276']}; {'id': '275', 'type': 'string', 'children': [], 'value': "'>>> 1st Quartile.............:'"}; {'id': '276', 'type': 'subscript', 'children': ['277', '278']}; {'id': '277', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '278', 'type': 'string', 'children': [], 'value': "'percentile25'"}; {'id': '279', 'type': 'expression_statement', 'children': ['280']}; {'id': '280', 'type': 'call', 'children': ['281', '282']}; {'id': '281', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '282', 'type': 'argument_list', 'children': ['283', '284']}; {'id': '283', 'type': 'string', 'children': [], 'value': "'>>> Median...................:'"}; {'id': '284', 'type': 'subscript', 'children': ['285', '286']}; {'id': '285', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '286', 'type': 'string', 'children': [], 'value': "'median'"}; {'id': '287', 'type': 'expression_statement', 'children': ['288']}; {'id': '288', 'type': 'call', 'children': ['289', '290']}; {'id': '289', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '290', 'type': 'argument_list', 'children': ['291', '292']}; {'id': '291', 'type': 'string', 'children': [], 'value': "'>>> Mean.....................:'"}; {'id': '292', 'type': 'subscript', 'children': ['293', '294']}; {'id': '293', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '294', 'type': 'string', 'children': [], 'value': "'mean'"}; {'id': '295', 'type': 'expression_statement', 'children': ['296']}; {'id': '296', 'type': 'call', 'children': ['297', '298']}; {'id': '297', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '298', 'type': 'argument_list', 'children': ['299', '300']}; {'id': '299', 'type': 'string', 'children': [], 'value': "'>>> 3rd Quartile.............:'"}; {'id': '300', 'type': 'subscript', 'children': ['301', '302']}; {'id': '301', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '302', 'type': 'string', 'children': [], 'value': "'percentile75'"}; {'id': '303', 'type': 'expression_statement', 'children': ['304']}; {'id': '304', 'type': 'call', 'children': ['305', '306']}; {'id': '305', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '306', 'type': 'argument_list', 'children': ['307', '308']}; {'id': '307', 'type': 'string', 'children': [], 'value': "'>>> Maximum..................:'"}; {'id': '308', 'type': 'subscript', 'children': ['309', '310']}; {'id': '309', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '310', 'type': 'string', 'children': [], 'value': "'maximum'"}; {'id': '311', 'type': 'expression_statement', 'children': ['312']}; {'id': '312', 'type': 'call', 'children': ['313', '314']}; {'id': '313', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '314', 'type': 'argument_list', 'children': ['315']}; {'id': '315', 'type': 'string', 'children': [], 'value': "'>>> ----------------------------------------'"}; {'id': '316', 'type': 'expression_statement', 'children': ['317']}; {'id': '317', 'type': 'call', 'children': ['318', '319']}; {'id': '318', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '319', 'type': 'argument_list', 'children': ['320', '321']}; {'id': '320', 'type': 'string', 'children': [], 'value': "'>>> Standard deviation.......:'"}; {'id': '321', 'type': 'subscript', 'children': ['322', '323']}; {'id': '322', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '323', 'type': 'string', 'children': [], 'value': "'std'"}; {'id': '324', 'type': 'expression_statement', 'children': ['325']}; {'id': '325', 'type': 'call', 'children': ['326', '327']}; {'id': '326', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '327', 'type': 'argument_list', 'children': ['328', '329']}; {'id': '328', 'type': 'string', 'children': [], 'value': "'>>> Robust standard deviation:'"}; {'id': '329', 'type': 'subscript', 'children': ['330', '331']}; {'id': '330', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '331', 'type': 'string', 'children': [], 'value': "'robust_std'"}; {'id': '332', 'type': 'expression_statement', 'children': ['333']}; {'id': '333', 'type': 'call', 'children': ['334', '335']}; {'id': '334', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '335', 'type': 'argument_list', 'children': ['336', '337']}; {'id': '336', 'type': 'string', 'children': [], 'value': "'>>> 0.1586553 percentile.....:'"}; {'id': '337', 'type': 'subscript', 'children': ['338', '339']}; {'id': '338', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '339', 'type': 'string', 'children': [], 'value': "'percentile15'"}; {'id': '340', 'type': 'expression_statement', 'children': ['341']}; {'id': '341', 'type': 'call', 'children': ['342', '343']}; {'id': '342', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '343', 'type': 'argument_list', 'children': ['344', '345']}; {'id': '344', 'type': 'string', 'children': [], 'value': "'>>> 0.8413447 percentile.....:'"}; {'id': '345', 'type': 'subscript', 'children': ['346', '347']}; {'id': '346', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '347', 'type': 'string', 'children': [], 'value': "'percentile84'"}; {'id': '348', 'type': 'expression_statement', 'children': ['349']}; {'id': '349', 'type': 'call', 'children': ['350', '351']}; {'id': '350', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '351', 'type': 'argument_list', 'children': ['352']}; {'id': '352', 'type': 'string', 'children': [], 'value': "'>>> ========================================'"}; {'id': '353', 'type': 'return_statement', 'children': ['354']}; {'id': '354', 'type': 'identifier', 'children': [], 'value': 'result'} | def summary(x, rm_nan=False, debug=False):
if type(x) is np.ndarray:
xx = np.copy(x)
else:
if type(x) is list:
xx = np.array(x)
else:
raise ValueError('x=' + str(x) + ' must be a numpy.ndarray')
if xx.ndim is not 1:
raise ValueError('xx.dim=' + str(xx.ndim) + ' must be 1')
if rm_nan:
xx = xx[np.logical_not(np.isnan(xx))]
npoints = len(xx)
ok = npoints > 0
result = {
'npoints' : npoints,
'minimum' : np.min(xx) if ok else 0,
'percentile25' : np.percentile(xx, 25) if ok else 0,
'median' : np.percentile(xx, 50) if ok else 0,
'mean' : np.mean(xx) if ok else 0,
'percentile75': np.percentile(xx, 75) if ok else 0,
'maximum' : np.max(xx) if ok else 0,
'std': np.std(xx) if ok else 0,
'robust_std' : robust_std(xx) if ok else 0,
'percentile15': np.percentile(xx, 15.86553) if ok else 0,
'percentile84': np.percentile(xx, 84.13447) if ok else 0
}
if debug:
print('>>> ========================================')
print('>>> STATISTICAL SUMMARY:')
print('>>> ----------------------------------------')
print('>>> Number of points.........:', result['npoints'])
print('>>> Minimum..................:', result['minimum'])
print('>>> 1st Quartile.............:', result['percentile25'])
print('>>> Median...................:', result['median'])
print('>>> Mean.....................:', result['mean'])
print('>>> 3rd Quartile.............:', result['percentile75'])
print('>>> Maximum..................:', result['maximum'])
print('>>> ----------------------------------------')
print('>>> Standard deviation.......:', result['std'])
print('>>> Robust standard deviation:', result['robust_std'])
print('>>> 0.1586553 percentile.....:', result['percentile15'])
print('>>> 0.8413447 percentile.....:', result['percentile84'])
print('>>> ========================================')
return result |
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{'id': '60', 'type': 'identifier', 'children': [], 'value': 'sx'}; {'id': '61', 'type': 'identifier', 'children': [], 'value': 'shape'}; {'id': '62', 'type': 'expression_statement', 'children': ['63']}; {'id': '63', 'type': 'assignment', 'children': ['64', '65']}; {'id': '64', 'type': 'identifier', 'children': [], 'value': 'nmed'}; {'id': '65', 'type': 'binary_operator', 'children': ['66', '67'], 'value': '//'}; {'id': '66', 'type': 'identifier', 'children': [], 'value': 'nwinwidth'}; {'id': '67', 'type': 'integer', 'children': [], 'value': '2'}; {'id': '68', 'type': 'if_statement', 'children': ['69', '72']}; {'id': '69', 'type': 'comparison_operator', 'children': ['70', '71'], 'value': '>='}; {'id': '70', 'type': 'identifier', 'children': [], 'value': 'debugplot'}; {'id': '71', 'type': 'integer', 'children': [], 'value': '10'}; {'id': '72', 'type': 'block', 'children': ['73', '79', '85', '91', '97']}; {'id': '73', 'type': 'expression_statement', 'children': ['74']}; {'id': '74', 'type': 'call', 'children': ['75', '76']}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '76', 'type': 'argument_list', 'children': ['77', '78']}; {'id': '77', 'type': 'string', 'children': [], 'value': "'find_peaks_spectrum> sx shape......:'"}; {'id': '78', 'type': 'identifier', 'children': [], 'value': 'sx_shape'}; {'id': '79', 'type': 'expression_statement', 'children': ['80']}; {'id': '80', 'type': 'call', 'children': ['81', '82']}; {'id': '81', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '82', 'type': 'argument_list', 'children': ['83', '84']}; {'id': '83', 'type': 'string', 'children': [], 'value': "'find_peaks_spectrum> nwinwidth.....:'"}; {'id': '84', 'type': 'identifier', 'children': [], 'value': 'nwinwidth'}; {'id': '85', 'type': 'expression_statement', 'children': ['86']}; {'id': '86', 'type': 'call', 'children': ['87', '88']}; {'id': '87', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '88', 'type': 'argument_list', 'children': ['89', '90']}; {'id': '89', 'type': 'string', 'children': [], 'value': "'find_peaks_spectrum> nmed..........:'"}; {'id': '90', 'type': 'identifier', 'children': [], 'value': 'nmed'}; {'id': '91', 'type': 'expression_statement', 'children': ['92']}; {'id': '92', 'type': 'call', 'children': ['93', '94']}; {'id': '93', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '94', 'type': 'argument_list', 'children': ['95', '96']}; {'id': '95', 'type': 'string', 'children': [], 'value': "'find_peaks_spectrum> data_threshold:'"}; {'id': '96', 'type': 'identifier', 'children': [], 'value': 'threshold'}; {'id': '97', 'type': 'expression_statement', 'children': ['98']}; {'id': '98', 'type': 'call', 'children': ['99', '100']}; {'id': '99', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '100', 'type': 'argument_list', 'children': ['101', '102', '103']}; {'id': '101', 'type': 'string', 'children': [], 'value': "'find_peaks_spectrum> the first and last'"}; {'id': '102', 'type': 'identifier', 'children': [], 'value': 'nmed'}; {'id': '103', 'type': 'string', 'children': [], 'value': "'pixels will be ignored'"}; {'id': '104', 'type': 'expression_statement', 'children': ['105']}; {'id': '105', 'type': 'assignment', 'children': ['106', '107']}; {'id': '106', 'type': 'identifier', 'children': [], 'value': 'xpeaks'}; {'id': '107', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '108', 'type': 'if_statement', 'children': ['109', '114']}; {'id': '109', 'type': 'comparison_operator', 'children': ['110', '113'], 'value': '<'}; {'id': '110', 'type': 'subscript', 'children': ['111', '112']}; {'id': '111', 'type': 'identifier', 'children': [], 'value': 'sx_shape'}; {'id': '112', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '113', 'type': 'identifier', 'children': [], 'value': 'nwinwidth'}; {'id': '114', 'type': 'block', 'children': ['115', '121', '127']}; {'id': '115', 'type': 'expression_statement', 'children': ['116']}; {'id': '116', 'type': 'call', 'children': ['117', '118']}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '118', 'type': 'argument_list', 'children': ['119', '120']}; {'id': '119', 'type': 'string', 'children': [], 'value': "'find_peaks_spectrum> sx shape......:'"}; {'id': '120', 'type': 'identifier', 'children': [], 'value': 'sx_shape'}; {'id': '121', 'type': 'expression_statement', 'children': ['122']}; {'id': '122', 'type': 'call', 'children': ['123', '124']}; {'id': '123', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '124', 'type': 'argument_list', 'children': ['125', '126']}; {'id': '125', 'type': 'string', 'children': [], 'value': "'find_peaks_spectrum> nwinwidth.....:'"}; {'id': '126', 'type': 'identifier', 'children': [], 'value': 'nwinwidth'}; {'id': '127', 'type': 'raise_statement', 'children': ['128']}; {'id': '128', 'type': 'call', 'children': ['129', '130']}; {'id': '129', 'type': 'identifier', 'children': [], 'value': 'ValueError'}; {'id': '130', 'type': 'argument_list', 'children': ['131']}; {'id': '131', 'type': 'string', 'children': [], 'value': "'sx.shape < nwinwidth'"}; {'id': '132', 'type': 'expression_statement', 'children': ['133']}; {'id': '133', 'type': 'assignment', 'children': ['134', '135']}; {'id': '134', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '135', 'type': 'identifier', 'children': [], 'value': 'nmed'}; {'id': '136', 'type': 'while_statement', 'children': ['137', '144']}; {'id': '137', 'type': 'comparison_operator', 'children': ['138', '139'], 'value': '<'}; {'id': '138', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '139', 'type': 'binary_operator', 'children': ['140', '143'], 'value': '-'}; {'id': '140', 'type': 'subscript', 'children': ['141', '142']}; {'id': '141', 'type': 'identifier', 'children': [], 'value': 'sx_shape'}; {'id': '142', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '143', 'type': 'identifier', 'children': [], 'value': 'nmed'}; {'id': '144', 'type': 'block', 'children': ['145']}; {'id': '145', 'type': 'if_statement', 'children': ['146', '151', '277']}; {'id': '146', 'type': 'comparison_operator', 'children': ['147', '150'], 'value': '>'}; {'id': '147', 'type': 'subscript', 'children': ['148', '149']}; {'id': '148', 'type': 'identifier', 'children': [], 'value': 'sx'}; {'id': '149', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '150', 'type': 'identifier', 'children': [], 'value': 'threshold'}; {'id': '151', 'type': 'block', 'children': ['152', '156', '160', '164', '203', '255']}; {'id': '152', 'type': 'expression_statement', 'children': ['153']}; {'id': '153', 'type': 'assignment', 'children': ['154', '155']}; {'id': '154', 'type': 'identifier', 'children': [], 'value': 'peak_ok'}; {'id': '155', 'type': 'True', 'children': []}; {'id': '156', 'type': 'expression_statement', 'children': ['157']}; {'id': '157', 'type': 'assignment', 'children': ['158', '159']}; {'id': '158', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '159', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '160', 'type': 'expression_statement', 'children': ['161']}; {'id': '161', 'type': 'assignment', 'children': ['162', '163']}; {'id': '162', 'type': 'identifier', 'children': [], 'value': 'loop'}; {'id': '163', 'type': 'True', 'children': []}; {'id': '164', 'type': 'while_statement', 'children': ['165', '166']}; {'id': '165', 'type': 'identifier', 'children': [], 'value': 'loop'}; {'id': '166', 'type': 'block', 'children': ['167', '190', '194']}; {'id': '167', 'type': 'if_statement', 'children': ['168', '185']}; {'id': '168', 'type': 'comparison_operator', 'children': ['169', '176'], 'value': '>'}; {'id': '169', 'type': 'subscript', 'children': ['170', '171']}; {'id': '170', 'type': 'identifier', 'children': [], 'value': 'sx'}; {'id': '171', 'type': 'binary_operator', 'children': ['172', '175'], 'value': '+'}; {'id': '172', 'type': 'binary_operator', 'children': ['173', '174'], 'value': '-'}; {'id': '173', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '174', 'type': 'identifier', 'children': [], 'value': 'nmed'}; {'id': '175', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '176', 'type': 'subscript', 'children': ['177', '178']}; {'id': '177', 'type': 'identifier', 'children': [], 'value': 'sx'}; {'id': '178', 'type': 'binary_operator', 'children': ['179', '184'], 'value': '+'}; {'id': '179', 'type': 'binary_operator', 'children': ['180', '183'], 'value': '+'}; {'id': '180', 'type': 'binary_operator', 'children': ['181', '182'], 'value': '-'}; {'id': '181', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '182', 'type': 'identifier', 'children': [], 'value': 'nmed'}; {'id': '183', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '184', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '185', 'type': 'block', 'children': ['186']}; {'id': '186', 'type': 'expression_statement', 'children': ['187']}; {'id': '187', 'type': 'assignment', 'children': ['188', '189']}; {'id': '188', 'type': 'identifier', 'children': [], 'value': 'peak_ok'}; {'id': '189', 'type': 'False', 'children': []}; {'id': '190', 'type': 'expression_statement', 'children': ['191']}; {'id': '191', 'type': 'augmented_assignment', 'children': ['192', '193'], 'value': '+='}; {'id': '192', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '193', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '194', 'type': 'expression_statement', 'children': ['195']}; {'id': '195', 'type': 'assignment', 'children': ['196', '197']}; {'id': '196', 'type': 'identifier', 'children': [], 'value': 'loop'}; {'id': '197', 'type': 'boolean_operator', 'children': ['198', '202'], 'value': 'and'}; {'id': '198', 'type': '()', 'children': ['199']}; {'id': '199', 'type': 'comparison_operator', 'children': ['200', '201'], 'value': '<'}; {'id': '200', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '201', 'type': 'identifier', 'children': [], 'value': 'nmed'}; {'id': '202', 'type': 'identifier', 'children': [], 'value': 'peak_ok'}; {'id': '203', 'type': 'if_statement', 'children': ['204', '205']}; {'id': '204', 'type': 'identifier', 'children': [], 'value': 'peak_ok'}; {'id': '205', 'type': 'block', 'children': ['206', '212', '216']}; {'id': '206', 'type': 'expression_statement', 'children': ['207']}; {'id': '207', 'type': 'assignment', 'children': ['208', '209']}; {'id': '208', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '209', 'type': 'binary_operator', 'children': ['210', '211'], 'value': '+'}; {'id': '210', 'type': 'identifier', 'children': [], 'value': 'nmed'}; {'id': '211', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '212', 'type': 'expression_statement', 'children': ['213']}; {'id': '213', 'type': 'assignment', 'children': ['214', '215']}; {'id': '214', 'type': 'identifier', 'children': [], 'value': 'loop'}; {'id': '215', 'type': 'True', 'children': []}; {'id': '216', 'type': 'while_statement', 'children': ['217', '218']}; {'id': '217', 'type': 'identifier', 'children': [], 'value': 'loop'}; {'id': '218', 'type': 'block', 'children': ['219', '242', '246']}; {'id': '219', 'type': 'if_statement', 'children': ['220', '237']}; {'id': '220', 'type': 'comparison_operator', 'children': ['221', '230'], 'value': '<'}; {'id': '221', 'type': 'subscript', 'children': ['222', '223']}; {'id': '222', 'type': 'identifier', 'children': [], 'value': 'sx'}; {'id': '223', 'type': 'binary_operator', 'children': ['224', '229'], 'value': '-'}; {'id': '224', 'type': 'binary_operator', 'children': ['225', '228'], 'value': '+'}; {'id': '225', 'type': 'binary_operator', 'children': ['226', '227'], 'value': '-'}; {'id': '226', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '227', 'type': 'identifier', 'children': [], 'value': 'nmed'}; {'id': '228', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '229', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '230', 'type': 'subscript', 'children': ['231', '232']}; {'id': '231', 'type': 'identifier', 'children': [], 'value': 'sx'}; {'id': '232', 'type': 'binary_operator', 'children': ['233', '236'], 'value': '+'}; {'id': '233', 'type': 'binary_operator', 'children': ['234', '235'], 'value': '-'}; {'id': '234', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '235', 'type': 'identifier', 'children': [], 'value': 'nmed'}; {'id': '236', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '237', 'type': 'block', 'children': ['238']}; {'id': '238', 'type': 'expression_statement', 'children': ['239']}; {'id': '239', 'type': 'assignment', 'children': ['240', '241']}; {'id': '240', 'type': 'identifier', 'children': [], 'value': 'peak_ok'}; {'id': '241', 'type': 'False', 'children': []}; {'id': '242', 'type': 'expression_statement', 'children': ['243']}; {'id': '243', 'type': 'augmented_assignment', 'children': ['244', '245'], 'value': '+='}; {'id': '244', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '245', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '246', 'type': 'expression_statement', 'children': ['247']}; {'id': '247', 'type': 'assignment', 'children': ['248', '249']}; {'id': '248', 'type': 'identifier', 'children': [], 'value': 'loop'}; {'id': '249', 'type': 'boolean_operator', 'children': ['250', '254'], 'value': 'and'}; {'id': '250', 'type': '()', 'children': ['251']}; {'id': '251', 'type': 'comparison_operator', 'children': ['252', '253'], 'value': '<'}; {'id': '252', 'type': 'identifier', 'children': [], 'value': 'j'}; {'id': '253', 'type': 'identifier', 'children': [], 'value': 'nwinwidth'}; {'id': '254', 'type': 'identifier', 'children': [], 'value': 'peak_ok'}; {'id': '255', 'type': 'if_statement', 'children': ['256', '257', '271']}; {'id': '256', 'type': 'identifier', 'children': [], 'value': 'peak_ok'}; {'id': '257', 'type': 'block', 'children': ['258', '265']}; {'id': '258', 'type': 'expression_statement', 'children': ['259']}; {'id': '259', 'type': 'call', 'children': ['260', '263']}; {'id': '260', 'type': 'attribute', 'children': ['261', '262']}; {'id': '261', 'type': 'identifier', 'children': [], 'value': 'xpeaks'}; {'id': '262', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '263', 'type': 'argument_list', 'children': ['264']}; {'id': '264', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '265', 'type': 'expression_statement', 'children': ['266']}; {'id': '266', 'type': 'augmented_assignment', 'children': ['267', '268'], 'value': '+='}; {'id': '267', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '268', 'type': 'binary_operator', 'children': ['269', '270'], 'value': '-'}; {'id': '269', 'type': 'identifier', 'children': [], 'value': 'nwinwidth'}; {'id': '270', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '271', 'type': 'else_clause', 'children': ['272']}; {'id': '272', 'type': 'block', 'children': ['273']}; {'id': '273', 'type': 'expression_statement', 'children': ['274']}; {'id': '274', 'type': 'augmented_assignment', 'children': ['275', '276'], 'value': '+='}; {'id': '275', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '276', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '277', 'type': 'else_clause', 'children': ['278']}; {'id': '278', 'type': 'block', 'children': ['279']}; {'id': '279', 'type': 'expression_statement', 'children': ['280']}; {'id': '280', 'type': 'augmented_assignment', 'children': ['281', '282'], 'value': '+='}; {'id': '281', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '282', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '283', 'type': 'expression_statement', 'children': ['284']}; {'id': '284', 'type': 'assignment', 'children': ['285', '286']}; {'id': '285', 'type': 'identifier', 'children': [], 'value': 'ixpeaks'}; {'id': '286', 'type': 'call', 'children': ['287', '290']}; {'id': '287', 'type': 'attribute', 'children': ['288', '289']}; {'id': '288', 'type': 'identifier', 'children': [], 'value': 'np'}; {'id': '289', 'type': 'identifier', 'children': [], 'value': 'array'}; {'id': '290', 'type': 'argument_list', 'children': ['291']}; {'id': '291', 'type': 'identifier', 'children': [], 'value': 'xpeaks'}; {'id': '292', 'type': 'if_statement', 'children': ['293', '296']}; {'id': '293', 'type': 'comparison_operator', 'children': ['294', '295'], 'value': '>='}; {'id': '294', 'type': 'identifier', 'children': [], 'value': 'debugplot'}; {'id': '295', 'type': 'integer', 'children': [], 'value': '10'}; {'id': '296', 'type': 'block', 'children': ['297', '306']}; {'id': '297', 'type': 'expression_statement', 'children': ['298']}; {'id': '298', 'type': 'call', 'children': ['299', '300']}; {'id': '299', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '300', 'type': 'argument_list', 'children': ['301', '302']}; {'id': '301', 'type': 'string', 'children': [], 'value': "'find_peaks_spectrum> number of peaks found:'"}; {'id': '302', 'type': 'call', 'children': ['303', '304']}; {'id': '303', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '304', 'type': 'argument_list', 'children': ['305']}; {'id': '305', 'type': 'identifier', 'children': [], 'value': 'ixpeaks'}; {'id': '306', 'type': 'expression_statement', 'children': ['307']}; {'id': '307', 'type': 'call', 'children': ['308', '309']}; {'id': '308', 'type': 'identifier', 'children': [], 'value': 'print'}; {'id': '309', 'type': 'argument_list', 'children': ['310']}; {'id': '310', 'type': 'identifier', 'children': [], 'value': 'ixpeaks'}; {'id': '311', 'type': 'return_statement', 'children': ['312']}; {'id': '312', 'type': 'identifier', 'children': [], 'value': 'ixpeaks'} | def find_peaks_spectrum(sx, nwinwidth, threshold=0, debugplot=0):
if type(sx) is not np.ndarray:
raise ValueError("sx=" + str(sx) + " must be a numpy.ndarray")
elif sx.ndim is not 1:
raise ValueError("sx.ndim=" + str(sx.ndim) + " must be 1")
sx_shape = sx.shape
nmed = nwinwidth//2
if debugplot >= 10:
print('find_peaks_spectrum> sx shape......:', sx_shape)
print('find_peaks_spectrum> nwinwidth.....:', nwinwidth)
print('find_peaks_spectrum> nmed..........:', nmed)
print('find_peaks_spectrum> data_threshold:', threshold)
print('find_peaks_spectrum> the first and last', nmed,
'pixels will be ignored')
xpeaks = []
if sx_shape[0] < nwinwidth:
print('find_peaks_spectrum> sx shape......:', sx_shape)
print('find_peaks_spectrum> nwinwidth.....:', nwinwidth)
raise ValueError('sx.shape < nwinwidth')
i = nmed
while i < sx_shape[0] - nmed:
if sx[i] > threshold:
peak_ok = True
j = 0
loop = True
while loop:
if sx[i - nmed + j] > sx[i - nmed + j + 1]:
peak_ok = False
j += 1
loop = (j < nmed) and peak_ok
if peak_ok:
j = nmed + 1
loop = True
while loop:
if sx[i - nmed + j - 1] < sx[i - nmed + j]:
peak_ok = False
j += 1
loop = (j < nwinwidth) and peak_ok
if peak_ok:
xpeaks.append(i)
i += nwinwidth - 1
else:
i += 1
else:
i += 1
ixpeaks = np.array(xpeaks)
if debugplot >= 10:
print('find_peaks_spectrum> number of peaks found:', len(ixpeaks))
print(ixpeaks)
return ixpeaks |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '9']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'shortlex'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '6']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'start'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'other'}; {'id': '6', 'type': 'default_parameter', 'children': ['7', '8']}; {'id': '7', 'type': 'identifier', 'children': [], 'value': 'excludestart'}; {'id': '8', 'type': 'False', 'children': []}; {'id': '9', 'type': 'block', 'children': ['10', '17', '29']}; {'id': '10', 'type': 'if_statement', 'children': ['11', '13']}; {'id': '11', 'type': 'not_operator', 'children': ['12']}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'excludestart'}; {'id': '13', 'type': 'block', 'children': ['14']}; {'id': '14', 'type': 'expression_statement', 'children': ['15']}; {'id': '15', 'type': 'yield', 'children': ['16']}; {'id': '16', 'type': 'identifier', 'children': [], 'value': 'start'}; {'id': '17', 'type': 'expression_statement', 'children': ['18']}; {'id': '18', 'type': 'assignment', 'children': ['19', '20']}; {'id': '19', 'type': 'identifier', 'children': [], 'value': 'queue'}; {'id': '20', 'type': 'call', 'children': ['21', '24']}; {'id': '21', 'type': 'attribute', 'children': ['22', '23']}; {'id': '22', 'type': 'identifier', 'children': [], 'value': 'collections'}; {'id': '23', 'type': 'identifier', 'children': [], 'value': 'deque'}; {'id': '24', 'type': 'argument_list', 'children': ['25']}; {'id': '25', 'type': 'list', 'children': ['26'], 'value': '[(start, other)]'}; {'id': '26', 'type': 'tuple', 'children': ['27', '28']}; {'id': '27', 'type': 'identifier', 'children': [], 'value': 'start'}; {'id': '28', 'type': 'identifier', 'children': [], 'value': 'other'}; {'id': '29', 'type': 'while_statement', 'children': ['30', '31']}; {'id': '30', 'type': 'identifier', 'children': [], 'value': 'queue'}; {'id': '31', 'type': 'block', 'children': ['32', '42']}; {'id': '32', 'type': 'expression_statement', 'children': ['33']}; {'id': '33', 'type': 'assignment', 'children': ['34', '37']}; {'id': '34', 'type': 'pattern_list', 'children': ['35', '36']}; {'id': '35', 'type': 'identifier', 'children': [], 'value': 'current'}; {'id': '36', 'type': 'identifier', 'children': [], 'value': 'other'}; {'id': '37', 'type': 'call', 'children': ['38', '41']}; {'id': '38', 'type': 'attribute', 'children': ['39', '40']}; {'id': '39', 'type': 'identifier', 'children': [], 'value': 'queue'}; {'id': '40', 'type': 'identifier', 'children': [], 'value': 'popleft'}; {'id': '41', 'type': 'argument_list', 'children': []}; {'id': '42', 'type': 'while_statement', 'children': ['43', '44']}; {'id': '43', 'type': 'identifier', 'children': [], 'value': 'other'}; {'id': '44', 'type': 'block', 'children': ['45', '59', '65', '68']}; {'id': '45', 'type': 'expression_statement', 'children': ['46']}; {'id': '46', 'type': 'assignment', 'children': ['47', '50']}; {'id': '47', 'type': 'pattern_list', 'children': ['48', '49']}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'first'}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'other'}; {'id': '50', 'type': 'expression_list', 'children': ['51', '54']}; {'id': '51', 'type': 'subscript', 'children': ['52', '53']}; {'id': '52', 'type': 'identifier', 'children': [], 'value': 'other'}; {'id': '53', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '54', 'type': 'subscript', 'children': ['55', '56']}; {'id': '55', 'type': 'identifier', 'children': [], 'value': 'other'}; {'id': '56', 'type': 'slice', 'children': ['57', '58']}; {'id': '57', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '58', 'type': 'colon', 'children': []}; {'id': '59', 'type': 'expression_statement', 'children': ['60']}; {'id': '60', 'type': 'assignment', 'children': ['61', '62']}; {'id': '61', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '62', 'type': 'binary_operator', 'children': ['63', '64'], 'value': '|'}; {'id': '63', 'type': 'identifier', 'children': [], 'value': 'current'}; {'id': '64', 'type': 'identifier', 'children': [], 'value': 'first'}; {'id': '65', 'type': 'expression_statement', 'children': ['66']}; {'id': '66', 'type': 'yield', 'children': ['67']}; {'id': '67', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '68', 'type': 'if_statement', 'children': ['69', '70']}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'other'}; {'id': '70', 'type': 'block', 'children': ['71']}; {'id': '71', 'type': 'expression_statement', 'children': ['72']}; {'id': '72', 'type': 'call', 'children': ['73', '76']}; {'id': '73', 'type': 'attribute', 'children': ['74', '75']}; {'id': '74', 'type': 'identifier', 'children': [], 'value': 'queue'}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '76', 'type': 'argument_list', 'children': ['77']}; {'id': '77', 'type': 'tuple', 'children': ['78', '79']}; {'id': '78', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '79', 'type': 'identifier', 'children': [], 'value': 'other'} | def shortlex(start, other, excludestart=False):
if not excludestart:
yield start
queue = collections.deque([(start, other)])
while queue:
current, other = queue.popleft()
while other:
first, other = other[0], other[1:]
result = current | first
yield result
if other:
queue.append((result, other)) |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '9']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'reverse_shortlex'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '6']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'end'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'other'}; {'id': '6', 'type': 'default_parameter', 'children': ['7', '8']}; {'id': '7', 'type': 'identifier', 'children': [], 'value': 'excludeend'}; {'id': '8', 'type': 'False', 'children': []}; {'id': '9', 'type': 'block', 'children': ['10', '17', '29']}; {'id': '10', 'type': 'if_statement', 'children': ['11', '13']}; {'id': '11', 'type': 'not_operator', 'children': ['12']}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'excludeend'}; {'id': '13', 'type': 'block', 'children': ['14']}; {'id': '14', 'type': 'expression_statement', 'children': ['15']}; {'id': '15', 'type': 'yield', 'children': ['16']}; {'id': '16', 'type': 'identifier', 'children': [], 'value': 'end'}; {'id': '17', 'type': 'expression_statement', 'children': ['18']}; {'id': '18', 'type': 'assignment', 'children': ['19', '20']}; {'id': '19', 'type': 'identifier', 'children': [], 'value': 'queue'}; {'id': '20', 'type': 'call', 'children': ['21', '24']}; {'id': '21', 'type': 'attribute', 'children': ['22', '23']}; {'id': '22', 'type': 'identifier', 'children': [], 'value': 'collections'}; {'id': '23', 'type': 'identifier', 'children': [], 'value': 'deque'}; {'id': '24', 'type': 'argument_list', 'children': ['25']}; {'id': '25', 'type': 'list', 'children': ['26'], 'value': '[(end, other)]'}; {'id': '26', 'type': 'tuple', 'children': ['27', '28']}; {'id': '27', 'type': 'identifier', 'children': [], 'value': 'end'}; {'id': '28', 'type': 'identifier', 'children': [], 'value': 'other'}; {'id': '29', 'type': 'while_statement', 'children': ['30', '31']}; {'id': '30', 'type': 'identifier', 'children': [], 'value': 'queue'}; {'id': '31', 'type': 'block', 'children': ['32', '42']}; {'id': '32', 'type': 'expression_statement', 'children': ['33']}; {'id': '33', 'type': 'assignment', 'children': ['34', '37']}; {'id': '34', 'type': 'pattern_list', 'children': ['35', '36']}; {'id': '35', 'type': 'identifier', 'children': [], 'value': 'current'}; {'id': '36', 'type': 'identifier', 'children': [], 'value': 'other'}; {'id': '37', 'type': 'call', 'children': ['38', '41']}; {'id': '38', 'type': 'attribute', 'children': ['39', '40']}; {'id': '39', 'type': 'identifier', 'children': [], 'value': 'queue'}; {'id': '40', 'type': 'identifier', 'children': [], 'value': 'popleft'}; {'id': '41', 'type': 'argument_list', 'children': []}; {'id': '42', 'type': 'while_statement', 'children': ['43', '44']}; {'id': '43', 'type': 'identifier', 'children': [], 'value': 'other'}; {'id': '44', 'type': 'block', 'children': ['45', '59', '65', '68']}; {'id': '45', 'type': 'expression_statement', 'children': ['46']}; {'id': '46', 'type': 'assignment', 'children': ['47', '50']}; {'id': '47', 'type': 'pattern_list', 'children': ['48', '49']}; {'id': '48', 'type': 'identifier', 'children': [], 'value': 'first'}; {'id': '49', 'type': 'identifier', 'children': [], 'value': 'other'}; {'id': '50', 'type': 'expression_list', 'children': ['51', '54']}; {'id': '51', 'type': 'subscript', 'children': ['52', '53']}; {'id': '52', 'type': 'identifier', 'children': [], 'value': 'other'}; {'id': '53', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '54', 'type': 'subscript', 'children': ['55', '56']}; {'id': '55', 'type': 'identifier', 'children': [], 'value': 'other'}; {'id': '56', 'type': 'slice', 'children': ['57', '58']}; {'id': '57', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '58', 'type': 'colon', 'children': []}; {'id': '59', 'type': 'expression_statement', 'children': ['60']}; {'id': '60', 'type': 'assignment', 'children': ['61', '62']}; {'id': '61', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '62', 'type': 'binary_operator', 'children': ['63', '64'], 'value': '&'}; {'id': '63', 'type': 'identifier', 'children': [], 'value': 'current'}; {'id': '64', 'type': 'identifier', 'children': [], 'value': 'first'}; {'id': '65', 'type': 'expression_statement', 'children': ['66']}; {'id': '66', 'type': 'yield', 'children': ['67']}; {'id': '67', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '68', 'type': 'if_statement', 'children': ['69', '70']}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'other'}; {'id': '70', 'type': 'block', 'children': ['71']}; {'id': '71', 'type': 'expression_statement', 'children': ['72']}; {'id': '72', 'type': 'call', 'children': ['73', '76']}; {'id': '73', 'type': 'attribute', 'children': ['74', '75']}; {'id': '74', 'type': 'identifier', 'children': [], 'value': 'queue'}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '76', 'type': 'argument_list', 'children': ['77']}; {'id': '77', 'type': 'tuple', 'children': ['78', '79']}; {'id': '78', 'type': 'identifier', 'children': [], 'value': 'result'}; {'id': '79', 'type': 'identifier', 'children': [], 'value': 'other'} | def reverse_shortlex(end, other, excludeend=False):
if not excludeend:
yield end
queue = collections.deque([(end, other)])
while queue:
current, other = queue.popleft()
while other:
first, other = other[0], other[1:]
result = current & first
yield result
if other:
queue.append((result, other)) |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '14']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'gnuplot'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '8', '11']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'script_name'}; {'id': '5', 'type': 'default_parameter', 'children': ['6', '7']}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'args_dict'}; {'id': '7', 'type': 'dictionary', 'children': []}; {'id': '8', 'type': 'default_parameter', 'children': ['9', '10']}; {'id': '9', 'type': 'identifier', 'children': [], 'value': 'data'}; {'id': '10', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '11', 'type': 'default_parameter', 'children': ['12', '13']}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'silent'}; {'id': '13', 'type': 'True', 'children': []}; {'id': '14', 'type': 'block', 'children': ['15', '17', '21', '45', '172', '178', '185', '192']}; {'id': '15', 'type': 'expression_statement', 'children': ['16']}; {'id': '16', 'type': 'string', 'children': [], 'value': "'''\n Call a Gnuplot script, passing it arguments and\n datasets.\n Args:\n scipt_name(str): The name of the Gnuplot script.\n args_dict(dict): A dictionary of parameters to pass\n to the script. The `key` is the name of the variable\n that the `item` will be passed to the Gnuplot script\n with.\n data(list): A list of lists containing lists to be plotted.\n The lists can be accessed by plotting the variable\n `data` in the Gnuplot script. The first list in the\n list of lists corresponds to the first column in data,\n and so on.\n silent (bool): `True` if Gnuplot stdout should be silenced,\n `False` if not.\n Returns:\n str: The Gnuplot command used to call the script.\n '''"}; {'id': '17', 'type': 'expression_statement', 'children': ['18']}; {'id': '18', 'type': 'assignment', 'children': ['19', '20']}; {'id': '19', 'type': 'identifier', 'children': [], 'value': 'gnuplot_command'}; {'id': '20', 'type': 'string', 'children': [], 'value': "'gnuplot'"}; {'id': '21', 'type': 'if_statement', 'children': ['22', '23']}; {'id': '22', 'type': 'identifier', 'children': [], 'value': 'data'}; {'id': '23', 'type': 'block', 'children': ['24', '29', '37']}; {'id': '24', 'type': 'assert_statement', 'children': ['25', '28']}; {'id': '25', 'type': 'comparison_operator', 'children': ['26', '27'], 'value': 'not'}; {'id': '26', 'type': 'string', 'children': [], 'value': "'data'"}; {'id': '27', 'type': 'identifier', 'children': [], 'value': 'args_dict'}; {'id': '28', 'type': 'string', 'children': [], 'value': "'Can\\'t use \\'data\\' variable twice.'"}; {'id': '29', 'type': 'expression_statement', 'children': ['30']}; {'id': '30', 'type': 'assignment', 'children': ['31', '32']}; {'id': '31', 'type': 'identifier', 'children': [], 'value': 'data_temp'}; {'id': '32', 'type': 'call', 'children': ['33', '34']}; {'id': '33', 'type': 'identifier', 'children': [], 'value': '_GnuplotDataTemp'}; {'id': '34', 'type': 'argument_list', 'children': ['35']}; {'id': '35', 'type': 'list_splat', 'children': ['36']}; {'id': '36', 'type': 'identifier', 'children': [], 'value': 'data'}; {'id': '37', 'type': 'expression_statement', 'children': ['38']}; {'id': '38', 'type': 'assignment', 'children': ['39', '42']}; {'id': '39', 'type': 'subscript', 'children': ['40', '41']}; {'id': '40', 'type': 'identifier', 'children': [], 'value': 'args_dict'}; {'id': '41', 'type': 'string', 'children': [], 'value': "'data'"}; {'id': '42', 'type': 'attribute', 'children': ['43', '44']}; {'id': '43', 'type': 'identifier', 'children': [], 'value': 'data_temp'}; {'id': '44', 'type': 'identifier', 'children': [], 'value': 'name'}; {'id': '45', 'type': 'if_statement', 'children': ['46', '47']}; {'id': '46', 'type': 'identifier', 'children': [], 'value': 'args_dict'}; {'id': '47', 'type': 'block', 'children': ['48', '52', '159', '168']}; {'id': '48', 'type': 'expression_statement', 'children': ['49']}; {'id': '49', 'type': 'augmented_assignment', 'children': ['50', '51'], 'value': '+='}; {'id': '50', 'type': 'identifier', 'children': [], 'value': 'gnuplot_command'}; {'id': '51', 'type': 'string', 'children': [], 'value': '\' -e "\''}; {'id': '52', 'type': 'for_statement', 'children': ['53', '54', '59']}; {'id': '53', 'type': 'identifier', 'children': [], 'value': 'arg'}; {'id': '54', 'type': 'call', 'children': ['55', '58']}; {'id': '55', 'type': 'attribute', 'children': ['56', '57']}; {'id': '56', 'type': 'identifier', 'children': [], 'value': 'args_dict'}; {'id': '57', 'type': 'identifier', 'children': [], 'value': 'items'}; {'id': '58', 'type': 'argument_list', 'children': []}; {'id': '59', 'type': 'block', 'children': ['60', '68', '155']}; {'id': '60', 'type': 'expression_statement', 'children': ['61']}; {'id': '61', 'type': 'augmented_assignment', 'children': ['62', '63'], 'value': '+='}; {'id': '62', 'type': 'identifier', 'children': [], 'value': 'gnuplot_command'}; {'id': '63', 'type': 'binary_operator', 'children': ['64', '67'], 'value': '+'}; {'id': '64', 'type': 'subscript', 'children': ['65', '66']}; {'id': '65', 'type': 'identifier', 'children': [], 'value': 'arg'}; {'id': '66', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '67', 'type': 'string', 'children': [], 'value': "'='"}; {'id': '68', 'type': 'if_statement', 'children': ['69', '76', '87', '113', '144']}; {'id': '69', 'type': 'call', 'children': ['70', '71']}; {'id': '70', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '71', 'type': 'argument_list', 'children': ['72', '75']}; {'id': '72', 'type': 'subscript', 'children': ['73', '74']}; {'id': '73', 'type': 'identifier', 'children': [], 'value': 'arg'}; {'id': '74', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '75', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '76', 'type': 'block', 'children': ['77']}; {'id': '77', 'type': 'expression_statement', 'children': ['78']}; {'id': '78', 'type': 'augmented_assignment', 'children': ['79', '80'], 'value': '+='}; {'id': '79', 'type': 'identifier', 'children': [], 'value': 'gnuplot_command'}; {'id': '80', 'type': 'binary_operator', 'children': ['81', '86'], 'value': '+'}; {'id': '81', 'type': 'binary_operator', 'children': ['82', '83'], 'value': '+'}; {'id': '82', 'type': 'string', 'children': [], 'value': "'\\''"}; {'id': '83', 'type': 'subscript', 'children': ['84', '85']}; {'id': '84', 'type': 'identifier', 'children': [], 'value': 'arg'}; {'id': '85', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '86', 'type': 'string', 'children': [], 'value': "'\\''"}; {'id': '87', 'type': 'elif_clause', 'children': ['88', '95']}; {'id': '88', 'type': 'call', 'children': ['89', '90']}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '90', 'type': 'argument_list', 'children': ['91', '94']}; {'id': '91', 'type': 'subscript', 'children': ['92', '93']}; {'id': '92', 'type': 'identifier', 'children': [], 'value': 'arg'}; {'id': '93', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'bool'}; {'id': '95', 'type': 'block', 'children': ['96']}; {'id': '96', 'type': 'if_statement', 'children': ['97', '102', '107']}; {'id': '97', 'type': 'comparison_operator', 'children': ['98', '101'], 'value': 'is'}; {'id': '98', 'type': 'subscript', 'children': ['99', '100']}; {'id': '99', 'type': 'identifier', 'children': [], 'value': 'arg'}; {'id': '100', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '101', 'type': 'True', 'children': []}; {'id': '102', 'type': 'block', 'children': ['103']}; {'id': '103', 'type': 'expression_statement', 'children': ['104']}; {'id': '104', 'type': 'augmented_assignment', 'children': ['105', '106'], 'value': '+='}; {'id': '105', 'type': 'identifier', 'children': [], 'value': 'gnuplot_command'}; {'id': '106', 'type': 'string', 'children': [], 'value': "'1'"}; {'id': '107', 'type': 'else_clause', 'children': ['108']}; {'id': '108', 'type': 'block', 'children': ['109']}; {'id': '109', 'type': 'expression_statement', 'children': ['110']}; {'id': '110', 'type': 'augmented_assignment', 'children': ['111', '112'], 'value': '+='}; {'id': '111', 'type': 'identifier', 'children': [], 'value': 'gnuplot_command'}; {'id': '112', 'type': 'string', 'children': [], 'value': "'0'"}; {'id': '113', 'type': 'elif_clause', 'children': ['114', '121']}; {'id': '114', 'type': 'call', 'children': ['115', '116']}; {'id': '115', 'type': 'identifier', 'children': [], 'value': 'hasattr'}; {'id': '116', 'type': 'argument_list', 'children': ['117', '120']}; {'id': '117', 'type': 'subscript', 'children': ['118', '119']}; {'id': '118', 'type': 'identifier', 'children': [], 'value': 'arg'}; {'id': '119', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '120', 'type': 'string', 'children': [], 'value': "'__iter__'"}; {'id': '121', 'type': 'block', 'children': ['122']}; {'id': '122', 'type': 'expression_statement', 'children': ['123']}; {'id': '123', 'type': 'augmented_assignment', 'children': ['124', '125'], 'value': '+='}; {'id': '124', 'type': 'identifier', 'children': [], 'value': 'gnuplot_command'}; {'id': '125', 'type': 'binary_operator', 'children': ['126', '143'], 'value': '+'}; {'id': '126', 'type': 'binary_operator', 'children': ['127', '128'], 'value': '+'}; {'id': '127', 'type': 'string', 'children': [], 'value': "'\\''"}; {'id': '128', 'type': 'call', 'children': ['129', '132']}; {'id': '129', 'type': 'attribute', 'children': ['130', '131']}; {'id': '130', 'type': 'string', 'children': [], 'value': "' '"}; {'id': '131', 'type': 'identifier', 'children': [], 'value': 'join'}; {'id': '132', 'type': 'argument_list', 'children': ['133']}; {'id': '133', 'type': 'list_comprehension', 'children': ['134', '138']}; {'id': '134', 'type': 'call', 'children': ['135', '136']}; {'id': '135', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '136', 'type': 'argument_list', 'children': ['137']}; {'id': '137', 'type': 'identifier', 'children': [], 'value': 'v'}; {'id': '138', 'type': 'for_in_clause', 'children': ['139', '140']}; {'id': '139', 'type': 'identifier', 'children': [], 'value': 'v'}; {'id': '140', 'type': 'subscript', 'children': ['141', '142']}; {'id': '141', 'type': 'identifier', 'children': [], 'value': 'arg'}; {'id': '142', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '143', 'type': 'string', 'children': [], 'value': "'\\''"}; {'id': '144', 'type': 'else_clause', 'children': ['145']}; {'id': '145', 'type': 'block', 'children': ['146']}; {'id': '146', 'type': 'expression_statement', 'children': ['147']}; {'id': '147', 'type': 'augmented_assignment', 'children': ['148', '149'], 'value': '+='}; {'id': '148', 'type': 'identifier', 'children': [], 'value': 'gnuplot_command'}; {'id': '149', 'type': 'call', 'children': ['150', '151']}; {'id': '150', 'type': 'identifier', 'children': [], 'value': 'str'}; {'id': '151', 'type': 'argument_list', 'children': ['152']}; {'id': '152', 'type': 'subscript', 'children': ['153', '154']}; {'id': '153', 'type': 'identifier', 'children': [], 'value': 'arg'}; {'id': '154', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '155', 'type': 'expression_statement', 'children': ['156']}; {'id': '156', 'type': 'augmented_assignment', 'children': ['157', '158'], 'value': '+='}; {'id': '157', 'type': 'identifier', 'children': [], 'value': 'gnuplot_command'}; {'id': '158', 'type': 'string', 'children': [], 'value': "'; '"}; {'id': '159', 'type': 'expression_statement', 'children': ['160']}; {'id': '160', 'type': 'assignment', 'children': ['161', '162']}; {'id': '161', 'type': 'identifier', 'children': [], 'value': 'gnuplot_command'}; {'id': '162', 'type': 'subscript', 'children': ['163', '164']}; {'id': '163', 'type': 'identifier', 'children': [], 'value': 'gnuplot_command'}; {'id': '164', 'type': 'slice', 'children': ['165', '166']}; {'id': '165', 'type': 'colon', 'children': []}; {'id': '166', 'type': 'unary_operator', 'children': ['167'], 'value': '-'}; {'id': '167', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '168', 'type': 'expression_statement', 'children': ['169']}; {'id': '169', 'type': 'augmented_assignment', 'children': ['170', '171'], 'value': '+='}; {'id': '170', 'type': 'identifier', 'children': [], 'value': 'gnuplot_command'}; {'id': '171', 'type': 'string', 'children': [], 'value': '\'"\''}; {'id': '172', 'type': 'expression_statement', 'children': ['173']}; {'id': '173', 'type': 'augmented_assignment', 'children': ['174', '175'], 'value': '+='}; {'id': '174', 'type': 'identifier', 'children': [], 'value': 'gnuplot_command'}; {'id': '175', 'type': 'binary_operator', 'children': ['176', '177'], 'value': '+'}; {'id': '176', 'type': 'string', 'children': [], 'value': "' '"}; {'id': '177', 'type': 'identifier', 'children': [], 'value': 'script_name'}; {'id': '178', 'type': 'if_statement', 'children': ['179', '180']}; {'id': '179', 'type': 'identifier', 'children': [], 'value': 'silent'}; {'id': '180', 'type': 'block', 'children': ['181']}; {'id': '181', 'type': 'expression_statement', 'children': ['182']}; {'id': '182', 'type': 'augmented_assignment', 'children': ['183', '184'], 'value': '+='}; {'id': '183', 'type': 'identifier', 'children': [], 'value': 'gnuplot_command'}; {'id': '184', 'type': 'string', 'children': [], 'value': "' > /dev/null 2>&1'"}; {'id': '185', 'type': 'expression_statement', 'children': ['186']}; {'id': '186', 'type': 'call', 'children': ['187', '190']}; {'id': '187', 'type': 'attribute', 'children': ['188', '189']}; {'id': '188', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '189', 'type': 'identifier', 'children': [], 'value': 'system'}; {'id': '190', 'type': 'argument_list', 'children': ['191']}; {'id': '191', 'type': 'identifier', 'children': [], 'value': 'gnuplot_command'}; {'id': '192', 'type': 'return_statement', 'children': ['193']}; {'id': '193', 'type': 'identifier', 'children': [], 'value': 'gnuplot_command'} | def gnuplot(script_name, args_dict={}, data=[], silent=True):
'''
Call a Gnuplot script, passing it arguments and
datasets.
Args:
scipt_name(str): The name of the Gnuplot script.
args_dict(dict): A dictionary of parameters to pass
to the script. The `key` is the name of the variable
that the `item` will be passed to the Gnuplot script
with.
data(list): A list of lists containing lists to be plotted.
The lists can be accessed by plotting the variable
`data` in the Gnuplot script. The first list in the
list of lists corresponds to the first column in data,
and so on.
silent (bool): `True` if Gnuplot stdout should be silenced,
`False` if not.
Returns:
str: The Gnuplot command used to call the script.
'''
gnuplot_command = 'gnuplot'
if data:
assert 'data' not in args_dict, \
'Can\'t use \'data\' variable twice.'
data_temp = _GnuplotDataTemp(*data)
args_dict['data'] = data_temp.name
if args_dict:
gnuplot_command += ' -e "'
for arg in args_dict.items():
gnuplot_command += arg[0] + '='
if isinstance(arg[1], str):
gnuplot_command += '\'' + arg[1] + '\''
elif isinstance(arg[1], bool):
if arg[1] is True:
gnuplot_command += '1'
else:
gnuplot_command += '0'
elif hasattr(arg[1], '__iter__'):
gnuplot_command += '\'' + ' '.join([str(v) for v in arg[1]]) + '\''
else:
gnuplot_command += str(arg[1])
gnuplot_command += '; '
gnuplot_command = gnuplot_command[:-1]
gnuplot_command += '"'
gnuplot_command += ' ' + script_name
if silent:
gnuplot_command += ' > /dev/null 2>&1'
os.system(gnuplot_command)
return gnuplot_command |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '14']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'read'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '8', '11']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '5', 'type': 'default_parameter', 'children': ['6', '7']}; {'id': '6', 'type': 'identifier', 'children': [], 'value': 'skip'}; {'id': '7', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '8', 'type': 'default_parameter', 'children': ['9', '10']}; {'id': '9', 'type': 'identifier', 'children': [], 'value': 'goto_metal'}; {'id': '10', 'type': 'None', 'children': []}; {'id': '11', 'type': 'default_parameter', 'children': ['12', '13']}; {'id': '12', 'type': 'identifier', 'children': [], 'value': 'goto_reaction'}; {'id': '13', 'type': 'None', 'children': []}; {'id': '14', 'type': 'block', 'children': ['15', '36', '56', '65', '74', '83', '87']}; {'id': '15', 'type': 'if_statement', 'children': ['16', '22']}; {'id': '16', 'type': 'comparison_operator', 'children': ['17', '21'], 'value': '>'}; {'id': '17', 'type': 'call', 'children': ['18', '19']}; {'id': '18', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '19', 'type': 'argument_list', 'children': ['20']}; {'id': '20', 'type': 'identifier', 'children': [], 'value': 'skip'}; {'id': '21', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '22', 'type': 'block', 'children': ['23']}; {'id': '23', 'type': 'for_statement', 'children': ['24', '25', '26']}; {'id': '24', 'type': 'identifier', 'children': [], 'value': 'skip_f'}; {'id': '25', 'type': 'identifier', 'children': [], 'value': 'skip'}; {'id': '26', 'type': 'block', 'children': ['27']}; {'id': '27', 'type': 'expression_statement', 'children': ['28']}; {'id': '28', 'type': 'call', 'children': ['29', '34']}; {'id': '29', 'type': 'attribute', 'children': ['30', '33']}; {'id': '30', 'type': 'attribute', 'children': ['31', '32']}; {'id': '31', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '32', 'type': 'identifier', 'children': [], 'value': 'omit_folders'}; {'id': '33', 'type': 'identifier', 'children': [], 'value': 'append'}; {'id': '34', 'type': 'argument_list', 'children': ['35']}; {'id': '35', 'type': 'identifier', 'children': [], 'value': 'skip_f'}; {'id': '36', 'type': 'if_statement', 'children': ['37', '49']}; {'id': '37', 'type': 'call', 'children': ['38', '43']}; {'id': '38', 'type': 'attribute', 'children': ['39', '42']}; {'id': '39', 'type': 'attribute', 'children': ['40', '41']}; {'id': '40', 'type': 'identifier', 'children': [], 'value': 'os'}; {'id': '41', 'type': 'identifier', 'children': [], 'value': 'path'}; {'id': '42', 'type': 'identifier', 'children': [], 'value': 'isfile'}; {'id': '43', 'type': 'argument_list', 'children': ['44']}; {'id': '44', 'type': 'binary_operator', 'children': ['45', '48'], 'value': '+'}; {'id': '45', 'type': 'attribute', 'children': ['46', '47']}; {'id': '46', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '47', 'type': 'identifier', 'children': [], 'value': 'data_base'}; {'id': '48', 'type': 'string', 'children': [], 'value': "'/publication.txt'"}; {'id': '49', 'type': 'block', 'children': ['50']}; {'id': '50', 'type': 'expression_statement', 'children': ['51']}; {'id': '51', 'type': 'augmented_assignment', 'children': ['52', '55'], 'value': '-='}; {'id': '52', 'type': 'attribute', 'children': ['53', '54']}; {'id': '53', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '54', 'type': 'identifier', 'children': [], 'value': 'user_base_level'}; {'id': '55', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '56', 'type': 'expression_statement', 'children': ['57']}; {'id': '57', 'type': 'call', 'children': ['58', '63']}; {'id': '58', 'type': 'attribute', 'children': ['59', '62']}; {'id': '59', 'type': 'attribute', 'children': ['60', '61']}; {'id': '60', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '61', 'type': 'identifier', 'children': [], 'value': 'stdout'}; {'id': '62', 'type': 'identifier', 'children': [], 'value': 'write'}; {'id': '63', 'type': 'argument_list', 'children': ['64']}; {'id': '64', 'type': 'string', 'children': [], 'value': "'---------------------- \\n'"}; {'id': '65', 'type': 'expression_statement', 'children': ['66']}; {'id': '66', 'type': 'call', 'children': ['67', '72']}; {'id': '67', 'type': 'attribute', 'children': ['68', '71']}; {'id': '68', 'type': 'attribute', 'children': ['69', '70']}; {'id': '69', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '70', 'type': 'identifier', 'children': [], 'value': 'stdout'}; {'id': '71', 'type': 'identifier', 'children': [], 'value': 'write'}; {'id': '72', 'type': 'argument_list', 'children': ['73']}; {'id': '73', 'type': 'string', 'children': [], 'value': "'Starting folderreader! \\n'"}; {'id': '74', 'type': 'expression_statement', 'children': ['75']}; {'id': '75', 'type': 'call', 'children': ['76', '81']}; {'id': '76', 'type': 'attribute', 'children': ['77', '80']}; {'id': '77', 'type': 'attribute', 'children': ['78', '79']}; {'id': '78', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '79', 'type': 'identifier', 'children': [], 'value': 'stdout'}; {'id': '80', 'type': 'identifier', 'children': [], 'value': 'write'}; {'id': '81', 'type': 'argument_list', 'children': ['82']}; {'id': '82', 'type': 'string', 'children': [], 'value': "'---------------------- \\n'"}; {'id': '83', 'type': 'expression_statement', 'children': ['84']}; {'id': '84', 'type': 'assignment', 'children': ['85', '86']}; {'id': '85', 'type': 'identifier', 'children': [], 'value': 'found_reaction'}; {'id': '86', 'type': 'False', 'children': []}; {'id': '87', 'type': 'for_statement', 'children': ['88', '92', '100']}; {'id': '88', 'type': 'pattern_list', 'children': ['89', '90', '91']}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'root'}; {'id': '90', 'type': 'identifier', 'children': [], 'value': 'dirs'}; {'id': '91', 'type': 'identifier', 'children': [], 'value': 'files'}; {'id': '92', 'type': 'call', 'children': ['93', '96']}; {'id': '93', 'type': 'attribute', 'children': ['94', '95']}; 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{'id': '308', 'type': 'identifier', 'children': [], 'value': 'dirs'}; {'id': '309', 'type': 'slice', 'children': ['310']}; {'id': '310', 'type': 'colon', 'children': []}; {'id': '311', 'type': 'list', 'children': [], 'value': '[]'}; {'id': '312', 'type': 'continue_statement', 'children': []}; {'id': '313', 'type': 'expression_statement', 'children': ['314']}; {'id': '314', 'type': 'call', 'children': ['315', '318']}; {'id': '315', 'type': 'attribute', 'children': ['316', '317']}; {'id': '316', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '317', 'type': 'identifier', 'children': [], 'value': 'read_reaction'}; {'id': '318', 'type': 'argument_list', 'children': ['319']}; {'id': '319', 'type': 'identifier', 'children': [], 'value': 'root'}; {'id': '320', 'type': 'if_statement', 'children': ['321', '326']}; {'id': '321', 'type': 'comparison_operator', 'children': ['322', '323'], 'value': '=='}; {'id': '322', 'type': 'identifier', 'children': [], 'value': 'level'}; {'id': '323', 'type': 'attribute', 'children': ['324', '325']}; {'id': '324', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '325', 'type': 'identifier', 'children': [], 'value': 'final_level'}; {'id': '326', 'type': 'block', 'children': ['327', '333', '340']}; {'id': '327', 'type': 'expression_statement', 'children': ['328']}; {'id': '328', 'type': 'assignment', 'children': ['329', '332']}; {'id': '329', 'type': 'attribute', 'children': ['330', '331']}; {'id': '330', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '331', 'type': 'identifier', 'children': [], 'value': 'root'}; {'id': '332', 'type': 'identifier', 'children': [], 'value': 'root'}; {'id': '333', 'type': 'expression_statement', 'children': ['334']}; {'id': '334', 'type': 'call', 'children': ['335', '338']}; {'id': '335', 'type': 'attribute', 'children': ['336', '337']}; {'id': '336', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '337', 'type': 'identifier', 'children': [], 'value': 'read_energies'}; {'id': '338', 'type': 'argument_list', 'children': ['339']}; {'id': '339', 'type': 'identifier', 'children': [], 'value': 'root'}; {'id': '340', 'type': 'if_statement', 'children': ['341', '346']}; {'id': '341', 'type': 'comparison_operator', 'children': ['342', '345'], 'value': 'is'}; {'id': '342', 'type': 'attribute', 'children': ['343', '344']}; {'id': '343', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '344', 'type': 'identifier', 'children': [], 'value': 'key_value_pairs_reaction'}; {'id': '345', 'type': 'None', 'children': []}; {'id': '346', 'type': 'block', 'children': ['347']}; {'id': '347', 'type': 'expression_statement', 'children': ['348']}; {'id': '348', 'type': 'yield', 'children': ['349']}; {'id': '349', 'type': 'attribute', 'children': ['350', '351']}; {'id': '350', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '351', 'type': 'identifier', 'children': [], 'value': 'key_value_pairs_reaction'} | def read(self, skip=[], goto_metal=None, goto_reaction=None):
if len(skip) > 0:
for skip_f in skip:
self.omit_folders.append(skip_f)
if os.path.isfile(self.data_base + '/publication.txt'):
self.user_base_level -= 1
self.stdout.write('---------------------- \n')
self.stdout.write('Starting folderreader! \n')
self.stdout.write('---------------------- \n')
found_reaction = False
for root, dirs, files in os.walk(self.user_base):
for omit_folder in self.omit_folders:
if omit_folder in dirs:
dirs.remove(omit_folder)
level = len(root.split("/")) - self.user_base_level
if level == self.pub_level:
self.read_pub(root)
if level == self.DFT_level:
self.DFT_code = os.path.basename(root)
if level == self.XC_level:
self.DFT_functional = os.path.basename(root)
self.gas_folder = root + '/gas/'
self.read_gas()
if level == self.reference_level:
if 'gas' in os.path.basename(root):
continue
if goto_metal is not None:
if os.path.basename(root) == goto_metal:
goto_metal = None
else:
dirs[:] = []
continue
self.read_bulk(root)
if level == self.slab_level:
self.read_slab(root)
if level == self.reaction_level:
if goto_reaction is not None:
if os.path.basename(root) == goto_reaction:
goto_reaction = None
else:
dirs[:] = []
continue
self.read_reaction(root)
if level == self.final_level:
self.root = root
self.read_energies(root)
if self.key_value_pairs_reaction is not None:
yield self.key_value_pairs_reaction |
{'id': '0', 'type': 'module', 'children': ['1']}; {'id': '1', 'type': 'function_definition', 'children': ['2', '3', '12']}; {'id': '2', 'type': 'function_name', 'children': [], 'value': 'location'}; {'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '9']}; {'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '5', 'type': 'identifier', 'children': [], 'value': 'wave_field'}; {'id': '6', 'type': 'default_parameter', 'children': ['7', '8']}; {'id': '7', 'type': 'identifier', 'children': [], 'value': 'depth'}; {'id': '8', 'type': 'None', 'children': []}; {'id': '9', 'type': 'default_parameter', 'children': ['10', '11']}; {'id': '10', 'type': 'identifier', 'children': [], 'value': 'index'}; {'id': '11', 'type': 'None', 'children': []}; {'id': '12', 'type': 'block', 'children': ['13', '27', '123']}; {'id': '13', 'type': 'if_statement', 'children': ['14', '20']}; {'id': '14', 'type': 'not_operator', 'children': ['15']}; {'id': '15', 'type': 'call', 'children': ['16', '17']}; {'id': '16', 'type': 'identifier', 'children': [], 'value': 'isinstance'}; {'id': '17', 'type': 'argument_list', 'children': ['18', '19']}; {'id': '18', 'type': 'identifier', 'children': [], 'value': 'wave_field'}; {'id': '19', 'type': 'identifier', 'children': [], 'value': 'WaveField'}; {'id': '20', 'type': 'block', 'children': ['21']}; {'id': '21', 'type': 'expression_statement', 'children': ['22']}; {'id': '22', 'type': 'assignment', 'children': ['23', '24']}; {'id': '23', 'type': 'identifier', 'children': [], 'value': 'wave_field'}; {'id': '24', 'type': 'subscript', 'children': ['25', '26']}; {'id': '25', 'type': 'identifier', 'children': [], 'value': 'WaveField'}; {'id': '26', 'type': 'identifier', 'children': [], 'value': 'wave_field'}; {'id': '27', 'type': 'if_statement', 'children': ['28', '35', '91', '119']}; {'id': '28', 'type': 'boolean_operator', 'children': ['29', '32'], 'value': 'and'}; {'id': '29', 'type': 'comparison_operator', 'children': ['30', '31'], 'value': 'is'}; {'id': '30', 'type': 'identifier', 'children': [], 'value': 'index'}; {'id': '31', 'type': 'None', 'children': []}; {'id': '32', 'type': 'comparison_operator', 'children': ['33', '34'], 'value': 'is'}; {'id': '33', 'type': 'identifier', 'children': [], 'value': 'depth'}; {'id': '34', 'type': 'None', 'children': []}; {'id': '35', 'type': 'block', 'children': ['36']}; {'id': '36', 'type': 'for_statement', 'children': ['37', '40', '49', '69']}; {'id': '37', 'type': 'pattern_list', 'children': ['38', '39']}; {'id': '38', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '39', 'type': 'identifier', 'children': [], 'value': 'layer'}; {'id': '40', 'type': 'call', 'children': ['41', '42']}; {'id': '41', 'type': 'identifier', 'children': [], 'value': 'enumerate'}; {'id': '42', 'type': 'argument_list', 'children': ['43']}; {'id': '43', 'type': 'subscript', 'children': ['44', '45']}; {'id': '44', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '45', 'type': 'slice', 'children': ['46', '47']}; {'id': '46', 'type': 'colon', 'children': []}; {'id': '47', 'type': 'unary_operator', 'children': ['48'], 'value': '-'}; {'id': '48', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '49', 'type': 'block', 'children': ['50']}; {'id': '50', 'type': 'if_statement', 'children': ['51', '59']}; {'id': '51', 'type': 'comparison_operator', 'children': ['52', '55', '56'], 'value': '<='}; {'id': '52', 'type': 'attribute', 'children': ['53', '54']}; {'id': '53', 'type': 'identifier', 'children': [], 'value': 'layer'}; {'id': '54', 'type': 'identifier', 'children': [], 'value': 'depth'}; {'id': '55', 'type': 'identifier', 'children': [], 'value': 'depth'}; {'id': '56', 'type': 'attribute', 'children': ['57', '58']}; {'id': '57', 'type': 'identifier', 'children': [], 'value': 'layer'}; {'id': '58', 'type': 'identifier', 'children': [], 'value': 'depth_base'}; {'id': '59', 'type': 'block', 'children': ['60', '68']}; {'id': '60', 'type': 'expression_statement', 'children': ['61']}; {'id': '61', 'type': 'assignment', 'children': ['62', '63']}; {'id': '62', 'type': 'identifier', 'children': [], 'value': 'depth_within'}; {'id': '63', 'type': 'binary_operator', 'children': ['64', '65'], 'value': '-'}; {'id': '64', 'type': 'identifier', 'children': [], 'value': 'depth'}; {'id': '65', 'type': 'attribute', 'children': ['66', '67']}; {'id': '66', 'type': 'identifier', 'children': [], 'value': 'layer'}; {'id': '67', 'type': 'identifier', 'children': [], 'value': 'depth'}; {'id': '68', 'type': 'break_statement', 'children': []}; {'id': '69', 'type': 'else_clause', 'children': ['70']}; {'id': '70', 'type': 'block', 'children': ['71', '80', '87']}; {'id': '71', 'type': 'expression_statement', 'children': ['72']}; {'id': '72', 'type': 'assignment', 'children': ['73', '74']}; {'id': '73', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '74', 'type': 'binary_operator', 'children': ['75', '79'], 'value': '-'}; {'id': '75', 'type': 'call', 'children': ['76', '77']}; {'id': '76', 'type': 'identifier', 'children': [], 'value': 'len'}; {'id': '77', 'type': 'argument_list', 'children': ['78']}; {'id': '78', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '79', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '80', 'type': 'expression_statement', 'children': ['81']}; {'id': '81', 'type': 'assignment', 'children': ['82', '83']}; {'id': '82', 'type': 'identifier', 'children': [], 'value': 'layer'}; {'id': '83', 'type': 'subscript', 'children': ['84', '85']}; {'id': '84', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '85', 'type': 'unary_operator', 'children': ['86'], 'value': '-'}; {'id': '86', 'type': 'integer', 'children': [], 'value': '1'}; {'id': '87', 'type': 'expression_statement', 'children': ['88']}; {'id': '88', 'type': 'assignment', 'children': ['89', '90']}; {'id': '89', 'type': 'identifier', 'children': [], 'value': 'depth_within'}; {'id': '90', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '91', 'type': 'elif_clause', 'children': ['92', '99']}; {'id': '92', 'type': 'boolean_operator', 'children': ['93', '96'], 'value': 'and'}; {'id': '93', 'type': 'comparison_operator', 'children': ['94', '95'], 'value': 'is'}; {'id': '94', 'type': 'identifier', 'children': [], 'value': 'index'}; {'id': '95', 'type': 'None', 'children': []}; {'id': '96', 'type': 'comparison_operator', 'children': ['97', '98'], 'value': 'is'}; {'id': '97', 'type': 'identifier', 'children': [], 'value': 'depth'}; {'id': '98', 'type': 'None', 'children': []}; {'id': '99', 'type': 'block', 'children': ['100', '106', '115']}; {'id': '100', 'type': 'expression_statement', 'children': ['101']}; {'id': '101', 'type': 'assignment', 'children': ['102', '103']}; {'id': '102', 'type': 'identifier', 'children': [], 'value': 'layer'}; {'id': '103', 'type': 'subscript', 'children': ['104', '105']}; {'id': '104', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '105', 'type': 'identifier', 'children': [], 'value': 'index'}; {'id': '106', 'type': 'expression_statement', 'children': ['107']}; {'id': '107', 'type': 'assignment', 'children': ['108', '109']}; {'id': '108', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '109', 'type': 'call', 'children': ['110', '113']}; {'id': '110', 'type': 'attribute', 'children': ['111', '112']}; {'id': '111', 'type': 'identifier', 'children': [], 'value': 'self'}; {'id': '112', 'type': 'identifier', 'children': [], 'value': 'index'}; {'id': '113', 'type': 'argument_list', 'children': ['114']}; {'id': '114', 'type': 'identifier', 'children': [], 'value': 'layer'}; {'id': '115', 'type': 'expression_statement', 'children': ['116']}; {'id': '116', 'type': 'assignment', 'children': ['117', '118']}; {'id': '117', 'type': 'identifier', 'children': [], 'value': 'depth_within'}; {'id': '118', 'type': 'integer', 'children': [], 'value': '0'}; {'id': '119', 'type': 'else_clause', 'children': ['120']}; {'id': '120', 'type': 'block', 'children': ['121']}; {'id': '121', 'type': 'raise_statement', 'children': ['122']}; {'id': '122', 'type': 'identifier', 'children': [], 'value': 'NotImplementedError'}; {'id': '123', 'type': 'return_statement', 'children': ['124']}; {'id': '124', 'type': 'call', 'children': ['125', '126']}; {'id': '125', 'type': 'identifier', 'children': [], 'value': 'Location'}; {'id': '126', 'type': 'argument_list', 'children': ['127', '128', '129', '130']}; {'id': '127', 'type': 'identifier', 'children': [], 'value': 'i'}; {'id': '128', 'type': 'identifier', 'children': [], 'value': 'layer'}; {'id': '129', 'type': 'identifier', 'children': [], 'value': 'wave_field'}; {'id': '130', 'type': 'identifier', 'children': [], 'value': 'depth_within'} | def location(self, wave_field, depth=None, index=None):
if not isinstance(wave_field, WaveField):
wave_field = WaveField[wave_field]
if index is None and depth is not None:
for i, layer in enumerate(self[:-1]):
if layer.depth <= depth < layer.depth_base:
depth_within = depth - layer.depth
break
else:
i = len(self) - 1
layer = self[-1]
depth_within = 0
elif index is not None and depth is None:
layer = self[index]
i = self.index(layer)
depth_within = 0
else:
raise NotImplementedError
return Location(i, layer, wave_field, depth_within) |
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