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{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '9']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'fromkeys'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '6']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'cls'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'iterable'},{'id': '6', 'type': 'default_parameter', 'children': ['7', '8']},{'id': '7', 'type': 'identifier', 'children': [], 'value': 'value'},{'id': '8', 'type': 'None', 'children': []},{'id': '9', 'type': 'block', 'children': ['10', '28']},{'id': '10', 'type': 'if_statement', 'children': ['11', '16']},{'id': '11', 'type': 'not_operator', 'children': ['12']},{'id': '12', 'type': 'call', 'children': ['13', '14']},{'id': '13', 'type': 'identifier', 'children': [], 'value': 'callable'},{'id': '14', 'type': 'argument_list', 'children': ['15']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'value'},{'id': '16', 'type': 'block', 'children': ['17']},{'id': '17', 'type': 'return_statement', 'children': ['18']},{'id': '18', 'type': 'call', 'children': ['19', '20']},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'cls'},{'id': '20', 'type': 'argument_list', 'children': ['21']},{'id': '21', 'type': 'call', 'children': ['22', '25']},{'id': '22', 'type': 'attribute', 'children': ['23', '24']},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'dict'},{'id': '24', 'type': 'identifier', 'children': [], 'value': 'fromkeys'},{'id': '25', 'type': 'argument_list', 'children': ['26', '27']},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'iterable'},{'id': '27', 'type': 'identifier', 'children': [], 'value': 'value'},{'id': '28', 'type': 'return_statement', 'children': ['29']},{'id': '29', 'type': 'call', 'children': ['30', '31']},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'cls'},{'id': '31', 'type': 'generator_expression', 'children': ['32', '38']},{'id': '32', 'type': 'tuple', 'children': ['33', '34']},{'id': '33', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '34', 'type': 'call', 'children': ['35', '36']},{'id': '35', 'type': 'identifier', 'children': [], 'value': 'value'},{'id': '36', 'type': 'argument_list', 'children': ['37']},{'id': '37', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '38', 'type': 'for_in_clause', 'children': ['39', '40']},{'id': '39', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '40', 'type': 'identifier', 'children': [], 'value': 'iterable'} | def fromkeys(cls, iterable, value=None):
if not callable(value):
return cls(dict.fromkeys(iterable, value))
return cls((key, value(key)) for key in iterable) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '8']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'get_keys'},{'id': '3', 'type': 'parameters', 'children': ['4', '5']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'data_list'},{'id': '5', 'type': 'default_parameter', 'children': ['6', '7']},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'leading_columns'},{'id': '7', 'type': 'identifier', 'children': [], 'value': 'LEADING_COLUMNS'},{'id': '8', 'type': 'block', 'children': ['9', '32', '36', '60']},{'id': '9', 'type': 'expression_statement', 'children': ['10']},{'id': '10', 'type': 'assignment', 'children': ['11', '12']},{'id': '11', 'type': 'identifier', 'children': [], 'value': 'all_keys'},{'id': '12', 'type': 'call', 'children': ['13', '18']},{'id': '13', 'type': 'attribute', 'children': ['14', '17']},{'id': '14', 'type': 'call', 'children': ['15', '16']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'set'},{'id': '16', 'type': 'argument_list', 'children': []},{'id': '17', 'type': 'identifier', 'children': [], 'value': 'union'},{'id': '18', 'type': 'argument_list', 'children': ['19']},{'id': '19', 'type': 'list_splat', 'children': ['20']},{'id': '20', 'type': 'generator_expression', 'children': ['21', '29']},{'id': '21', 'type': 'call', 'children': ['22', '23']},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'list'},{'id': '23', 'type': 'argument_list', 'children': ['24']},{'id': '24', 'type': 'call', 'children': ['25', '28']},{'id': '25', 'type': 'attribute', 'children': ['26', '27']},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'd'},{'id': '27', 'type': 'identifier', 'children': [], 'value': 'keys'},{'id': '28', 'type': 'argument_list', 'children': []},{'id': '29', 'type': 'for_in_clause', 'children': ['30', '31']},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'd'},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'data_list'},{'id': '32', 'type': 'expression_statement', 'children': ['33']},{'id': '33', 'type': 'assignment', 'children': ['34', '35']},{'id': '34', 'type': 'identifier', 'children': [], 'value': 'leading_keys'},{'id': '35', 'type': 'list', 'children': [], 'value': '[]'},{'id': '36', 'type': 'for_statement', 'children': ['37', '38', '39']},{'id': '37', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '38', 'type': 'identifier', 'children': [], 'value': 'leading_columns'},{'id': '39', 'type': 'block', 'children': ['40', '46', '53']},{'id': '40', 'type': 'if_statement', 'children': ['41', '44']},{'id': '41', 'type': 'comparison_operator', 'children': ['42', '43'], 'value': 'not'},{'id': '42', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '43', 'type': 'identifier', 'children': [], 'value': 'all_keys'},{'id': '44', 'type': 'block', 'children': ['45']},{'id': '45', 'type': 'continue_statement', 'children': []},{'id': '46', 'type': 'expression_statement', 'children': ['47']},{'id': '47', 'type': 'call', 'children': ['48', '51']},{'id': '48', 'type': 'attribute', 'children': ['49', '50']},{'id': '49', 'type': 'identifier', 'children': [], 'value': 'leading_keys'},{'id': '50', 'type': 'identifier', 'children': [], 'value': 'append'},{'id': '51', 'type': 'argument_list', 'children': ['52']},{'id': '52', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '53', 'type': 'expression_statement', 'children': ['54']},{'id': '54', 'type': 'call', 'children': ['55', '58']},{'id': '55', 'type': 'attribute', 'children': ['56', '57']},{'id': '56', 'type': 'identifier', 'children': [], 'value': 'all_keys'},{'id': '57', 'type': 'identifier', 'children': [], 'value': 'remove'},{'id': '58', 'type': 'argument_list', 'children': ['59']},{'id': '59', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '60', 'type': 'return_statement', 'children': ['61']},{'id': '61', 'type': 'binary_operator', 'children': ['62', '63'], 'value': '+'},{'id': '62', 'type': 'identifier', 'children': [], 'value': 'leading_keys'},{'id': '63', 'type': 'call', 'children': ['64', '65']},{'id': '64', 'type': 'identifier', 'children': [], 'value': 'sorted'},{'id': '65', 'type': 'argument_list', 'children': ['66']},{'id': '66', 'type': 'identifier', 'children': [], 'value': 'all_keys'} | def get_keys(data_list, leading_columns=LEADING_COLUMNS):
all_keys = set().union(*(list(d.keys()) for d in data_list))
leading_keys = []
for key in leading_columns:
if key not in all_keys:
continue
leading_keys.append(key)
all_keys.remove(key)
return leading_keys + sorted(all_keys) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '15']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'to_file'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '9', '12']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'f'},{'id': '6', 'type': 'default_parameter', 'children': ['7', '8']},{'id': '7', 'type': 'identifier', 'children': [], 'value': 'sorted'},{'id': '8', 'type': 'True', 'children': []},{'id': '9', 'type': 'default_parameter', 'children': ['10', '11']},{'id': '10', 'type': 'identifier', 'children': [], 'value': 'relativize'},{'id': '11', 'type': 'True', 'children': []},{'id': '12', 'type': 'default_parameter', 'children': ['13', '14']},{'id': '13', 'type': 'identifier', 'children': [], 'value': 'nl'},{'id': '14', 'type': 'None', 'children': []},{'id': '15', 'type': 'block', 'children': ['16', '33', '48', '73']},{'id': '16', 'type': 'if_statement', 'children': ['17', '22', '27']},{'id': '17', 'type': 'comparison_operator', 'children': ['18', '21'], 'value': '>='},{'id': '18', 'type': 'attribute', 'children': ['19', '20']},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'sys'},{'id': '20', 'type': 'identifier', 'children': [], 'value': 'hexversion'},{'id': '21', 'type': 'integer', 'children': [], 'value': '0x02030000'},{'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': 'str_type'},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'basestring'},{'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': 'str_type'},{'id': '32', 'type': 'identifier', 'children': [], 'value': 'str'},{'id': '33', 'type': 'if_statement', 'children': ['34', '37', '42']},{'id': '34', 'type': 'comparison_operator', 'children': ['35', '36'], 'value': 'is'},{'id': '35', 'type': 'identifier', 'children': [], 'value': 'nl'},{'id': '36', 'type': 'None', 'children': []},{'id': '37', 'type': 'block', 'children': ['38']},{'id': '38', 'type': 'expression_statement', 'children': ['39']},{'id': '39', 'type': 'assignment', 'children': ['40', '41']},{'id': '40', 'type': 'identifier', 'children': [], 'value': 'opts'},{'id': '41', 'type': 'string', 'children': [], 'value': "'w'"},{'id': '42', 'type': 'else_clause', 'children': ['43']},{'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': 'opts'},{'id': '47', 'type': 'string', 'children': [], 'value': "'wb'"},{'id': '48', 'type': 'if_statement', 'children': ['49', '54', '67']},{'id': '49', 'type': 'call', 'children': ['50', '51']},{'id': '50', 'type': 'identifier', 'children': [], 'value': 'isinstance'},{'id': '51', 'type': 'argument_list', 'children': ['52', '53']},{'id': '52', 'type': 'identifier', 'children': [], 'value': 'f'},{'id': '53', 'type': 'identifier', 'children': [], 'value': 'str_type'},{'id': '54', 'type': 'block', 'children': ['55', '63']},{'id': '55', 'type': 'expression_statement', 'children': ['56']},{'id': '56', 'type': 'assignment', 'children': ['57', '58']},{'id': '57', 'type': 'identifier', 'children': [], 'value': 'f'},{'id': '58', 'type': 'call', 'children': ['59', '60']},{'id': '59', 'type': 'identifier', 'children': [], 'value': 'file'},{'id': '60', 'type': 'argument_list', 'children': ['61', '62']},{'id': '61', 'type': 'identifier', 'children': [], 'value': 'f'},{'id': '62', 'type': 'identifier', 'children': [], 'value': 'opts'},{'id': '63', 'type': 'expression_statement', 'children': ['64']},{'id': '64', 'type': 'assignment', 'children': ['65', '66']},{'id': '65', 'type': 'identifier', 'children': [], 'value': 'want_close'},{'id': '66', 'type': 'True', 'children': []},{'id': '67', 'type': 'else_clause', 'children': ['68']},{'id': '68', 'type': 'block', 'children': ['69']},{'id': '69', 'type': 'expression_statement', 'children': ['70']},{'id': '70', 'type': 'assignment', 'children': ['71', '72']},{'id': '71', 'type': 'identifier', 'children': [], 'value': 'want_close'},{'id': '72', 'type': 'False', 'children': []},{'id': '73', 'type': 'try_statement', 'children': ['74', '150']},{'id': '74', 'type': 'block', 'children': ['75', '102']},{'id': '75', 'type': 'if_statement', 'children': ['76', '77', '92']},{'id': '76', 'type': 'identifier', 'children': [], 'value': 'sorted'},{'id': '77', 'type': 'block', 'children': ['78', '86']},{'id': '78', 'type': 'expression_statement', 'children': ['79']},{'id': '79', 'type': 'assignment', 'children': ['80', '81']},{'id': '80', 'type': 'identifier', 'children': [], 'value': 'names'},{'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': 'keys'},{'id': '85', 'type': 'argument_list', 'children': []},{'id': '86', 'type': 'expression_statement', 'children': ['87']},{'id': '87', 'type': 'call', 'children': ['88', '91']},{'id': '88', 'type': 'attribute', 'children': ['89', '90']},{'id': '89', 'type': 'identifier', 'children': [], 'value': 'names'},{'id': '90', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '91', 'type': 'argument_list', 'children': []},{'id': '92', 'type': 'else_clause', 'children': ['93']},{'id': '93', 'type': 'block', 'children': ['94']},{'id': '94', 'type': 'expression_statement', 'children': ['95']},{'id': '95', 'type': 'assignment', 'children': ['96', '97']},{'id': '96', 'type': 'identifier', 'children': [], 'value': 'names'},{'id': '97', 'type': 'call', 'children': ['98', '101']},{'id': '98', 'type': 'attribute', 'children': ['99', '100']},{'id': '99', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '100', 'type': 'identifier', 'children': [], 'value': 'iterkeys'},{'id': '101', 'type': 'argument_list', 'children': []},{'id': '102', 'type': 'for_statement', 'children': ['103', '104', '105']},{'id': '103', 'type': 'identifier', 'children': [], 'value': 'n'},{'id': '104', 'type': 'identifier', 'children': [], 'value': 'names'},{'id': '105', 'type': 'block', 'children': ['106', '125']},{'id': '106', 'type': 'expression_statement', 'children': ['107']},{'id': '107', 'type': 'assignment', 'children': ['108', '109']},{'id': '108', 'type': 'identifier', 'children': [], 'value': 'l'},{'id': '109', 'type': 'call', 'children': ['110', '115']},{'id': '110', 'type': 'attribute', 'children': ['111', '114']},{'id': '111', 'type': 'subscript', 'children': ['112', '113']},{'id': '112', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '113', 'type': 'identifier', 'children': [], 'value': 'n'},{'id': '114', 'type': 'identifier', 'children': [], 'value': 'to_text'},{'id': '115', 'type': 'argument_list', 'children': ['116', '117', '122']},{'id': '116', 'type': 'identifier', 'children': [], 'value': 'n'},{'id': '117', 'type': 'keyword_argument', 'children': ['118', '119']},{'id': '118', 'type': 'identifier', 'children': [], 'value': 'origin'},{'id': '119', 'type': 'attribute', 'children': ['120', '121']},{'id': '120', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '121', 'type': 'identifier', 'children': [], 'value': 'origin'},{'id': '122', 'type': 'keyword_argument', 'children': ['123', '124']},{'id': '123', 'type': 'identifier', 'children': [], 'value': 'relativize'},{'id': '124', 'type': 'identifier', 'children': [], 'value': 'relativize'},{'id': '125', 'type': 'if_statement', 'children': ['126', '129', '134']},{'id': '126', 'type': 'comparison_operator', 'children': ['127', '128'], 'value': 'is'},{'id': '127', 'type': 'identifier', 'children': [], 'value': 'nl'},{'id': '128', 'type': 'None', 'children': []},{'id': '129', 'type': 'block', 'children': ['130']},{'id': '130', 'type': 'print_statement', 'children': ['131', '133']},{'id': '131', 'type': 'chevron', 'children': ['132']},{'id': '132', 'type': 'identifier', 'children': [], 'value': 'f'},{'id': '133', 'type': 'identifier', 'children': [], 'value': 'l'},{'id': '134', 'type': 'else_clause', 'children': ['135']},{'id': '135', 'type': 'block', 'children': ['136', '143']},{'id': '136', 'type': 'expression_statement', 'children': ['137']},{'id': '137', 'type': 'call', 'children': ['138', '141']},{'id': '138', 'type': 'attribute', 'children': ['139', '140']},{'id': '139', 'type': 'identifier', 'children': [], 'value': 'f'},{'id': '140', 'type': 'identifier', 'children': [], 'value': 'write'},{'id': '141', 'type': 'argument_list', 'children': ['142']},{'id': '142', 'type': 'identifier', 'children': [], 'value': 'l'},{'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': 'f'},{'id': '147', 'type': 'identifier', 'children': [], 'value': 'write'},{'id': '148', 'type': 'argument_list', 'children': ['149']},{'id': '149', 'type': 'identifier', 'children': [], 'value': 'nl'},{'id': '150', 'type': 'finally_clause', 'children': ['151']},{'id': '151', 'type': 'block', 'children': ['152']},{'id': '152', 'type': 'if_statement', 'children': ['153', '154']},{'id': '153', 'type': 'identifier', 'children': [], 'value': 'want_close'},{'id': '154', 'type': 'block', 'children': ['155']},{'id': '155', 'type': 'expression_statement', 'children': ['156']},{'id': '156', 'type': 'call', 'children': ['157', '160']},{'id': '157', 'type': 'attribute', 'children': ['158', '159']},{'id': '158', 'type': 'identifier', 'children': [], 'value': 'f'},{'id': '159', 'type': 'identifier', 'children': [], 'value': 'close'},{'id': '160', 'type': 'argument_list', 'children': []} | def to_file(self, f, sorted=True, relativize=True, nl=None):
if sys.hexversion >= 0x02030000:
str_type = basestring
else:
str_type = str
if nl is None:
opts = 'w'
else:
opts = 'wb'
if isinstance(f, str_type):
f = file(f, opts)
want_close = True
else:
want_close = False
try:
if sorted:
names = self.keys()
names.sort()
else:
names = self.iterkeys()
for n in names:
l = self[n].to_text(n, origin=self.origin,
relativize=relativize)
if nl is None:
print >> f, l
else:
f.write(l)
f.write(nl)
finally:
if want_close:
f.close() |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '6']},{'id': '2', 'type': 'function_name', 'children': [], 'value': '_sorted_keys'},{'id': '3', 'type': 'parameters', 'children': ['4', '5']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'keys'},{'id': '6', 'type': 'block', 'children': ['7', '11', '31', '76', '105', '125']},{'id': '7', 'type': 'expression_statement', 'children': ['8']},{'id': '8', 'type': 'assignment', 'children': ['9', '10']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'sorted_keys'},{'id': '10', 'type': 'list', 'children': [], 'value': '[]'},{'id': '11', 'type': 'if_statement', 'children': ['12', '23']},{'id': '12', 'type': 'boolean_operator', 'children': ['13', '17'], 'value': 'and'},{'id': '13', 'type': '()', 'children': ['14']},{'id': '14', 'type': 'comparison_operator', 'children': ['15', '16'], 'value': 'in'},{'id': '15', 'type': 'string', 'children': [], 'value': "'epoch'"},{'id': '16', 'type': 'identifier', 'children': [], 'value': 'keys'},{'id': '17', 'type': '()', 'children': ['18']},{'id': '18', 'type': 'comparison_operator', 'children': ['19', '20'], 'value': 'not'},{'id': '19', 'type': 'string', 'children': [], 'value': "'epoch'"},{'id': '20', 'type': 'attribute', 'children': ['21', '22']},{'id': '21', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'keys_ignored_'},{'id': '23', 'type': 'block', 'children': ['24']},{'id': '24', 'type': 'expression_statement', 'children': ['25']},{'id': '25', 'type': 'call', 'children': ['26', '29']},{'id': '26', 'type': 'attribute', 'children': ['27', '28']},{'id': '27', 'type': 'identifier', 'children': [], 'value': 'sorted_keys'},{'id': '28', 'type': 'identifier', 'children': [], 'value': 'append'},{'id': '29', 'type': 'argument_list', 'children': ['30']},{'id': '30', 'type': 'string', 'children': [], 'value': "'epoch'"},{'id': '31', 'type': 'for_statement', 'children': ['32', '33', '37']},{'id': '32', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '33', 'type': 'call', 'children': ['34', '35']},{'id': '34', 'type': 'identifier', 'children': [], 'value': 'sorted'},{'id': '35', 'type': 'argument_list', 'children': ['36']},{'id': '36', 'type': 'identifier', 'children': [], 'value': 'keys'},{'id': '37', 'type': 'block', 'children': ['38']},{'id': '38', 'type': 'if_statement', 'children': ['39', '68']},{'id': '39', 'type': 'not_operator', 'children': ['40']},{'id': '40', 'type': '()', 'children': ['41']},{'id': '41', 'type': 'boolean_operator', 'children': ['42', '62'], 'value': 'or'},{'id': '42', 'type': 'boolean_operator', 'children': ['43', '56'], 'value': 'or'},{'id': '43', 'type': 'boolean_operator', 'children': ['44', '50'], 'value': 'or'},{'id': '44', 'type': '()', 'children': ['45']},{'id': '45', 'type': 'comparison_operator', 'children': ['46', '47'], 'value': 'in'},{'id': '46', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '47', 'type': 'tuple', 'children': ['48', '49']},{'id': '48', 'type': 'string', 'children': [], 'value': "'epoch'"},{'id': '49', 'type': 'string', 'children': [], 'value': "'dur'"},{'id': '50', 'type': '()', 'children': ['51']},{'id': '51', 'type': 'comparison_operator', 'children': ['52', '53'], 'value': 'in'},{'id': '52', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '53', 'type': 'attribute', 'children': ['54', '55']},{'id': '54', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '55', 'type': 'identifier', 'children': [], 'value': 'keys_ignored_'},{'id': '56', 'type': 'call', 'children': ['57', '60']},{'id': '57', 'type': 'attribute', 'children': ['58', '59']},{'id': '58', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '59', 'type': 'identifier', 'children': [], 'value': 'endswith'},{'id': '60', 'type': 'argument_list', 'children': ['61']},{'id': '61', 'type': 'string', 'children': [], 'value': "'_best'"},{'id': '62', 'type': 'call', 'children': ['63', '66']},{'id': '63', 'type': 'attribute', 'children': ['64', '65']},{'id': '64', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '65', 'type': 'identifier', 'children': [], 'value': 'startswith'},{'id': '66', 'type': 'argument_list', 'children': ['67']},{'id': '67', 'type': 'string', 'children': [], 'value': "'event_'"},{'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': 'sorted_keys'},{'id': '73', 'type': 'identifier', 'children': [], 'value': 'append'},{'id': '74', 'type': 'argument_list', 'children': ['75']},{'id': '75', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '76', 'type': 'for_statement', 'children': ['77', '78', '82']},{'id': '77', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '78', 'type': 'call', 'children': ['79', '80']},{'id': '79', 'type': 'identifier', 'children': [], 'value': 'sorted'},{'id': '80', 'type': 'argument_list', 'children': ['81']},{'id': '81', 'type': 'identifier', 'children': [], 'value': 'keys'},{'id': '82', 'type': 'block', 'children': ['83']},{'id': '83', 'type': 'if_statement', 'children': ['84', '97']},{'id': '84', 'type': 'boolean_operator', 'children': ['85', '91'], 'value': 'and'},{'id': '85', 'type': 'call', 'children': ['86', '89']},{'id': '86', 'type': 'attribute', 'children': ['87', '88']},{'id': '87', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '88', 'type': 'identifier', 'children': [], 'value': 'startswith'},{'id': '89', 'type': 'argument_list', 'children': ['90']},{'id': '90', 'type': 'string', 'children': [], 'value': "'event_'"},{'id': '91', 'type': '()', 'children': ['92']},{'id': '92', 'type': 'comparison_operator', 'children': ['93', '94'], 'value': 'not'},{'id': '93', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '94', 'type': 'attribute', 'children': ['95', '96']},{'id': '95', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '96', 'type': 'identifier', 'children': [], 'value': 'keys_ignored_'},{'id': '97', 'type': 'block', 'children': ['98']},{'id': '98', 'type': 'expression_statement', 'children': ['99']},{'id': '99', 'type': 'call', 'children': ['100', '103']},{'id': '100', 'type': 'attribute', 'children': ['101', '102']},{'id': '101', 'type': 'identifier', 'children': [], 'value': 'sorted_keys'},{'id': '102', 'type': 'identifier', 'children': [], 'value': 'append'},{'id': '103', 'type': 'argument_list', 'children': ['104']},{'id': '104', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '105', 'type': 'if_statement', 'children': ['106', '117']},{'id': '106', 'type': 'boolean_operator', 'children': ['107', '111'], 'value': 'and'},{'id': '107', 'type': '()', 'children': ['108']},{'id': '108', 'type': 'comparison_operator', 'children': ['109', '110'], 'value': 'in'},{'id': '109', 'type': 'string', 'children': [], 'value': "'dur'"},{'id': '110', 'type': 'identifier', 'children': [], 'value': 'keys'},{'id': '111', 'type': '()', 'children': ['112']},{'id': '112', 'type': 'comparison_operator', 'children': ['113', '114'], 'value': 'not'},{'id': '113', 'type': 'string', 'children': [], 'value': "'dur'"},{'id': '114', 'type': 'attribute', 'children': ['115', '116']},{'id': '115', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '116', 'type': 'identifier', 'children': [], 'value': 'keys_ignored_'},{'id': '117', 'type': 'block', 'children': ['118']},{'id': '118', 'type': 'expression_statement', 'children': ['119']},{'id': '119', 'type': 'call', 'children': ['120', '123']},{'id': '120', 'type': 'attribute', 'children': ['121', '122']},{'id': '121', 'type': 'identifier', 'children': [], 'value': 'sorted_keys'},{'id': '122', 'type': 'identifier', 'children': [], 'value': 'append'},{'id': '123', 'type': 'argument_list', 'children': ['124']},{'id': '124', 'type': 'string', 'children': [], 'value': "'dur'"},{'id': '125', 'type': 'return_statement', 'children': ['126']},{'id': '126', 'type': 'identifier', 'children': [], 'value': 'sorted_keys'} | def _sorted_keys(self, keys):
sorted_keys = []
if ('epoch' in keys) and ('epoch' not in self.keys_ignored_):
sorted_keys.append('epoch')
for key in sorted(keys):
if not (
(key in ('epoch', 'dur')) or
(key in self.keys_ignored_) or
key.endswith('_best') or
key.startswith('event_')
):
sorted_keys.append(key)
for key in sorted(keys):
if key.startswith('event_') and (key not in self.keys_ignored_):
sorted_keys.append(key)
if ('dur' in keys) and ('dur' not in self.keys_ignored_):
sorted_keys.append('dur')
return sorted_keys |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '9']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'sort_values'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '6']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'by'},{'id': '6', 'type': 'default_parameter', 'children': ['7', '8']},{'id': '7', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '8', 'type': 'True', 'children': []},{'id': '9', 'type': 'block', 'children': ['10', '23', '42']},{'id': '10', 'type': 'if_statement', 'children': ['11', '17']},{'id': '11', 'type': 'not_operator', 'children': ['12']},{'id': '12', 'type': 'call', 'children': ['13', '14']},{'id': '13', 'type': 'identifier', 'children': [], 'value': 'isinstance'},{'id': '14', 'type': 'argument_list', 'children': ['15', '16']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'by'},{'id': '16', 'type': 'identifier', 'children': [], 'value': 'list'},{'id': '17', 'type': 'block', 'children': ['18']},{'id': '18', 'type': 'expression_statement', 'children': ['19']},{'id': '19', 'type': 'assignment', 'children': ['20', '21']},{'id': '20', 'type': 'identifier', 'children': [], 'value': 'by'},{'id': '21', 'type': 'list', 'children': ['22'], 'value': '[by, ]'},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'by'},{'id': '23', 'type': 'expression_statement', 'children': ['24']},{'id': '24', 'type': 'assignment', 'children': ['25', '26']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'by'},{'id': '26', 'type': 'list_comprehension', 'children': ['27', '39']},{'id': '27', 'type': 'conditional_expression', 'children': ['28', '32', '38'], 'value': 'if'},{'id': '28', 'type': 'call', 'children': ['29', '30']},{'id': '29', 'type': 'identifier', 'children': [], 'value': 'it'},{'id': '30', 'type': 'argument_list', 'children': ['31']},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '32', 'type': 'call', 'children': ['33', '36']},{'id': '33', 'type': 'attribute', 'children': ['34', '35']},{'id': '34', 'type': 'identifier', 'children': [], 'value': 'inspect'},{'id': '35', 'type': 'identifier', 'children': [], 'value': 'isfunction'},{'id': '36', 'type': 'argument_list', 'children': ['37']},{'id': '37', 'type': 'identifier', 'children': [], 'value': 'it'},{'id': '38', 'type': 'identifier', 'children': [], 'value': 'it'},{'id': '39', 'type': 'for_in_clause', 'children': ['40', '41']},{'id': '40', 'type': 'identifier', 'children': [], 'value': 'it'},{'id': '41', 'type': 'identifier', 'children': [], 'value': 'by'},{'id': '42', 'type': 'return_statement', 'children': ['43']},{'id': '43', 'type': 'call', 'children': ['44', '45']},{'id': '44', 'type': 'identifier', 'children': [], 'value': 'SortedCollectionExpr'},{'id': '45', 'type': 'argument_list', 'children': ['46', '47', '50', '53']},{'id': '46', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '47', 'type': 'keyword_argument', 'children': ['48', '49']},{'id': '48', 'type': 'identifier', 'children': [], 'value': '_sorted_fields'},{'id': '49', 'type': 'identifier', 'children': [], 'value': 'by'},{'id': '50', 'type': 'keyword_argument', 'children': ['51', '52']},{'id': '51', 'type': 'identifier', 'children': [], 'value': '_ascending'},{'id': '52', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '53', 'type': 'keyword_argument', 'children': ['54', '55']},{'id': '54', 'type': 'identifier', 'children': [], 'value': '_schema'},{'id': '55', 'type': 'attribute', 'children': ['56', '57']},{'id': '56', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '57', 'type': 'identifier', 'children': [], 'value': '_schema'} | def sort_values(expr, by, ascending=True):
if not isinstance(by, list):
by = [by, ]
by = [it(expr) if inspect.isfunction(it) else it for it in by]
return SortedCollectionExpr(expr, _sorted_fields=by, _ascending=ascending,
_schema=expr._schema) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '14']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'reshuffle'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '8', '11']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '5', 'type': 'default_parameter', 'children': ['6', '7']},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'by'},{'id': '7', 'type': 'None', 'children': []},{'id': '8', 'type': 'default_parameter', 'children': ['9', '10']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '10', 'type': 'None', 'children': []},{'id': '11', 'type': 'default_parameter', 'children': ['12', '13']},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '13', 'type': 'True', 'children': []},{'id': '14', 'type': 'block', 'children': ['15', '23', '32', '47']},{'id': '15', 'type': 'expression_statement', 'children': ['16']},{'id': '16', 'type': 'assignment', 'children': ['17', '18']},{'id': '17', 'type': 'identifier', 'children': [], 'value': 'by'},{'id': '18', 'type': 'boolean_operator', 'children': ['19', '20'], 'value': 'or'},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'by'},{'id': '20', 'type': 'call', 'children': ['21', '22']},{'id': '21', 'type': 'identifier', 'children': [], 'value': 'RandomScalar'},{'id': '22', 'type': 'argument_list', 'children': []},{'id': '23', 'type': 'expression_statement', 'children': ['24']},{'id': '24', 'type': 'assignment', 'children': ['25', '26']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'grouped'},{'id': '26', 'type': 'call', 'children': ['27', '30']},{'id': '27', 'type': 'attribute', 'children': ['28', '29']},{'id': '28', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '29', 'type': 'identifier', 'children': [], 'value': 'groupby'},{'id': '30', 'type': 'argument_list', 'children': ['31']},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'by'},{'id': '32', 'type': 'if_statement', 'children': ['33', '34']},{'id': '33', 'type': 'identifier', 'children': [], 'value': 'sort'},{'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': 'grouped'},{'id': '38', 'type': 'call', 'children': ['39', '42']},{'id': '39', 'type': 'attribute', 'children': ['40', '41']},{'id': '40', 'type': 'identifier', 'children': [], 'value': 'grouped'},{'id': '41', 'type': 'identifier', 'children': [], 'value': 'sort_values'},{'id': '42', 'type': 'argument_list', 'children': ['43', '44']},{'id': '43', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '44', 'type': 'keyword_argument', 'children': ['45', '46']},{'id': '45', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '46', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '47', 'type': 'return_statement', 'children': ['48']},{'id': '48', 'type': 'call', 'children': ['49', '50']},{'id': '49', 'type': 'identifier', 'children': [], 'value': 'ReshuffledCollectionExpr'},{'id': '50', 'type': 'argument_list', 'children': ['51', '54']},{'id': '51', 'type': 'keyword_argument', 'children': ['52', '53']},{'id': '52', 'type': 'identifier', 'children': [], 'value': '_input'},{'id': '53', 'type': 'identifier', 'children': [], 'value': 'grouped'},{'id': '54', 'type': 'keyword_argument', 'children': ['55', '56']},{'id': '55', 'type': 'identifier', 'children': [], 'value': '_schema'},{'id': '56', 'type': 'attribute', 'children': ['57', '58']},{'id': '57', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '58', 'type': 'identifier', 'children': [], 'value': '_schema'} | def reshuffle(expr, by=None, sort=None, ascending=True):
by = by or RandomScalar()
grouped = expr.groupby(by)
if sort:
grouped = grouped.sort_values(sort, ascending=ascending)
return ReshuffledCollectionExpr(_input=grouped, _schema=expr._schema) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '20']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'cumsum'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '8', '11', '14', '17']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '5', 'type': 'default_parameter', 'children': ['6', '7']},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '7', 'type': 'None', 'children': []},{'id': '8', 'type': 'default_parameter', 'children': ['9', '10']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '10', 'type': 'True', 'children': []},{'id': '11', 'type': 'default_parameter', 'children': ['12', '13']},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'unique'},{'id': '13', 'type': 'False', 'children': []},{'id': '14', 'type': 'default_parameter', 'children': ['15', '16']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'preceding'},{'id': '16', 'type': 'None', 'children': []},{'id': '17', 'type': 'default_parameter', 'children': ['18', '19']},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'following'},{'id': '19', 'type': 'None', 'children': []},{'id': '20', 'type': 'block', 'children': ['21', '44']},{'id': '21', 'type': 'if_statement', 'children': ['22', '29', '36']},{'id': '22', 'type': 'comparison_operator', 'children': ['23', '26'], 'value': '=='},{'id': '23', 'type': 'attribute', 'children': ['24', '25']},{'id': '24', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '25', 'type': 'identifier', 'children': [], 'value': '_data_type'},{'id': '26', 'type': 'attribute', 'children': ['27', '28']},{'id': '27', 'type': 'identifier', 'children': [], 'value': 'types'},{'id': '28', 'type': 'identifier', 'children': [], 'value': 'boolean'},{'id': '29', 'type': 'block', 'children': ['30']},{'id': '30', 'type': 'expression_statement', 'children': ['31']},{'id': '31', 'type': 'assignment', 'children': ['32', '33']},{'id': '32', 'type': 'identifier', 'children': [], 'value': 'output_type'},{'id': '33', 'type': 'attribute', 'children': ['34', '35']},{'id': '34', 'type': 'identifier', 'children': [], 'value': 'types'},{'id': '35', 'type': 'identifier', 'children': [], 'value': 'int64'},{'id': '36', 'type': 'else_clause', 'children': ['37']},{'id': '37', 'type': 'block', 'children': ['38']},{'id': '38', 'type': 'expression_statement', 'children': ['39']},{'id': '39', 'type': 'assignment', 'children': ['40', '41']},{'id': '40', 'type': 'identifier', 'children': [], 'value': 'output_type'},{'id': '41', 'type': 'attribute', 'children': ['42', '43']},{'id': '42', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '43', 'type': 'identifier', 'children': [], 'value': '_data_type'},{'id': '44', 'type': 'return_statement', 'children': ['45']},{'id': '45', 'type': 'call', 'children': ['46', '47']},{'id': '46', 'type': 'identifier', 'children': [], 'value': '_cumulative_op'},{'id': '47', 'type': 'argument_list', 'children': ['48', '49', '50', '53', '56', '59', '62', '65']},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '49', 'type': 'identifier', 'children': [], 'value': 'CumSum'},{'id': '50', 'type': 'keyword_argument', 'children': ['51', '52']},{'id': '51', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '52', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '53', 'type': 'keyword_argument', 'children': ['54', '55']},{'id': '54', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '55', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '56', 'type': 'keyword_argument', 'children': ['57', '58']},{'id': '57', 'type': 'identifier', 'children': [], 'value': 'unique'},{'id': '58', 'type': 'identifier', 'children': [], 'value': 'unique'},{'id': '59', 'type': 'keyword_argument', 'children': ['60', '61']},{'id': '60', 'type': 'identifier', 'children': [], 'value': 'preceding'},{'id': '61', 'type': 'identifier', 'children': [], 'value': 'preceding'},{'id': '62', 'type': 'keyword_argument', 'children': ['63', '64']},{'id': '63', 'type': 'identifier', 'children': [], 'value': 'following'},{'id': '64', 'type': 'identifier', 'children': [], 'value': 'following'},{'id': '65', 'type': 'keyword_argument', 'children': ['66', '67']},{'id': '66', 'type': 'identifier', 'children': [], 'value': 'data_type'},{'id': '67', 'type': 'identifier', 'children': [], 'value': 'output_type'} | def cumsum(expr, sort=None, ascending=True, unique=False,
preceding=None, following=None):
if expr._data_type == types.boolean:
output_type = types.int64
else:
output_type = expr._data_type
return _cumulative_op(expr, CumSum, sort=sort, ascending=ascending,
unique=unique, preceding=preceding,
following=following, data_type=output_type) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '20']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'cummax'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '8', '11', '14', '17']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '5', 'type': 'default_parameter', 'children': ['6', '7']},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '7', 'type': 'None', 'children': []},{'id': '8', 'type': 'default_parameter', 'children': ['9', '10']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '10', 'type': 'True', 'children': []},{'id': '11', 'type': 'default_parameter', 'children': ['12', '13']},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'unique'},{'id': '13', 'type': 'False', 'children': []},{'id': '14', 'type': 'default_parameter', 'children': ['15', '16']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'preceding'},{'id': '16', 'type': 'None', 'children': []},{'id': '17', 'type': 'default_parameter', 'children': ['18', '19']},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'following'},{'id': '19', 'type': 'None', 'children': []},{'id': '20', 'type': 'block', 'children': ['21']},{'id': '21', 'type': 'return_statement', 'children': ['22']},{'id': '22', 'type': 'call', 'children': ['23', '24']},{'id': '23', 'type': 'identifier', 'children': [], 'value': '_cumulative_op'},{'id': '24', 'type': 'argument_list', 'children': ['25', '26', '27', '30', '33', '36', '39']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'CumMax'},{'id': '27', 'type': 'keyword_argument', 'children': ['28', '29']},{'id': '28', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '29', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '30', 'type': 'keyword_argument', 'children': ['31', '32']},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '32', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '33', 'type': 'keyword_argument', 'children': ['34', '35']},{'id': '34', 'type': 'identifier', 'children': [], 'value': 'unique'},{'id': '35', 'type': 'identifier', 'children': [], 'value': 'unique'},{'id': '36', 'type': 'keyword_argument', 'children': ['37', '38']},{'id': '37', 'type': 'identifier', 'children': [], 'value': 'preceding'},{'id': '38', 'type': 'identifier', 'children': [], 'value': 'preceding'},{'id': '39', 'type': 'keyword_argument', 'children': ['40', '41']},{'id': '40', 'type': 'identifier', 'children': [], 'value': 'following'},{'id': '41', 'type': 'identifier', 'children': [], 'value': 'following'} | def cummax(expr, sort=None, ascending=True, unique=False,
preceding=None, following=None):
return _cumulative_op(expr, CumMax, sort=sort, ascending=ascending,
unique=unique, preceding=preceding,
following=following) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '20']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'cummin'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '8', '11', '14', '17']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '5', 'type': 'default_parameter', 'children': ['6', '7']},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '7', 'type': 'None', 'children': []},{'id': '8', 'type': 'default_parameter', 'children': ['9', '10']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '10', 'type': 'True', 'children': []},{'id': '11', 'type': 'default_parameter', 'children': ['12', '13']},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'unique'},{'id': '13', 'type': 'False', 'children': []},{'id': '14', 'type': 'default_parameter', 'children': ['15', '16']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'preceding'},{'id': '16', 'type': 'None', 'children': []},{'id': '17', 'type': 'default_parameter', 'children': ['18', '19']},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'following'},{'id': '19', 'type': 'None', 'children': []},{'id': '20', 'type': 'block', 'children': ['21']},{'id': '21', 'type': 'return_statement', 'children': ['22']},{'id': '22', 'type': 'call', 'children': ['23', '24']},{'id': '23', 'type': 'identifier', 'children': [], 'value': '_cumulative_op'},{'id': '24', 'type': 'argument_list', 'children': ['25', '26', '27', '30', '33', '36', '39']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'CumMin'},{'id': '27', 'type': 'keyword_argument', 'children': ['28', '29']},{'id': '28', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '29', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '30', 'type': 'keyword_argument', 'children': ['31', '32']},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '32', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '33', 'type': 'keyword_argument', 'children': ['34', '35']},{'id': '34', 'type': 'identifier', 'children': [], 'value': 'unique'},{'id': '35', 'type': 'identifier', 'children': [], 'value': 'unique'},{'id': '36', 'type': 'keyword_argument', 'children': ['37', '38']},{'id': '37', 'type': 'identifier', 'children': [], 'value': 'preceding'},{'id': '38', 'type': 'identifier', 'children': [], 'value': 'preceding'},{'id': '39', 'type': 'keyword_argument', 'children': ['40', '41']},{'id': '40', 'type': 'identifier', 'children': [], 'value': 'following'},{'id': '41', 'type': 'identifier', 'children': [], 'value': 'following'} | def cummin(expr, sort=None, ascending=True, unique=False,
preceding=None, following=None):
return _cumulative_op(expr, CumMin, sort=sort, ascending=ascending,
unique=unique, preceding=preceding,
following=following) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '20']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'cummean'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '8', '11', '14', '17']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '5', 'type': 'default_parameter', 'children': ['6', '7']},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '7', 'type': 'None', 'children': []},{'id': '8', 'type': 'default_parameter', 'children': ['9', '10']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '10', 'type': 'True', 'children': []},{'id': '11', 'type': 'default_parameter', 'children': ['12', '13']},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'unique'},{'id': '13', 'type': 'False', 'children': []},{'id': '14', 'type': 'default_parameter', 'children': ['15', '16']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'preceding'},{'id': '16', 'type': 'None', 'children': []},{'id': '17', 'type': 'default_parameter', 'children': ['18', '19']},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'following'},{'id': '19', 'type': 'None', 'children': []},{'id': '20', 'type': 'block', 'children': ['21', '28']},{'id': '21', 'type': 'expression_statement', 'children': ['22']},{'id': '22', 'type': 'assignment', 'children': ['23', '24']},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'data_type'},{'id': '24', 'type': 'call', 'children': ['25', '26']},{'id': '25', 'type': 'identifier', 'children': [], 'value': '_stats_type'},{'id': '26', 'type': 'argument_list', 'children': ['27']},{'id': '27', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '28', 'type': 'return_statement', 'children': ['29']},{'id': '29', 'type': 'call', 'children': ['30', '31']},{'id': '30', 'type': 'identifier', 'children': [], 'value': '_cumulative_op'},{'id': '31', 'type': 'argument_list', 'children': ['32', '33', '34', '37', '40', '43', '46', '49']},{'id': '32', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '33', 'type': 'identifier', 'children': [], 'value': 'CumMean'},{'id': '34', 'type': 'keyword_argument', 'children': ['35', '36']},{'id': '35', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '36', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '37', 'type': 'keyword_argument', 'children': ['38', '39']},{'id': '38', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '39', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '40', 'type': 'keyword_argument', 'children': ['41', '42']},{'id': '41', 'type': 'identifier', 'children': [], 'value': 'unique'},{'id': '42', 'type': 'identifier', 'children': [], 'value': 'unique'},{'id': '43', 'type': 'keyword_argument', 'children': ['44', '45']},{'id': '44', 'type': 'identifier', 'children': [], 'value': 'preceding'},{'id': '45', 'type': 'identifier', 'children': [], 'value': 'preceding'},{'id': '46', 'type': 'keyword_argument', 'children': ['47', '48']},{'id': '47', 'type': 'identifier', 'children': [], 'value': 'following'},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'following'},{'id': '49', 'type': 'keyword_argument', 'children': ['50', '51']},{'id': '50', 'type': 'identifier', 'children': [], 'value': 'data_type'},{'id': '51', 'type': 'identifier', 'children': [], 'value': 'data_type'} | def cummean(expr, sort=None, ascending=True, unique=False,
preceding=None, following=None):
data_type = _stats_type(expr)
return _cumulative_op(expr, CumMean, sort=sort, ascending=ascending,
unique=unique, preceding=preceding,
following=following, data_type=data_type) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '20']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'cummedian'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '8', '11', '14', '17']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '5', 'type': 'default_parameter', 'children': ['6', '7']},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '7', 'type': 'None', 'children': []},{'id': '8', 'type': 'default_parameter', 'children': ['9', '10']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '10', 'type': 'True', 'children': []},{'id': '11', 'type': 'default_parameter', 'children': ['12', '13']},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'unique'},{'id': '13', 'type': 'False', 'children': []},{'id': '14', 'type': 'default_parameter', 'children': ['15', '16']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'preceding'},{'id': '16', 'type': 'None', 'children': []},{'id': '17', 'type': 'default_parameter', 'children': ['18', '19']},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'following'},{'id': '19', 'type': 'None', 'children': []},{'id': '20', 'type': 'block', 'children': ['21', '28']},{'id': '21', 'type': 'expression_statement', 'children': ['22']},{'id': '22', 'type': 'assignment', 'children': ['23', '24']},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'data_type'},{'id': '24', 'type': 'call', 'children': ['25', '26']},{'id': '25', 'type': 'identifier', 'children': [], 'value': '_stats_type'},{'id': '26', 'type': 'argument_list', 'children': ['27']},{'id': '27', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '28', 'type': 'return_statement', 'children': ['29']},{'id': '29', 'type': 'call', 'children': ['30', '31']},{'id': '30', 'type': 'identifier', 'children': [], 'value': '_cumulative_op'},{'id': '31', 'type': 'argument_list', 'children': ['32', '33', '34', '37', '40', '43', '46', '49']},{'id': '32', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '33', 'type': 'identifier', 'children': [], 'value': 'CumMedian'},{'id': '34', 'type': 'keyword_argument', 'children': ['35', '36']},{'id': '35', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '36', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '37', 'type': 'keyword_argument', 'children': ['38', '39']},{'id': '38', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '39', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '40', 'type': 'keyword_argument', 'children': ['41', '42']},{'id': '41', 'type': 'identifier', 'children': [], 'value': 'unique'},{'id': '42', 'type': 'identifier', 'children': [], 'value': 'unique'},{'id': '43', 'type': 'keyword_argument', 'children': ['44', '45']},{'id': '44', 'type': 'identifier', 'children': [], 'value': 'preceding'},{'id': '45', 'type': 'identifier', 'children': [], 'value': 'preceding'},{'id': '46', 'type': 'keyword_argument', 'children': ['47', '48']},{'id': '47', 'type': 'identifier', 'children': [], 'value': 'following'},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'following'},{'id': '49', 'type': 'keyword_argument', 'children': ['50', '51']},{'id': '50', 'type': 'identifier', 'children': [], 'value': 'data_type'},{'id': '51', 'type': 'identifier', 'children': [], 'value': 'data_type'} | def cummedian(expr, sort=None, ascending=True, unique=False,
preceding=None, following=None):
data_type = _stats_type(expr)
return _cumulative_op(expr, CumMedian, sort=sort, ascending=ascending,
unique=unique, preceding=preceding,
following=following, data_type=data_type) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '20']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'cumcount'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '8', '11', '14', '17']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '5', 'type': 'default_parameter', 'children': ['6', '7']},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '7', 'type': 'None', 'children': []},{'id': '8', 'type': 'default_parameter', 'children': ['9', '10']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '10', 'type': 'True', 'children': []},{'id': '11', 'type': 'default_parameter', 'children': ['12', '13']},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'unique'},{'id': '13', 'type': 'False', 'children': []},{'id': '14', 'type': 'default_parameter', 'children': ['15', '16']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'preceding'},{'id': '16', 'type': 'None', 'children': []},{'id': '17', 'type': 'default_parameter', 'children': ['18', '19']},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'following'},{'id': '19', 'type': 'None', 'children': []},{'id': '20', 'type': 'block', 'children': ['21', '27']},{'id': '21', 'type': 'expression_statement', 'children': ['22']},{'id': '22', 'type': 'assignment', 'children': ['23', '24']},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'data_type'},{'id': '24', 'type': 'attribute', 'children': ['25', '26']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'types'},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'int64'},{'id': '27', 'type': 'return_statement', 'children': ['28']},{'id': '28', 'type': 'call', 'children': ['29', '30']},{'id': '29', 'type': 'identifier', 'children': [], 'value': '_cumulative_op'},{'id': '30', 'type': 'argument_list', 'children': ['31', '32', '33', '36', '39', '42', '45', '48']},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '32', 'type': 'identifier', 'children': [], 'value': 'CumCount'},{'id': '33', 'type': 'keyword_argument', 'children': ['34', '35']},{'id': '34', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '35', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '36', 'type': 'keyword_argument', 'children': ['37', '38']},{'id': '37', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '38', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '39', 'type': 'keyword_argument', 'children': ['40', '41']},{'id': '40', 'type': 'identifier', 'children': [], 'value': 'unique'},{'id': '41', 'type': 'identifier', 'children': [], 'value': 'unique'},{'id': '42', 'type': 'keyword_argument', 'children': ['43', '44']},{'id': '43', 'type': 'identifier', 'children': [], 'value': 'preceding'},{'id': '44', 'type': 'identifier', 'children': [], 'value': 'preceding'},{'id': '45', 'type': 'keyword_argument', 'children': ['46', '47']},{'id': '46', 'type': 'identifier', 'children': [], 'value': 'following'},{'id': '47', 'type': 'identifier', 'children': [], 'value': 'following'},{'id': '48', 'type': 'keyword_argument', 'children': ['49', '50']},{'id': '49', 'type': 'identifier', 'children': [], 'value': 'data_type'},{'id': '50', 'type': 'identifier', 'children': [], 'value': 'data_type'} | def cumcount(expr, sort=None, ascending=True, unique=False,
preceding=None, following=None):
data_type = types.int64
return _cumulative_op(expr, CumCount, sort=sort, ascending=ascending,
unique=unique, preceding=preceding,
following=following, data_type=data_type) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '20']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'cumstd'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '8', '11', '14', '17']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '5', 'type': 'default_parameter', 'children': ['6', '7']},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '7', 'type': 'None', 'children': []},{'id': '8', 'type': 'default_parameter', 'children': ['9', '10']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '10', 'type': 'True', 'children': []},{'id': '11', 'type': 'default_parameter', 'children': ['12', '13']},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'unique'},{'id': '13', 'type': 'False', 'children': []},{'id': '14', 'type': 'default_parameter', 'children': ['15', '16']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'preceding'},{'id': '16', 'type': 'None', 'children': []},{'id': '17', 'type': 'default_parameter', 'children': ['18', '19']},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'following'},{'id': '19', 'type': 'None', 'children': []},{'id': '20', 'type': 'block', 'children': ['21', '28']},{'id': '21', 'type': 'expression_statement', 'children': ['22']},{'id': '22', 'type': 'assignment', 'children': ['23', '24']},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'data_type'},{'id': '24', 'type': 'call', 'children': ['25', '26']},{'id': '25', 'type': 'identifier', 'children': [], 'value': '_stats_type'},{'id': '26', 'type': 'argument_list', 'children': ['27']},{'id': '27', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '28', 'type': 'return_statement', 'children': ['29']},{'id': '29', 'type': 'call', 'children': ['30', '31']},{'id': '30', 'type': 'identifier', 'children': [], 'value': '_cumulative_op'},{'id': '31', 'type': 'argument_list', 'children': ['32', '33', '34', '37', '40', '43', '46', '49']},{'id': '32', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '33', 'type': 'identifier', 'children': [], 'value': 'CumStd'},{'id': '34', 'type': 'keyword_argument', 'children': ['35', '36']},{'id': '35', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '36', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '37', 'type': 'keyword_argument', 'children': ['38', '39']},{'id': '38', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '39', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '40', 'type': 'keyword_argument', 'children': ['41', '42']},{'id': '41', 'type': 'identifier', 'children': [], 'value': 'unique'},{'id': '42', 'type': 'identifier', 'children': [], 'value': 'unique'},{'id': '43', 'type': 'keyword_argument', 'children': ['44', '45']},{'id': '44', 'type': 'identifier', 'children': [], 'value': 'preceding'},{'id': '45', 'type': 'identifier', 'children': [], 'value': 'preceding'},{'id': '46', 'type': 'keyword_argument', 'children': ['47', '48']},{'id': '47', 'type': 'identifier', 'children': [], 'value': 'following'},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'following'},{'id': '49', 'type': 'keyword_argument', 'children': ['50', '51']},{'id': '50', 'type': 'identifier', 'children': [], 'value': 'data_type'},{'id': '51', 'type': 'identifier', 'children': [], 'value': 'data_type'} | def cumstd(expr, sort=None, ascending=True, unique=False,
preceding=None, following=None):
data_type = _stats_type(expr)
return _cumulative_op(expr, CumStd, sort=sort, ascending=ascending,
unique=unique, preceding=preceding,
following=following, data_type=data_type) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '15']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'nth_value'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '9', '12']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'nth'},{'id': '6', 'type': 'default_parameter', 'children': ['7', '8']},{'id': '7', 'type': 'identifier', 'children': [], 'value': 'skip_nulls'},{'id': '8', 'type': 'False', 'children': []},{'id': '9', 'type': 'default_parameter', 'children': ['10', '11']},{'id': '10', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '11', 'type': 'None', 'children': []},{'id': '12', 'type': 'default_parameter', 'children': ['13', '14']},{'id': '13', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '14', 'type': 'True', 'children': []},{'id': '15', 'type': 'block', 'children': ['16']},{'id': '16', 'type': 'return_statement', 'children': ['17']},{'id': '17', 'type': 'call', 'children': ['18', '19']},{'id': '18', 'type': 'identifier', 'children': [], 'value': '_cumulative_op'},{'id': '19', 'type': 'argument_list', 'children': ['20', '21', '22', '27', '30', '33', '36']},{'id': '20', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '21', 'type': 'identifier', 'children': [], 'value': 'NthValue'},{'id': '22', 'type': 'keyword_argument', 'children': ['23', '24']},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'data_type'},{'id': '24', 'type': 'attribute', 'children': ['25', '26']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '26', 'type': 'identifier', 'children': [], 'value': '_data_type'},{'id': '27', 'type': 'keyword_argument', 'children': ['28', '29']},{'id': '28', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '29', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '30', 'type': 'keyword_argument', 'children': ['31', '32']},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '32', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '33', 'type': 'keyword_argument', 'children': ['34', '35']},{'id': '34', 'type': 'identifier', 'children': [], 'value': '_nth'},{'id': '35', 'type': 'identifier', 'children': [], 'value': 'nth'},{'id': '36', 'type': 'keyword_argument', 'children': ['37', '38']},{'id': '37', 'type': 'identifier', 'children': [], 'value': '_skip_nulls'},{'id': '38', 'type': 'identifier', 'children': [], 'value': 'skip_nulls'} | def nth_value(expr, nth, skip_nulls=False, sort=None, ascending=True):
return _cumulative_op(expr, NthValue, data_type=expr._data_type, sort=sort,
ascending=ascending, _nth=nth, _skip_nulls=skip_nulls) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '11']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'rank'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '8']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '5', 'type': 'default_parameter', 'children': ['6', '7']},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '7', 'type': 'None', 'children': []},{'id': '8', 'type': 'default_parameter', 'children': ['9', '10']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '10', 'type': 'True', 'children': []},{'id': '11', 'type': 'block', 'children': ['12']},{'id': '12', 'type': 'return_statement', 'children': ['13']},{'id': '13', 'type': 'call', 'children': ['14', '15']},{'id': '14', 'type': 'identifier', 'children': [], 'value': '_rank_op'},{'id': '15', 'type': 'argument_list', 'children': ['16', '17', '18', '21', '24']},{'id': '16', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '17', 'type': 'identifier', 'children': [], 'value': 'Rank'},{'id': '18', 'type': 'attribute', 'children': ['19', '20']},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'types'},{'id': '20', 'type': 'identifier', 'children': [], 'value': 'int64'},{'id': '21', 'type': 'keyword_argument', 'children': ['22', '23']},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '24', 'type': 'keyword_argument', 'children': ['25', '26']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'ascending'} | def rank(expr, sort=None, ascending=True):
return _rank_op(expr, Rank, types.int64, sort=sort, ascending=ascending) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '11']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'dense_rank'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '8']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '5', 'type': 'default_parameter', 'children': ['6', '7']},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '7', 'type': 'None', 'children': []},{'id': '8', 'type': 'default_parameter', 'children': ['9', '10']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '10', 'type': 'True', 'children': []},{'id': '11', 'type': 'block', 'children': ['12']},{'id': '12', 'type': 'return_statement', 'children': ['13']},{'id': '13', 'type': 'call', 'children': ['14', '15']},{'id': '14', 'type': 'identifier', 'children': [], 'value': '_rank_op'},{'id': '15', 'type': 'argument_list', 'children': ['16', '17', '18', '21', '24']},{'id': '16', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '17', 'type': 'identifier', 'children': [], 'value': 'DenseRank'},{'id': '18', 'type': 'attribute', 'children': ['19', '20']},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'types'},{'id': '20', 'type': 'identifier', 'children': [], 'value': 'int64'},{'id': '21', 'type': 'keyword_argument', 'children': ['22', '23']},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '24', 'type': 'keyword_argument', 'children': ['25', '26']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'ascending'} | def dense_rank(expr, sort=None, ascending=True):
return _rank_op(expr, DenseRank, types.int64, sort=sort, ascending=ascending) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '11']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'percent_rank'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '8']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '5', 'type': 'default_parameter', 'children': ['6', '7']},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '7', 'type': 'None', 'children': []},{'id': '8', 'type': 'default_parameter', 'children': ['9', '10']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '10', 'type': 'True', 'children': []},{'id': '11', 'type': 'block', 'children': ['12']},{'id': '12', 'type': 'return_statement', 'children': ['13']},{'id': '13', 'type': 'call', 'children': ['14', '15']},{'id': '14', 'type': 'identifier', 'children': [], 'value': '_rank_op'},{'id': '15', 'type': 'argument_list', 'children': ['16', '17', '18', '21', '24']},{'id': '16', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '17', 'type': 'identifier', 'children': [], 'value': 'PercentRank'},{'id': '18', 'type': 'attribute', 'children': ['19', '20']},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'types'},{'id': '20', 'type': 'identifier', 'children': [], 'value': 'float64'},{'id': '21', 'type': 'keyword_argument', 'children': ['22', '23']},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '24', 'type': 'keyword_argument', 'children': ['25', '26']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'ascending'} | def percent_rank(expr, sort=None, ascending=True):
return _rank_op(expr, PercentRank, types.float64, sort=sort, ascending=ascending) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '11']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'row_number'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '8']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '5', 'type': 'default_parameter', 'children': ['6', '7']},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '7', 'type': 'None', 'children': []},{'id': '8', 'type': 'default_parameter', 'children': ['9', '10']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '10', 'type': 'True', 'children': []},{'id': '11', 'type': 'block', 'children': ['12']},{'id': '12', 'type': 'return_statement', 'children': ['13']},{'id': '13', 'type': 'call', 'children': ['14', '15']},{'id': '14', 'type': 'identifier', 'children': [], 'value': '_rank_op'},{'id': '15', 'type': 'argument_list', 'children': ['16', '17', '18', '21', '24']},{'id': '16', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '17', 'type': 'identifier', 'children': [], 'value': 'RowNumber'},{'id': '18', 'type': 'attribute', 'children': ['19', '20']},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'types'},{'id': '20', 'type': 'identifier', 'children': [], 'value': 'int64'},{'id': '21', 'type': 'keyword_argument', 'children': ['22', '23']},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '24', 'type': 'keyword_argument', 'children': ['25', '26']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'ascending'} | def row_number(expr, sort=None, ascending=True):
return _rank_op(expr, RowNumber, types.int64, sort=sort, ascending=ascending) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '15']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'qcut'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '9', '12']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'bins'},{'id': '6', 'type': 'default_parameter', 'children': ['7', '8']},{'id': '7', 'type': 'identifier', 'children': [], 'value': 'labels'},{'id': '8', 'type': 'False', 'children': []},{'id': '9', 'type': 'default_parameter', 'children': ['10', '11']},{'id': '10', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '11', 'type': 'None', 'children': []},{'id': '12', 'type': 'default_parameter', 'children': ['13', '14']},{'id': '13', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '14', 'type': 'True', 'children': []},{'id': '15', 'type': 'block', 'children': ['16', '28']},{'id': '16', 'type': 'if_statement', 'children': ['17', '22']},{'id': '17', 'type': 'boolean_operator', 'children': ['18', '21'], 'value': 'or'},{'id': '18', 'type': 'comparison_operator', 'children': ['19', '20'], 'value': 'is'},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'labels'},{'id': '20', 'type': 'None', 'children': []},{'id': '21', 'type': 'identifier', 'children': [], 'value': 'labels'},{'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': 'NotImplementedError'},{'id': '26', 'type': 'argument_list', 'children': ['27']},{'id': '27', 'type': 'string', 'children': [], 'value': "'Showing bins or customizing labels not supported'"},{'id': '28', 'type': 'return_statement', 'children': ['29']},{'id': '29', 'type': 'call', 'children': ['30', '31']},{'id': '30', 'type': 'identifier', 'children': [], 'value': '_rank_op'},{'id': '31', 'type': 'argument_list', 'children': ['32', '33', '34', '37', '40', '43']},{'id': '32', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '33', 'type': 'identifier', 'children': [], 'value': 'QCut'},{'id': '34', 'type': 'attribute', 'children': ['35', '36']},{'id': '35', 'type': 'identifier', 'children': [], 'value': 'types'},{'id': '36', 'type': 'identifier', 'children': [], 'value': 'int64'},{'id': '37', 'type': 'keyword_argument', 'children': ['38', '39']},{'id': '38', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '39', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '40', 'type': 'keyword_argument', 'children': ['41', '42']},{'id': '41', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '42', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '43', 'type': 'keyword_argument', 'children': ['44', '45']},{'id': '44', 'type': 'identifier', 'children': [], 'value': '_bins'},{'id': '45', 'type': 'identifier', 'children': [], 'value': 'bins'} | def qcut(expr, bins, labels=False, sort=None, ascending=True):
if labels is None or labels:
raise NotImplementedError('Showing bins or customizing labels not supported')
return _rank_op(expr, QCut, types.int64, sort=sort, ascending=ascending,
_bins=bins) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '11']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'cume_dist'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '8']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '5', 'type': 'default_parameter', 'children': ['6', '7']},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '7', 'type': 'None', 'children': []},{'id': '8', 'type': 'default_parameter', 'children': ['9', '10']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '10', 'type': 'True', 'children': []},{'id': '11', 'type': 'block', 'children': ['12']},{'id': '12', 'type': 'return_statement', 'children': ['13']},{'id': '13', 'type': 'call', 'children': ['14', '15']},{'id': '14', 'type': 'identifier', 'children': [], 'value': '_rank_op'},{'id': '15', 'type': 'argument_list', 'children': ['16', '17', '18', '21', '24']},{'id': '16', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '17', 'type': 'identifier', 'children': [], 'value': 'CumeDist'},{'id': '18', 'type': 'attribute', 'children': ['19', '20']},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'types'},{'id': '20', 'type': 'identifier', 'children': [], 'value': 'float64'},{'id': '21', 'type': 'keyword_argument', 'children': ['22', '23']},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '24', 'type': 'keyword_argument', 'children': ['25', '26']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'ascending'} | def cume_dist(expr, sort=None, ascending=True):
return _rank_op(expr, CumeDist, types.float64, sort=sort, ascending=ascending) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '15']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'lag'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '9', '12']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'offset'},{'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': 'sort'},{'id': '11', 'type': 'None', 'children': []},{'id': '12', 'type': 'default_parameter', 'children': ['13', '14']},{'id': '13', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '14', 'type': 'True', 'children': []},{'id': '15', 'type': 'block', 'children': ['16']},{'id': '16', 'type': 'return_statement', 'children': ['17']},{'id': '17', 'type': 'call', 'children': ['18', '19']},{'id': '18', 'type': 'identifier', 'children': [], 'value': '_shift_op'},{'id': '19', 'type': 'argument_list', 'children': ['20', '21', '22', '23', '26', '29']},{'id': '20', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '21', 'type': 'identifier', 'children': [], 'value': 'Lag'},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'offset'},{'id': '23', 'type': 'keyword_argument', 'children': ['24', '25']},{'id': '24', 'type': 'identifier', 'children': [], 'value': 'default'},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'default'},{'id': '26', 'type': 'keyword_argument', 'children': ['27', '28']},{'id': '27', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '28', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '29', 'type': 'keyword_argument', 'children': ['30', '31']},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'ascending'} | def lag(expr, offset, default=None, sort=None, ascending=True):
return _shift_op(expr, Lag, offset, default=default,
sort=sort, ascending=ascending) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '15']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'lead'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '9', '12']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'offset'},{'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': 'sort'},{'id': '11', 'type': 'None', 'children': []},{'id': '12', 'type': 'default_parameter', 'children': ['13', '14']},{'id': '13', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '14', 'type': 'True', 'children': []},{'id': '15', 'type': 'block', 'children': ['16']},{'id': '16', 'type': 'return_statement', 'children': ['17']},{'id': '17', 'type': 'call', 'children': ['18', '19']},{'id': '18', 'type': 'identifier', 'children': [], 'value': '_shift_op'},{'id': '19', 'type': 'argument_list', 'children': ['20', '21', '22', '23', '26', '29']},{'id': '20', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '21', 'type': 'identifier', 'children': [], 'value': 'Lead'},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'offset'},{'id': '23', 'type': 'keyword_argument', 'children': ['24', '25']},{'id': '24', 'type': 'identifier', 'children': [], 'value': 'default'},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'default'},{'id': '26', 'type': 'keyword_argument', 'children': ['27', '28']},{'id': '27', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '28', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '29', 'type': 'keyword_argument', 'children': ['30', '31']},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'ascending'} | def lead(expr, offset, default=None, sort=None, ascending=True):
return _shift_op(expr, Lead, offset, default=default,
sort=sort, ascending=ascending) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '14']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'value_counts'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '8', '11']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '5', 'type': 'default_parameter', 'children': ['6', '7']},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '7', 'type': 'True', 'children': []},{'id': '8', 'type': 'default_parameter', 'children': ['9', '10']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '10', 'type': 'False', 'children': []},{'id': '11', 'type': 'default_parameter', 'children': ['12', '13']},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'dropna'},{'id': '13', 'type': 'False', 'children': []},{'id': '14', 'type': 'block', 'children': ['15', '23', '33']},{'id': '15', 'type': 'expression_statement', 'children': ['16']},{'id': '16', 'type': 'assignment', 'children': ['17', '18']},{'id': '17', 'type': 'identifier', 'children': [], 'value': 'names'},{'id': '18', 'type': 'list', 'children': ['19', '22'], 'value': "[expr.name, 'count']"},{'id': '19', 'type': 'attribute', 'children': ['20', '21']},{'id': '20', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '21', 'type': 'identifier', 'children': [], 'value': 'name'},{'id': '22', 'type': 'string', 'children': [], 'value': "'count'"},{'id': '23', 'type': 'expression_statement', 'children': ['24']},{'id': '24', 'type': 'assignment', 'children': ['25', '26']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'typos'},{'id': '26', 'type': 'list', 'children': ['27', '30'], 'value': '[expr.dtype, types.int64]'},{'id': '27', 'type': 'attribute', 'children': ['28', '29']},{'id': '28', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '29', 'type': 'identifier', 'children': [], 'value': 'dtype'},{'id': '30', 'type': 'attribute', 'children': ['31', '32']},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'types'},{'id': '32', 'type': 'identifier', 'children': [], 'value': 'int64'},{'id': '33', 'type': 'return_statement', 'children': ['34']},{'id': '34', 'type': 'call', 'children': ['35', '36']},{'id': '35', 'type': 'identifier', 'children': [], 'value': 'ValueCounts'},{'id': '36', 'type': 'argument_list', 'children': ['37', '40', '49', '52', '55']},{'id': '37', 'type': 'keyword_argument', 'children': ['38', '39']},{'id': '38', 'type': 'identifier', 'children': [], 'value': '_input'},{'id': '39', 'type': 'identifier', 'children': [], 'value': 'expr'},{'id': '40', 'type': 'keyword_argument', 'children': ['41', '42']},{'id': '41', 'type': 'identifier', 'children': [], 'value': '_schema'},{'id': '42', 'type': 'call', 'children': ['43', '46']},{'id': '43', 'type': 'attribute', 'children': ['44', '45']},{'id': '44', 'type': 'identifier', 'children': [], 'value': 'Schema'},{'id': '45', 'type': 'identifier', 'children': [], 'value': 'from_lists'},{'id': '46', 'type': 'argument_list', 'children': ['47', '48']},{'id': '47', 'type': 'identifier', 'children': [], 'value': 'names'},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'typos'},{'id': '49', 'type': 'keyword_argument', 'children': ['50', '51']},{'id': '50', 'type': 'identifier', 'children': [], 'value': '_sort'},{'id': '51', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '52', 'type': 'keyword_argument', 'children': ['53', '54']},{'id': '53', 'type': 'identifier', 'children': [], 'value': '_ascending'},{'id': '54', 'type': 'identifier', 'children': [], 'value': 'ascending'},{'id': '55', 'type': 'keyword_argument', 'children': ['56', '57']},{'id': '56', 'type': 'identifier', 'children': [], 'value': '_dropna'},{'id': '57', 'type': 'identifier', 'children': [], 'value': 'dropna'} | def value_counts(expr, sort=True, ascending=False, dropna=False):
names = [expr.name, 'count']
typos = [expr.dtype, types.int64]
return ValueCounts(_input=expr, _schema=Schema.from_lists(names, typos),
_sort=sort, _ascending=ascending, _dropna=dropna) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '10']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'last'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '8']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'default_parameter', 'children': ['6', '7']},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'limit'},{'id': '7', 'type': 'integer', 'children': [], 'value': '1'},{'id': '8', 'type': 'dictionary_splat_pattern', 'children': ['9']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'kwargs'},{'id': '10', 'type': 'block', 'children': ['11']},{'id': '11', 'type': 'return_statement', 'children': ['12']},{'id': '12', 'type': 'call', 'children': ['13', '16']},{'id': '13', 'type': 'attribute', 'children': ['14', '15']},{'id': '14', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'collection_instance'},{'id': '16', 'type': 'argument_list', 'children': ['17']},{'id': '17', 'type': 'call', 'children': ['18', '42']},{'id': '18', 'type': 'attribute', 'children': ['19', '41']},{'id': '19', 'type': 'call', 'children': ['20', '23']},{'id': '20', 'type': 'attribute', 'children': ['21', '22']},{'id': '21', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'db_adapter'},{'id': '23', 'type': 'argument_list', 'children': ['24', '32']},{'id': '24', 'type': 'keyword_argument', 'children': ['25', '26']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'db_name'},{'id': '26', 'type': 'call', 'children': ['27', '30']},{'id': '27', 'type': 'attribute', 'children': ['28', '29']},{'id': '28', 'type': 'identifier', 'children': [], 'value': 'kwargs'},{'id': '29', 'type': 'identifier', 'children': [], 'value': 'get'},{'id': '30', 'type': 'argument_list', 'children': ['31']},{'id': '31', 'type': 'string', 'children': [], 'value': "'db'"},{'id': '32', 'type': 'keyword_argument', 'children': ['33', '34']},{'id': '33', 'type': 'identifier', 'children': [], 'value': 'role'},{'id': '34', 'type': 'call', 'children': ['35', '38']},{'id': '35', 'type': 'attribute', 'children': ['36', '37']},{'id': '36', 'type': 'identifier', 'children': [], 'value': 'kwargs'},{'id': '37', 'type': 'identifier', 'children': [], 'value': 'get'},{'id': '38', 'type': 'argument_list', 'children': ['39', '40']},{'id': '39', 'type': 'string', 'children': [], 'value': "'role'"},{'id': '40', 'type': 'string', 'children': [], 'value': "'replica'"},{'id': '41', 'type': 'identifier', 'children': [], 'value': 'select'},{'id': '42', 'type': 'argument_list', 'children': ['43', '46', '49']},{'id': '43', 'type': 'keyword_argument', 'children': ['44', '45']},{'id': '44', 'type': 'identifier', 'children': [], 'value': 'where'},{'id': '45', 'type': 'string', 'children': [], 'value': "'created_at IS NOT NULL'"},{'id': '46', 'type': 'keyword_argument', 'children': ['47', '48']},{'id': '47', 'type': 'identifier', 'children': [], 'value': 'order'},{'id': '48', 'type': 'string', 'children': [], 'value': "'created_at DESC'"},{'id': '49', 'type': 'keyword_argument', 'children': ['50', '51']},{'id': '50', 'type': 'identifier', 'children': [], 'value': 'limit'},{'id': '51', 'type': 'identifier', 'children': [], 'value': 'limit'} | def last(self, limit=1, **kwargs):
return self.collection_instance(
self.db_adapter(
db_name=kwargs.get('db'),
role=kwargs.get('role', 'replica')
).select(
where='created_at IS NOT NULL',
order='created_at DESC',
limit=limit
)
) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '4']},{'id': '2', 'type': 'function_name', 'children': [], 'value': '_compile_itemsort'},{'id': '3', 'type': 'parameters', 'children': []},{'id': '4', 'type': 'block', 'children': ['5', '7', '16', '27', '38', '50', '60', '79', '106']},{'id': '5', 'type': 'expression_statement', 'children': ['6']},{'id': '6', 'type': 'string', 'children': [], 'value': "'''return sort function of mappings'''"},{'id': '7', 'type': 'function_definition', 'children': ['8', '9', '11']},{'id': '8', 'type': 'function_name', 'children': [], 'value': 'is_extra'},{'id': '9', 'type': 'parameters', 'children': ['10']},{'id': '10', 'type': 'identifier', 'children': [], 'value': 'key_'},{'id': '11', 'type': 'block', 'children': ['12']},{'id': '12', 'type': 'return_statement', 'children': ['13']},{'id': '13', 'type': 'comparison_operator', 'children': ['14', '15'], 'value': 'is'},{'id': '14', 'type': 'identifier', 'children': [], 'value': 'key_'},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'Extra'},{'id': '16', 'type': 'function_definition', 'children': ['17', '18', '20']},{'id': '17', 'type': 'function_name', 'children': [], 'value': 'is_remove'},{'id': '18', 'type': 'parameters', 'children': ['19']},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'key_'},{'id': '20', 'type': 'block', 'children': ['21']},{'id': '21', 'type': 'return_statement', 'children': ['22']},{'id': '22', 'type': 'call', 'children': ['23', '24']},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'isinstance'},{'id': '24', 'type': 'argument_list', 'children': ['25', '26']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'key_'},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'Remove'},{'id': '27', 'type': 'function_definition', 'children': ['28', '29', '31']},{'id': '28', 'type': 'function_name', 'children': [], 'value': 'is_marker'},{'id': '29', 'type': 'parameters', 'children': ['30']},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'key_'},{'id': '31', 'type': 'block', 'children': ['32']},{'id': '32', 'type': 'return_statement', 'children': ['33']},{'id': '33', 'type': 'call', 'children': ['34', '35']},{'id': '34', 'type': 'identifier', 'children': [], 'value': 'isinstance'},{'id': '35', 'type': 'argument_list', 'children': ['36', '37']},{'id': '36', 'type': 'identifier', 'children': [], 'value': 'key_'},{'id': '37', 'type': 'identifier', 'children': [], 'value': 'Marker'},{'id': '38', 'type': 'function_definition', 'children': ['39', '40', '42']},{'id': '39', 'type': 'function_name', 'children': [], 'value': 'is_type'},{'id': '40', 'type': 'parameters', 'children': ['41']},{'id': '41', 'type': 'identifier', 'children': [], 'value': 'key_'},{'id': '42', 'type': 'block', 'children': ['43']},{'id': '43', 'type': 'return_statement', 'children': ['44']},{'id': '44', 'type': 'call', 'children': ['45', '48']},{'id': '45', 'type': 'attribute', 'children': ['46', '47']},{'id': '46', 'type': 'identifier', 'children': [], 'value': 'inspect'},{'id': '47', 'type': 'identifier', 'children': [], 'value': 'isclass'},{'id': '48', 'type': 'argument_list', 'children': ['49']},{'id': '49', 'type': 'identifier', 'children': [], 'value': 'key_'},{'id': '50', 'type': 'function_definition', 'children': ['51', '52', '54']},{'id': '51', 'type': 'function_name', 'children': [], 'value': 'is_callable'},{'id': '52', 'type': 'parameters', 'children': ['53']},{'id': '53', 'type': 'identifier', 'children': [], 'value': 'key_'},{'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': 'callable'},{'id': '58', 'type': 'argument_list', 'children': ['59']},{'id': '59', 'type': 'identifier', 'children': [], 'value': 'key_'},{'id': '60', 'type': 'expression_statement', 'children': ['61']},{'id': '61', 'type': 'assignment', 'children': ['62', '63']},{'id': '62', 'type': 'identifier', 'children': [], 'value': 'priority'},{'id': '63', 'type': 'list', 'children': ['64', '67', '70', '73', '76'], 'value': '[(1, is_remove),\n (2, is_marker),\n (4, is_type),\n (3, is_callable),\n (5, is_extra)]'},{'id': '64', 'type': 'tuple', 'children': ['65', '66']},{'id': '65', 'type': 'integer', 'children': [], 'value': '1'},{'id': '66', 'type': 'identifier', 'children': [], 'value': 'is_remove'},{'id': '67', 'type': 'tuple', 'children': ['68', '69']},{'id': '68', 'type': 'integer', 'children': [], 'value': '2'},{'id': '69', 'type': 'identifier', 'children': [], 'value': 'is_marker'},{'id': '70', 'type': 'tuple', 'children': ['71', '72']},{'id': '71', 'type': 'integer', 'children': [], 'value': '4'},{'id': '72', 'type': 'identifier', 'children': [], 'value': 'is_type'},{'id': '73', 'type': 'tuple', 'children': ['74', '75']},{'id': '74', 'type': 'integer', 'children': [], 'value': '3'},{'id': '75', 'type': 'identifier', 'children': [], 'value': 'is_callable'},{'id': '76', 'type': 'tuple', 'children': ['77', '78']},{'id': '77', 'type': 'integer', 'children': [], 'value': '5'},{'id': '78', 'type': 'identifier', 'children': [], 'value': 'is_extra'},{'id': '79', 'type': 'function_definition', 'children': ['80', '81', '83']},{'id': '80', 'type': 'function_name', 'children': [], 'value': 'item_priority'},{'id': '81', 'type': 'parameters', 'children': ['82']},{'id': '82', 'type': 'identifier', 'children': [], 'value': 'item_'},{'id': '83', 'type': 'block', 'children': ['84', '90', '104']},{'id': '84', 'type': 'expression_statement', 'children': ['85']},{'id': '85', 'type': 'assignment', 'children': ['86', '87']},{'id': '86', 'type': 'identifier', 'children': [], 'value': 'key_'},{'id': '87', 'type': 'subscript', 'children': ['88', '89']},{'id': '88', 'type': 'identifier', 'children': [], 'value': 'item_'},{'id': '89', 'type': 'integer', 'children': [], 'value': '0'},{'id': '90', 'type': 'for_statement', 'children': ['91', '94', '95']},{'id': '91', 'type': 'pattern_list', 'children': ['92', '93']},{'id': '92', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '93', 'type': 'identifier', 'children': [], 'value': 'check_'},{'id': '94', 'type': 'identifier', 'children': [], 'value': 'priority'},{'id': '95', 'type': 'block', 'children': ['96']},{'id': '96', 'type': 'if_statement', 'children': ['97', '101']},{'id': '97', 'type': 'call', 'children': ['98', '99']},{'id': '98', 'type': 'identifier', 'children': [], 'value': 'check_'},{'id': '99', 'type': 'argument_list', 'children': ['100']},{'id': '100', 'type': 'identifier', 'children': [], 'value': 'key_'},{'id': '101', 'type': 'block', 'children': ['102']},{'id': '102', 'type': 'return_statement', 'children': ['103']},{'id': '103', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '104', 'type': 'return_statement', 'children': ['105']},{'id': '105', 'type': 'integer', 'children': [], 'value': '0'},{'id': '106', 'type': 'return_statement', 'children': ['107']},{'id': '107', 'type': 'identifier', 'children': [], 'value': 'item_priority'} | def _compile_itemsort():
'''return sort function of mappings'''
def is_extra(key_):
return key_ is Extra
def is_remove(key_):
return isinstance(key_, Remove)
def is_marker(key_):
return isinstance(key_, Marker)
def is_type(key_):
return inspect.isclass(key_)
def is_callable(key_):
return callable(key_)
priority = [(1, is_remove),
(2, is_marker),
(4, is_type),
(3, is_callable),
(5, is_extra)]
def item_priority(item_):
key_ = item_[0]
for i, check_ in priority:
if check_(key_):
return i
return 0
return item_priority |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '6']},{'id': '2', 'type': 'function_name', 'children': [], 'value': '_compile_dict'},{'id': '3', 'type': 'parameters', 'children': ['4', '5']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'schema'},{'id': '6', 'type': 'block', 'children': ['7', '19', '23', '27', '83', '308']},{'id': '7', 'type': 'expression_statement', 'children': ['8']},{'id': '8', 'type': 'assignment', 'children': ['9', '10']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'base_validate'},{'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': '_compile_mapping'},{'id': '14', 'type': 'argument_list', 'children': ['15', '16']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'schema'},{'id': '16', 'type': 'keyword_argument', 'children': ['17', '18']},{'id': '17', 'type': 'identifier', 'children': [], 'value': 'invalid_msg'},{'id': '18', 'type': 'string', 'children': [], 'value': "'dictionary value'"},{'id': '19', 'type': 'expression_statement', 'children': ['20']},{'id': '20', 'type': 'assignment', 'children': ['21', '22']},{'id': '21', 'type': 'identifier', 'children': [], 'value': 'groups_of_exclusion'},{'id': '22', 'type': 'dictionary', 'children': []},{'id': '23', 'type': 'expression_statement', 'children': ['24']},{'id': '24', 'type': 'assignment', 'children': ['25', '26']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'groups_of_inclusion'},{'id': '26', 'type': 'dictionary', 'children': []},{'id': '27', 'type': 'for_statement', 'children': ['28', '29', '30']},{'id': '28', 'type': 'identifier', 'children': [], 'value': 'node'},{'id': '29', 'type': 'identifier', 'children': [], 'value': 'schema'},{'id': '30', 'type': 'block', 'children': ['31']},{'id': '31', 'type': 'if_statement', 'children': ['32', '37', '57']},{'id': '32', 'type': 'call', 'children': ['33', '34']},{'id': '33', 'type': 'identifier', 'children': [], 'value': 'isinstance'},{'id': '34', 'type': 'argument_list', 'children': ['35', '36']},{'id': '35', 'type': 'identifier', 'children': [], 'value': 'node'},{'id': '36', 'type': 'identifier', 'children': [], 'value': 'Exclusive'},{'id': '37', 'type': 'block', 'children': ['38', '50']},{'id': '38', 'type': 'expression_statement', 'children': ['39']},{'id': '39', 'type': 'assignment', 'children': ['40', '41']},{'id': '40', 'type': 'identifier', 'children': [], 'value': 'g'},{'id': '41', 'type': 'call', 'children': ['42', '45']},{'id': '42', 'type': 'attribute', 'children': ['43', '44']},{'id': '43', 'type': 'identifier', 'children': [], 'value': 'groups_of_exclusion'},{'id': '44', 'type': 'identifier', 'children': [], 'value': 'setdefault'},{'id': '45', 'type': 'argument_list', 'children': ['46', '49']},{'id': '46', 'type': 'attribute', 'children': ['47', '48']},{'id': '47', 'type': 'identifier', 'children': [], 'value': 'node'},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'group_of_exclusion'},{'id': '49', 'type': 'list', 'children': [], 'value': '[]'},{'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': 'g'},{'id': '54', 'type': 'identifier', 'children': [], 'value': 'append'},{'id': '55', 'type': 'argument_list', 'children': ['56']},{'id': '56', 'type': 'identifier', 'children': [], 'value': 'node'},{'id': '57', 'type': 'elif_clause', 'children': ['58', '63']},{'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': 'node'},{'id': '62', 'type': 'identifier', 'children': [], 'value': 'Inclusive'},{'id': '63', 'type': 'block', 'children': ['64', '76']},{'id': '64', 'type': 'expression_statement', 'children': ['65']},{'id': '65', 'type': 'assignment', 'children': ['66', '67']},{'id': '66', 'type': 'identifier', 'children': [], 'value': 'g'},{'id': '67', 'type': 'call', 'children': ['68', '71']},{'id': '68', 'type': 'attribute', 'children': ['69', '70']},{'id': '69', 'type': 'identifier', 'children': [], 'value': 'groups_of_inclusion'},{'id': '70', 'type': 'identifier', 'children': [], 'value': 'setdefault'},{'id': '71', 'type': 'argument_list', 'children': ['72', '75']},{'id': '72', 'type': 'attribute', 'children': ['73', '74']},{'id': '73', 'type': 'identifier', 'children': [], 'value': 'node'},{'id': '74', 'type': 'identifier', 'children': [], 'value': 'group_of_inclusion'},{'id': '75', 'type': 'list', 'children': [], 'value': '[]'},{'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': 'g'},{'id': '80', 'type': 'identifier', 'children': [], 'value': 'append'},{'id': '81', 'type': 'argument_list', 'children': ['82']},{'id': '82', 'type': 'identifier', 'children': [], 'value': 'node'},{'id': '83', 'type': 'function_definition', 'children': ['84', '85', '88']},{'id': '84', 'type': 'function_name', 'children': [], 'value': 'validate_dict'},{'id': '85', 'type': 'parameters', 'children': ['86', '87']},{'id': '86', 'type': 'identifier', 'children': [], 'value': 'path'},{'id': '87', 'type': 'identifier', 'children': [], 'value': 'data'},{'id': '88', 'type': 'block', 'children': ['89', '105', '109', '184', '194', '280', '290', '298']},{'id': '89', 'type': 'if_statement', 'children': ['90', '96']},{'id': '90', 'type': 'not_operator', 'children': ['91']},{'id': '91', 'type': 'call', 'children': ['92', '93']},{'id': '92', 'type': 'identifier', 'children': [], 'value': 'isinstance'},{'id': '93', 'type': 'argument_list', 'children': ['94', '95']},{'id': '94', 'type': 'identifier', 'children': [], 'value': 'data'},{'id': '95', 'type': 'identifier', 'children': [], 'value': 'dict'},{'id': '96', 'type': 'block', 'children': ['97']},{'id': '97', 'type': 'raise_statement', 'children': ['98']},{'id': '98', 'type': 'call', 'children': ['99', '102']},{'id': '99', 'type': 'attribute', 'children': ['100', '101']},{'id': '100', 'type': 'identifier', 'children': [], 'value': 'er'},{'id': '101', 'type': 'identifier', 'children': [], 'value': 'DictInvalid'},{'id': '102', 'type': 'argument_list', 'children': ['103', '104']},{'id': '103', 'type': 'string', 'children': [], 'value': "'expected a dictionary'"},{'id': '104', 'type': 'identifier', 'children': [], 'value': 'path'},{'id': '105', 'type': 'expression_statement', 'children': ['106']},{'id': '106', 'type': 'assignment', 'children': ['107', '108']},{'id': '107', 'type': 'identifier', 'children': [], 'value': 'errors'},{'id': '108', 'type': 'list', 'children': [], 'value': '[]'},{'id': '109', 'type': 'for_statement', 'children': ['110', '113', '118']},{'id': '110', 'type': 'pattern_list', 'children': ['111', '112']},{'id': '111', 'type': 'identifier', 'children': [], 'value': 'label'},{'id': '112', 'type': 'identifier', 'children': [], 'value': 'group'},{'id': '113', 'type': 'call', 'children': ['114', '117']},{'id': '114', 'type': 'attribute', 'children': ['115', '116']},{'id': '115', 'type': 'identifier', 'children': [], 'value': 'groups_of_exclusion'},{'id': '116', 'type': 'identifier', 'children': [], 'value': 'items'},{'id': '117', 'type': 'argument_list', 'children': []},{'id': '118', 'type': 'block', 'children': ['119', '123']},{'id': '119', 'type': 'expression_statement', 'children': ['120']},{'id': '120', 'type': 'assignment', 'children': ['121', '122']},{'id': '121', 'type': 'identifier', 'children': [], 'value': 'exists'},{'id': '122', 'type': 'False', 'children': []},{'id': '123', 'type': 'for_statement', 'children': ['124', '125', '126']},{'id': '124', 'type': 'identifier', 'children': [], 'value': 'exclusive'},{'id': '125', 'type': 'identifier', 'children': [], 'value': 'group'},{'id': '126', 'type': 'block', 'children': ['127']},{'id': '127', 'type': 'if_statement', 'children': ['128', '133']},{'id': '128', 'type': 'comparison_operator', 'children': ['129', '132'], 'value': 'in'},{'id': '129', 'type': 'attribute', 'children': ['130', '131']},{'id': '130', 'type': 'identifier', 'children': [], 'value': 'exclusive'},{'id': '131', 'type': 'identifier', 'children': [], 'value': 'schema'},{'id': '132', 'type': 'identifier', 'children': [], 'value': 'data'},{'id': '133', 'type': 'block', 'children': ['134', '180']},{'id': '134', 'type': 'if_statement', 'children': ['135', '136']},{'id': '135', 'type': 'identifier', 'children': [], 'value': 'exists'},{'id': '136', 'type': 'block', 'children': ['137', '156', '166', '179']},{'id': '137', 'type': 'expression_statement', 'children': ['138']},{'id': '138', 'type': 'assignment', 'children': ['139', '140']},{'id': '139', 'type': 'identifier', 'children': [], 'value': 'msg'},{'id': '140', 'type': 'conditional_expression', 'children': ['141', '144', '153'], 'value': 'if'},{'id': '141', 'type': 'attribute', 'children': ['142', '143']},{'id': '142', 'type': 'identifier', 'children': [], 'value': 'exclusive'},{'id': '143', 'type': 'identifier', 'children': [], 'value': 'msg'},{'id': '144', 'type': 'boolean_operator', 'children': ['145', '150'], 'value': 'and'},{'id': '145', 'type': 'call', 'children': ['146', '147']},{'id': '146', 'type': 'identifier', 'children': [], 'value': 'hasattr'},{'id': '147', 'type': 'argument_list', 'children': ['148', '149']},{'id': '148', 'type': 'identifier', 'children': [], 'value': 'exclusive'},{'id': '149', 'type': 'string', 'children': [], 'value': "'msg'"},{'id': '150', 'type': 'attribute', 'children': ['151', '152']},{'id': '151', 'type': 'identifier', 'children': [], 'value': 'exclusive'},{'id': '152', 'type': 'identifier', 'children': [], 'value': 'msg'},{'id': '153', 'type': 'binary_operator', 'children': ['154', '155'], 'value': '%'},{'id': '154', 'type': 'string', 'children': [], 'value': '"two or more values in the same group of exclusion \'%s\'"'},{'id': '155', 'type': 'identifier', 'children': [], 'value': 'label'},{'id': '156', 'type': 'expression_statement', 'children': ['157']},{'id': '157', 'type': 'assignment', 'children': ['158', '159']},{'id': '158', 'type': 'identifier', 'children': [], 'value': 'next_path'},{'id': '159', 'type': 'binary_operator', 'children': ['160', '161'], 'value': '+'},{'id': '160', 'type': 'identifier', 'children': [], 'value': 'path'},{'id': '161', 'type': 'list', 'children': ['162'], 'value': '[VirtualPathComponent(label)]'},{'id': '162', 'type': 'call', 'children': ['163', '164']},{'id': '163', 'type': 'identifier', 'children': [], 'value': 'VirtualPathComponent'},{'id': '164', 'type': 'argument_list', 'children': ['165']},{'id': '165', 'type': 'identifier', 'children': [], 'value': 'label'},{'id': '166', 'type': 'expression_statement', 'children': ['167']},{'id': '167', 'type': 'call', 'children': ['168', '171']},{'id': '168', 'type': 'attribute', 'children': ['169', '170']},{'id': '169', 'type': 'identifier', 'children': [], 'value': 'errors'},{'id': '170', 'type': 'identifier', 'children': [], 'value': 'append'},{'id': '171', 'type': 'argument_list', 'children': ['172']},{'id': '172', 'type': 'call', 'children': ['173', '176']},{'id': '173', 'type': 'attribute', 'children': ['174', '175']},{'id': '174', 'type': 'identifier', 'children': [], 'value': 'er'},{'id': '175', 'type': 'identifier', 'children': [], 'value': 'ExclusiveInvalid'},{'id': '176', 'type': 'argument_list', 'children': ['177', '178']},{'id': '177', 'type': 'identifier', 'children': [], 'value': 'msg'},{'id': '178', 'type': 'identifier', 'children': [], 'value': 'next_path'},{'id': '179', 'type': 'break_statement', 'children': []},{'id': '180', 'type': 'expression_statement', 'children': ['181']},{'id': '181', 'type': 'assignment', 'children': ['182', '183']},{'id': '182', 'type': 'identifier', 'children': [], 'value': 'exists'},{'id': '183', 'type': 'True', 'children': []},{'id': '184', 'type': 'if_statement', 'children': ['185', '186']},{'id': '185', 'type': 'identifier', 'children': [], 'value': 'errors'},{'id': '186', 'type': 'block', 'children': ['187']},{'id': '187', 'type': 'raise_statement', 'children': ['188']},{'id': '188', 'type': 'call', 'children': ['189', '192']},{'id': '189', 'type': 'attribute', 'children': ['190', '191']},{'id': '190', 'type': 'identifier', 'children': [], 'value': 'er'},{'id': '191', 'type': 'identifier', 'children': [], 'value': 'MultipleInvalid'},{'id': '192', 'type': 'argument_list', 'children': ['193']},{'id': '193', 'type': 'identifier', 'children': [], 'value': 'errors'},{'id': '194', 'type': 'for_statement', 'children': ['195', '198', '203']},{'id': '195', 'type': 'pattern_list', 'children': ['196', '197']},{'id': '196', 'type': 'identifier', 'children': [], 'value': 'label'},{'id': '197', 'type': 'identifier', 'children': [], 'value': 'group'},{'id': '198', 'type': 'call', 'children': ['199', '202']},{'id': '199', 'type': 'attribute', 'children': ['200', '201']},{'id': '200', 'type': 'identifier', 'children': [], 'value': 'groups_of_inclusion'},{'id': '201', 'type': 'identifier', 'children': [], 'value': 'items'},{'id': '202', 'type': 'argument_list', 'children': []},{'id': '203', 'type': 'block', 'children': ['204', '216']},{'id': '204', 'type': 'expression_statement', 'children': ['205']},{'id': '205', 'type': 'assignment', 'children': ['206', '207']},{'id': '206', 'type': 'identifier', 'children': [], 'value': 'included'},{'id': '207', 'type': 'list_comprehension', 'children': ['208', '213']},{'id': '208', 'type': 'comparison_operator', 'children': ['209', '212'], 'value': 'in'},{'id': '209', 'type': 'attribute', 'children': ['210', '211']},{'id': '210', 'type': 'identifier', 'children': [], 'value': 'node'},{'id': '211', 'type': 'identifier', 'children': [], 'value': 'schema'},{'id': '212', 'type': 'identifier', 'children': [], 'value': 'data'},{'id': '213', 'type': 'for_in_clause', 'children': ['214', '215']},{'id': '214', 'type': 'identifier', 'children': [], 'value': 'node'},{'id': '215', 'type': 'identifier', 'children': [], 'value': 'group'},{'id': '216', 'type': 'if_statement', 'children': ['217', '227']},{'id': '217', 'type': 'boolean_operator', 'children': ['218', '222'], 'value': 'and'},{'id': '218', 'type': 'call', 'children': ['219', '220']},{'id': '219', 'type': 'identifier', 'children': [], 'value': 'any'},{'id': '220', 'type': 'argument_list', 'children': ['221']},{'id': '221', 'type': 'identifier', 'children': [], 'value': 'included'},{'id': '222', 'type': 'not_operator', 'children': ['223']},{'id': '223', 'type': 'call', 'children': ['224', '225']},{'id': '224', 'type': 'identifier', 'children': [], 'value': 'all'},{'id': '225', 'type': 'argument_list', 'children': ['226']},{'id': '226', 'type': 'identifier', 'children': [], 'value': 'included'},{'id': '227', 'type': 'block', 'children': ['228', '234', '256', '266', '279']},{'id': '228', 'type': 'expression_statement', 'children': ['229']},{'id': '229', 'type': 'assignment', 'children': ['230', '231']},{'id': '230', 'type': 'identifier', 'children': [], 'value': 'msg'},{'id': '231', 'type': 'binary_operator', 'children': ['232', '233'], 'value': '%'},{'id': '232', 'type': 'string', 'children': [], 'value': '"some but not all values in the same group of inclusion \'%s\'"'},{'id': '233', 'type': 'identifier', 'children': [], 'value': 'label'},{'id': '234', 'type': 'for_statement', 'children': ['235', '236', '237']},{'id': '235', 'type': 'identifier', 'children': [], 'value': 'g'},{'id': '236', 'type': 'identifier', 'children': [], 'value': 'group'},{'id': '237', 'type': 'block', 'children': ['238']},{'id': '238', 'type': 'if_statement', 'children': ['239', '248']},{'id': '239', 'type': 'boolean_operator', 'children': ['240', '245'], 'value': 'and'},{'id': '240', 'type': 'call', 'children': ['241', '242']},{'id': '241', 'type': 'identifier', 'children': [], 'value': 'hasattr'},{'id': '242', 'type': 'argument_list', 'children': ['243', '244']},{'id': '243', 'type': 'identifier', 'children': [], 'value': 'g'},{'id': '244', 'type': 'string', 'children': [], 'value': "'msg'"},{'id': '245', 'type': 'attribute', 'children': ['246', '247']},{'id': '246', 'type': 'identifier', 'children': [], 'value': 'g'},{'id': '247', 'type': 'identifier', 'children': [], 'value': 'msg'},{'id': '248', 'type': 'block', 'children': ['249', '255']},{'id': '249', 'type': 'expression_statement', 'children': ['250']},{'id': '250', 'type': 'assignment', 'children': ['251', '252']},{'id': '251', 'type': 'identifier', 'children': [], 'value': 'msg'},{'id': '252', 'type': 'attribute', 'children': ['253', '254']},{'id': '253', 'type': 'identifier', 'children': [], 'value': 'g'},{'id': '254', 'type': 'identifier', 'children': [], 'value': 'msg'},{'id': '255', 'type': 'break_statement', 'children': []},{'id': '256', 'type': 'expression_statement', 'children': ['257']},{'id': '257', 'type': 'assignment', 'children': ['258', '259']},{'id': '258', 'type': 'identifier', 'children': [], 'value': 'next_path'},{'id': '259', 'type': 'binary_operator', 'children': ['260', '261'], 'value': '+'},{'id': '260', 'type': 'identifier', 'children': [], 'value': 'path'},{'id': '261', 'type': 'list', 'children': ['262'], 'value': '[VirtualPathComponent(label)]'},{'id': '262', 'type': 'call', 'children': ['263', '264']},{'id': '263', 'type': 'identifier', 'children': [], 'value': 'VirtualPathComponent'},{'id': '264', 'type': 'argument_list', 'children': ['265']},{'id': '265', 'type': 'identifier', 'children': [], 'value': 'label'},{'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': 'errors'},{'id': '270', 'type': 'identifier', 'children': [], 'value': 'append'},{'id': '271', 'type': 'argument_list', 'children': ['272']},{'id': '272', 'type': 'call', 'children': ['273', '276']},{'id': '273', 'type': 'attribute', 'children': ['274', '275']},{'id': '274', 'type': 'identifier', 'children': [], 'value': 'er'},{'id': '275', 'type': 'identifier', 'children': [], 'value': 'InclusiveInvalid'},{'id': '276', 'type': 'argument_list', 'children': ['277', '278']},{'id': '277', 'type': 'identifier', 'children': [], 'value': 'msg'},{'id': '278', 'type': 'identifier', 'children': [], 'value': 'next_path'},{'id': '279', 'type': 'break_statement', 'children': []},{'id': '280', 'type': 'if_statement', 'children': ['281', '282']},{'id': '281', 'type': 'identifier', 'children': [], 'value': 'errors'},{'id': '282', 'type': 'block', 'children': ['283']},{'id': '283', 'type': 'raise_statement', 'children': ['284']},{'id': '284', 'type': 'call', 'children': ['285', '288']},{'id': '285', 'type': 'attribute', 'children': ['286', '287']},{'id': '286', 'type': 'identifier', 'children': [], 'value': 'er'},{'id': '287', 'type': 'identifier', 'children': [], 'value': 'MultipleInvalid'},{'id': '288', 'type': 'argument_list', 'children': ['289']},{'id': '289', 'type': 'identifier', 'children': [], 'value': 'errors'},{'id': '290', 'type': 'expression_statement', 'children': ['291']},{'id': '291', 'type': 'assignment', 'children': ['292', '293']},{'id': '292', 'type': 'identifier', 'children': [], 'value': 'out'},{'id': '293', 'type': 'call', 'children': ['294', '297']},{'id': '294', 'type': 'attribute', 'children': ['295', '296']},{'id': '295', 'type': 'identifier', 'children': [], 'value': 'data'},{'id': '296', 'type': 'identifier', 'children': [], 'value': '__class__'},{'id': '297', 'type': 'argument_list', 'children': []},{'id': '298', 'type': 'return_statement', 'children': ['299']},{'id': '299', 'type': 'call', 'children': ['300', '301']},{'id': '300', 'type': 'identifier', 'children': [], 'value': 'base_validate'},{'id': '301', 'type': 'argument_list', 'children': ['302', '303', '307']},{'id': '302', 'type': 'identifier', 'children': [], 'value': 'path'},{'id': '303', 'type': 'call', 'children': ['304', '305']},{'id': '304', 'type': 'identifier', 'children': [], 'value': 'iteritems'},{'id': '305', 'type': 'argument_list', 'children': ['306']},{'id': '306', 'type': 'identifier', 'children': [], 'value': 'data'},{'id': '307', 'type': 'identifier', 'children': [], 'value': 'out'},{'id': '308', 'type': 'return_statement', 'children': ['309']},{'id': '309', 'type': 'identifier', 'children': [], 'value': 'validate_dict'} | def _compile_dict(self, schema):
base_validate = self._compile_mapping(
schema, invalid_msg='dictionary value')
groups_of_exclusion = {}
groups_of_inclusion = {}
for node in schema:
if isinstance(node, Exclusive):
g = groups_of_exclusion.setdefault(node.group_of_exclusion, [])
g.append(node)
elif isinstance(node, Inclusive):
g = groups_of_inclusion.setdefault(node.group_of_inclusion, [])
g.append(node)
def validate_dict(path, data):
if not isinstance(data, dict):
raise er.DictInvalid('expected a dictionary', path)
errors = []
for label, group in groups_of_exclusion.items():
exists = False
for exclusive in group:
if exclusive.schema in data:
if exists:
msg = exclusive.msg if hasattr(exclusive, 'msg') and exclusive.msg else \
"two or more values in the same group of exclusion '%s'" % label
next_path = path + [VirtualPathComponent(label)]
errors.append(er.ExclusiveInvalid(msg, next_path))
break
exists = True
if errors:
raise er.MultipleInvalid(errors)
for label, group in groups_of_inclusion.items():
included = [node.schema in data for node in group]
if any(included) and not all(included):
msg = "some but not all values in the same group of inclusion '%s'" % label
for g in group:
if hasattr(g, 'msg') and g.msg:
msg = g.msg
break
next_path = path + [VirtualPathComponent(label)]
errors.append(er.InclusiveInvalid(msg, next_path))
break
if errors:
raise er.MultipleInvalid(errors)
out = data.__class__()
return base_validate(path, iteritems(data), out)
return validate_dict |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '6']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'to_list'},{'id': '3', 'type': 'parameters', 'children': ['4', '5']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'length'},{'id': '6', 'type': 'block', 'children': ['7', '37', '57', '72', '115']},{'id': '7', 'type': 'if_statement', 'children': ['8', '11']},{'id': '8', 'type': 'comparison_operator', 'children': ['9', '10'], 'value': 'is'},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'length'},{'id': '10', 'type': 'None', 'children': []},{'id': '11', 'type': 'block', 'children': ['12']},{'id': '12', 'type': 'if_statement', 'children': ['13', '19', '27']},{'id': '13', 'type': 'not_operator', 'children': ['14']},{'id': '14', 'type': 'call', 'children': ['15', '16']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'isinstance'},{'id': '16', 'type': 'argument_list', 'children': ['17', '18']},{'id': '17', 'type': 'identifier', 'children': [], 'value': 'length'},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'int'},{'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': 'TypeError'},{'id': '23', 'type': 'argument_list', 'children': ['24']},{'id': '24', 'type': 'binary_operator', 'children': ['25', '26'], 'value': '%'},{'id': '25', 'type': 'string', 'children': [], 'value': "'length must be an int, not %r'"},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'length'},{'id': '27', 'type': 'elif_clause', 'children': ['28', '31']},{'id': '28', 'type': 'comparison_operator', 'children': ['29', '30'], 'value': '<'},{'id': '29', 'type': 'identifier', 'children': [], 'value': 'length'},{'id': '30', 'type': 'integer', 'children': [], 'value': '0'},{'id': '31', 'type': 'block', 'children': ['32']},{'id': '32', 'type': 'raise_statement', 'children': ['33']},{'id': '33', 'type': 'call', 'children': ['34', '35']},{'id': '34', 'type': 'identifier', 'children': [], 'value': 'ValueError'},{'id': '35', 'type': 'argument_list', 'children': ['36']},{'id': '36', 'type': 'string', 'children': [], 'value': "'length must be non-negative'"},{'id': '37', 'type': 'if_statement', 'children': ['38', '47']},{'id': '38', 'type': 'binary_operator', 'children': ['39', '44'], 'value': '&'},{'id': '39', 'type': 'call', 'children': ['40', '43']},{'id': '40', 'type': 'attribute', 'children': ['41', '42']},{'id': '41', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '42', 'type': 'identifier', 'children': [], 'value': '_query_flags'},{'id': '43', 'type': 'argument_list', 'children': []},{'id': '44', 'type': 'subscript', 'children': ['45', '46']},{'id': '45', 'type': 'identifier', 'children': [], 'value': '_QUERY_OPTIONS'},{'id': '46', 'type': 'string', 'children': [], 'value': "'tailable_cursor'"},{'id': '47', 'type': 'block', 'children': ['48']},{'id': '48', 'type': 'raise_statement', 'children': ['49']},{'id': '49', 'type': 'call', 'children': ['50', '55']},{'id': '50', 'type': 'attribute', 'children': ['51', '54']},{'id': '51', 'type': 'attribute', 'children': ['52', '53']},{'id': '52', 'type': 'identifier', 'children': [], 'value': 'pymongo'},{'id': '53', 'type': 'identifier', 'children': [], 'value': 'errors'},{'id': '54', 'type': 'identifier', 'children': [], 'value': 'InvalidOperation'},{'id': '55', 'type': 'argument_list', 'children': ['56']},{'id': '56', 'type': 'string', 'children': [], 'value': '"Can\'t call to_list on tailable cursor"'},{'id': '57', 'type': 'expression_statement', 'children': ['58']},{'id': '58', 'type': 'assignment', 'children': ['59', '60']},{'id': '59', 'type': 'identifier', 'children': [], 'value': 'future'},{'id': '60', 'type': 'call', 'children': ['61', '66']},{'id': '61', 'type': 'attribute', 'children': ['62', '65']},{'id': '62', 'type': 'attribute', 'children': ['63', '64']},{'id': '63', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '64', 'type': 'identifier', 'children': [], 'value': '_framework'},{'id': '65', 'type': 'identifier', 'children': [], 'value': 'get_future'},{'id': '66', 'type': 'argument_list', 'children': ['67']},{'id': '67', 'type': 'call', 'children': ['68', '71']},{'id': '68', 'type': 'attribute', 'children': ['69', '70']},{'id': '69', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '70', 'type': 'identifier', 'children': [], 'value': 'get_io_loop'},{'id': '71', 'type': 'argument_list', 'children': []},{'id': '72', 'type': 'if_statement', 'children': ['73', '77', '85']},{'id': '73', 'type': 'not_operator', 'children': ['74']},{'id': '74', 'type': 'attribute', 'children': ['75', '76']},{'id': '75', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '76', 'type': 'identifier', 'children': [], 'value': 'alive'},{'id': '77', 'type': 'block', 'children': ['78']},{'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': 'future'},{'id': '82', 'type': 'identifier', 'children': [], 'value': 'set_result'},{'id': '83', 'type': 'argument_list', 'children': ['84']},{'id': '84', 'type': 'list', 'children': [], 'value': '[]'},{'id': '85', 'type': 'else_clause', 'children': ['86']},{'id': '86', 'type': 'block', 'children': ['87', '91']},{'id': '87', 'type': 'expression_statement', 'children': ['88']},{'id': '88', 'type': 'assignment', 'children': ['89', '90']},{'id': '89', 'type': 'identifier', 'children': [], 'value': 'the_list'},{'id': '90', 'type': 'list', 'children': [], 'value': '[]'},{'id': '91', 'type': 'expression_statement', 'children': ['92']},{'id': '92', 'type': 'call', 'children': ['93', '98']},{'id': '93', 'type': 'attribute', 'children': ['94', '97']},{'id': '94', 'type': 'attribute', 'children': ['95', '96']},{'id': '95', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '96', 'type': 'identifier', 'children': [], 'value': '_framework'},{'id': '97', 'type': 'identifier', 'children': [], 'value': 'add_future'},{'id': '98', 'type': 'argument_list', 'children': ['99', '104', '109', '112', '113', '114']},{'id': '99', 'type': 'call', 'children': ['100', '103']},{'id': '100', 'type': 'attribute', 'children': ['101', '102']},{'id': '101', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '102', 'type': 'identifier', 'children': [], 'value': 'get_io_loop'},{'id': '103', 'type': 'argument_list', 'children': []},{'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': '_get_more'},{'id': '108', 'type': 'argument_list', 'children': []},{'id': '109', 'type': 'attribute', 'children': ['110', '111']},{'id': '110', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '111', 'type': 'identifier', 'children': [], 'value': '_to_list'},{'id': '112', 'type': 'identifier', 'children': [], 'value': 'length'},{'id': '113', 'type': 'identifier', 'children': [], 'value': 'the_list'},{'id': '114', 'type': 'identifier', 'children': [], 'value': 'future'},{'id': '115', 'type': 'return_statement', 'children': ['116']},{'id': '116', 'type': 'identifier', 'children': [], 'value': 'future'} | def to_list(self, length):
if length is not None:
if not isinstance(length, int):
raise TypeError('length must be an int, not %r' % length)
elif length < 0:
raise ValueError('length must be non-negative')
if self._query_flags() & _QUERY_OPTIONS['tailable_cursor']:
raise pymongo.errors.InvalidOperation(
"Can't call to_list on tailable cursor")
future = self._framework.get_future(self.get_io_loop())
if not self.alive:
future.set_result([])
else:
the_list = []
self._framework.add_future(
self.get_io_loop(),
self._get_more(),
self._to_list, length, the_list, future)
return future |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '9']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'find'},{'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', '37']},{'id': '10', 'type': 'expression_statement', 'children': ['11']},{'id': '11', 'type': 'assignment', 'children': ['12', '13']},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'cursor'},{'id': '13', 'type': 'call', 'children': ['14', '19']},{'id': '14', 'type': 'attribute', 'children': ['15', '18']},{'id': '15', 'type': 'attribute', 'children': ['16', '17']},{'id': '16', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '17', 'type': 'identifier', 'children': [], 'value': 'delegate'},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'find'},{'id': '19', 'type': 'argument_list', 'children': ['20', '22']},{'id': '20', 'type': 'list_splat', 'children': ['21']},{'id': '21', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '22', 'type': 'dictionary_splat', 'children': ['23']},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'kwargs'},{'id': '24', 'type': 'expression_statement', 'children': ['25']},{'id': '25', 'type': 'assignment', 'children': ['26', '27']},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'grid_out_cursor'},{'id': '27', 'type': 'call', 'children': ['28', '29']},{'id': '28', 'type': 'identifier', 'children': [], 'value': 'create_class_with_framework'},{'id': '29', 'type': 'argument_list', 'children': ['30', '31', '34']},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'AgnosticGridOutCursor'},{'id': '31', 'type': 'attribute', 'children': ['32', '33']},{'id': '32', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '33', 'type': 'identifier', 'children': [], 'value': '_framework'},{'id': '34', 'type': 'attribute', 'children': ['35', '36']},{'id': '35', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '36', 'type': 'identifier', 'children': [], 'value': '__module__'},{'id': '37', 'type': 'return_statement', 'children': ['38']},{'id': '38', 'type': 'call', 'children': ['39', '40']},{'id': '39', 'type': 'identifier', 'children': [], 'value': 'grid_out_cursor'},{'id': '40', 'type': 'argument_list', 'children': ['41', '42']},{'id': '41', 'type': 'identifier', 'children': [], 'value': 'cursor'},{'id': '42', 'type': 'attribute', 'children': ['43', '44']},{'id': '43', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '44', 'type': 'identifier', 'children': [], 'value': 'collection'} | def find(self, *args, **kwargs):
cursor = self.delegate.find(*args, **kwargs)
grid_out_cursor = create_class_with_framework(
AgnosticGridOutCursor, self._framework, self.__module__)
return grid_out_cursor(cursor, self.collection) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']},{'id': '2', 'type': 'function_name', 'children': [], 'value': '_serial_poller'},{'id': '3', 'type': 'parameters', 'children': ['4']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'block', 'children': ['6', '199']},{'id': '6', 'type': 'while_statement', 'children': ['7', '8']},{'id': '7', 'type': 'True', 'children': []},{'id': '8', 'type': 'block', 'children': ['9', '23']},{'id': '9', 'type': 'expression_statement', 'children': ['10']},{'id': '10', 'type': 'assignment', 'children': ['11', '12']},{'id': '11', 'type': 'identifier', 'children': [], 'value': '_next'},{'id': '12', 'type': 'call', 'children': ['13', '14']},{'id': '13', 'type': 'identifier', 'children': [], 'value': 'dict'},{'id': '14', 'type': 'argument_list', 'children': ['15']},{'id': '15', 'type': 'call', 'children': ['16', '21']},{'id': '16', 'type': 'attribute', 'children': ['17', '20']},{'id': '17', 'type': 'attribute', 'children': ['18', '19']},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '19', 'type': 'identifier', 'children': [], 'value': '_poller'},{'id': '20', 'type': 'identifier', 'children': [], 'value': 'poll'},{'id': '21', 'type': 'argument_list', 'children': ['22']},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'POLLING_FREQUENCY_MS'},{'id': '23', 'type': 'if_statement', 'children': ['24', '33', '58', '102', '164']},{'id': '24', 'type': 'comparison_operator', 'children': ['25', '32'], 'value': 'in'},{'id': '25', 'type': 'call', 'children': ['26', '31']},{'id': '26', 'type': 'attribute', 'children': ['27', '30']},{'id': '27', 'type': 'attribute', 'children': ['28', '29']},{'id': '28', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '29', 'type': 'identifier', 'children': [], 'value': '_halt_read_file'},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'fileno'},{'id': '31', 'type': 'argument_list', 'children': []},{'id': '32', 'type': 'identifier', 'children': [], 'value': '_next'},{'id': '33', 'type': 'block', 'children': ['34', '49', '57']},{'id': '34', 'type': 'expression_statement', 'children': ['35']},{'id': '35', 'type': 'call', 'children': ['36', '39']},{'id': '36', 'type': 'attribute', 'children': ['37', '38']},{'id': '37', 'type': 'identifier', 'children': [], 'value': 'log'},{'id': '38', 'type': 'identifier', 'children': [], 'value': 'debug'},{'id': '39', 'type': 'argument_list', 'children': ['40']},{'id': '40', 'type': 'call', 'children': ['41', '44']},{'id': '41', 'type': 'attribute', 'children': ['42', '43']},{'id': '42', 'type': 'string', 'children': [], 'value': '"Poller [{}]: halt"'},{'id': '43', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '44', 'type': 'argument_list', 'children': ['45']},{'id': '45', 'type': 'call', 'children': ['46', '47']},{'id': '46', 'type': 'identifier', 'children': [], 'value': 'hash'},{'id': '47', 'type': 'argument_list', 'children': ['48']},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '49', 'type': 'expression_statement', 'children': ['50']},{'id': '50', 'type': 'call', 'children': ['51', '56']},{'id': '51', 'type': 'attribute', 'children': ['52', '55']},{'id': '52', 'type': 'attribute', 'children': ['53', '54']},{'id': '53', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '54', 'type': 'identifier', 'children': [], 'value': '_halt_read_file'},{'id': '55', 'type': 'identifier', 'children': [], 'value': 'read'},{'id': '56', 'type': 'argument_list', 'children': []},{'id': '57', 'type': 'break_statement', 'children': []},{'id': '58', 'type': 'elif_clause', 'children': ['59', '68']},{'id': '59', 'type': 'comparison_operator', 'children': ['60', '67'], 'value': 'in'},{'id': '60', 'type': 'call', 'children': ['61', '66']},{'id': '61', 'type': 'attribute', 'children': ['62', '65']},{'id': '62', 'type': 'attribute', 'children': ['63', '64']},{'id': '63', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '64', 'type': 'identifier', 'children': [], 'value': '_connection'},{'id': '65', 'type': 'identifier', 'children': [], 'value': 'fileno'},{'id': '66', 'type': 'argument_list', 'children': []},{'id': '67', 'type': 'identifier', 'children': [], 'value': '_next'},{'id': '68', 'type': 'block', 'children': ['69', '84', '95']},{'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': 'log'},{'id': '73', 'type': 'identifier', 'children': [], 'value': 'debug'},{'id': '74', 'type': 'argument_list', 'children': ['75']},{'id': '75', 'type': 'call', 'children': ['76', '79']},{'id': '76', 'type': 'attribute', 'children': ['77', '78']},{'id': '77', 'type': 'string', 'children': [], 'value': '"Poller [{}]: interrupt"'},{'id': '78', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '79', 'type': 'argument_list', 'children': ['80']},{'id': '80', 'type': 'call', 'children': ['81', '82']},{'id': '81', 'type': 'identifier', 'children': [], 'value': 'hash'},{'id': '82', 'type': 'argument_list', 'children': ['83']},{'id': '83', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '84', 'type': 'expression_statement', 'children': ['85']},{'id': '85', 'type': 'assignment', 'children': ['86', '87']},{'id': '86', 'type': 'identifier', 'children': [], 'value': 'res'},{'id': '87', 'type': 'call', 'children': ['88', '93']},{'id': '88', 'type': 'attribute', 'children': ['89', '92']},{'id': '89', 'type': 'attribute', 'children': ['90', '91']},{'id': '90', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '91', 'type': 'identifier', 'children': [], 'value': '_connection'},{'id': '92', 'type': 'identifier', 'children': [], 'value': 'read_until'},{'id': '93', 'type': 'argument_list', 'children': ['94']},{'id': '94', 'type': 'identifier', 'children': [], 'value': 'SERIAL_ACK'},{'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': '_interrupt_callback'},{'id': '100', 'type': 'argument_list', 'children': ['101']},{'id': '101', 'type': 'identifier', 'children': [], 'value': 'res'},{'id': '102', 'type': 'elif_clause', 'children': ['103', '112']},{'id': '103', 'type': 'comparison_operator', 'children': ['104', '111'], 'value': 'in'},{'id': '104', 'type': 'call', 'children': ['105', '110']},{'id': '105', 'type': 'attribute', 'children': ['106', '109']},{'id': '106', 'type': 'attribute', 'children': ['107', '108']},{'id': '107', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '108', 'type': 'identifier', 'children': [], 'value': '_send_read_file'},{'id': '109', 'type': 'identifier', 'children': [], 'value': 'fileno'},{'id': '110', 'type': 'argument_list', 'children': []},{'id': '111', 'type': 'identifier', 'children': [], 'value': '_next'},{'id': '112', 'type': 'block', 'children': ['113', '122', '134', '150', '159']},{'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': 'self'},{'id': '118', 'type': 'identifier', 'children': [], 'value': '_send_read_file'},{'id': '119', 'type': 'identifier', 'children': [], 'value': 'read'},{'id': '120', 'type': 'argument_list', 'children': ['121']},{'id': '121', 'type': 'integer', 'children': [], 'value': '1'},{'id': '122', 'type': 'expression_statement', 'children': ['123']},{'id': '123', 'type': 'assignment', 'children': ['124', '127']},{'id': '124', 'type': 'pattern_list', 'children': ['125', '126']},{'id': '125', 'type': 'identifier', 'children': [], 'value': 'command'},{'id': '126', 'type': 'identifier', 'children': [], 'value': 'callback'},{'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': 'self'},{'id': '131', 'type': 'identifier', 'children': [], 'value': '_command_queue'},{'id': '132', 'type': 'identifier', 'children': [], 'value': 'get'},{'id': '133', 'type': 'argument_list', 'children': []},{'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': 'log'},{'id': '138', 'type': 'identifier', 'children': [], 'value': 'debug'},{'id': '139', 'type': 'argument_list', 'children': ['140']},{'id': '140', 'type': 'call', 'children': ['141', '144']},{'id': '141', 'type': 'attribute', 'children': ['142', '143']},{'id': '142', 'type': 'string', 'children': [], 'value': '"Poller [{}]: send {}"'},{'id': '143', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '144', 'type': 'argument_list', 'children': ['145', '149']},{'id': '145', 'type': 'call', 'children': ['146', '147']},{'id': '146', 'type': 'identifier', 'children': [], 'value': 'hash'},{'id': '147', 'type': 'argument_list', 'children': ['148']},{'id': '148', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '149', 'type': 'identifier', 'children': [], 'value': 'command'},{'id': '150', 'type': 'expression_statement', 'children': ['151']},{'id': '151', 'type': 'assignment', 'children': ['152', '153']},{'id': '152', 'type': 'identifier', 'children': [], 'value': 'res'},{'id': '153', 'type': 'call', 'children': ['154', '157']},{'id': '154', 'type': 'attribute', 'children': ['155', '156']},{'id': '155', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '156', 'type': 'identifier', 'children': [], 'value': '_send_command'},{'id': '157', 'type': 'argument_list', 'children': ['158']},{'id': '158', 'type': 'identifier', 'children': [], 'value': 'command'},{'id': '159', 'type': 'expression_statement', 'children': ['160']},{'id': '160', 'type': 'call', 'children': ['161', '162']},{'id': '161', 'type': 'identifier', 'children': [], 'value': 'callback'},{'id': '162', 'type': 'argument_list', 'children': ['163']},{'id': '163', 'type': 'identifier', 'children': [], 'value': 'res'},{'id': '164', 'type': 'else_clause', 'children': ['165']},{'id': '165', 'type': 'block', 'children': ['166', '181', '192']},{'id': '166', 'type': 'expression_statement', 'children': ['167']},{'id': '167', 'type': 'call', 'children': ['168', '171']},{'id': '168', 'type': 'attribute', 'children': ['169', '170']},{'id': '169', 'type': 'identifier', 'children': [], 'value': 'log'},{'id': '170', 'type': 'identifier', 'children': [], 'value': 'debug'},{'id': '171', 'type': 'argument_list', 'children': ['172']},{'id': '172', 'type': 'call', 'children': ['173', '176']},{'id': '173', 'type': 'attribute', 'children': ['174', '175']},{'id': '174', 'type': 'string', 'children': [], 'value': '"Poller [{}]: updating temp"'},{'id': '175', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '176', 'type': 'argument_list', 'children': ['177']},{'id': '177', 'type': 'call', 'children': ['178', '179']},{'id': '178', 'type': 'identifier', 'children': [], 'value': 'hash'},{'id': '179', 'type': 'argument_list', 'children': ['180']},{'id': '180', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '181', 'type': 'expression_statement', 'children': ['182']},{'id': '182', 'type': 'assignment', 'children': ['183', '184']},{'id': '183', 'type': 'identifier', 'children': [], 'value': 'res'},{'id': '184', 'type': 'call', 'children': ['185', '188']},{'id': '185', 'type': 'attribute', 'children': ['186', '187']},{'id': '186', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '187', 'type': 'identifier', 'children': [], 'value': '_send_command'},{'id': '188', 'type': 'argument_list', 'children': ['189']},{'id': '189', 'type': 'subscript', 'children': ['190', '191']},{'id': '190', 'type': 'identifier', 'children': [], 'value': 'GCODES'},{'id': '191', 'type': 'string', 'children': [], 'value': "'GET_PLATE_TEMP'"},{'id': '192', 'type': 'expression_statement', 'children': ['193']},{'id': '193', 'type': 'call', 'children': ['194', '197']},{'id': '194', 'type': 'attribute', 'children': ['195', '196']},{'id': '195', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '196', 'type': 'identifier', 'children': [], 'value': '_status_callback'},{'id': '197', 'type': 'argument_list', 'children': ['198']},{'id': '198', 'type': 'identifier', 'children': [], 'value': 'res'},{'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': 'log'},{'id': '203', 'type': 'identifier', 'children': [], 'value': 'info'},{'id': '204', 'type': 'argument_list', 'children': ['205']},{'id': '205', 'type': 'call', 'children': ['206', '209']},{'id': '206', 'type': 'attribute', 'children': ['207', '208']},{'id': '207', 'type': 'string', 'children': [], 'value': '"Exiting TC poller loop [{}]"'},{'id': '208', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '209', 'type': 'argument_list', 'children': ['210']},{'id': '210', 'type': 'call', 'children': ['211', '212']},{'id': '211', 'type': 'identifier', 'children': [], 'value': 'hash'},{'id': '212', 'type': 'argument_list', 'children': ['213']},{'id': '213', 'type': 'identifier', 'children': [], 'value': 'self'} | def _serial_poller(self):
while True:
_next = dict(self._poller.poll(POLLING_FREQUENCY_MS))
if self._halt_read_file.fileno() in _next:
log.debug("Poller [{}]: halt".format(hash(self)))
self._halt_read_file.read()
break
elif self._connection.fileno() in _next:
log.debug("Poller [{}]: interrupt".format(hash(self)))
res = self._connection.read_until(SERIAL_ACK)
self._interrupt_callback(res)
elif self._send_read_file.fileno() in _next:
self._send_read_file.read(1)
command, callback = self._command_queue.get()
log.debug("Poller [{}]: send {}".format(hash(self), command))
res = self._send_command(command)
callback(res)
else:
log.debug("Poller [{}]: updating temp".format(hash(self)))
res = self._send_command(GCODES['GET_PLATE_TEMP'])
self._status_callback(res)
log.info("Exiting TC poller loop [{}]".format(hash(self))) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '11']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'enqueue_at'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '7', '9']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'scheduled_time'},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'func'},{'id': '7', 'type': 'list_splat_pattern', 'children': ['8']},{'id': '8', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '9', 'type': 'dictionary_splat_pattern', 'children': ['10']},{'id': '10', 'type': 'identifier', 'children': [], 'value': 'kwargs'},{'id': '11', 'type': 'block', 'children': ['12', '22', '32', '42', '52', '62', '72', '105', '125']},{'id': '12', 'type': 'expression_statement', 'children': ['13']},{'id': '13', 'type': 'assignment', 'children': ['14', '15']},{'id': '14', 'type': 'identifier', 'children': [], 'value': 'timeout'},{'id': '15', 'type': 'call', 'children': ['16', '19']},{'id': '16', 'type': 'attribute', 'children': ['17', '18']},{'id': '17', 'type': 'identifier', 'children': [], 'value': 'kwargs'},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'pop'},{'id': '19', 'type': 'argument_list', 'children': ['20', '21']},{'id': '20', 'type': 'string', 'children': [], 'value': "'timeout'"},{'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': 'job_id'},{'id': '25', 'type': 'call', 'children': ['26', '29']},{'id': '26', 'type': 'attribute', 'children': ['27', '28']},{'id': '27', 'type': 'identifier', 'children': [], 'value': 'kwargs'},{'id': '28', 'type': 'identifier', 'children': [], 'value': 'pop'},{'id': '29', 'type': 'argument_list', 'children': ['30', '31']},{'id': '30', 'type': 'string', 'children': [], 'value': "'job_id'"},{'id': '31', 'type': 'None', 'children': []},{'id': '32', 'type': 'expression_statement', 'children': ['33']},{'id': '33', 'type': 'assignment', 'children': ['34', '35']},{'id': '34', 'type': 'identifier', 'children': [], 'value': 'job_ttl'},{'id': '35', 'type': 'call', 'children': ['36', '39']},{'id': '36', 'type': 'attribute', 'children': ['37', '38']},{'id': '37', 'type': 'identifier', 'children': [], 'value': 'kwargs'},{'id': '38', 'type': 'identifier', 'children': [], 'value': 'pop'},{'id': '39', 'type': 'argument_list', 'children': ['40', '41']},{'id': '40', 'type': 'string', 'children': [], 'value': "'job_ttl'"},{'id': '41', 'type': 'None', 'children': []},{'id': '42', 'type': 'expression_statement', 'children': ['43']},{'id': '43', 'type': 'assignment', 'children': ['44', '45']},{'id': '44', 'type': 'identifier', 'children': [], 'value': 'job_result_ttl'},{'id': '45', 'type': 'call', 'children': ['46', '49']},{'id': '46', 'type': 'attribute', 'children': ['47', '48']},{'id': '47', 'type': 'identifier', 'children': [], 'value': 'kwargs'},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'pop'},{'id': '49', 'type': 'argument_list', 'children': ['50', '51']},{'id': '50', 'type': 'string', 'children': [], 'value': "'job_result_ttl'"},{'id': '51', 'type': 'None', 'children': []},{'id': '52', 'type': 'expression_statement', 'children': ['53']},{'id': '53', 'type': 'assignment', 'children': ['54', '55']},{'id': '54', 'type': 'identifier', 'children': [], 'value': 'job_description'},{'id': '55', 'type': 'call', 'children': ['56', '59']},{'id': '56', 'type': 'attribute', 'children': ['57', '58']},{'id': '57', 'type': 'identifier', 'children': [], 'value': 'kwargs'},{'id': '58', 'type': 'identifier', 'children': [], 'value': 'pop'},{'id': '59', 'type': 'argument_list', 'children': ['60', '61']},{'id': '60', 'type': 'string', 'children': [], 'value': "'job_description'"},{'id': '61', 'type': 'None', 'children': []},{'id': '62', 'type': 'expression_statement', 'children': ['63']},{'id': '63', 'type': 'assignment', 'children': ['64', '65']},{'id': '64', 'type': 'identifier', 'children': [], 'value': 'meta'},{'id': '65', 'type': 'call', 'children': ['66', '69']},{'id': '66', 'type': 'attribute', 'children': ['67', '68']},{'id': '67', 'type': 'identifier', 'children': [], 'value': 'kwargs'},{'id': '68', 'type': 'identifier', 'children': [], 'value': 'pop'},{'id': '69', 'type': 'argument_list', 'children': ['70', '71']},{'id': '70', 'type': 'string', 'children': [], 'value': "'meta'"},{'id': '71', 'type': 'None', 'children': []},{'id': '72', 'type': 'expression_statement', 'children': ['73']},{'id': '73', 'type': 'assignment', 'children': ['74', '75']},{'id': '74', 'type': 'identifier', 'children': [], 'value': 'job'},{'id': '75', 'type': 'call', 'children': ['76', '79']},{'id': '76', 'type': 'attribute', 'children': ['77', '78']},{'id': '77', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '78', 'type': 'identifier', 'children': [], 'value': '_create_job'},{'id': '79', 'type': 'argument_list', 'children': ['80', '81', '84', '87', '90', '93', '96', '99', '102']},{'id': '80', 'type': 'identifier', 'children': [], 'value': 'func'},{'id': '81', 'type': 'keyword_argument', 'children': ['82', '83']},{'id': '82', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '83', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '84', 'type': 'keyword_argument', 'children': ['85', '86']},{'id': '85', 'type': 'identifier', 'children': [], 'value': 'kwargs'},{'id': '86', 'type': 'identifier', 'children': [], 'value': 'kwargs'},{'id': '87', 'type': 'keyword_argument', 'children': ['88', '89']},{'id': '88', 'type': 'identifier', 'children': [], 'value': 'timeout'},{'id': '89', 'type': 'identifier', 'children': [], 'value': 'timeout'},{'id': '90', 'type': 'keyword_argument', 'children': ['91', '92']},{'id': '91', 'type': 'identifier', 'children': [], 'value': 'id'},{'id': '92', 'type': 'identifier', 'children': [], 'value': 'job_id'},{'id': '93', 'type': 'keyword_argument', 'children': ['94', '95']},{'id': '94', 'type': 'identifier', 'children': [], 'value': 'result_ttl'},{'id': '95', 'type': 'identifier', 'children': [], 'value': 'job_result_ttl'},{'id': '96', 'type': 'keyword_argument', 'children': ['97', '98']},{'id': '97', 'type': 'identifier', 'children': [], 'value': 'ttl'},{'id': '98', 'type': 'identifier', 'children': [], 'value': 'job_ttl'},{'id': '99', 'type': 'keyword_argument', 'children': ['100', '101']},{'id': '100', 'type': 'identifier', 'children': [], 'value': 'description'},{'id': '101', 'type': 'identifier', 'children': [], 'value': 'job_description'},{'id': '102', 'type': 'keyword_argument', 'children': ['103', '104']},{'id': '103', 'type': 'identifier', 'children': [], 'value': 'meta'},{'id': '104', 'type': 'identifier', 'children': [], 'value': 'meta'},{'id': '105', 'type': 'expression_statement', 'children': ['106']},{'id': '106', 'type': 'call', 'children': ['107', '112']},{'id': '107', 'type': 'attribute', 'children': ['108', '111']},{'id': '108', 'type': 'attribute', 'children': ['109', '110']},{'id': '109', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '110', 'type': 'identifier', 'children': [], 'value': 'connection'},{'id': '111', 'type': 'identifier', 'children': [], 'value': 'zadd'},{'id': '112', 'type': 'argument_list', 'children': ['113', '116']},{'id': '113', 'type': 'attribute', 'children': ['114', '115']},{'id': '114', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '115', 'type': 'identifier', 'children': [], 'value': 'scheduled_jobs_key'},{'id': '116', 'type': 'dictionary', 'children': ['117']},{'id': '117', 'type': 'pair', 'children': ['118', '121']},{'id': '118', 'type': 'attribute', 'children': ['119', '120']},{'id': '119', 'type': 'identifier', 'children': [], 'value': 'job'},{'id': '120', 'type': 'identifier', 'children': [], 'value': 'id'},{'id': '121', 'type': 'call', 'children': ['122', '123']},{'id': '122', 'type': 'identifier', 'children': [], 'value': 'to_unix'},{'id': '123', 'type': 'argument_list', 'children': ['124']},{'id': '124', 'type': 'identifier', 'children': [], 'value': 'scheduled_time'},{'id': '125', 'type': 'return_statement', 'children': ['126']},{'id': '126', 'type': 'identifier', 'children': [], 'value': 'job'} | def enqueue_at(self, scheduled_time, func, *args, **kwargs):
timeout = kwargs.pop('timeout', None)
job_id = kwargs.pop('job_id', None)
job_ttl = kwargs.pop('job_ttl', None)
job_result_ttl = kwargs.pop('job_result_ttl', None)
job_description = kwargs.pop('job_description', None)
meta = kwargs.pop('meta', None)
job = self._create_job(func, args=args, kwargs=kwargs, timeout=timeout,
id=job_id, result_ttl=job_result_ttl, ttl=job_ttl,
description=job_description, meta=meta)
self.connection.zadd(self.scheduled_jobs_key,
{job.id: to_unix(scheduled_time)})
return job |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']},{'id': '2', 'type': 'function_name', 'children': [], 'value': '_getMostActiveCells'},{'id': '3', 'type': 'parameters', 'children': ['4']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'block', 'children': ['6', '12', '27', '40', '57', '68', '104']},{'id': '6', 'type': 'expression_statement', 'children': ['7']},{'id': '7', 'type': 'assignment', 'children': ['8', '9']},{'id': '8', 'type': 'identifier', 'children': [], 'value': 'poolingActivation'},{'id': '9', 'type': 'attribute', 'children': ['10', '11']},{'id': '10', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '11', 'type': 'identifier', 'children': [], 'value': '_poolingActivation'},{'id': '12', 'type': 'expression_statement', 'children': ['13']},{'id': '13', 'type': 'assignment', 'children': ['14', '15']},{'id': '14', 'type': 'identifier', 'children': [], 'value': 'nonZeroCells'},{'id': '15', 'type': 'subscript', 'children': ['16', '24', '26']},{'id': '16', 'type': 'call', 'children': ['17', '20']},{'id': '17', 'type': 'attribute', 'children': ['18', '19']},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'numpy'},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'argwhere'},{'id': '20', 'type': 'argument_list', 'children': ['21']},{'id': '21', 'type': 'comparison_operator', 'children': ['22', '23'], 'value': '>'},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'poolingActivation'},{'id': '23', 'type': 'integer', 'children': [], 'value': '0'},{'id': '24', 'type': 'slice', 'children': ['25']},{'id': '25', 'type': 'colon', 'children': []},{'id': '26', 'type': 'integer', 'children': [], 'value': '0'},{'id': '27', 'type': 'expression_statement', 'children': ['28']},{'id': '28', 'type': 'assignment', 'children': ['29', '30']},{'id': '29', 'type': 'identifier', 'children': [], 'value': 'poolingActivationSubset'},{'id': '30', 'type': 'binary_operator', 'children': ['31', '34', '35'], 'value': '+'},{'id': '31', 'type': 'subscript', 'children': ['32', '33']},{'id': '32', 'type': 'identifier', 'children': [], 'value': 'poolingActivation'},{'id': '33', 'type': 'identifier', 'children': [], 'value': 'nonZeroCells'},{'id': '34', 'type': 'line_continuation', 'children': [], 'value': '\\'},{'id': '35', 'type': 'subscript', 'children': ['36', '39']},{'id': '36', 'type': 'attribute', 'children': ['37', '38']},{'id': '37', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '38', 'type': 'identifier', 'children': [], 'value': '_poolingActivation_tieBreaker'},{'id': '39', 'type': 'identifier', 'children': [], 'value': 'nonZeroCells'},{'id': '40', 'type': 'expression_statement', 'children': ['41']},{'id': '41', 'type': 'assignment', 'children': ['42', '43']},{'id': '42', 'type': 'identifier', 'children': [], 'value': 'potentialUnionSDR'},{'id': '43', 'type': 'subscript', 'children': ['44', '45']},{'id': '44', 'type': 'identifier', 'children': [], 'value': 'nonZeroCells'},{'id': '45', 'type': 'subscript', 'children': ['46', '52']},{'id': '46', 'type': 'call', 'children': ['47', '50']},{'id': '47', 'type': 'attribute', 'children': ['48', '49']},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'numpy'},{'id': '49', 'type': 'identifier', 'children': [], 'value': 'argsort'},{'id': '50', 'type': 'argument_list', 'children': ['51']},{'id': '51', 'type': 'identifier', 'children': [], 'value': 'poolingActivationSubset'},{'id': '52', 'type': 'slice', 'children': ['53', '54', '55']},{'id': '53', 'type': 'colon', 'children': []},{'id': '54', 'type': 'colon', 'children': []},{'id': '55', 'type': 'unary_operator', 'children': ['56'], 'value': '-'},{'id': '56', 'type': 'integer', 'children': [], 'value': '1'},{'id': '57', 'type': 'expression_statement', 'children': ['58']},{'id': '58', 'type': 'assignment', 'children': ['59', '60']},{'id': '59', 'type': 'identifier', 'children': [], 'value': 'topCells'},{'id': '60', 'type': 'subscript', 'children': ['61', '62']},{'id': '61', 'type': 'identifier', 'children': [], 'value': 'potentialUnionSDR'},{'id': '62', 'type': 'slice', 'children': ['63', '64', '65']},{'id': '63', 'type': 'integer', 'children': [], 'value': '0'},{'id': '64', 'type': 'colon', 'children': []},{'id': '65', 'type': 'attribute', 'children': ['66', '67']},{'id': '66', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '67', 'type': 'identifier', 'children': [], 'value': '_maxUnionCells'},{'id': '68', 'type': 'if_statement', 'children': ['69', '79', '96']},{'id': '69', 'type': 'comparison_operator', 'children': ['70', '76'], 'value': '>'},{'id': '70', 'type': 'call', 'children': ['71', '72']},{'id': '71', 'type': 'identifier', 'children': [], 'value': 'max'},{'id': '72', 'type': 'argument_list', 'children': ['73']},{'id': '73', 'type': 'attribute', 'children': ['74', '75']},{'id': '74', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '75', 'type': 'identifier', 'children': [], 'value': '_poolingTimer'},{'id': '76', 'type': 'attribute', 'children': ['77', '78']},{'id': '77', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '78', 'type': 'identifier', 'children': [], 'value': '_minHistory'},{'id': '79', 'type': 'block', 'children': ['80']},{'id': '80', 'type': 'expression_statement', 'children': ['81']},{'id': '81', 'type': 'assignment', 'children': ['82', '85']},{'id': '82', 'type': 'attribute', 'children': ['83', '84']},{'id': '83', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '84', 'type': 'identifier', 'children': [], 'value': '_unionSDR'},{'id': '85', 'type': 'call', 'children': ['86', '94']},{'id': '86', 'type': 'attribute', 'children': ['87', '93']},{'id': '87', 'type': 'call', 'children': ['88', '91']},{'id': '88', 'type': 'attribute', 'children': ['89', '90']},{'id': '89', 'type': 'identifier', 'children': [], 'value': 'numpy'},{'id': '90', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '91', 'type': 'argument_list', 'children': ['92']},{'id': '92', 'type': 'identifier', 'children': [], 'value': 'topCells'},{'id': '93', 'type': 'identifier', 'children': [], 'value': 'astype'},{'id': '94', 'type': 'argument_list', 'children': ['95']},{'id': '95', 'type': 'identifier', 'children': [], 'value': 'UINT_DTYPE'},{'id': '96', 'type': 'else_clause', 'children': ['97']},{'id': '97', 'type': 'block', 'children': ['98']},{'id': '98', 'type': 'expression_statement', 'children': ['99']},{'id': '99', 'type': 'assignment', 'children': ['100', '103']},{'id': '100', 'type': 'attribute', 'children': ['101', '102']},{'id': '101', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '102', 'type': 'identifier', 'children': [], 'value': '_unionSDR'},{'id': '103', 'type': 'list', 'children': [], 'value': '[]'},{'id': '104', 'type': 'return_statement', 'children': ['105']},{'id': '105', 'type': 'attribute', 'children': ['106', '107']},{'id': '106', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '107', 'type': 'identifier', 'children': [], 'value': '_unionSDR'} | def _getMostActiveCells(self):
poolingActivation = self._poolingActivation
nonZeroCells = numpy.argwhere(poolingActivation > 0)[:,0]
poolingActivationSubset = poolingActivation[nonZeroCells] + \
self._poolingActivation_tieBreaker[nonZeroCells]
potentialUnionSDR = nonZeroCells[numpy.argsort(poolingActivationSubset)[::-1]]
topCells = potentialUnionSDR[0: self._maxUnionCells]
if max(self._poolingTimer) > self._minHistory:
self._unionSDR = numpy.sort(topCells).astype(UINT_DTYPE)
else:
self._unionSDR = []
return self._unionSDR |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'printNetwork'},{'id': '3', 'type': 'parameters', 'children': ['4']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'network'},{'id': '5', 'type': 'block', 'children': ['6', '19']},{'id': '6', 'type': 'print_statement', 'children': ['7', '8', '18']},{'id': '7', 'type': 'string', 'children': [], 'value': '"The network has"'},{'id': '8', 'type': 'call', 'children': ['9', '10']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'len'},{'id': '10', 'type': 'argument_list', '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': 'network'},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'regions'},{'id': '16', 'type': 'identifier', 'children': [], 'value': 'values'},{'id': '17', 'type': 'argument_list', 'children': []},{'id': '18', 'type': 'string', 'children': [], 'value': '"regions"'},{'id': '19', 'type': 'for_statement', 'children': ['20', '21', '29']},{'id': '20', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '21', 'type': 'call', 'children': ['22', '23']},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'range'},{'id': '23', 'type': 'argument_list', 'children': ['24']},{'id': '24', 'type': 'call', 'children': ['25', '28']},{'id': '25', 'type': 'attribute', 'children': ['26', '27']},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'network'},{'id': '27', 'type': 'identifier', 'children': [], 'value': 'getMaxPhase'},{'id': '28', 'type': 'argument_list', 'children': []},{'id': '29', 'type': 'block', 'children': ['30', '33']},{'id': '30', 'type': 'print_statement', 'children': ['31', '32']},{'id': '31', 'type': 'string', 'children': [], 'value': '"=== Phase"'},{'id': '32', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '33', 'type': 'for_statement', 'children': ['34', '35', '42']},{'id': '34', 'type': 'identifier', 'children': [], 'value': 'region'},{'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': 'network'},{'id': '39', 'type': 'identifier', 'children': [], 'value': 'regions'},{'id': '40', 'type': 'identifier', 'children': [], 'value': 'values'},{'id': '41', 'type': 'argument_list', 'children': []},{'id': '42', 'type': 'block', 'children': ['43']},{'id': '43', 'type': 'if_statement', 'children': ['44', '56']},{'id': '44', 'type': 'comparison_operator', 'children': ['45', '55'], 'value': '=='},{'id': '45', 'type': 'subscript', 'children': ['46', '54']},{'id': '46', 'type': 'call', 'children': ['47', '50']},{'id': '47', 'type': 'attribute', 'children': ['48', '49']},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'network'},{'id': '49', 'type': 'identifier', 'children': [], 'value': 'getPhases'},{'id': '50', 'type': 'argument_list', 'children': ['51']},{'id': '51', 'type': 'attribute', 'children': ['52', '53']},{'id': '52', 'type': 'identifier', 'children': [], 'value': 'region'},{'id': '53', 'type': 'identifier', 'children': [], 'value': 'name'},{'id': '54', 'type': 'integer', 'children': [], 'value': '0'},{'id': '55', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '56', 'type': 'block', 'children': ['57']},{'id': '57', 'type': 'print_statement', 'children': ['58', '59']},{'id': '58', 'type': 'string', 'children': [], 'value': '" "'},{'id': '59', 'type': 'attribute', 'children': ['60', '61']},{'id': '60', 'type': 'identifier', 'children': [], 'value': 'region'},{'id': '61', 'type': 'identifier', 'children': [], 'value': 'name'} | def printNetwork(network):
print "The network has",len(network.regions.values()),"regions"
for p in range(network.getMaxPhase()):
print "=== Phase",p
for region in network.regions.values():
if network.getPhases(region.name)[0] == p:
print " ",region.name |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '9']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'argmaxMulti'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '6']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'a'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'groupKeys'},{'id': '6', 'type': 'default_parameter', 'children': ['7', '8']},{'id': '7', 'type': 'identifier', 'children': [], 'value': 'assumeSorted'},{'id': '8', 'type': 'False', 'children': []},{'id': '9', 'type': 'block', 'children': ['10', '38', '56', '68', '85', '97']},{'id': '10', 'type': 'if_statement', 'children': ['11', '13']},{'id': '11', 'type': 'not_operator', 'children': ['12']},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'assumeSorted'},{'id': '13', 'type': 'block', 'children': ['14', '26', '32']},{'id': '14', 'type': 'expression_statement', 'children': ['15']},{'id': '15', 'type': 'assignment', 'children': ['16', '17']},{'id': '16', 'type': 'identifier', 'children': [], 'value': 'sorter'},{'id': '17', 'type': 'call', 'children': ['18', '21']},{'id': '18', 'type': 'attribute', 'children': ['19', '20']},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '20', 'type': 'identifier', 'children': [], 'value': 'argsort'},{'id': '21', 'type': 'argument_list', 'children': ['22', '23']},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'groupKeys'},{'id': '23', 'type': 'keyword_argument', 'children': ['24', '25']},{'id': '24', 'type': 'identifier', 'children': [], 'value': 'kind'},{'id': '25', 'type': 'string', 'children': [], 'value': '"mergesort"'},{'id': '26', 'type': 'expression_statement', 'children': ['27']},{'id': '27', 'type': 'assignment', 'children': ['28', '29']},{'id': '28', 'type': 'identifier', 'children': [], 'value': 'a'},{'id': '29', 'type': 'subscript', 'children': ['30', '31']},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'a'},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'sorter'},{'id': '32', 'type': 'expression_statement', 'children': ['33']},{'id': '33', 'type': 'assignment', 'children': ['34', '35']},{'id': '34', 'type': 'identifier', 'children': [], 'value': 'groupKeys'},{'id': '35', 'type': 'subscript', 'children': ['36', '37']},{'id': '36', 'type': 'identifier', 'children': [], 'value': 'groupKeys'},{'id': '37', 'type': 'identifier', 'children': [], 'value': 'sorter'},{'id': '38', 'type': 'expression_statement', 'children': ['39']},{'id': '39', 'type': 'assignment', 'children': ['40', '44']},{'id': '40', 'type': 'pattern_list', 'children': ['41', '42', '43']},{'id': '41', 'type': 'identifier', 'children': [], 'value': '_'},{'id': '42', 'type': 'identifier', 'children': [], 'value': 'indices'},{'id': '43', 'type': 'identifier', 'children': [], 'value': 'lengths'},{'id': '44', 'type': 'call', 'children': ['45', '48']},{'id': '45', 'type': 'attribute', 'children': ['46', '47']},{'id': '46', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '47', 'type': 'identifier', 'children': [], 'value': 'unique'},{'id': '48', 'type': 'argument_list', 'children': ['49', '50', '53']},{'id': '49', 'type': 'identifier', 'children': [], 'value': 'groupKeys'},{'id': '50', 'type': 'keyword_argument', 'children': ['51', '52']},{'id': '51', 'type': 'identifier', 'children': [], 'value': 'return_index'},{'id': '52', 'type': 'True', 'children': []},{'id': '53', 'type': 'keyword_argument', 'children': ['54', '55']},{'id': '54', 'type': 'identifier', 'children': [], 'value': 'return_counts'},{'id': '55', 'type': 'True', 'children': []},{'id': '56', 'type': 'expression_statement', 'children': ['57']},{'id': '57', 'type': 'assignment', 'children': ['58', '59']},{'id': '58', 'type': 'identifier', 'children': [], 'value': 'maxValues'},{'id': '59', 'type': 'call', 'children': ['60', '65']},{'id': '60', 'type': 'attribute', 'children': ['61', '64']},{'id': '61', 'type': 'attribute', 'children': ['62', '63']},{'id': '62', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '63', 'type': 'identifier', 'children': [], 'value': 'maximum'},{'id': '64', 'type': 'identifier', 'children': [], 'value': 'reduceat'},{'id': '65', 'type': 'argument_list', 'children': ['66', '67']},{'id': '66', 'type': 'identifier', 'children': [], 'value': 'a'},{'id': '67', 'type': 'identifier', 'children': [], 'value': 'indices'},{'id': '68', 'type': 'expression_statement', 'children': ['69']},{'id': '69', 'type': 'assignment', 'children': ['70', '71']},{'id': '70', 'type': 'identifier', 'children': [], 'value': 'allMaxIndices'},{'id': '71', 'type': 'call', 'children': ['72', '75']},{'id': '72', 'type': 'attribute', 'children': ['73', '74']},{'id': '73', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '74', 'type': 'identifier', 'children': [], 'value': 'flatnonzero'},{'id': '75', 'type': 'argument_list', 'children': ['76']},{'id': '76', 'type': 'comparison_operator', 'children': ['77', '84'], 'value': '=='},{'id': '77', 'type': 'call', 'children': ['78', '81']},{'id': '78', 'type': 'attribute', 'children': ['79', '80']},{'id': '79', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '80', 'type': 'identifier', 'children': [], 'value': 'repeat'},{'id': '81', 'type': 'argument_list', 'children': ['82', '83']},{'id': '82', 'type': 'identifier', 'children': [], 'value': 'maxValues'},{'id': '83', 'type': 'identifier', 'children': [], 'value': 'lengths'},{'id': '84', 'type': 'identifier', 'children': [], 'value': 'a'},{'id': '85', 'type': 'expression_statement', 'children': ['86']},{'id': '86', 'type': 'assignment', 'children': ['87', '88']},{'id': '87', 'type': 'identifier', 'children': [], 'value': 'indices'},{'id': '88', 'type': 'subscript', 'children': ['89', '90']},{'id': '89', 'type': 'identifier', 'children': [], 'value': 'allMaxIndices'},{'id': '90', 'type': 'call', 'children': ['91', '94']},{'id': '91', 'type': 'attribute', 'children': ['92', '93']},{'id': '92', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '93', 'type': 'identifier', 'children': [], 'value': 'searchsorted'},{'id': '94', 'type': 'argument_list', 'children': ['95', '96']},{'id': '95', 'type': 'identifier', 'children': [], 'value': 'allMaxIndices'},{'id': '96', 'type': 'identifier', 'children': [], 'value': 'indices'},{'id': '97', 'type': 'if_statement', 'children': ['98', '99', '102']},{'id': '98', 'type': 'identifier', 'children': [], 'value': 'assumeSorted'},{'id': '99', 'type': 'block', 'children': ['100']},{'id': '100', 'type': 'return_statement', 'children': ['101']},{'id': '101', 'type': 'identifier', 'children': [], 'value': 'indices'},{'id': '102', 'type': 'else_clause', 'children': ['103']},{'id': '103', 'type': 'block', 'children': ['104']},{'id': '104', 'type': 'return_statement', 'children': ['105']},{'id': '105', 'type': 'subscript', 'children': ['106', '107']},{'id': '106', 'type': 'identifier', 'children': [], 'value': 'sorter'},{'id': '107', 'type': 'identifier', 'children': [], 'value': 'indices'} | def argmaxMulti(a, groupKeys, assumeSorted=False):
if not assumeSorted:
sorter = np.argsort(groupKeys, kind="mergesort")
a = a[sorter]
groupKeys = groupKeys[sorter]
_, indices, lengths = np.unique(groupKeys, return_index=True,
return_counts=True)
maxValues = np.maximum.reduceat(a, indices)
allMaxIndices = np.flatnonzero(np.repeat(maxValues, lengths) == a)
indices = allMaxIndices[np.searchsorted(allMaxIndices, indices)]
if assumeSorted:
return indices
else:
return sorter[indices] |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '6']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'getAllCellsInColumns'},{'id': '3', 'type': 'parameters', 'children': ['4', '5']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'columns'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'cellsPerColumn'},{'id': '6', 'type': 'block', 'children': ['7']},{'id': '7', 'type': 'return_statement', 'children': ['8']},{'id': '8', 'type': 'call', 'children': ['9', '34']},{'id': '9', 'type': 'attribute', 'children': ['10', '33']},{'id': '10', 'type': '()', 'children': ['11']},{'id': '11', 'type': 'binary_operator', 'children': ['12', '24'], 'value': '+'},{'id': '12', 'type': 'call', 'children': ['13', '19']},{'id': '13', 'type': 'attribute', 'children': ['14', '18']},{'id': '14', 'type': '()', 'children': ['15']},{'id': '15', 'type': 'binary_operator', 'children': ['16', '17'], 'value': '*'},{'id': '16', 'type': 'identifier', 'children': [], 'value': 'columns'},{'id': '17', 'type': 'identifier', 'children': [], 'value': 'cellsPerColumn'},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'reshape'},{'id': '19', 'type': 'argument_list', 'children': ['20']},{'id': '20', 'type': 'tuple', 'children': ['21', '23']},{'id': '21', 'type': 'unary_operator', 'children': ['22'], 'value': '-'},{'id': '22', 'type': 'integer', 'children': [], 'value': '1'},{'id': '23', 'type': 'integer', 'children': [], 'value': '1'},{'id': '24', 'type': 'call', 'children': ['25', '28']},{'id': '25', 'type': 'attribute', 'children': ['26', '27']},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '27', 'type': 'identifier', 'children': [], 'value': 'arange'},{'id': '28', 'type': 'argument_list', 'children': ['29', '30']},{'id': '29', 'type': 'identifier', 'children': [], 'value': 'cellsPerColumn'},{'id': '30', 'type': 'keyword_argument', 'children': ['31', '32']},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'dtype'},{'id': '32', 'type': 'string', 'children': [], 'value': '"uint32"'},{'id': '33', 'type': 'identifier', 'children': [], 'value': 'flatten'},{'id': '34', 'type': 'argument_list', 'children': []} | def getAllCellsInColumns(columns, cellsPerColumn):
return ((columns * cellsPerColumn).reshape((-1, 1)) +
np.arange(cellsPerColumn, dtype="uint32")).flatten() |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '6']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'shuffle_sparse_matrix_and_labels'},{'id': '3', 'type': 'parameters', 'children': ['4', '5']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'matrix'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'labels'},{'id': '6', 'type': 'block', 'children': ['7', '9', '17', '27', '36', '45', '54', '56']},{'id': '7', 'type': 'print_statement', 'children': ['8']},{'id': '8', 'type': 'string', 'children': [], 'value': '"Shuffling data"'},{'id': '9', 'type': 'expression_statement', 'children': ['10']},{'id': '10', 'type': 'assignment', 'children': ['11', '12']},{'id': '11', 'type': 'identifier', 'children': [], 'value': 'new_matrix'},{'id': '12', 'type': 'call', 'children': ['13', '16']},{'id': '13', 'type': 'attribute', 'children': ['14', '15']},{'id': '14', 'type': 'identifier', 'children': [], 'value': 'matrix'},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'toDense'},{'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': 'rng_state'},{'id': '20', 'type': 'call', 'children': ['21', '26']},{'id': '21', 'type': 'attribute', 'children': ['22', '25']},{'id': '22', 'type': 'attribute', 'children': ['23', '24']},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'numpy'},{'id': '24', 'type': 'identifier', 'children': [], 'value': 'random'},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'get_state'},{'id': '26', 'type': 'argument_list', 'children': []},{'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': 'numpy'},{'id': '32', 'type': 'identifier', 'children': [], 'value': 'random'},{'id': '33', 'type': 'identifier', 'children': [], 'value': 'shuffle'},{'id': '34', 'type': 'argument_list', 'children': ['35']},{'id': '35', 'type': 'identifier', 'children': [], 'value': 'new_matrix'},{'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': 'numpy'},{'id': '41', 'type': 'identifier', 'children': [], 'value': 'random'},{'id': '42', 'type': 'identifier', 'children': [], 'value': 'set_state'},{'id': '43', 'type': 'argument_list', 'children': ['44']},{'id': '44', 'type': 'identifier', 'children': [], 'value': 'rng_state'},{'id': '45', 'type': 'expression_statement', 'children': ['46']},{'id': '46', 'type': 'call', 'children': ['47', '52']},{'id': '47', 'type': 'attribute', 'children': ['48', '51']},{'id': '48', 'type': 'attribute', 'children': ['49', '50']},{'id': '49', 'type': 'identifier', 'children': [], 'value': 'numpy'},{'id': '50', 'type': 'identifier', 'children': [], 'value': 'random'},{'id': '51', 'type': 'identifier', 'children': [], 'value': 'shuffle'},{'id': '52', 'type': 'argument_list', 'children': ['53']},{'id': '53', 'type': 'identifier', 'children': [], 'value': 'labels'},{'id': '54', 'type': 'print_statement', 'children': ['55']},{'id': '55', 'type': 'string', 'children': [], 'value': '"Data shuffled"'},{'id': '56', 'type': 'return_statement', 'children': ['57']},{'id': '57', 'type': 'expression_list', 'children': ['58', '62']},{'id': '58', 'type': 'call', 'children': ['59', '60']},{'id': '59', 'type': 'identifier', 'children': [], 'value': 'SM32'},{'id': '60', 'type': 'argument_list', 'children': ['61']},{'id': '61', 'type': 'identifier', 'children': [], 'value': 'new_matrix'},{'id': '62', 'type': 'call', 'children': ['63', '66']},{'id': '63', 'type': 'attribute', 'children': ['64', '65']},{'id': '64', 'type': 'identifier', 'children': [], 'value': 'numpy'},{'id': '65', 'type': 'identifier', 'children': [], 'value': 'asarray'},{'id': '66', 'type': 'argument_list', 'children': ['67']},{'id': '67', 'type': 'identifier', 'children': [], 'value': 'labels'} | def shuffle_sparse_matrix_and_labels(matrix, labels):
print "Shuffling data"
new_matrix = matrix.toDense()
rng_state = numpy.random.get_state()
numpy.random.shuffle(new_matrix)
numpy.random.set_state(rng_state)
numpy.random.shuffle(labels)
print "Data shuffled"
return SM32(new_matrix), numpy.asarray(labels) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '7']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'compute'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '6']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'sensorToBodyByColumn'},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'sensorToSpecificObjectByColumn'},{'id': '7', 'type': 'block', 'children': ['8', '22', '28', '103', '121', '135', '150']},{'id': '8', 'type': 'expression_statement', 'children': ['9']},{'id': '9', 'type': 'assignment', 'children': ['10', '11']},{'id': '10', 'type': 'identifier', 'children': [], 'value': 'votesByCell'},{'id': '11', 'type': 'call', 'children': ['12', '15']},{'id': '12', 'type': 'attribute', 'children': ['13', '14']},{'id': '13', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '14', 'type': 'identifier', 'children': [], 'value': 'zeros'},{'id': '15', 'type': 'argument_list', 'children': ['16', '19']},{'id': '16', 'type': 'attribute', 'children': ['17', '18']},{'id': '17', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'cellCount'},{'id': '19', 'type': 'keyword_argument', 'children': ['20', '21']},{'id': '20', 'type': 'identifier', 'children': [], 'value': 'dtype'},{'id': '21', 'type': 'string', 'children': [], 'value': '"int"'},{'id': '22', 'type': 'expression_statement', 'children': ['23']},{'id': '23', 'type': 'assignment', 'children': ['24', '27']},{'id': '24', 'type': 'attribute', 'children': ['25', '26']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'activeSegmentsByColumn'},{'id': '27', 'type': 'list', 'children': [], 'value': '[]'},{'id': '28', 'type': 'for_statement', 'children': ['29', '33', '41']},{'id': '29', 'type': 'tuple_pattern', 'children': ['30', '31', '32']},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'connections'},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'activeSensorToBodyCells'},{'id': '32', 'type': 'identifier', 'children': [], 'value': 'activeSensorToSpecificObjectCells'},{'id': '33', 'type': 'call', 'children': ['34', '35']},{'id': '34', 'type': 'identifier', 'children': [], 'value': 'zip'},{'id': '35', 'type': 'argument_list', 'children': ['36', '39', '40']},{'id': '36', 'type': 'attribute', 'children': ['37', '38']},{'id': '37', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '38', 'type': 'identifier', 'children': [], 'value': 'connectionsByColumn'},{'id': '39', 'type': 'identifier', 'children': [], 'value': 'sensorToBodyByColumn'},{'id': '40', 'type': 'identifier', 'children': [], 'value': 'sensorToSpecificObjectByColumn'},{'id': '41', 'type': 'block', 'children': ['42', '57', '70', '79', '88', '94']},{'id': '42', 'type': 'expression_statement', 'children': ['43']},{'id': '43', 'type': 'assignment', 'children': ['44', '45']},{'id': '44', 'type': 'identifier', 'children': [], 'value': 'overlaps'},{'id': '45', 'type': 'call', 'children': ['46', '49']},{'id': '46', 'type': 'attribute', 'children': ['47', '48']},{'id': '47', 'type': 'identifier', 'children': [], 'value': 'connections'},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'computeActivity'},{'id': '49', 'type': 'argument_list', 'children': ['50']},{'id': '50', 'type': 'dictionary', 'children': ['51', '54']},{'id': '51', 'type': 'pair', 'children': ['52', '53']},{'id': '52', 'type': 'string', 'children': [], 'value': '"sensorToBody"'},{'id': '53', 'type': 'identifier', 'children': [], 'value': 'activeSensorToBodyCells'},{'id': '54', 'type': 'pair', 'children': ['55', '56']},{'id': '55', 'type': 'string', 'children': [], 'value': '"sensorToSpecificObject"'},{'id': '56', 'type': 'identifier', 'children': [], 'value': 'activeSensorToSpecificObjectCells'},{'id': '57', 'type': 'expression_statement', 'children': ['58']},{'id': '58', 'type': 'assignment', 'children': ['59', '60']},{'id': '59', 'type': 'identifier', 'children': [], 'value': 'activeSegments'},{'id': '60', 'type': 'subscript', 'children': ['61', '69']},{'id': '61', 'type': 'call', 'children': ['62', '65']},{'id': '62', 'type': 'attribute', 'children': ['63', '64']},{'id': '63', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '64', 'type': 'identifier', 'children': [], 'value': 'where'},{'id': '65', 'type': 'argument_list', 'children': ['66']},{'id': '66', 'type': 'comparison_operator', 'children': ['67', '68'], 'value': '>='},{'id': '67', 'type': 'identifier', 'children': [], 'value': 'overlaps'},{'id': '68', 'type': 'integer', 'children': [], 'value': '2'},{'id': '69', 'type': 'integer', 'children': [], 'value': '0'},{'id': '70', 'type': 'expression_statement', 'children': ['71']},{'id': '71', 'type': 'assignment', 'children': ['72', '73']},{'id': '72', 'type': 'identifier', 'children': [], 'value': 'votes'},{'id': '73', 'type': 'call', 'children': ['74', '77']},{'id': '74', 'type': 'attribute', 'children': ['75', '76']},{'id': '75', 'type': 'identifier', 'children': [], 'value': 'connections'},{'id': '76', 'type': 'identifier', 'children': [], 'value': 'mapSegmentsToCells'},{'id': '77', 'type': 'argument_list', 'children': ['78']},{'id': '78', 'type': 'identifier', 'children': [], 'value': 'activeSegments'},{'id': '79', 'type': 'expression_statement', 'children': ['80']},{'id': '80', 'type': 'assignment', 'children': ['81', '82']},{'id': '81', 'type': 'identifier', 'children': [], 'value': 'votes'},{'id': '82', 'type': 'call', 'children': ['83', '86']},{'id': '83', 'type': 'attribute', 'children': ['84', '85']},{'id': '84', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '85', 'type': 'identifier', 'children': [], 'value': 'unique'},{'id': '86', 'type': 'argument_list', 'children': ['87']},{'id': '87', 'type': 'identifier', 'children': [], 'value': 'votes'},{'id': '88', 'type': 'expression_statement', 'children': ['89']},{'id': '89', 'type': 'augmented_assignment', 'children': ['90', '93'], 'value': '+='},{'id': '90', 'type': 'subscript', 'children': ['91', '92']},{'id': '91', 'type': 'identifier', 'children': [], 'value': 'votesByCell'},{'id': '92', 'type': 'identifier', 'children': [], 'value': 'votes'},{'id': '93', 'type': 'integer', 'children': [], 'value': '1'},{'id': '94', 'type': 'expression_statement', 'children': ['95']},{'id': '95', 'type': 'call', 'children': ['96', '101']},{'id': '96', 'type': 'attribute', 'children': ['97', '100']},{'id': '97', 'type': 'attribute', 'children': ['98', '99']},{'id': '98', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '99', 'type': 'identifier', 'children': [], 'value': 'activeSegmentsByColumn'},{'id': '100', 'type': 'identifier', 'children': [], 'value': 'append'},{'id': '101', 'type': 'argument_list', 'children': ['102']},{'id': '102', 'type': 'identifier', 'children': [], 'value': 'activeSegments'},{'id': '103', 'type': 'expression_statement', 'children': ['104']},{'id': '104', 'type': 'assignment', 'children': ['105', '106']},{'id': '105', 'type': 'identifier', 'children': [], 'value': 'candidates'},{'id': '106', 'type': 'subscript', 'children': ['107', '120']},{'id': '107', 'type': 'call', 'children': ['108', '111']},{'id': '108', 'type': 'attribute', 'children': ['109', '110']},{'id': '109', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '110', 'type': 'identifier', 'children': [], 'value': 'where'},{'id': '111', 'type': 'argument_list', 'children': ['112']},{'id': '112', 'type': 'comparison_operator', 'children': ['113', '114'], 'value': '=='},{'id': '113', 'type': 'identifier', 'children': [], 'value': 'votesByCell'},{'id': '114', 'type': 'call', 'children': ['115', '118']},{'id': '115', 'type': 'attribute', 'children': ['116', '117']},{'id': '116', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '117', 'type': 'identifier', 'children': [], 'value': 'max'},{'id': '118', 'type': 'argument_list', 'children': ['119']},{'id': '119', 'type': 'identifier', 'children': [], 'value': 'votesByCell'},{'id': '120', 'type': 'integer', 'children': [], 'value': '0'},{'id': '121', 'type': 'expression_statement', 'children': ['122']},{'id': '122', 'type': 'assignment', 'children': ['123', '126']},{'id': '123', 'type': 'attribute', 'children': ['124', '125']},{'id': '124', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '125', 'type': 'identifier', 'children': [], 'value': 'activeCells'},{'id': '126', 'type': 'call', 'children': ['127', '130']},{'id': '127', 'type': 'attribute', 'children': ['128', '129']},{'id': '128', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '129', 'type': 'identifier', 'children': [], 'value': 'intersect1d'},{'id': '130', 'type': 'argument_list', 'children': ['131', '134']},{'id': '131', 'type': 'attribute', 'children': ['132', '133']},{'id': '132', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '133', 'type': 'identifier', 'children': [], 'value': 'activeCells'},{'id': '134', 'type': 'identifier', 'children': [], 'value': 'candidates'},{'id': '135', 'type': 'if_statement', 'children': ['136', '143']},{'id': '136', 'type': 'comparison_operator', 'children': ['137', '142'], 'value': '=='},{'id': '137', 'type': 'attribute', 'children': ['138', '141']},{'id': '138', 'type': 'attribute', 'children': ['139', '140']},{'id': '139', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '140', 'type': 'identifier', 'children': [], 'value': 'activeCells'},{'id': '141', 'type': 'identifier', 'children': [], 'value': 'size'},{'id': '142', 'type': 'integer', 'children': [], 'value': '0'},{'id': '143', 'type': 'block', 'children': ['144']},{'id': '144', 'type': 'expression_statement', 'children': ['145']},{'id': '145', 'type': 'assignment', 'children': ['146', '149']},{'id': '146', 'type': 'attribute', 'children': ['147', '148']},{'id': '147', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '148', 'type': 'identifier', 'children': [], 'value': 'activeCells'},{'id': '149', 'type': 'identifier', 'children': [], 'value': 'candidates'},{'id': '150', 'type': 'expression_statement', 'children': ['151']},{'id': '151', 'type': 'assignment', 'children': ['152', '155']},{'id': '152', 'type': 'attribute', 'children': ['153', '154']},{'id': '153', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '154', 'type': 'identifier', 'children': [], 'value': 'inhibitedCells'},{'id': '155', 'type': 'call', 'children': ['156', '159']},{'id': '156', 'type': 'attribute', 'children': ['157', '158']},{'id': '157', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '158', 'type': 'identifier', 'children': [], 'value': 'setdiff1d'},{'id': '159', 'type': 'argument_list', 'children': ['160', '170']},{'id': '160', 'type': 'subscript', 'children': ['161', '169']},{'id': '161', 'type': 'call', 'children': ['162', '165']},{'id': '162', 'type': 'attribute', 'children': ['163', '164']},{'id': '163', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '164', 'type': 'identifier', 'children': [], 'value': 'where'},{'id': '165', 'type': 'argument_list', 'children': ['166']},{'id': '166', 'type': 'comparison_operator', 'children': ['167', '168'], 'value': '>'},{'id': '167', 'type': 'identifier', 'children': [], 'value': 'votesByCell'},{'id': '168', 'type': 'integer', 'children': [], 'value': '0'},{'id': '169', 'type': 'integer', 'children': [], 'value': '0'},{'id': '170', 'type': 'attribute', 'children': ['171', '172']},{'id': '171', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '172', 'type': 'identifier', 'children': [], 'value': 'activeCells'} | def compute(self, sensorToBodyByColumn, sensorToSpecificObjectByColumn):
votesByCell = np.zeros(self.cellCount, dtype="int")
self.activeSegmentsByColumn = []
for (connections,
activeSensorToBodyCells,
activeSensorToSpecificObjectCells) in zip(self.connectionsByColumn,
sensorToBodyByColumn,
sensorToSpecificObjectByColumn):
overlaps = connections.computeActivity({
"sensorToBody": activeSensorToBodyCells,
"sensorToSpecificObject": activeSensorToSpecificObjectCells,
})
activeSegments = np.where(overlaps >= 2)[0]
votes = connections.mapSegmentsToCells(activeSegments)
votes = np.unique(votes)
votesByCell[votes] += 1
self.activeSegmentsByColumn.append(activeSegments)
candidates = np.where(votesByCell == np.max(votesByCell))[0]
self.activeCells = np.intersect1d(self.activeCells, candidates)
if self.activeCells.size == 0:
self.activeCells = candidates
self.inhibitedCells = np.setdiff1d(np.where(votesByCell > 0)[0],
self.activeCells) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '7']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'metricCompute'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '6']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'sensorToBody'},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'bodyToSpecificObject'},{'id': '7', 'type': 'block', 'children': ['8', '25', '40']},{'id': '8', 'type': 'expression_statement', 'children': ['9']},{'id': '9', 'type': 'assignment', 'children': ['10', '11']},{'id': '10', 'type': 'identifier', 'children': [], 'value': 'overlaps'},{'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': 'metricConnections'},{'id': '16', 'type': 'identifier', 'children': [], 'value': 'computeActivity'},{'id': '17', 'type': 'argument_list', 'children': ['18']},{'id': '18', 'type': 'dictionary', 'children': ['19', '22']},{'id': '19', 'type': 'pair', 'children': ['20', '21']},{'id': '20', 'type': 'string', 'children': [], 'value': '"bodyToSpecificObject"'},{'id': '21', 'type': 'identifier', 'children': [], 'value': 'bodyToSpecificObject'},{'id': '22', 'type': 'pair', 'children': ['23', '24']},{'id': '23', 'type': 'string', 'children': [], 'value': '"sensorToBody"'},{'id': '24', 'type': 'identifier', 'children': [], 'value': 'sensorToBody'},{'id': '25', 'type': 'expression_statement', 'children': ['26']},{'id': '26', 'type': 'assignment', 'children': ['27', '30']},{'id': '27', 'type': 'attribute', 'children': ['28', '29']},{'id': '28', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '29', 'type': 'identifier', 'children': [], 'value': 'activeMetricSegments'},{'id': '30', 'type': 'subscript', 'children': ['31', '39']},{'id': '31', 'type': 'call', 'children': ['32', '35']},{'id': '32', 'type': 'attribute', 'children': ['33', '34']},{'id': '33', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '34', 'type': 'identifier', 'children': [], 'value': 'where'},{'id': '35', 'type': 'argument_list', 'children': ['36']},{'id': '36', 'type': 'comparison_operator', 'children': ['37', '38'], 'value': '>='},{'id': '37', 'type': 'identifier', 'children': [], 'value': 'overlaps'},{'id': '38', 'type': 'integer', 'children': [], 'value': '2'},{'id': '39', 'type': 'integer', 'children': [], 'value': '0'},{'id': '40', 'type': 'expression_statement', 'children': ['41']},{'id': '41', 'type': 'assignment', 'children': ['42', '45']},{'id': '42', 'type': 'attribute', 'children': ['43', '44']},{'id': '43', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '44', 'type': 'identifier', 'children': [], 'value': 'activeCells'},{'id': '45', 'type': 'call', 'children': ['46', '49']},{'id': '46', 'type': 'attribute', 'children': ['47', '48']},{'id': '47', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'unique'},{'id': '49', 'type': 'argument_list', 'children': ['50']},{'id': '50', 'type': 'call', 'children': ['51', '56']},{'id': '51', 'type': 'attribute', 'children': ['52', '55']},{'id': '52', 'type': 'attribute', 'children': ['53', '54']},{'id': '53', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '54', 'type': 'identifier', 'children': [], 'value': 'metricConnections'},{'id': '55', 'type': 'identifier', 'children': [], 'value': 'mapSegmentsToCells'},{'id': '56', 'type': 'argument_list', 'children': ['57']},{'id': '57', 'type': 'attribute', 'children': ['58', '59']},{'id': '58', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '59', 'type': 'identifier', 'children': [], 'value': 'activeMetricSegments'} | def metricCompute(self, sensorToBody, bodyToSpecificObject):
overlaps = self.metricConnections.computeActivity({
"bodyToSpecificObject": bodyToSpecificObject,
"sensorToBody": sensorToBody,
})
self.activeMetricSegments = np.where(overlaps >= 2)[0]
self.activeCells = np.unique(
self.metricConnections.mapSegmentsToCells(
self.activeMetricSegments)) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '20']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'compute'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '8', '11', '14', '17']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'default_parameter', 'children': ['6', '7']},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'feedforwardInput'},{'id': '7', 'type': 'tuple', 'children': []},{'id': '8', 'type': 'default_parameter', 'children': ['9', '10']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'lateralInputs'},{'id': '10', 'type': 'tuple', 'children': []},{'id': '11', 'type': 'default_parameter', 'children': ['12', '13']},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'feedforwardGrowthCandidates'},{'id': '13', 'type': 'None', 'children': []},{'id': '14', 'type': 'default_parameter', 'children': ['15', '16']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'learn'},{'id': '16', 'type': 'True', 'children': []},{'id': '17', 'type': 'default_parameter', 'children': ['18', '19']},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'predictedInput'},{'id': '19', 'type': 'None', 'children': []},{'id': '20', 'type': 'block', 'children': ['21', '30']},{'id': '21', 'type': 'if_statement', 'children': ['22', '25']},{'id': '22', 'type': 'comparison_operator', 'children': ['23', '24'], 'value': 'is'},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'feedforwardGrowthCandidates'},{'id': '24', 'type': 'None', 'children': []},{'id': '25', 'type': 'block', 'children': ['26']},{'id': '26', 'type': 'expression_statement', 'children': ['27']},{'id': '27', 'type': 'assignment', 'children': ['28', '29']},{'id': '28', 'type': 'identifier', 'children': [], 'value': 'feedforwardGrowthCandidates'},{'id': '29', 'type': 'identifier', 'children': [], 'value': 'feedforwardInput'},{'id': '30', 'type': 'if_statement', 'children': ['31', '33', '42', '57']},{'id': '31', 'type': 'not_operator', 'children': ['32']},{'id': '32', 'type': 'identifier', 'children': [], 'value': 'learn'},{'id': '33', 'type': 'block', 'children': ['34']},{'id': '34', 'type': 'expression_statement', 'children': ['35']},{'id': '35', 'type': 'call', 'children': ['36', '39']},{'id': '36', 'type': 'attribute', 'children': ['37', '38']},{'id': '37', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '38', 'type': 'identifier', 'children': [], 'value': '_computeInferenceMode'},{'id': '39', 'type': 'argument_list', 'children': ['40', '41']},{'id': '40', 'type': 'identifier', 'children': [], 'value': 'feedforwardInput'},{'id': '41', 'type': 'identifier', 'children': [], 'value': 'lateralInputs'},{'id': '42', 'type': 'elif_clause', 'children': ['43', '47']},{'id': '43', 'type': 'not_operator', 'children': ['44']},{'id': '44', 'type': 'attribute', 'children': ['45', '46']},{'id': '45', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '46', 'type': 'identifier', 'children': [], 'value': 'onlineLearning'},{'id': '47', 'type': 'block', 'children': ['48']},{'id': '48', 'type': 'expression_statement', 'children': ['49']},{'id': '49', 'type': 'call', 'children': ['50', '53']},{'id': '50', 'type': 'attribute', 'children': ['51', '52']},{'id': '51', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '52', 'type': 'identifier', 'children': [], 'value': '_computeLearningMode'},{'id': '53', 'type': 'argument_list', 'children': ['54', '55', '56']},{'id': '54', 'type': 'identifier', 'children': [], 'value': 'feedforwardInput'},{'id': '55', 'type': 'identifier', 'children': [], 'value': 'lateralInputs'},{'id': '56', 'type': 'identifier', 'children': [], 'value': 'feedforwardGrowthCandidates'},{'id': '57', 'type': 'else_clause', 'children': ['58']},{'id': '58', 'type': 'block', 'children': ['59']},{'id': '59', 'type': 'if_statement', 'children': ['60', '73', '111', '144']},{'id': '60', 'type': '()', 'children': ['61']},{'id': '61', 'type': 'boolean_operator', 'children': ['62', '65'], 'value': 'and'},{'id': '62', 'type': 'comparison_operator', 'children': ['63', '64'], 'value': 'is'},{'id': '63', 'type': 'identifier', 'children': [], 'value': 'predictedInput'},{'id': '64', 'type': 'None', 'children': []},{'id': '65', 'type': 'comparison_operator', 'children': ['66', '70'], 'value': '>'},{'id': '66', 'type': 'call', 'children': ['67', '68']},{'id': '67', 'type': 'identifier', 'children': [], 'value': 'len'},{'id': '68', 'type': 'argument_list', 'children': ['69']},{'id': '69', 'type': 'identifier', 'children': [], 'value': 'predictedInput'},{'id': '70', 'type': 'attribute', 'children': ['71', '72']},{'id': '71', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '72', 'type': 'identifier', 'children': [], 'value': 'predictedInhibitionThreshold'},{'id': '73', 'type': 'block', 'children': ['74', '84', '94', '102']},{'id': '74', 'type': 'expression_statement', 'children': ['75']},{'id': '75', 'type': 'assignment', 'children': ['76', '77']},{'id': '76', 'type': 'identifier', 'children': [], 'value': 'predictedActiveInput'},{'id': '77', 'type': 'call', 'children': ['78', '81']},{'id': '78', 'type': 'attribute', 'children': ['79', '80']},{'id': '79', 'type': 'identifier', 'children': [], 'value': 'numpy'},{'id': '80', 'type': 'identifier', 'children': [], 'value': 'intersect1d'},{'id': '81', 'type': 'argument_list', 'children': ['82', '83']},{'id': '82', 'type': 'identifier', 'children': [], 'value': 'feedforwardInput'},{'id': '83', 'type': 'identifier', 'children': [], 'value': 'predictedInput'},{'id': '84', 'type': 'expression_statement', 'children': ['85']},{'id': '85', 'type': 'assignment', 'children': ['86', '87']},{'id': '86', 'type': 'identifier', 'children': [], 'value': 'predictedGrowthCandidates'},{'id': '87', 'type': 'call', 'children': ['88', '91']},{'id': '88', 'type': 'attribute', 'children': ['89', '90']},{'id': '89', 'type': 'identifier', 'children': [], 'value': 'numpy'},{'id': '90', 'type': 'identifier', 'children': [], 'value': 'intersect1d'},{'id': '91', 'type': 'argument_list', 'children': ['92', '93']},{'id': '92', 'type': 'identifier', 'children': [], 'value': 'feedforwardGrowthCandidates'},{'id': '93', 'type': 'identifier', 'children': [], 'value': 'predictedInput'},{'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': 'self'},{'id': '98', 'type': 'identifier', 'children': [], 'value': '_computeInferenceMode'},{'id': '99', 'type': 'argument_list', 'children': ['100', '101']},{'id': '100', 'type': 'identifier', 'children': [], 'value': 'predictedActiveInput'},{'id': '101', 'type': 'identifier', 'children': [], 'value': 'lateralInputs'},{'id': '102', 'type': 'expression_statement', 'children': ['103']},{'id': '103', 'type': 'call', 'children': ['104', '107']},{'id': '104', 'type': 'attribute', 'children': ['105', '106']},{'id': '105', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '106', 'type': 'identifier', 'children': [], 'value': '_computeLearningMode'},{'id': '107', 'type': 'argument_list', 'children': ['108', '109', '110']},{'id': '108', 'type': 'identifier', 'children': [], 'value': 'predictedActiveInput'},{'id': '109', 'type': 'identifier', 'children': [], 'value': 'lateralInputs'},{'id': '110', 'type': 'identifier', 'children': [], 'value': 'feedforwardGrowthCandidates'},{'id': '111', 'type': 'elif_clause', 'children': ['112', '126']},{'id': '112', 'type': 'not_operator', 'children': ['113']},{'id': '113', 'type': 'comparison_operator', 'children': ['114', '117', '123'], 'value': '<='},{'id': '114', 'type': 'attribute', 'children': ['115', '116']},{'id': '115', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '116', 'type': 'identifier', 'children': [], 'value': 'minSdrSize'},{'id': '117', 'type': 'call', 'children': ['118', '119']},{'id': '118', 'type': 'identifier', 'children': [], 'value': 'len'},{'id': '119', 'type': 'argument_list', 'children': ['120']},{'id': '120', 'type': 'attribute', 'children': ['121', '122']},{'id': '121', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '122', 'type': 'identifier', 'children': [], 'value': 'activeCells'},{'id': '123', 'type': 'attribute', 'children': ['124', '125']},{'id': '124', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '125', 'type': 'identifier', 'children': [], 'value': 'maxSdrSize'},{'id': '126', 'type': 'block', 'children': ['127', '135']},{'id': '127', 'type': 'expression_statement', 'children': ['128']},{'id': '128', 'type': 'call', 'children': ['129', '132']},{'id': '129', 'type': 'attribute', 'children': ['130', '131']},{'id': '130', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '131', 'type': 'identifier', 'children': [], 'value': '_computeInferenceMode'},{'id': '132', 'type': 'argument_list', 'children': ['133', '134']},{'id': '133', 'type': 'identifier', 'children': [], 'value': 'feedforwardInput'},{'id': '134', 'type': 'identifier', 'children': [], 'value': 'lateralInputs'},{'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': 'self'},{'id': '139', 'type': 'identifier', 'children': [], 'value': '_computeLearningMode'},{'id': '140', 'type': 'argument_list', 'children': ['141', '142', '143']},{'id': '141', 'type': 'identifier', 'children': [], 'value': 'feedforwardInput'},{'id': '142', 'type': 'identifier', 'children': [], 'value': 'lateralInputs'},{'id': '143', 'type': 'identifier', 'children': [], 'value': 'feedforwardGrowthCandidates'},{'id': '144', 'type': 'else_clause', 'children': ['145']},{'id': '145', 'type': 'block', 'children': ['146']},{'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': 'self'},{'id': '150', 'type': 'identifier', 'children': [], 'value': '_computeLearningMode'},{'id': '151', 'type': 'argument_list', 'children': ['152', '153', '154']},{'id': '152', 'type': 'identifier', 'children': [], 'value': 'feedforwardInput'},{'id': '153', 'type': 'identifier', 'children': [], 'value': 'lateralInputs'},{'id': '154', 'type': 'identifier', 'children': [], 'value': 'feedforwardGrowthCandidates'} | def compute(self, feedforwardInput=(), lateralInputs=(),
feedforwardGrowthCandidates=None, learn=True,
predictedInput = None,):
if feedforwardGrowthCandidates is None:
feedforwardGrowthCandidates = feedforwardInput
if not learn:
self._computeInferenceMode(feedforwardInput, lateralInputs)
elif not self.onlineLearning:
self._computeLearningMode(feedforwardInput, lateralInputs,
feedforwardGrowthCandidates)
else:
if (predictedInput is not None and
len(predictedInput) > self.predictedInhibitionThreshold):
predictedActiveInput = numpy.intersect1d(feedforwardInput,
predictedInput)
predictedGrowthCandidates = numpy.intersect1d(
feedforwardGrowthCandidates, predictedInput)
self._computeInferenceMode(predictedActiveInput, lateralInputs)
self._computeLearningMode(predictedActiveInput, lateralInputs,
feedforwardGrowthCandidates)
elif not self.minSdrSize <= len(self.activeCells) <= self.maxSdrSize:
self._computeInferenceMode(feedforwardInput, lateralInputs)
self._computeLearningMode(feedforwardInput, lateralInputs,
feedforwardGrowthCandidates)
else:
self._computeLearningMode(feedforwardInput, lateralInputs,
feedforwardGrowthCandidates) |
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'type': 'identifier', 'children': [], 'value': 'connectedPermanence'},{'id': '14', 'type': 'block', 'children': ['15', '24', '34', '43']},{'id': '15', 'type': 'expression_statement', 'children': ['16']},{'id': '16', 'type': 'call', 'children': ['17', '20']},{'id': '17', 'type': 'attribute', 'children': ['18', '19']},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'permanences'},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'incrementNonZerosOnOuter'},{'id': '20', 'type': 'argument_list', 'children': ['21', '22', '23']},{'id': '21', 'type': 'identifier', 'children': [], 'value': 'activeCells'},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'activeInput'},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'permanenceIncrement'},{'id': '24', 'type': 'expression_statement', 'children': ['25']},{'id': '25', 'type': 'call', 'children': ['26', '29']},{'id': '26', 'type': 'attribute', 'children': ['27', '28']},{'id': '27', 'type': 'identifier', 'children': [], 'value': 'permanences'},{'id': '28', 'type': 'identifier', 'children': [], 'value': 'incrementNonZerosOnRowsExcludingCols'},{'id': '29', 'type': 'argument_list', 'children': ['30', '31', '32']},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'activeCells'},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'activeInput'},{'id': '32', 'type': 'unary_operator', 'children': ['33'], 'value': '-'},{'id': '33', 'type': 'identifier', 'children': [], 'value': 'permanenceDecrement'},{'id': '34', 'type': 'expression_statement', 'children': ['35']},{'id': '35', 'type': 'call', 'children': ['36', '39']},{'id': '36', 'type': 'attribute', 'children': ['37', '38']},{'id': '37', 'type': 'identifier', 'children': [], 'value': 'permanences'},{'id': '38', 'type': 'identifier', 'children': [], 'value': 'clipRowsBelowAndAbove'},{'id': '39', 'type': 'argument_list', 'children': ['40', '41', '42']},{'id': '40', 'type': 'identifier', 'children': [], 'value': 'activeCells'},{'id': '41', 'type': 'float', 'children': [], 'value': '0.0'},{'id': '42', 'type': 'float', 'children': [], 'value': '1.0'},{'id': '43', 'type': 'if_statement', 'children': ['44', '48', '58']},{'id': '44', 'type': 'comparison_operator', 'children': ['45', '46'], 'value': '=='},{'id': '45', 'type': 'identifier', 'children': [], 'value': 'sampleSize'},{'id': '46', 'type': 'unary_operator', 'children': ['47'], 'value': '-'},{'id': '47', 'type': 'integer', 'children': [], 'value': '1'},{'id': '48', 'type': 'block', 'children': ['49']},{'id': '49', 'type': 'expression_statement', 'children': ['50']},{'id': '50', 'type': 'call', 'children': ['51', '54']},{'id': '51', 'type': 'attribute', 'children': ['52', '53']},{'id': '52', 'type': 'identifier', 'children': [], 'value': 'permanences'},{'id': '53', 'type': 'identifier', 'children': [], 'value': 'setZerosOnOuter'},{'id': '54', 'type': 'argument_list', 'children': ['55', '56', '57']},{'id': '55', 'type': 'identifier', 'children': [], 'value': 'activeCells'},{'id': '56', 'type': 'identifier', 'children': [], 'value': 'activeInput'},{'id': '57', 'type': 'identifier', 'children': [], 'value': 'initialPermanence'},{'id': '58', 'type': 'else_clause', 'children': ['59']},{'id': '59', 'type': 'block', 'children': ['60', '70', '85', '96']},{'id': '60', 'type': 'expression_statement', 'children': ['61']},{'id': '61', 'type': 'assignment', 'children': ['62', '63']},{'id': '62', 'type': 'identifier', 'children': [], 'value': 'existingSynapseCounts'},{'id': '63', 'type': 'call', 'children': ['64', '67']},{'id': '64', 'type': 'attribute', 'children': ['65', '66']},{'id': '65', 'type': 'identifier', 'children': [], 'value': 'permanences'},{'id': '66', 'type': 'identifier', 'children': [], 'value': 'nNonZerosPerRowOnCols'},{'id': '67', 'type': 'argument_list', 'children': ['68', '69']},{'id': '68', 'type': 'identifier', 'children': [], 'value': 'activeCells'},{'id': '69', 'type': 'identifier', 'children': [], 'value': 'activeInput'},{'id': '70', 'type': 'expression_statement', 'children': ['71']},{'id': '71', 'type': 'assignment', 'children': ['72', '73']},{'id': '72', 'type': 'identifier', 'children': [], 'value': 'maxNewByCell'},{'id': '73', 'type': 'call', 'children': ['74', '77']},{'id': '74', 'type': 'attribute', 'children': ['75', '76']},{'id': '75', 'type': 'identifier', 'children': [], 'value': 'numpy'},{'id': '76', 'type': 'identifier', 'children': [], 'value': 'empty'},{'id': '77', 'type': 'argument_list', 'children': ['78', '82']},{'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': 'activeCells'},{'id': '82', 'type': 'keyword_argument', 'children': ['83', '84']},{'id': '83', 'type': 'identifier', 'children': [], 'value': 'dtype'},{'id': '84', 'type': 'string', 'children': [], 'value': '"int32"'},{'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': 'numpy'},{'id': '89', 'type': 'identifier', 'children': [], 'value': 'subtract'},{'id': '90', 'type': 'argument_list', 'children': ['91', '92', '93']},{'id': '91', 'type': 'identifier', 'children': [], 'value': 'sampleSize'},{'id': '92', 'type': 'identifier', 'children': [], 'value': 'existingSynapseCounts'},{'id': '93', 'type': 'keyword_argument', 'children': ['94', '95']},{'id': '94', 'type': 'identifier', 'children': [], 'value': 'out'},{'id': '95', 'type': 'identifier', 'children': [], 'value': 'maxNewByCell'},{'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': 'permanences'},{'id': '100', 'type': 'identifier', 'children': [], 'value': 'setRandomZerosOnOuter'},{'id': '101', 'type': 'argument_list', 'children': ['102', '103', '104', '105', '106']},{'id': '102', 'type': 'identifier', 'children': [], 'value': 'activeCells'},{'id': '103', 'type': 'identifier', 'children': [], 'value': 'growthCandidateInput'},{'id': '104', 'type': 'identifier', 'children': [], 'value': 'maxNewByCell'},{'id': '105', 'type': 'identifier', 'children': [], 'value': 'initialPermanence'},{'id': '106', 'type': 'identifier', 'children': [], 'value': 'rng'} | def _learn(
permanences, rng,
activeCells, activeInput, growthCandidateInput,
sampleSize, initialPermanence, permanenceIncrement,
permanenceDecrement, connectedPermanence):
permanences.incrementNonZerosOnOuter(
activeCells, activeInput, permanenceIncrement)
permanences.incrementNonZerosOnRowsExcludingCols(
activeCells, activeInput, -permanenceDecrement)
permanences.clipRowsBelowAndAbove(
activeCells, 0.0, 1.0)
if sampleSize == -1:
permanences.setZerosOnOuter(
activeCells, activeInput, initialPermanence)
else:
existingSynapseCounts = permanences.nNonZerosPerRowOnCols(
activeCells, activeInput)
maxNewByCell = numpy.empty(len(activeCells), dtype="int32")
numpy.subtract(sampleSize, existingSynapseCounts, out=maxNewByCell)
permanences.setRandomZerosOnOuter(
activeCells, growthCandidateInput, maxNewByCell, initialPermanence, rng) |
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'type': 'identifier', 'children': [], 'value': 'featureLocationGrowthCandidates'},{'id': '16', 'type': 'tuple', 'children': []},{'id': '17', 'type': 'default_parameter', 'children': ['18', '19']},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'learn'},{'id': '19', 'type': 'True', 'children': []},{'id': '20', 'type': 'block', 'children': ['21', '27', '72', '123']},{'id': '21', 'type': 'expression_statement', 'children': ['22']},{'id': '22', 'type': 'assignment', 'children': ['23', '24']},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'prevActiveCells'},{'id': '24', 'type': 'attribute', 'children': ['25', '26']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'activeCells'},{'id': '27', 'type': 'expression_statement', 'children': ['28']},{'id': '28', 'type': 'assignment', 'children': ['29', '32']},{'id': '29', 'type': 'attribute', 'children': ['30', '31']},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'activeDeltaSegments'},{'id': '32', 'type': 'subscript', 'children': ['33', '71']},{'id': '33', 'type': 'call', 'children': ['34', '37']},{'id': '34', 'type': 'attribute', 'children': ['35', '36']},{'id': '35', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '36', 'type': 'identifier', 'children': [], 'value': 'where'},{'id': '37', 'type': 'argument_list', 'children': ['38']},{'id': '38', 'type': 'binary_operator', 'children': ['39', '55'], 'value': '&'},{'id': '39', 'type': '()', 'children': ['40']},{'id': '40', 'type': 'comparison_operator', 'children': ['41', '52'], 'value': '>='},{'id': '41', 'type': 'call', 'children': ['42', '47']},{'id': '42', 'type': 'attribute', 'children': ['43', '46']},{'id': '43', 'type': 'attribute', 'children': ['44', '45']},{'id': '44', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '45', 'type': 'identifier', 'children': [], 'value': 'internalConnections'},{'id': '46', 'type': 'identifier', 'children': [], 'value': 'computeActivity'},{'id': '47', 'type': 'argument_list', 'children': ['48', '49']},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'prevActiveCells'},{'id': '49', 'type': 'attribute', 'children': ['50', '51']},{'id': '50', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '51', 'type': 'identifier', 'children': [], 'value': 'connectedPermanence'},{'id': '52', 'type': 'attribute', 'children': ['53', '54']},{'id': '53', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '54', 'type': 'identifier', 'children': [], 'value': 'activationThreshold'},{'id': '55', 'type': '()', 'children': ['56']},{'id': '56', 'type': 'comparison_operator', 'children': ['57', '68'], 'value': '>='},{'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': 'deltaConnections'},{'id': '62', 'type': 'identifier', 'children': [], 'value': 'computeActivity'},{'id': '63', 'type': 'argument_list', 'children': ['64', '65']},{'id': '64', 'type': 'identifier', 'children': [], 'value': 'deltaLocation'},{'id': '65', 'type': 'attribute', 'children': ['66', '67']},{'id': '66', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '67', 'type': 'identifier', 'children': [], 'value': 'connectedPermanence'},{'id': '68', 'type': 'attribute', 'children': ['69', '70']},{'id': '69', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '70', 'type': 'identifier', 'children': [], 'value': 'activationThreshold'},{'id': '71', 'type': 'integer', 'children': [], 'value': '0'},{'id': '72', 'type': 'if_statement', 'children': ['73', '79', '107']},{'id': '73', 'type': 'comparison_operator', 'children': ['74', '78'], 'value': '=='},{'id': '74', 'type': 'call', 'children': ['75', '76']},{'id': '75', 'type': 'identifier', 'children': [], 'value': 'len'},{'id': '76', 'type': 'argument_list', 'children': ['77']},{'id': '77', 'type': 'identifier', 'children': [], 'value': 'deltaLocation'},{'id': '78', 'type': 'integer', 'children': [], 'value': '0'},{'id': '79', 'type': 'block', 'children': ['80']},{'id': '80', 'type': 'expression_statement', 'children': ['81']},{'id': '81', 'type': 'assignment', 'children': ['82', '85']},{'id': '82', 'type': 'attribute', 'children': ['83', '84']},{'id': '83', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '84', 'type': 'identifier', 'children': [], 'value': 'activeFeatureLocationSegments'},{'id': '85', 'type': 'subscript', 'children': ['86', '106']},{'id': '86', 'type': 'call', 'children': ['87', '90']},{'id': '87', 'type': 'attribute', 'children': ['88', '89']},{'id': '88', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '89', 'type': 'identifier', 'children': [], 'value': 'where'},{'id': '90', 'type': 'argument_list', 'children': ['91']},{'id': '91', 'type': 'comparison_operator', 'children': ['92', '103'], 'value': '>='},{'id': '92', 'type': 'call', 'children': ['93', '98']},{'id': '93', 'type': 'attribute', 'children': ['94', '97']},{'id': '94', 'type': 'attribute', 'children': ['95', '96']},{'id': '95', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '96', 'type': 'identifier', 'children': [], 'value': 'featureLocationConnections'},{'id': '97', 'type': 'identifier', 'children': [], 'value': 'computeActivity'},{'id': '98', 'type': 'argument_list', 'children': ['99', '100']},{'id': '99', 'type': 'identifier', 'children': [], 'value': 'featureLocationInput'},{'id': '100', 'type': 'attribute', 'children': ['101', '102']},{'id': '101', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '102', 'type': 'identifier', 'children': [], 'value': 'connectedPermanence'},{'id': '103', 'type': 'attribute', 'children': ['104', '105']},{'id': '104', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '105', 'type': 'identifier', 'children': [], 'value': 'activationThreshold'},{'id': '106', 'type': 'integer', 'children': [], 'value': '0'},{'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', '114']},{'id': '111', 'type': 'attribute', 'children': ['112', '113']},{'id': '112', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '113', 'type': 'identifier', 'children': [], 'value': 'activeFeatureLocationSegments'},{'id': '114', 'type': 'call', 'children': ['115', '118']},{'id': '115', 'type': 'attribute', 'children': ['116', '117']},{'id': '116', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '117', 'type': 'identifier', 'children': [], 'value': 'empty'},{'id': '118', 'type': 'argument_list', 'children': ['119', '120']},{'id': '119', 'type': 'integer', 'children': [], 'value': '0'},{'id': '120', 'type': 'keyword_argument', 'children': ['121', '122']},{'id': '121', 'type': 'identifier', 'children': [], 'value': 'dtype'},{'id': '122', 'type': 'string', 'children': [], 'value': '"uint32"'},{'id': '123', 'type': 'if_statement', 'children': ['124', '130', '158', '244']},{'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': 'newLocation'},{'id': '129', 'type': 'integer', 'children': [], 'value': '0'},{'id': '130', 'type': 'block', 'children': ['131', '137']},{'id': '131', 'type': 'expression_statement', 'children': ['132']},{'id': '132', 'type': 'assignment', 'children': ['133', '136']},{'id': '133', 'type': 'attribute', 'children': ['134', '135']},{'id': '134', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '135', 'type': 'identifier', 'children': [], 'value': 'activeCells'},{'id': '136', 'type': 'identifier', 'children': [], 'value': 'newLocation'},{'id': '137', 'type': 'if_statement', 'children': ['138', '139']},{'id': '138', 'type': 'identifier', 'children': [], 'value': 'learn'},{'id': '139', 'type': 'block', 'children': ['140', '149']},{'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': 'self'},{'id': '144', 'type': 'identifier', 'children': [], 'value': '_learnTransition'},{'id': '145', 'type': 'argument_list', 'children': ['146', '147', '148']},{'id': '146', 'type': 'identifier', 'children': [], 'value': 'prevActiveCells'},{'id': '147', 'type': 'identifier', 'children': [], 'value': 'deltaLocation'},{'id': '148', 'type': 'identifier', 'children': [], 'value': 'newLocation'},{'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': '_learnFeatureLocationPair'},{'id': '154', 'type': 'argument_list', 'children': ['155', '156', '157']},{'id': '155', 'type': 'identifier', 'children': [], 'value': 'newLocation'},{'id': '156', 'type': 'identifier', 'children': [], 'value': 'featureLocationInput'},{'id': '157', 'type': 'identifier', 'children': [], 'value': 'featureLocationGrowthCandidates'},{'id': '158', 'type': 'elif_clause', 'children': ['159', '165']},{'id': '159', 'type': 'comparison_operator', 'children': ['160', '164'], 'value': '>'},{'id': '160', 'type': 'call', 'children': ['161', '162']},{'id': '161', 'type': 'identifier', 'children': [], 'value': 'len'},{'id': '162', 'type': 'argument_list', 'children': ['163']},{'id': '163', 'type': 'identifier', 'children': [], 'value': 'prevActiveCells'},{'id': '164', 'type': 'integer', 'children': [], 'value': '0'},{'id': '165', 'type': 'block', 'children': ['166']},{'id': '166', 'type': 'if_statement', 'children': ['167', '173', '198']},{'id': '167', 'type': 'comparison_operator', 'children': ['168', '172'], 'value': '>'},{'id': '168', 'type': 'call', 'children': ['169', '170']},{'id': '169', 'type': 'identifier', 'children': [], 'value': 'len'},{'id': '170', 'type': 'argument_list', 'children': ['171']},{'id': '171', 'type': 'identifier', 'children': [], 'value': 'deltaLocation'},{'id': '172', 'type': 'integer', 'children': [], 'value': '0'},{'id': '173', 'type': 'block', 'children': ['174', '187']},{'id': '174', 'type': 'expression_statement', 'children': ['175']},{'id': '175', 'type': 'assignment', 'children': ['176', '177']},{'id': '176', 'type': 'identifier', 'children': [], 'value': 'cellsForDeltaSegments'},{'id': '177', 'type': 'call', 'children': ['178', '183']},{'id': '178', 'type': 'attribute', 'children': ['179', '182']},{'id': '179', 'type': 'attribute', 'children': ['180', '181']},{'id': '180', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '181', 'type': 'identifier', 'children': [], 'value': 'internalConnections'},{'id': '182', 'type': 'identifier', 'children': [], 'value': 'mapSegmentsToCells'},{'id': '183', 'type': 'argument_list', 'children': ['184']},{'id': '184', 'type': 'attribute', 'children': ['185', '186']},{'id': '185', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '186', 'type': 'identifier', 'children': [], 'value': 'activeDeltaSegments'},{'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': 'activeCells'},{'id': '192', 'type': 'call', 'children': ['193', '196']},{'id': '193', 'type': 'attribute', 'children': ['194', '195']},{'id': '194', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '195', 'type': 'identifier', 'children': [], 'value': 'unique'},{'id': '196', 'type': 'argument_list', 'children': ['197']},{'id': '197', 'type': 'identifier', 'children': [], 'value': 'cellsForDeltaSegments'},{'id': '198', 'type': 'else_clause', 'children': ['199']},{'id': '199', 'type': 'block', 'children': ['200']},{'id': '200', 'type': 'if_statement', 'children': ['201', '209', '236']},{'id': '201', 'type': 'comparison_operator', 'children': ['202', '208'], 'value': '>'},{'id': '202', 'type': 'call', 'children': ['203', '204']},{'id': '203', 'type': 'identifier', 'children': [], 'value': 'len'},{'id': '204', 'type': 'argument_list', 'children': ['205']},{'id': '205', 'type': 'attribute', 'children': ['206', '207']},{'id': '206', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '207', 'type': 'identifier', 'children': [], 'value': 'activeFeatureLocationSegments'},{'id': '208', 'type': 'integer', 'children': [], 'value': '0'},{'id': '209', 'type': 'block', 'children': ['210', '224']},{'id': '210', 'type': 'expression_statement', 'children': ['211']},{'id': '211', 'type': 'assignment', 'children': ['212', '213']},{'id': '212', 'type': 'identifier', 'children': [], 'value': 'cellsForFeatureLocationSegments'},{'id': '213', 'type': '()', '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': 'featureLocationConnections'},{'id': '219', 'type': 'identifier', 'children': [], 'value': 'mapSegmentsToCells'},{'id': '220', 'type': 'argument_list', 'children': ['221']},{'id': '221', 'type': 'attribute', 'children': ['222', '223']},{'id': '222', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '223', 'type': 'identifier', 'children': [], 'value': 'activeFeatureLocationSegments'},{'id': '224', 'type': 'expression_statement', 'children': ['225']},{'id': '225', 'type': 'assignment', 'children': ['226', '229']},{'id': '226', 'type': 'attribute', 'children': ['227', '228']},{'id': '227', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '228', 'type': 'identifier', 'children': [], 'value': 'activeCells'},{'id': '229', 'type': 'call', 'children': ['230', '233']},{'id': '230', 'type': 'attribute', 'children': ['231', '232']},{'id': '231', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '232', 'type': 'identifier', 'children': [], 'value': 'intersect1d'},{'id': '233', 'type': 'argument_list', 'children': ['234', '235']},{'id': '234', 'type': 'identifier', 'children': [], 'value': 'prevActiveCells'},{'id': '235', 'type': 'identifier', 'children': [], 'value': 'cellsForFeatureLocationSegments'},{'id': '236', 'type': 'else_clause', 'children': ['237']},{'id': '237', 'type': 'block', 'children': ['238']},{'id': '238', 'type': 'expression_statement', 'children': ['239']},{'id': '239', 'type': 'assignment', 'children': ['240', '243']},{'id': '240', 'type': 'attribute', 'children': ['241', '242']},{'id': '241', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '242', 'type': 'identifier', 'children': [], 'value': 'activeCells'},{'id': '243', 'type': 'identifier', 'children': [], 'value': 'prevActiveCells'},{'id': '244', 'type': 'elif_clause', 'children': ['245', '251']},{'id': '245', 'type': 'comparison_operator', 'children': ['246', '250'], 'value': '>'},{'id': '246', 'type': 'call', 'children': ['247', '248']},{'id': '247', 'type': 'identifier', 'children': [], 'value': 'len'},{'id': '248', 'type': 'argument_list', 'children': ['249']},{'id': '249', 'type': 'identifier', 'children': [], 'value': 'featureLocationInput'},{'id': '250', 'type': 'integer', 'children': [], 'value': '0'},{'id': '251', 'type': 'block', 'children': ['252', '266']},{'id': '252', 'type': 'expression_statement', 'children': ['253']},{'id': '253', 'type': 'assignment', 'children': ['254', '255']},{'id': '254', 'type': 'identifier', 'children': [], 'value': 'cellsForFeatureLocationSegments'},{'id': '255', 'type': '()', 'children': ['256']},{'id': '256', 'type': 'call', 'children': ['257', '262']},{'id': '257', 'type': 'attribute', 'children': ['258', '261']},{'id': '258', 'type': 'attribute', 'children': ['259', '260']},{'id': '259', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '260', 'type': 'identifier', 'children': [], 'value': 'featureLocationConnections'},{'id': '261', 'type': 'identifier', 'children': [], 'value': 'mapSegmentsToCells'},{'id': '262', 'type': 'argument_list', 'children': ['263']},{'id': '263', 'type': 'attribute', 'children': ['264', '265']},{'id': '264', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '265', 'type': 'identifier', 'children': [], 'value': 'activeFeatureLocationSegments'},{'id': '266', 'type': 'expression_statement', 'children': ['267']},{'id': '267', 'type': 'assignment', 'children': ['268', '271']},{'id': '268', 'type': 'attribute', 'children': ['269', '270']},{'id': '269', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '270', 'type': 'identifier', 'children': [], 'value': 'activeCells'},{'id': '271', 'type': 'call', 'children': ['272', '275']},{'id': '272', 'type': 'attribute', 'children': ['273', '274']},{'id': '273', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '274', 'type': 'identifier', 'children': [], 'value': 'unique'},{'id': '275', 'type': 'argument_list', 'children': ['276']},{'id': '276', 'type': 'identifier', 'children': [], 'value': 'cellsForFeatureLocationSegments'} | def compute(self, deltaLocation=(), newLocation=(),
featureLocationInput=(), featureLocationGrowthCandidates=(),
learn=True):
prevActiveCells = self.activeCells
self.activeDeltaSegments = np.where(
(self.internalConnections.computeActivity(
prevActiveCells, self.connectedPermanence
) >= self.activationThreshold)
&
(self.deltaConnections.computeActivity(
deltaLocation, self.connectedPermanence
) >= self.activationThreshold))[0]
if len(deltaLocation) == 0:
self.activeFeatureLocationSegments = np.where(
self.featureLocationConnections.computeActivity(
featureLocationInput, self.connectedPermanence
) >= self.activationThreshold)[0]
else:
self.activeFeatureLocationSegments = np.empty(0, dtype="uint32")
if len(newLocation) > 0:
self.activeCells = newLocation
if learn:
self._learnTransition(prevActiveCells, deltaLocation, newLocation)
self._learnFeatureLocationPair(newLocation, featureLocationInput,
featureLocationGrowthCandidates)
elif len(prevActiveCells) > 0:
if len(deltaLocation) > 0:
cellsForDeltaSegments = self.internalConnections.mapSegmentsToCells(
self.activeDeltaSegments)
self.activeCells = np.unique(cellsForDeltaSegments)
else:
if len(self.activeFeatureLocationSegments) > 0:
cellsForFeatureLocationSegments = (
self.featureLocationConnections.mapSegmentsToCells(
self.activeFeatureLocationSegments))
self.activeCells = np.intersect1d(prevActiveCells,
cellsForFeatureLocationSegments)
else:
self.activeCells = prevActiveCells
elif len(featureLocationInput) > 0:
cellsForFeatureLocationSegments = (
self.featureLocationConnections.mapSegmentsToCells(
self.activeFeatureLocationSegments))
self.activeCells = np.unique(cellsForFeatureLocationSegments) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '13']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'getmerge'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '7', '10']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'path'},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'dst'},{'id': '7', 'type': 'default_parameter', 'children': ['8', '9']},{'id': '8', 'type': 'identifier', 'children': [], 'value': 'newline'},{'id': '9', 'type': 'False', 'children': []},{'id': '10', 'type': 'default_parameter', 'children': ['11', '12']},{'id': '11', 'type': 'identifier', 'children': [], 'value': 'check_crc'},{'id': '12', 'type': 'False', 'children': []},{'id': '13', 'type': 'block', 'children': ['14', '16', '25', '34', '40', '48', '70']},{'id': '14', 'type': 'expression_statement', 'children': ['15']},{'id': '15', 'type': 'string', 'children': [], 'value': "''' Get all the files in the directories that\n match the source file pattern and merge and sort them to only\n one file on local fs.\n :param paths: Directory containing files that will be merged\n :type paths: string\n :param dst: Path of file that will be written\n :type dst: string\n :param nl: Add a newline character at the end of each file.\n :type nl: boolean\n :returns: string content of the merged file at dst\n '''"},{'id': '16', 'type': 'if_statement', 'children': ['17', '19']},{'id': '17', 'type': 'not_operator', 'children': ['18']},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'path'},{'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': 'InvalidInputException'},{'id': '23', 'type': 'argument_list', 'children': ['24']},{'id': '24', 'type': 'string', 'children': [], 'value': '"getmerge: no path given"'},{'id': '25', 'type': 'if_statement', 'children': ['26', '28']},{'id': '26', 'type': 'not_operator', 'children': ['27']},{'id': '27', 'type': 'identifier', 'children': [], 'value': 'dst'},{'id': '28', 'type': 'block', 'children': ['29']},{'id': '29', 'type': 'raise_statement', 'children': ['30']},{'id': '30', 'type': 'call', 'children': ['31', '32']},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'InvalidInputException'},{'id': '32', 'type': 'argument_list', 'children': ['33']},{'id': '33', 'type': 'string', 'children': [], 'value': '"getmerge: no destination given"'},{'id': '34', 'type': 'expression_statement', 'children': ['35']},{'id': '35', 'type': 'assignment', 'children': ['36', '37']},{'id': '36', 'type': 'identifier', 'children': [], 'value': 'temporary_target'},{'id': '37', 'type': 'binary_operator', 'children': ['38', '39'], 'value': '%'},{'id': '38', 'type': 'string', 'children': [], 'value': '"%s._COPYING_"'},{'id': '39', 'type': 'identifier', 'children': [], 'value': 'dst'},{'id': '40', 'type': 'expression_statement', 'children': ['41']},{'id': '41', 'type': 'assignment', 'children': ['42', '43']},{'id': '42', 'type': 'identifier', 'children': [], 'value': 'f'},{'id': '43', 'type': 'call', 'children': ['44', '45']},{'id': '44', 'type': 'identifier', 'children': [], 'value': 'open'},{'id': '45', 'type': 'argument_list', 'children': ['46', '47']},{'id': '46', 'type': 'identifier', 'children': [], 'value': 'temporary_target'},{'id': '47', 'type': 'string', 'children': [], 'value': "'w'"},{'id': '48', 'type': 'expression_statement', 'children': ['49']},{'id': '49', 'type': 'assignment', 'children': ['50', '51']},{'id': '50', 'type': 'identifier', 'children': [], 'value': 'processor'},{'id': '51', 'type': 'lambda', 'children': ['52', '61']},{'id': '52', 'type': 'lambda_parameters', 'children': ['53', '54', '55', '58']},{'id': '53', 'type': 'identifier', 'children': [], 'value': 'path'},{'id': '54', 'type': 'identifier', 'children': [], 'value': 'node'},{'id': '55', 'type': 'default_parameter', 'children': ['56', '57']},{'id': '56', 'type': 'identifier', 'children': [], 'value': 'dst'},{'id': '57', 'type': 'identifier', 'children': [], 'value': 'dst'},{'id': '58', 'type': 'default_parameter', 'children': ['59', '60']},{'id': '59', 'type': 'identifier', 'children': [], 'value': 'check_crc'},{'id': '60', 'type': 'identifier', 'children': [], 'value': 'check_crc'},{'id': '61', 'type': 'call', 'children': ['62', '65']},{'id': '62', 'type': 'attribute', 'children': ['63', '64']},{'id': '63', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '64', 'type': 'identifier', 'children': [], 'value': '_handle_getmerge'},{'id': '65', 'type': 'argument_list', 'children': ['66', '67', '68', '69']},{'id': '66', 'type': 'identifier', 'children': [], 'value': 'path'},{'id': '67', 'type': 'identifier', 'children': [], 'value': 'node'},{'id': '68', 'type': 'identifier', 'children': [], 'value': 'dst'},{'id': '69', 'type': 'identifier', 'children': [], 'value': 'check_crc'},{'id': '70', 'type': 'try_statement', 'children': ['71', '176']},{'id': '71', 'type': 'block', 'children': ['72', '156']},{'id': '72', 'type': 'for_statement', 'children': ['73', '74', '91']},{'id': '73', 'type': 'identifier', 'children': [], 'value': 'item'},{'id': '74', 'type': 'call', 'children': ['75', '78']},{'id': '75', 'type': 'attribute', 'children': ['76', '77']},{'id': '76', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '77', 'type': 'identifier', 'children': [], 'value': '_find_items'},{'id': '78', 'type': 'argument_list', 'children': ['79', '81', '82', '85', '88']},{'id': '79', 'type': 'list', 'children': ['80'], 'value': '[path]'},{'id': '80', 'type': 'identifier', 'children': [], 'value': 'path'},{'id': '81', 'type': 'identifier', 'children': [], 'value': 'processor'},{'id': '82', 'type': 'keyword_argument', 'children': ['83', '84']},{'id': '83', 'type': 'identifier', 'children': [], 'value': 'include_toplevel'},{'id': '84', 'type': 'True', 'children': []},{'id': '85', 'type': 'keyword_argument', 'children': ['86', '87']},{'id': '86', 'type': 'identifier', 'children': [], 'value': 'recurse'},{'id': '87', 'type': 'False', 'children': []},{'id': '88', 'type': 'keyword_argument', 'children': ['89', '90']},{'id': '89', 'type': 'identifier', 'children': [], 'value': 'include_children'},{'id': '90', 'type': 'True', 'children': []},{'id': '91', 'type': 'block', 'children': ['92', '142']},{'id': '92', 'type': 'for_statement', 'children': ['93', '94', '95']},{'id': '93', 'type': 'identifier', 'children': [], 'value': 'load'},{'id': '94', 'type': 'identifier', 'children': [], 'value': 'item'},{'id': '95', 'type': 'block', 'children': ['96']},{'id': '96', 'type': 'if_statement', 'children': ['97', '100', '110']},{'id': '97', 'type': 'subscript', 'children': ['98', '99']},{'id': '98', 'type': 'identifier', 'children': [], 'value': 'load'},{'id': '99', 'type': 'string', 'children': [], 'value': "'result'"},{'id': '100', 'type': 'block', 'children': ['101']},{'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': 'f'},{'id': '105', 'type': 'identifier', 'children': [], 'value': 'write'},{'id': '106', 'type': 'argument_list', 'children': ['107']},{'id': '107', 'type': 'subscript', 'children': ['108', '109']},{'id': '108', 'type': 'identifier', 'children': [], 'value': 'load'},{'id': '109', 'type': 'string', 'children': [], 'value': "'response'"},{'id': '110', 'type': 'elif_clause', 'children': ['111', '117']},{'id': '111', 'type': 'not_operator', 'children': ['112']},{'id': '112', 'type': 'comparison_operator', 'children': ['113', '116'], 'value': 'is'},{'id': '113', 'type': 'subscript', 'children': ['114', '115']},{'id': '114', 'type': 'identifier', 'children': [], 'value': 'load'},{'id': '115', 'type': 'string', 'children': [], 'value': "'error'"},{'id': '116', 'type': 'string', 'children': [], 'value': "''"},{'id': '117', 'type': 'block', 'children': ['118', '135']},{'id': '118', 'type': 'if_statement', 'children': ['119', '127']},{'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': 'os'},{'id': '123', 'type': 'identifier', 'children': [], 'value': 'path'},{'id': '124', 'type': 'identifier', 'children': [], 'value': 'isfile'},{'id': '125', 'type': 'argument_list', 'children': ['126']},{'id': '126', 'type': 'identifier', 'children': [], 'value': 'temporary_target'},{'id': '127', 'type': 'block', 'children': ['128']},{'id': '128', 'type': 'expression_statement', 'children': ['129']},{'id': '129', 'type': 'call', 'children': ['130', '133']},{'id': '130', 'type': 'attribute', 'children': ['131', '132']},{'id': '131', 'type': 'identifier', 'children': [], 'value': 'os'},{'id': '132', 'type': 'identifier', 'children': [], 'value': 'remove'},{'id': '133', 'type': 'argument_list', 'children': ['134']},{'id': '134', 'type': 'identifier', 'children': [], 'value': 'temporary_target'},{'id': '135', 'type': 'raise_statement', 'children': ['136']},{'id': '136', 'type': 'call', 'children': ['137', '138']},{'id': '137', 'type': 'identifier', 'children': [], 'value': 'FatalException'},{'id': '138', 'type': 'argument_list', 'children': ['139']},{'id': '139', 'type': 'subscript', 'children': ['140', '141']},{'id': '140', 'type': 'identifier', 'children': [], 'value': 'load'},{'id': '141', 'type': 'string', 'children': [], 'value': "'error'"},{'id': '142', 'type': 'if_statement', 'children': ['143', '148']},{'id': '143', 'type': 'boolean_operator', 'children': ['144', '145'], 'value': 'and'},{'id': '144', 'type': 'identifier', 'children': [], 'value': 'newline'},{'id': '145', 'type': 'subscript', 'children': ['146', '147']},{'id': '146', 'type': 'identifier', 'children': [], 'value': 'load'},{'id': '147', 'type': 'string', 'children': [], 'value': "'response'"},{'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': 'f'},{'id': '153', 'type': 'identifier', 'children': [], 'value': 'write'},{'id': '154', 'type': 'argument_list', 'children': ['155']},{'id': '155', 'type': 'string', 'children': [], 'value': '"\\n"'},{'id': '156', 'type': 'expression_statement', 'children': ['157']},{'id': '157', 'type': 'yield', 'children': ['158']},{'id': '158', 'type': 'dictionary', 'children': ['159', '162', '165', '168', '173']},{'id': '159', 'type': 'pair', 'children': ['160', '161']},{'id': '160', 'type': 'string', 'children': [], 'value': '"path"'},{'id': '161', 'type': 'identifier', 'children': [], 'value': 'dst'},{'id': '162', 'type': 'pair', 'children': ['163', '164']},{'id': '163', 'type': 'string', 'children': [], 'value': '"response"'},{'id': '164', 'type': 'string', 'children': [], 'value': "''"},{'id': '165', 'type': 'pair', 'children': ['166', '167']},{'id': '166', 'type': 'string', 'children': [], 'value': '"result"'},{'id': '167', 'type': 'True', 'children': []},{'id': '168', 'type': 'pair', 'children': ['169', '170']},{'id': '169', 'type': 'string', 'children': [], 'value': '"error"'},{'id': '170', 'type': 'subscript', 'children': ['171', '172']},{'id': '171', 'type': 'identifier', 'children': [], 'value': 'load'},{'id': '172', 'type': 'string', 'children': [], 'value': "'error'"},{'id': '173', 'type': 'pair', 'children': ['174', '175']},{'id': '174', 'type': 'string', 'children': [], 'value': '"source_path"'},{'id': '175', 'type': 'identifier', 'children': [], 'value': 'path'},{'id': '176', 'type': 'finally_clause', 'children': ['177']},{'id': '177', 'type': 'block', 'children': ['178']},{'id': '178', 'type': 'if_statement', 'children': ['179', '187']},{'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': 'os'},{'id': '183', 'type': 'identifier', 'children': [], 'value': 'path'},{'id': '184', 'type': 'identifier', 'children': [], 'value': 'isfile'},{'id': '185', 'type': 'argument_list', 'children': ['186']},{'id': '186', 'type': 'identifier', 'children': [], 'value': 'temporary_target'},{'id': '187', 'type': 'block', 'children': ['188', '194']},{'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': 'f'},{'id': '192', 'type': 'identifier', 'children': [], 'value': 'close'},{'id': '193', 'type': 'argument_list', 'children': []},{'id': '194', 'type': 'expression_statement', 'children': ['195']},{'id': '195', 'type': 'call', 'children': ['196', '199']},{'id': '196', 'type': 'attribute', 'children': ['197', '198']},{'id': '197', 'type': 'identifier', 'children': [], 'value': 'os'},{'id': '198', 'type': 'identifier', 'children': [], 'value': 'rename'},{'id': '199', 'type': 'argument_list', 'children': ['200', '201']},{'id': '200', 'type': 'identifier', 'children': [], 'value': 'temporary_target'},{'id': '201', 'type': 'identifier', 'children': [], 'value': 'dst'} | def getmerge(self, path, dst, newline=False, check_crc=False):
''' Get all the files in the directories that
match the source file pattern and merge and sort them to only
one file on local fs.
:param paths: Directory containing files that will be merged
:type paths: string
:param dst: Path of file that will be written
:type dst: string
:param nl: Add a newline character at the end of each file.
:type nl: boolean
:returns: string content of the merged file at dst
'''
if not path:
raise InvalidInputException("getmerge: no path given")
if not dst:
raise InvalidInputException("getmerge: no destination given")
temporary_target = "%s._COPYING_" % dst
f = open(temporary_target, 'w')
processor = lambda path, node, dst=dst, check_crc=check_crc: self._handle_getmerge(path, node, dst, check_crc)
try:
for item in self._find_items([path], processor, include_toplevel=True, recurse=False, include_children=True):
for load in item:
if load['result']:
f.write(load['response'])
elif not load['error'] is '':
if os.path.isfile(temporary_target):
os.remove(temporary_target)
raise FatalException(load['error'])
if newline and load['response']:
f.write("\n")
yield {"path": dst, "response": '', "result": True, "error": load['error'], "source_path": path}
finally:
if os.path.isfile(temporary_target):
f.close()
os.rename(temporary_target, dst) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'countByValue'},{'id': '3', 'type': 'parameters', 'children': ['4']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'block', 'children': ['6']},{'id': '6', 'type': 'return_statement', 'children': ['7']},{'id': '7', 'type': 'call', 'children': ['8', '11']},{'id': '8', 'type': 'attribute', 'children': ['9', '10']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '10', 'type': 'identifier', 'children': [], 'value': 'transform'},{'id': '11', 'type': 'argument_list', 'children': ['12']},{'id': '12', 'type': 'lambda', 'children': ['13', '15']},{'id': '13', 'type': 'lambda_parameters', 'children': ['14']},{'id': '14', 'type': 'identifier', 'children': [], 'value': 'rdd'},{'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': '_context'},{'id': '21', 'type': 'identifier', 'children': [], 'value': '_context'},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'parallelize'},{'id': '23', 'type': 'argument_list', 'children': ['24']},{'id': '24', 'type': 'call', 'children': ['25', '32']},{'id': '25', 'type': 'attribute', 'children': ['26', '31']},{'id': '26', 'type': 'call', 'children': ['27', '30']},{'id': '27', 'type': 'attribute', 'children': ['28', '29']},{'id': '28', 'type': 'identifier', 'children': [], 'value': 'rdd'},{'id': '29', 'type': 'identifier', 'children': [], 'value': 'countByValue'},{'id': '30', 'type': 'argument_list', 'children': []},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'items'},{'id': '32', 'type': 'argument_list', 'children': []} | def countByValue(self):
return self.transform(
lambda rdd: self._context._context.parallelize(
rdd.countByValue().items())) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '6']},{'id': '2', 'type': 'function_name', 'children': [], 'value': '_contiguous_offsets'},{'id': '3', 'type': 'parameters', 'children': ['4', '5']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'offsets'},{'id': '6', 'type': 'block', 'children': ['7', '13', '41']},{'id': '7', 'type': 'expression_statement', 'children': ['8']},{'id': '8', 'type': 'call', 'children': ['9', '12']},{'id': '9', 'type': 'attribute', 'children': ['10', '11']},{'id': '10', 'type': 'identifier', 'children': [], 'value': 'offsets'},{'id': '11', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '12', 'type': 'argument_list', 'children': []},{'id': '13', 'type': 'for_statement', 'children': ['14', '15', '24']},{'id': '14', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '15', 'type': 'call', 'children': ['16', '17']},{'id': '16', 'type': 'identifier', 'children': [], 'value': 'range'},{'id': '17', 'type': 'argument_list', 'children': ['18']},{'id': '18', 'type': 'binary_operator', 'children': ['19', '23'], 'value': '-'},{'id': '19', 'type': 'call', 'children': ['20', '21']},{'id': '20', 'type': 'identifier', 'children': [], 'value': 'len'},{'id': '21', 'type': 'argument_list', 'children': ['22']},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'offsets'},{'id': '23', 'type': 'integer', 'children': [], 'value': '1'},{'id': '24', 'type': 'block', 'children': ['25']},{'id': '25', 'type': 'assert_statement', 'children': ['26', '37']},{'id': '26', 'type': 'comparison_operator', 'children': ['27', '32'], 'value': '=='},{'id': '27', 'type': 'binary_operator', 'children': ['28', '31'], 'value': '+'},{'id': '28', 'type': 'subscript', 'children': ['29', '30']},{'id': '29', 'type': 'identifier', 'children': [], 'value': 'offsets'},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '31', 'type': 'integer', 'children': [], 'value': '1'},{'id': '32', 'type': 'subscript', 'children': ['33', '34']},{'id': '33', 'type': 'identifier', 'children': [], 'value': 'offsets'},{'id': '34', 'type': 'binary_operator', 'children': ['35', '36'], 'value': '+'},{'id': '35', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '36', 'type': 'integer', 'children': [], 'value': '1'},{'id': '37', 'type': 'binary_operator', 'children': ['38', '39'], 'value': '%'},{'id': '38', 'type': 'string', 'children': [], 'value': '"Offsets not contiguous: %s"'},{'id': '39', 'type': 'tuple', 'children': ['40']},{'id': '40', 'type': 'identifier', 'children': [], 'value': 'offsets'},{'id': '41', 'type': 'return_statement', 'children': ['42']},{'id': '42', 'type': 'identifier', 'children': [], 'value': 'offsets'} | def _contiguous_offsets(self, offsets):
offsets.sort()
for i in range(len(offsets) - 1):
assert offsets[i] + 1 == offsets[i + 1], \
"Offsets not contiguous: %s" % (offsets,)
return offsets |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']},{'id': '2', 'type': 'function_name', 'children': [], 'value': '_collapse'},{'id': '3', 'type': 'parameters', 'children': ['4']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'intervals'},{'id': '5', 'type': 'block', 'children': ['6', '10', '65']},{'id': '6', 'type': 'expression_statement', 'children': ['7']},{'id': '7', 'type': 'assignment', 'children': ['8', '9']},{'id': '8', 'type': 'identifier', 'children': [], 'value': 'span'},{'id': '9', 'type': 'None', 'children': []},{'id': '10', 'type': 'for_statement', 'children': ['11', '14', '15']},{'id': '11', 'type': 'pattern_list', 'children': ['12', '13']},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'start'},{'id': '13', 'type': 'identifier', 'children': [], 'value': 'stop'},{'id': '14', 'type': 'identifier', 'children': [], 'value': 'intervals'},{'id': '15', 'type': 'block', 'children': ['16']},{'id': '16', 'type': 'if_statement', 'children': ['17', '20', '29', '47']},{'id': '17', 'type': 'comparison_operator', 'children': ['18', '19'], 'value': 'is'},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'span'},{'id': '19', 'type': 'None', 'children': []},{'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': 'span'},{'id': '24', 'type': 'call', 'children': ['25', '26']},{'id': '25', 'type': 'identifier', 'children': [], 'value': '_Interval'},{'id': '26', 'type': 'argument_list', 'children': ['27', '28']},{'id': '27', 'type': 'identifier', 'children': [], 'value': 'start'},{'id': '28', 'type': 'identifier', 'children': [], 'value': 'stop'},{'id': '29', 'type': 'elif_clause', 'children': ['30', '36']},{'id': '30', 'type': 'comparison_operator', 'children': ['31', '32', '35'], 'value': '<='},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'start'},{'id': '32', 'type': 'attribute', 'children': ['33', '34']},{'id': '33', 'type': 'identifier', 'children': [], 'value': 'span'},{'id': '34', 'type': 'identifier', 'children': [], 'value': 'stop'},{'id': '35', 'type': 'identifier', 'children': [], 'value': 'stop'},{'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': 'span'},{'id': '40', 'type': 'call', 'children': ['41', '42']},{'id': '41', 'type': 'identifier', 'children': [], 'value': '_Interval'},{'id': '42', 'type': 'argument_list', 'children': ['43', '46']},{'id': '43', 'type': 'attribute', 'children': ['44', '45']},{'id': '44', 'type': 'identifier', 'children': [], 'value': 'span'},{'id': '45', 'type': 'identifier', 'children': [], 'value': 'start'},{'id': '46', 'type': 'identifier', 'children': [], 'value': 'stop'},{'id': '47', 'type': 'elif_clause', 'children': ['48', '53']},{'id': '48', 'type': 'comparison_operator', 'children': ['49', '50'], 'value': '>'},{'id': '49', 'type': 'identifier', 'children': [], 'value': 'start'},{'id': '50', 'type': 'attribute', 'children': ['51', '52']},{'id': '51', 'type': 'identifier', 'children': [], 'value': 'span'},{'id': '52', 'type': 'identifier', 'children': [], 'value': 'stop'},{'id': '53', 'type': 'block', 'children': ['54', '57']},{'id': '54', 'type': 'expression_statement', 'children': ['55']},{'id': '55', 'type': 'yield', 'children': ['56']},{'id': '56', 'type': 'identifier', 'children': [], 'value': 'span'},{'id': '57', 'type': 'expression_statement', 'children': ['58']},{'id': '58', 'type': 'assignment', 'children': ['59', '60']},{'id': '59', 'type': 'identifier', 'children': [], 'value': 'span'},{'id': '60', 'type': 'call', 'children': ['61', '62']},{'id': '61', 'type': 'identifier', 'children': [], 'value': '_Interval'},{'id': '62', 'type': 'argument_list', 'children': ['63', '64']},{'id': '63', 'type': 'identifier', 'children': [], 'value': 'start'},{'id': '64', 'type': 'identifier', 'children': [], 'value': 'stop'},{'id': '65', 'type': 'if_statement', 'children': ['66', '69']},{'id': '66', 'type': 'comparison_operator', 'children': ['67', '68'], 'value': 'is'},{'id': '67', 'type': 'identifier', 'children': [], 'value': 'span'},{'id': '68', 'type': 'None', 'children': []},{'id': '69', 'type': 'block', 'children': ['70']},{'id': '70', 'type': 'expression_statement', 'children': ['71']},{'id': '71', 'type': 'yield', 'children': ['72']},{'id': '72', 'type': 'identifier', 'children': [], 'value': 'span'} | def _collapse(intervals):
span = None
for start, stop in intervals:
if span is None:
span = _Interval(start, stop)
elif start <= span.stop < stop:
span = _Interval(span.start, stop)
elif start > span.stop:
yield span
span = _Interval(start, stop)
if span is not None:
yield span |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '14']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'remove'},{'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': 'index'},{'id': '7', 'type': 'None', 'children': []},{'id': '8', 'type': 'default_parameter', 'children': ['9', '10']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'hash'},{'id': '10', 'type': 'None', 'children': []},{'id': '11', 'type': 'default_parameter', 'children': ['12', '13']},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'keepSorted'},{'id': '13', 'type': 'True', 'children': []},{'id': '14', 'type': 'block', 'children': ['15', '32', '143', '160']},{'id': '15', 'type': 'if_statement', 'children': ['16', '19']},{'id': '16', 'type': 'comparison_operator', 'children': ['17', '18'], 'value': 'is'},{'id': '17', 'type': 'identifier', 'children': [], 'value': 'index'},{'id': '18', 'type': 'None', 'children': []},{'id': '19', 'type': 'block', 'children': ['20']},{'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': 'clibrebound'},{'id': '24', 'type': 'identifier', 'children': [], 'value': 'reb_remove'},{'id': '25', 'type': 'argument_list', 'children': ['26', '30', '31']},{'id': '26', 'type': 'call', 'children': ['27', '28']},{'id': '27', 'type': 'identifier', 'children': [], 'value': 'byref'},{'id': '28', 'type': 'argument_list', 'children': ['29']},{'id': '29', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'index'},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'keepSorted'},{'id': '32', 'type': 'if_statement', 'children': ['33', '36']},{'id': '33', 'type': 'comparison_operator', 'children': ['34', '35'], 'value': 'is'},{'id': '34', 'type': 'identifier', 'children': [], 'value': 'hash'},{'id': '35', 'type': 'None', 'children': []},{'id': '36', 'type': 'block', 'children': ['37', '44', '54', '80']},{'id': '37', 'type': 'expression_statement', 'children': ['38']},{'id': '38', 'type': 'assignment', 'children': ['39', '40']},{'id': '39', 'type': 'identifier', 'children': [], 'value': 'hash_types'},{'id': '40', 'type': 'expression_list', 'children': ['41', '42', '43']},{'id': '41', 'type': 'identifier', 'children': [], 'value': 'c_uint32'},{'id': '42', 'type': 'identifier', 'children': [], 'value': 'c_uint'},{'id': '43', 'type': 'identifier', 'children': [], 'value': 'c_ulong'},{'id': '44', 'type': 'expression_statement', 'children': ['45']},{'id': '45', 'type': 'assignment', 'children': ['46', '47']},{'id': '46', 'type': 'identifier', 'children': [], 'value': 'PY3'},{'id': '47', 'type': 'comparison_operator', 'children': ['48', '53'], 'value': '=='},{'id': '48', 'type': 'subscript', 'children': ['49', '52']},{'id': '49', 'type': 'attribute', 'children': ['50', '51']},{'id': '50', 'type': 'identifier', 'children': [], 'value': 'sys'},{'id': '51', 'type': 'identifier', 'children': [], 'value': 'version_info'},{'id': '52', 'type': 'integer', 'children': [], 'value': '0'},{'id': '53', 'type': 'integer', 'children': [], 'value': '3'},{'id': '54', 'type': 'if_statement', 'children': ['55', '56', '67']},{'id': '55', 'type': 'identifier', 'children': [], 'value': 'PY3'},{'id': '56', 'type': 'block', 'children': ['57', '62']},{'id': '57', 'type': 'expression_statement', 'children': ['58']},{'id': '58', 'type': 'assignment', 'children': ['59', '60']},{'id': '59', 'type': 'identifier', 'children': [], 'value': 'string_types'},{'id': '60', 'type': 'expression_list', 'children': ['61']},{'id': '61', 'type': 'identifier', 'children': [], 'value': 'str'},{'id': '62', 'type': 'expression_statement', 'children': ['63']},{'id': '63', 'type': 'assignment', 'children': ['64', '65']},{'id': '64', 'type': 'identifier', 'children': [], 'value': 'int_types'},{'id': '65', 'type': 'expression_list', 'children': ['66']},{'id': '66', 'type': 'identifier', 'children': [], 'value': 'int'},{'id': '67', 'type': 'else_clause', 'children': ['68']},{'id': '68', 'type': 'block', 'children': ['69', '74']},{'id': '69', 'type': 'expression_statement', 'children': ['70']},{'id': '70', 'type': 'assignment', 'children': ['71', '72']},{'id': '71', 'type': 'identifier', 'children': [], 'value': 'string_types'},{'id': '72', 'type': 'expression_list', 'children': ['73']},{'id': '73', 'type': 'identifier', 'children': [], 'value': 'basestring'},{'id': '74', 'type': 'expression_statement', 'children': ['75']},{'id': '75', 'type': 'assignment', 'children': ['76', '77']},{'id': '76', 'type': 'identifier', 'children': [], 'value': 'int_types'},{'id': '77', 'type': 'expression_list', 'children': ['78', '79']},{'id': '78', 'type': 'identifier', 'children': [], 'value': 'int'},{'id': '79', 'type': 'identifier', 'children': [], 'value': 'long'},{'id': '80', 'type': 'if_statement', 'children': ['81', '86', '102', '124']},{'id': '81', 'type': 'call', 'children': ['82', '83']},{'id': '82', 'type': 'identifier', 'children': [], 'value': 'isinstance'},{'id': '83', 'type': 'argument_list', 'children': ['84', '85']},{'id': '84', 'type': 'identifier', 'children': [], 'value': 'hash'},{'id': '85', 'type': 'identifier', 'children': [], 'value': 'string_types'},{'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']},{'id': '90', 'type': 'identifier', 'children': [], 'value': 'clibrebound'},{'id': '91', 'type': 'identifier', 'children': [], 'value': 'reb_remove_by_hash'},{'id': '92', 'type': 'argument_list', 'children': ['93', '97', '101']},{'id': '93', 'type': 'call', 'children': ['94', '95']},{'id': '94', 'type': 'identifier', 'children': [], 'value': 'byref'},{'id': '95', 'type': 'argument_list', 'children': ['96']},{'id': '96', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '97', 'type': 'call', 'children': ['98', '99']},{'id': '98', 'type': 'identifier', 'children': [], 'value': 'rebhash'},{'id': '99', 'type': 'argument_list', 'children': ['100']},{'id': '100', 'type': 'identifier', 'children': [], 'value': 'hash'},{'id': '101', 'type': 'identifier', 'children': [], 'value': 'keepSorted'},{'id': '102', 'type': 'elif_clause', 'children': ['103', '108']},{'id': '103', 'type': 'call', 'children': ['104', '105']},{'id': '104', 'type': 'identifier', 'children': [], 'value': 'isinstance'},{'id': '105', 'type': 'argument_list', 'children': ['106', '107']},{'id': '106', 'type': 'identifier', 'children': [], 'value': 'hash'},{'id': '107', 'type': 'identifier', 'children': [], 'value': 'int_types'},{'id': '108', 'type': 'block', 'children': ['109']},{'id': '109', 'type': 'expression_statement', 'children': ['110']},{'id': '110', 'type': 'call', 'children': ['111', '114']},{'id': '111', 'type': 'attribute', 'children': ['112', '113']},{'id': '112', 'type': 'identifier', 'children': [], 'value': 'clibrebound'},{'id': '113', 'type': 'identifier', 'children': [], 'value': 'reb_remove_by_hash'},{'id': '114', 'type': 'argument_list', 'children': ['115', '119', '123']},{'id': '115', 'type': 'call', 'children': ['116', '117']},{'id': '116', 'type': 'identifier', 'children': [], 'value': 'byref'},{'id': '117', 'type': 'argument_list', 'children': ['118']},{'id': '118', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '119', 'type': 'call', 'children': ['120', '121']},{'id': '120', 'type': 'identifier', 'children': [], 'value': 'c_uint32'},{'id': '121', 'type': 'argument_list', 'children': ['122']},{'id': '122', 'type': 'identifier', 'children': [], 'value': 'hash'},{'id': '123', 'type': 'identifier', 'children': [], 'value': 'keepSorted'},{'id': '124', 'type': 'elif_clause', 'children': ['125', '130']},{'id': '125', 'type': 'call', 'children': ['126', '127']},{'id': '126', 'type': 'identifier', 'children': [], 'value': 'isinstance'},{'id': '127', 'type': 'argument_list', 'children': ['128', '129']},{'id': '128', 'type': 'identifier', 'children': [], 'value': 'hash'},{'id': '129', 'type': 'identifier', 'children': [], 'value': 'hash_types'},{'id': '130', 'type': 'block', 'children': ['131']},{'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': 'clibrebound'},{'id': '135', 'type': 'identifier', 'children': [], 'value': 'reb_remove_by_hash'},{'id': '136', 'type': 'argument_list', 'children': ['137', '141', '142']},{'id': '137', 'type': 'call', 'children': ['138', '139']},{'id': '138', 'type': 'identifier', 'children': [], 'value': 'byref'},{'id': '139', 'type': 'argument_list', 'children': ['140']},{'id': '140', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '141', 'type': 'identifier', 'children': [], 'value': 'hash'},{'id': '142', 'type': 'identifier', 'children': [], 'value': 'keepSorted'},{'id': '143', 'type': 'if_statement', 'children': ['144', '149']},{'id': '144', 'type': 'call', 'children': ['145', '146']},{'id': '145', 'type': 'identifier', 'children': [], 'value': 'hasattr'},{'id': '146', 'type': 'argument_list', 'children': ['147', '148']},{'id': '147', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '148', 'type': 'string', 'children': [], 'value': "'_widgets'"},{'id': '149', 'type': 'block', 'children': ['150']},{'id': '150', 'type': 'expression_statement', 'children': ['151']},{'id': '151', 'type': 'call', 'children': ['152', '155']},{'id': '152', 'type': 'attribute', 'children': ['153', '154']},{'id': '153', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '154', 'type': 'identifier', 'children': [], 'value': '_display_heartbeat'},{'id': '155', 'type': 'argument_list', 'children': ['156']},{'id': '156', 'type': 'call', 'children': ['157', '158']},{'id': '157', 'type': 'identifier', 'children': [], 'value': 'pointer'},{'id': '158', 'type': 'argument_list', 'children': ['159']},{'id': '159', 'type': 'identifier', 'children': [], 'value': 'self'},{'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': 'process_messages'},{'id': '165', 'type': 'argument_list', 'children': []} | def remove(self, index=None, hash=None, keepSorted=True):
if index is not None:
clibrebound.reb_remove(byref(self), index, keepSorted)
if hash is not None:
hash_types = c_uint32, c_uint, c_ulong
PY3 = sys.version_info[0] == 3
if PY3:
string_types = str,
int_types = int,
else:
string_types = basestring,
int_types = int, long
if isinstance(hash, string_types):
clibrebound.reb_remove_by_hash(byref(self), rebhash(hash), keepSorted)
elif isinstance(hash, int_types):
clibrebound.reb_remove_by_hash(byref(self), c_uint32(hash), keepSorted)
elif isinstance(hash, hash_types):
clibrebound.reb_remove_by_hash(byref(self), hash, keepSorted)
if hasattr(self, '_widgets'):
self._display_heartbeat(pointer(self))
self.process_messages() |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'particles'},{'id': '3', 'type': 'parameters', 'children': ['4']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'block', 'children': ['6', '14', '18', '41', '47', '76']},{'id': '6', 'type': 'expression_statement', 'children': ['7']},{'id': '7', 'type': 'assignment', 'children': ['8', '9']},{'id': '8', 'type': 'identifier', 'children': [], 'value': 'sim'},{'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': '_sim'},{'id': '13', 'type': 'identifier', 'children': [], 'value': 'contents'},{'id': '14', 'type': 'expression_statement', 'children': ['15']},{'id': '15', 'type': 'assignment', 'children': ['16', '17']},{'id': '16', 'type': 'identifier', 'children': [], 'value': 'ps'},{'id': '17', 'type': 'list', 'children': [], 'value': '[]'},{'id': '18', 'type': 'if_statement', 'children': ['19', '24', '29']},{'id': '19', 'type': 'comparison_operator', 'children': ['20', '23'], 'value': '>='},{'id': '20', 'type': 'attribute', 'children': ['21', '22']},{'id': '21', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'testparticle'},{'id': '23', 'type': 'integer', 'children': [], 'value': '0'},{'id': '24', 'type': 'block', 'children': ['25']},{'id': '25', 'type': 'expression_statement', 'children': ['26']},{'id': '26', 'type': 'assignment', 'children': ['27', '28']},{'id': '27', 'type': 'identifier', 'children': [], 'value': 'N'},{'id': '28', 'type': 'integer', 'children': [], 'value': '1'},{'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': 'N'},{'id': '34', 'type': 'binary_operator', 'children': ['35', '38'], 'value': '-'},{'id': '35', 'type': 'attribute', 'children': ['36', '37']},{'id': '36', 'type': 'identifier', 'children': [], 'value': 'sim'},{'id': '37', 'type': 'identifier', 'children': [], 'value': 'N'},{'id': '38', 'type': 'attribute', 'children': ['39', '40']},{'id': '39', 'type': 'identifier', 'children': [], 'value': 'sim'},{'id': '40', 'type': 'identifier', 'children': [], 'value': 'N_var'},{'id': '41', 'type': 'expression_statement', 'children': ['42']},{'id': '42', 'type': 'assignment', 'children': ['43', '44']},{'id': '43', 'type': 'identifier', 'children': [], 'value': 'ParticleList'},{'id': '44', 'type': 'binary_operator', 'children': ['45', '46'], 'value': '*'},{'id': '45', 'type': 'identifier', 'children': [], 'value': 'Particle'},{'id': '46', 'type': 'identifier', 'children': [], 'value': 'N'},{'id': '47', 'type': 'expression_statement', 'children': ['48']},{'id': '48', 'type': 'assignment', 'children': ['49', '50']},{'id': '49', 'type': 'identifier', 'children': [], 'value': 'ps'},{'id': '50', 'type': 'call', 'children': ['51', '54']},{'id': '51', 'type': 'attribute', 'children': ['52', '53']},{'id': '52', 'type': 'identifier', 'children': [], 'value': 'ParticleList'},{'id': '53', 'type': 'identifier', 'children': [], 'value': 'from_address'},{'id': '54', 'type': 'argument_list', 'children': ['55']},{'id': '55', 'type': 'binary_operator', 'children': ['56', '66'], 'value': '+'},{'id': '56', 'type': 'call', 'children': ['57', '60']},{'id': '57', 'type': 'attribute', 'children': ['58', '59']},{'id': '58', 'type': 'identifier', 'children': [], 'value': 'ctypes'},{'id': '59', 'type': 'identifier', 'children': [], 'value': 'addressof'},{'id': '60', 'type': 'argument_list', 'children': ['61']},{'id': '61', 'type': 'attribute', 'children': ['62', '65']},{'id': '62', 'type': 'attribute', 'children': ['63', '64']},{'id': '63', 'type': 'identifier', 'children': [], 'value': 'sim'},{'id': '64', 'type': 'identifier', 'children': [], 'value': '_particles'},{'id': '65', 'type': 'identifier', 'children': [], 'value': 'contents'},{'id': '66', 'type': 'binary_operator', 'children': ['67', '70'], 'value': '*'},{'id': '67', 'type': 'attribute', 'children': ['68', '69']},{'id': '68', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '69', 'type': 'identifier', 'children': [], 'value': 'index'},{'id': '70', 'type': 'call', 'children': ['71', '74']},{'id': '71', 'type': 'attribute', 'children': ['72', '73']},{'id': '72', 'type': 'identifier', 'children': [], 'value': 'ctypes'},{'id': '73', 'type': 'identifier', 'children': [], 'value': 'sizeof'},{'id': '74', 'type': 'argument_list', 'children': ['75']},{'id': '75', 'type': 'identifier', 'children': [], 'value': 'Particle'},{'id': '76', 'type': 'return_statement', 'children': ['77']},{'id': '77', 'type': 'identifier', 'children': [], 'value': 'ps'} | def particles(self):
sim = self._sim.contents
ps = []
if self.testparticle>=0:
N = 1
else:
N = sim.N-sim.N_var
ParticleList = Particle*N
ps = ParticleList.from_address(ctypes.addressof(sim._particles.contents)+self.index*ctypes.sizeof(Particle))
return ps |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '8']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'filter_queryset'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '7']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'request'},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'queryset'},{'id': '7', 'type': 'identifier', 'children': [], 'value': 'view'},{'id': '8', 'type': 'block', 'children': ['9', '17', '28', '39']},{'id': '9', 'type': 'expression_statement', 'children': ['10']},{'id': '10', 'type': 'assignment', 'children': ['11', '14']},{'id': '11', 'type': 'attribute', 'children': ['12', '13']},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '13', 'type': 'identifier', 'children': [], 'value': 'ordering_param'},{'id': '14', 'type': 'attribute', 'children': ['15', '16']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'view'},{'id': '16', 'type': 'identifier', 'children': [], 'value': 'SORT'},{'id': '17', 'type': 'expression_statement', 'children': ['18']},{'id': '18', 'type': 'assignment', 'children': ['19', '20']},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'ordering'},{'id': '20', 'type': 'call', 'children': ['21', '24']},{'id': '21', 'type': 'attribute', 'children': ['22', '23']},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'get_ordering'},{'id': '24', 'type': 'argument_list', 'children': ['25', '26', '27']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'request'},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'queryset'},{'id': '27', 'type': 'identifier', 'children': [], 'value': 'view'},{'id': '28', 'type': 'if_statement', 'children': ['29', '30']},{'id': '29', 'type': 'identifier', 'children': [], 'value': 'ordering'},{'id': '30', 'type': 'block', 'children': ['31']},{'id': '31', 'type': 'return_statement', 'children': ['32']},{'id': '32', 'type': 'call', 'children': ['33', '36']},{'id': '33', 'type': 'attribute', 'children': ['34', '35']},{'id': '34', 'type': 'identifier', 'children': [], 'value': 'queryset'},{'id': '35', 'type': 'identifier', 'children': [], 'value': 'order_by'},{'id': '36', 'type': 'argument_list', 'children': ['37']},{'id': '37', 'type': 'list_splat', 'children': ['38']},{'id': '38', 'type': 'identifier', 'children': [], 'value': 'ordering'},{'id': '39', 'type': 'return_statement', 'children': ['40']},{'id': '40', 'type': 'identifier', 'children': [], 'value': 'queryset'} | def filter_queryset(self, request, queryset, view):
self.ordering_param = view.SORT
ordering = self.get_ordering(request, queryset, view)
if ordering:
return queryset.order_by(*ordering)
return queryset |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '8']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'get_ordering'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '7']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'request'},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'queryset'},{'id': '7', 'type': 'identifier', 'children': [], 'value': 'view'},{'id': '8', 'type': 'block', 'children': ['9', '20', '62']},{'id': '9', 'type': 'expression_statement', 'children': ['10']},{'id': '10', 'type': 'assignment', 'children': ['11', '12']},{'id': '11', 'type': 'identifier', 'children': [], 'value': 'params'},{'id': '12', 'type': 'call', 'children': ['13', '16']},{'id': '13', 'type': 'attribute', 'children': ['14', '15']},{'id': '14', 'type': 'identifier', 'children': [], 'value': 'view'},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'get_request_feature'},{'id': '16', 'type': 'argument_list', 'children': ['17']},{'id': '17', 'type': 'attribute', 'children': ['18', '19']},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'view'},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'SORT'},{'id': '20', 'type': 'if_statement', 'children': ['21', '22']},{'id': '21', 'type': 'identifier', 'children': [], 'value': 'params'},{'id': '22', 'type': 'block', 'children': ['23', '35', '48']},{'id': '23', 'type': 'expression_statement', 'children': ['24']},{'id': '24', 'type': 'assignment', 'children': ['25', '26']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'fields'},{'id': '26', 'type': 'list_comprehension', 'children': ['27', '32']},{'id': '27', 'type': 'call', 'children': ['28', '31']},{'id': '28', 'type': 'attribute', 'children': ['29', '30']},{'id': '29', 'type': 'identifier', 'children': [], 'value': 'param'},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'strip'},{'id': '31', 'type': 'argument_list', 'children': []},{'id': '32', 'type': 'for_in_clause', 'children': ['33', '34']},{'id': '33', 'type': 'identifier', 'children': [], 'value': 'param'},{'id': '34', 'type': 'identifier', 'children': [], 'value': 'params'},{'id': '35', 'type': 'expression_statement', 'children': ['36']},{'id': '36', 'type': 'assignment', 'children': ['37', '40']},{'id': '37', 'type': 'pattern_list', 'children': ['38', '39']},{'id': '38', 'type': 'identifier', 'children': [], 'value': 'valid_ordering'},{'id': '39', 'type': 'identifier', 'children': [], 'value': 'invalid_ordering'},{'id': '40', 'type': 'call', 'children': ['41', '44']},{'id': '41', 'type': 'attribute', 'children': ['42', '43']},{'id': '42', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '43', 'type': 'identifier', 'children': [], 'value': 'remove_invalid_fields'},{'id': '44', 'type': 'argument_list', 'children': ['45', '46', '47']},{'id': '45', 'type': 'identifier', 'children': [], 'value': 'queryset'},{'id': '46', 'type': 'identifier', 'children': [], 'value': 'fields'},{'id': '47', 'type': 'identifier', 'children': [], 'value': 'view'},{'id': '48', 'type': 'if_statement', 'children': ['49', '50', '58']},{'id': '49', 'type': 'identifier', 'children': [], 'value': 'invalid_ordering'},{'id': '50', 'type': 'block', 'children': ['51']},{'id': '51', 'type': 'raise_statement', 'children': ['52']},{'id': '52', 'type': 'call', 'children': ['53', '54']},{'id': '53', 'type': 'identifier', 'children': [], 'value': 'ValidationError'},{'id': '54', 'type': 'argument_list', 'children': ['55']},{'id': '55', 'type': 'binary_operator', 'children': ['56', '57'], 'value': '%'},{'id': '56', 'type': 'string', 'children': [], 'value': '"Invalid filter field: %s"'},{'id': '57', 'type': 'identifier', 'children': [], 'value': 'invalid_ordering'},{'id': '58', 'type': 'else_clause', 'children': ['59']},{'id': '59', 'type': 'block', 'children': ['60']},{'id': '60', 'type': 'return_statement', 'children': ['61']},{'id': '61', 'type': 'identifier', 'children': [], 'value': 'valid_ordering'},{'id': '62', 'type': 'return_statement', 'children': ['63']},{'id': '63', 'type': 'call', 'children': ['64', '67']},{'id': '64', 'type': 'attribute', 'children': ['65', '66']},{'id': '65', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '66', 'type': 'identifier', 'children': [], 'value': 'get_default_ordering'},{'id': '67', 'type': 'argument_list', 'children': ['68']},{'id': '68', 'type': 'identifier', 'children': [], 'value': 'view'} | def get_ordering(self, request, queryset, view):
params = view.get_request_feature(view.SORT)
if params:
fields = [param.strip() for param in params]
valid_ordering, invalid_ordering = self.remove_invalid_fields(
queryset, fields, view
)
if invalid_ordering:
raise ValidationError(
"Invalid filter field: %s" % invalid_ordering
)
else:
return valid_ordering
return self.get_default_ordering(view) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '8']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'remove_invalid_fields'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '7']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'queryset'},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'fields'},{'id': '7', 'type': 'identifier', 'children': [], 'value': 'view'},{'id': '8', 'type': 'block', 'children': ['9', '13', '17', '76']},{'id': '9', 'type': 'expression_statement', 'children': ['10']},{'id': '10', 'type': 'assignment', 'children': ['11', '12']},{'id': '11', 'type': 'identifier', 'children': [], 'value': 'valid_orderings'},{'id': '12', 'type': 'list', 'children': [], 'value': '[]'},{'id': '13', 'type': 'expression_statement', 'children': ['14']},{'id': '14', 'type': 'assignment', 'children': ['15', '16']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'invalid_orderings'},{'id': '16', 'type': 'list', 'children': [], 'value': '[]'},{'id': '17', 'type': 'for_statement', 'children': ['18', '19', '20']},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'term'},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'fields'},{'id': '20', 'type': 'block', 'children': ['21', '30', '45', '55']},{'id': '21', 'type': 'expression_statement', 'children': ['22']},{'id': '22', 'type': 'assignment', 'children': ['23', '24']},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'stripped_term'},{'id': '24', 'type': 'call', 'children': ['25', '28']},{'id': '25', 'type': 'attribute', 'children': ['26', '27']},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'term'},{'id': '27', 'type': 'identifier', 'children': [], 'value': 'lstrip'},{'id': '28', 'type': 'argument_list', 'children': ['29']},{'id': '29', 'type': 'string', 'children': [], 'value': "'-'"},{'id': '30', 'type': 'expression_statement', 'children': ['31']},{'id': '31', 'type': 'assignment', 'children': ['32', '33']},{'id': '32', 'type': 'identifier', 'children': [], 'value': 'reverse_sort_term'},{'id': '33', 'type': 'conditional_expression', 'children': ['34', '35', '44'], 'value': 'if'},{'id': '34', 'type': 'string', 'children': [], 'value': "''"},{'id': '35', 'type': 'comparison_operator', 'children': ['36', '40'], 'value': 'is'},{'id': '36', 'type': 'call', 'children': ['37', '38']},{'id': '37', 'type': 'identifier', 'children': [], 'value': 'len'},{'id': '38', 'type': 'argument_list', 'children': ['39']},{'id': '39', 'type': 'identifier', 'children': [], 'value': 'stripped_term'},{'id': '40', 'type': 'call', 'children': ['41', '42']},{'id': '41', 'type': 'identifier', 'children': [], 'value': 'len'},{'id': '42', 'type': 'argument_list', 'children': ['43']},{'id': '43', 'type': 'identifier', 'children': [], 'value': 'term'},{'id': '44', 'type': 'string', 'children': [], 'value': "'-'"},{'id': '45', 'type': 'expression_statement', 'children': ['46']},{'id': '46', 'type': 'assignment', 'children': ['47', '48']},{'id': '47', 'type': 'identifier', 'children': [], 'value': 'ordering'},{'id': '48', 'type': 'call', 'children': ['49', '52']},{'id': '49', 'type': 'attribute', 'children': ['50', '51']},{'id': '50', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '51', 'type': 'identifier', 'children': [], 'value': 'ordering_for'},{'id': '52', 'type': 'argument_list', 'children': ['53', '54']},{'id': '53', 'type': 'identifier', 'children': [], 'value': 'stripped_term'},{'id': '54', 'type': 'identifier', 'children': [], 'value': 'view'},{'id': '55', 'type': 'if_statement', 'children': ['56', '57', '67']},{'id': '56', 'type': 'identifier', 'children': [], 'value': 'ordering'},{'id': '57', 'type': 'block', 'children': ['58']},{'id': '58', 'type': 'expression_statement', 'children': ['59']},{'id': '59', 'type': 'call', 'children': ['60', '63']},{'id': '60', 'type': 'attribute', 'children': ['61', '62']},{'id': '61', 'type': 'identifier', 'children': [], 'value': 'valid_orderings'},{'id': '62', 'type': 'identifier', 'children': [], 'value': 'append'},{'id': '63', 'type': 'argument_list', 'children': ['64']},{'id': '64', 'type': 'binary_operator', 'children': ['65', '66'], 'value': '+'},{'id': '65', 'type': 'identifier', 'children': [], 'value': 'reverse_sort_term'},{'id': '66', 'type': 'identifier', 'children': [], 'value': 'ordering'},{'id': '67', 'type': 'else_clause', 'children': ['68']},{'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': 'invalid_orderings'},{'id': '73', 'type': 'identifier', 'children': [], 'value': 'append'},{'id': '74', 'type': 'argument_list', 'children': ['75']},{'id': '75', 'type': 'identifier', 'children': [], 'value': 'term'},{'id': '76', 'type': 'return_statement', 'children': ['77']},{'id': '77', 'type': 'expression_list', 'children': ['78', '79']},{'id': '78', 'type': 'identifier', 'children': [], 'value': 'valid_orderings'},{'id': '79', 'type': 'identifier', 'children': [], 'value': 'invalid_orderings'} | def remove_invalid_fields(self, queryset, fields, view):
valid_orderings = []
invalid_orderings = []
for term in fields:
stripped_term = term.lstrip('-')
reverse_sort_term = '' if len(stripped_term) is len(term) else '-'
ordering = self.ordering_for(stripped_term, view)
if ordering:
valid_orderings.append(reverse_sort_term + ordering)
else:
invalid_orderings.append(term)
return valid_orderings, invalid_orderings |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '13', '17']},{'id': '2', 'type': 'function_name', 'children': [], 'value': '_format_dataframe'},{'id': '3', 'type': 'parameters', 'children': ['4', '10']},{'id': '4', 'type': 'typed_parameter', 'children': ['5', '6']},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'df'},{'id': '6', 'type': 'type', 'children': ['7']},{'id': '7', 'type': 'attribute', 'children': ['8', '9']},{'id': '8', 'type': 'identifier', 'children': [], 'value': 'pd'},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'DataFrame'},{'id': '10', 'type': 'default_parameter', 'children': ['11', '12']},{'id': '11', 'type': 'identifier', 'children': [], 'value': 'nautical_units'},{'id': '12', 'type': 'True', 'children': []},{'id': '13', 'type': 'type', 'children': ['14']},{'id': '14', 'type': 'attribute', 'children': ['15', '16']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'pd'},{'id': '16', 'type': 'identifier', 'children': [], 'value': 'DataFrame'},{'id': '17', 'type': 'block', 'children': ['18', '47', '115', '137', '176']},{'id': '18', 'type': 'if_statement', 'children': ['19', '32']},{'id': '19', 'type': 'boolean_operator', 'children': ['20', '25'], 'value': 'and'},{'id': '20', 'type': 'comparison_operator', 'children': ['21', '22'], 'value': 'in'},{'id': '21', 'type': 'string', 'children': [], 'value': '"callsign"'},{'id': '22', 'type': 'attribute', 'children': ['23', '24']},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'df'},{'id': '24', 'type': 'identifier', 'children': [], 'value': 'columns'},{'id': '25', 'type': 'comparison_operator', 'children': ['26', '31'], 'value': '=='},{'id': '26', 'type': 'attribute', 'children': ['27', '30']},{'id': '27', 'type': 'attribute', 'children': ['28', '29']},{'id': '28', 'type': 'identifier', 'children': [], 'value': 'df'},{'id': '29', 'type': 'identifier', 'children': [], 'value': 'callsign'},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'dtype'},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'object'},{'id': '32', 'type': 'block', 'children': ['33']},{'id': '33', 'type': 'expression_statement', 'children': ['34']},{'id': '34', 'type': 'assignment', 'children': ['35', '38']},{'id': '35', 'type': 'attribute', 'children': ['36', '37']},{'id': '36', 'type': 'identifier', 'children': [], 'value': 'df'},{'id': '37', 'type': 'identifier', 'children': [], 'value': 'callsign'},{'id': '38', 'type': 'call', 'children': ['39', '46']},{'id': '39', 'type': 'attribute', 'children': ['40', '45']},{'id': '40', 'type': 'attribute', 'children': ['41', '44']},{'id': '41', 'type': 'attribute', 'children': ['42', '43']},{'id': '42', 'type': 'identifier', 'children': [], 'value': 'df'},{'id': '43', 'type': 'identifier', 'children': [], 'value': 'callsign'},{'id': '44', 'type': 'identifier', 'children': [], 'value': 'str'},{'id': '45', 'type': 'identifier', 'children': [], 'value': 'strip'},{'id': '46', 'type': 'argument_list', 'children': []},{'id': '47', 'type': 'if_statement', 'children': ['48', '49']},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'nautical_units'},{'id': '49', 'type': 'block', 'children': ['50', '60', '77', '96']},{'id': '50', 'type': 'expression_statement', 'children': ['51']},{'id': '51', 'type': 'assignment', 'children': ['52', '55']},{'id': '52', 'type': 'attribute', 'children': ['53', '54']},{'id': '53', 'type': 'identifier', 'children': [], 'value': 'df'},{'id': '54', 'type': 'identifier', 'children': [], 'value': 'altitude'},{'id': '55', 'type': 'binary_operator', 'children': ['56', '59'], 'value': '/'},{'id': '56', 'type': 'attribute', 'children': ['57', '58']},{'id': '57', 'type': 'identifier', 'children': [], 'value': 'df'},{'id': '58', 'type': 'identifier', 'children': [], 'value': 'altitude'},{'id': '59', 'type': 'float', 'children': [], 'value': '0.3048'},{'id': '60', 'type': 'if_statement', 'children': ['61', '66']},{'id': '61', 'type': 'comparison_operator', 'children': ['62', '63'], 'value': 'in'},{'id': '62', 'type': 'string', 'children': [], 'value': '"geoaltitude"'},{'id': '63', 'type': 'attribute', 'children': ['64', '65']},{'id': '64', 'type': 'identifier', 'children': [], 'value': 'df'},{'id': '65', 'type': 'identifier', 'children': [], 'value': 'columns'},{'id': '66', 'type': 'block', 'children': ['67']},{'id': '67', 'type': 'expression_statement', 'children': ['68']},{'id': '68', 'type': 'assignment', 'children': ['69', '72']},{'id': '69', 'type': 'attribute', 'children': ['70', '71']},{'id': '70', 'type': 'identifier', 'children': [], 'value': 'df'},{'id': '71', 'type': 'identifier', 'children': [], 'value': 'geoaltitude'},{'id': '72', 'type': 'binary_operator', 'children': ['73', '76'], 'value': '/'},{'id': '73', 'type': 'attribute', 'children': ['74', '75']},{'id': '74', 'type': 'identifier', 'children': [], 'value': 'df'},{'id': '75', 'type': 'identifier', 'children': [], 'value': 'geoaltitude'},{'id': '76', 'type': 'float', 'children': [], 'value': '0.3048'},{'id': '77', 'type': 'if_statement', 'children': ['78', '83']},{'id': '78', 'type': 'comparison_operator', 'children': ['79', '80'], 'value': 'in'},{'id': '79', 'type': 'string', 'children': [], 'value': '"groundspeed"'},{'id': '80', 'type': 'attribute', 'children': ['81', '82']},{'id': '81', 'type': 'identifier', 'children': [], 'value': 'df'},{'id': '82', 'type': 'identifier', 'children': [], 'value': 'columns'},{'id': '83', 'type': 'block', 'children': ['84']},{'id': '84', 'type': 'expression_statement', 'children': ['85']},{'id': '85', 'type': 'assignment', 'children': ['86', '89']},{'id': '86', 'type': 'attribute', 'children': ['87', '88']},{'id': '87', 'type': 'identifier', 'children': [], 'value': 'df'},{'id': '88', 'type': 'identifier', 'children': [], 'value': 'groundspeed'},{'id': '89', 'type': 'binary_operator', 'children': ['90', '95'], 'value': '*'},{'id': '90', 'type': 'binary_operator', 'children': ['91', '94'], 'value': '/'},{'id': '91', 'type': 'attribute', 'children': ['92', '93']},{'id': '92', 'type': 'identifier', 'children': [], 'value': 'df'},{'id': '93', 'type': 'identifier', 'children': [], 'value': 'groundspeed'},{'id': '94', 'type': 'integer', 'children': [], 'value': '1852'},{'id': '95', 'type': 'integer', 'children': [], 'value': '3600'},{'id': '96', 'type': 'if_statement', 'children': ['97', '102']},{'id': '97', 'type': 'comparison_operator', 'children': ['98', '99'], 'value': 'in'},{'id': '98', 'type': 'string', 'children': [], 'value': '"vertical_rate"'},{'id': '99', 'type': 'attribute', 'children': ['100', '101']},{'id': '100', 'type': 'identifier', 'children': [], 'value': 'df'},{'id': '101', 'type': 'identifier', 'children': [], 'value': 'columns'},{'id': '102', 'type': 'block', 'children': ['103']},{'id': '103', 'type': 'expression_statement', 'children': ['104']},{'id': '104', 'type': 'assignment', 'children': ['105', '108']},{'id': '105', 'type': 'attribute', 'children': ['106', '107']},{'id': '106', 'type': 'identifier', 'children': [], 'value': 'df'},{'id': '107', 'type': 'identifier', 'children': [], 'value': 'vertical_rate'},{'id': '108', 'type': 'binary_operator', 'children': ['109', '114'], 'value': '*'},{'id': '109', 'type': 'binary_operator', 'children': ['110', '113'], 'value': '/'},{'id': '110', 'type': 'attribute', 'children': ['111', '112']},{'id': '111', 'type': 'identifier', 'children': [], 'value': 'df'},{'id': '112', 'type': 'identifier', 'children': [], 'value': 'vertical_rate'},{'id': '113', 'type': 'float', 'children': [], 'value': '0.3048'},{'id': '114', 'type': 'integer', 'children': [], 'value': '60'},{'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': 'df'},{'id': '119', 'type': 'identifier', 'children': [], 'value': 'timestamp'},{'id': '120', 'type': 'call', 'children': ['121', '135']},{'id': '121', 'type': 'attribute', 'children': ['122', '134']},{'id': '122', 'type': 'attribute', 'children': ['123', '133']},{'id': '123', 'type': 'call', 'children': ['124', '127']},{'id': '124', 'type': 'attribute', 'children': ['125', '126']},{'id': '125', 'type': 'identifier', 'children': [], 'value': 'pd'},{'id': '126', 'type': 'identifier', 'children': [], 'value': 'to_datetime'},{'id': '127', 'type': 'argument_list', 'children': ['128']},{'id': '128', 'type': 'binary_operator', 'children': ['129', '132'], 'value': '*'},{'id': '129', 'type': 'attribute', 'children': ['130', '131']},{'id': '130', 'type': 'identifier', 'children': [], 'value': 'df'},{'id': '131', 'type': 'identifier', 'children': [], 'value': 'timestamp'},{'id': '132', 'type': 'float', 'children': [], 'value': '1e9'},{'id': '133', 'type': 'identifier', 'children': [], 'value': 'dt'},{'id': '134', 'type': 'identifier', 'children': [], 'value': 'tz_localize'},{'id': '135', 'type': 'argument_list', 'children': ['136']},{'id': '136', 'type': 'string', 'children': [], 'value': '"utc"'},{'id': '137', 'type': 'if_statement', 'children': ['138', '143']},{'id': '138', 'type': 'comparison_operator', 'children': ['139', '140'], 'value': 'in'},{'id': '139', 'type': 'string', 'children': [], 'value': '"last_position"'},{'id': '140', 'type': 'attribute', 'children': ['141', '142']},{'id': '141', 'type': 'identifier', 'children': [], 'value': 'df'},{'id': '142', 'type': 'identifier', 'children': [], 'value': 'columns'},{'id': '143', 'type': 'block', 'children': ['144']},{'id': '144', 'type': 'expression_statement', 'children': ['145']},{'id': '145', 'type': 'assignment', 'children': ['146', '147']},{'id': '146', 'type': 'identifier', 'children': [], 'value': 'df'},{'id': '147', 'type': 'call', 'children': ['148', '156']},{'id': '148', 'type': 'attribute', 'children': ['149', '155']},{'id': '149', 'type': 'call', 'children': ['150', '153']},{'id': '150', 'type': 'attribute', 'children': ['151', '152']},{'id': '151', 'type': 'identifier', 'children': [], 'value': 'df'},{'id': '152', 'type': 'identifier', 'children': [], 'value': 'query'},{'id': '153', 'type': 'argument_list', 'children': ['154']},{'id': '154', 'type': 'string', 'children': [], 'value': '"last_position == last_position"'},{'id': '155', 'type': 'identifier', 'children': [], 'value': 'assign'},{'id': '156', 'type': 'argument_list', 'children': ['157']},{'id': '157', 'type': 'keyword_argument', 'children': ['158', '159']},{'id': '158', 'type': 'identifier', 'children': [], 'value': 'last_position'},{'id': '159', 'type': 'call', 'children': ['160', '174']},{'id': '160', 'type': 'attribute', 'children': ['161', '173']},{'id': '161', 'type': 'attribute', 'children': ['162', '172']},{'id': '162', 'type': 'call', 'children': ['163', '166']},{'id': '163', 'type': 'attribute', 'children': ['164', '165']},{'id': '164', 'type': 'identifier', 'children': [], 'value': 'pd'},{'id': '165', 'type': 'identifier', 'children': [], 'value': 'to_datetime'},{'id': '166', 'type': 'argument_list', 'children': ['167']},{'id': '167', 'type': 'binary_operator', 'children': ['168', '171'], 'value': '*'},{'id': '168', 'type': 'attribute', 'children': ['169', '170']},{'id': '169', 'type': 'identifier', 'children': [], 'value': 'df'},{'id': '170', 'type': 'identifier', 'children': [], 'value': 'last_position'},{'id': '171', 'type': 'float', 'children': [], 'value': '1e9'},{'id': '172', 'type': 'identifier', 'children': [], 'value': 'dt'},{'id': '173', 'type': 'identifier', 'children': [], 'value': 'tz_localize'},{'id': '174', 'type': 'argument_list', 'children': ['175']},{'id': '175', 'type': 'string', 'children': [], 'value': '"utc"'},{'id': '176', 'type': 'return_statement', 'children': ['177']},{'id': '177', 'type': 'call', 'children': ['178', '181']},{'id': '178', 'type': 'attribute', 'children': ['179', '180']},{'id': '179', 'type': 'identifier', 'children': [], 'value': 'df'},{'id': '180', 'type': 'identifier', 'children': [], 'value': 'sort_values'},{'id': '181', 'type': 'argument_list', 'children': ['182']},{'id': '182', 'type': 'string', 'children': [], 'value': '"timestamp"'} | def _format_dataframe(
df: pd.DataFrame, nautical_units=True
) -> pd.DataFrame:
if "callsign" in df.columns and df.callsign.dtype == object:
df.callsign = df.callsign.str.strip()
if nautical_units:
df.altitude = df.altitude / 0.3048
if "geoaltitude" in df.columns:
df.geoaltitude = df.geoaltitude / 0.3048
if "groundspeed" in df.columns:
df.groundspeed = df.groundspeed / 1852 * 3600
if "vertical_rate" in df.columns:
df.vertical_rate = df.vertical_rate / 0.3048 * 60
df.timestamp = pd.to_datetime(df.timestamp * 1e9).dt.tz_localize("utc")
if "last_position" in df.columns:
df = df.query("last_position == last_position").assign(
last_position=pd.to_datetime(
df.last_position * 1e9
).dt.tz_localize("utc")
)
return df.sort_values("timestamp") |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '6']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'find_package_indexes_in_dir'},{'id': '3', 'type': 'parameters', 'children': ['4', '5']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'simple_dir'},{'id': '6', 'type': 'block', 'children': ['7', '26', '51']},{'id': '7', 'type': 'expression_statement', 'children': ['8']},{'id': '8', 'type': 'assignment', 'children': ['9', '10']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'packages'},{'id': '10', 'type': 'call', 'children': ['11', '12']},{'id': '11', 'type': 'identifier', 'children': [], 'value': 'sorted'},{'id': '12', 'type': 'argument_list', 'children': ['13']},{'id': '13', 'type': 'set_comprehension', 'children': ['14', '18']},{'id': '14', 'type': 'call', 'children': ['15', '16']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'canonicalize_name'},{'id': '16', 'type': 'argument_list', 'children': ['17']},{'id': '17', 'type': 'identifier', 'children': [], 'value': 'x'},{'id': '18', 'type': 'for_in_clause', 'children': ['19', '20']},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'x'},{'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': 'listdir'},{'id': '24', 'type': 'argument_list', 'children': ['25']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'simple_dir'},{'id': '26', 'type': 'expression_statement', 'children': ['27']},{'id': '27', 'type': 'assignment', 'children': ['28', '29']},{'id': '28', 'type': 'identifier', 'children': [], 'value': 'packages'},{'id': '29', 'type': 'list_comprehension', 'children': ['30', '31', '34']},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'x'},{'id': '31', 'type': 'for_in_clause', 'children': ['32', '33']},{'id': '32', 'type': 'identifier', 'children': [], 'value': 'x'},{'id': '33', 'type': 'identifier', 'children': [], 'value': 'packages'},{'id': '34', 'type': 'if_clause', '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': 'os'},{'id': '39', 'type': 'identifier', 'children': [], 'value': 'path'},{'id': '40', 'type': 'identifier', 'children': [], 'value': 'isdir'},{'id': '41', 'type': 'argument_list', 'children': ['42']},{'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': 'os'},{'id': '46', 'type': 'identifier', 'children': [], 'value': 'path'},{'id': '47', 'type': 'identifier', 'children': [], 'value': 'join'},{'id': '48', 'type': 'argument_list', 'children': ['49', '50']},{'id': '49', 'type': 'identifier', 'children': [], 'value': 'simple_dir'},{'id': '50', 'type': 'identifier', 'children': [], 'value': 'x'},{'id': '51', 'type': 'return_statement', 'children': ['52']},{'id': '52', 'type': 'identifier', 'children': [], 'value': 'packages'} | def find_package_indexes_in_dir(self, simple_dir):
packages = sorted(
{
canonicalize_name(x)
for x in os.listdir(simple_dir)
}
)
packages = [x for x in packages if os.path.isdir(os.path.join(simple_dir, x))]
return packages |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '17']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'factorize'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '7', '11', '14']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'train'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'test'},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'features'},{'id': '7', 'type': 'default_parameter', 'children': ['8', '9']},{'id': '8', 'type': 'identifier', 'children': [], 'value': 'na_value'},{'id': '9', 'type': 'unary_operator', 'children': ['10'], 'value': '-'},{'id': '10', 'type': 'integer', 'children': [], 'value': '9999'},{'id': '11', 'type': 'default_parameter', 'children': ['12', '13']},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'full'},{'id': '13', 'type': 'False', 'children': []},{'id': '14', 'type': 'default_parameter', 'children': ['15', '16']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '16', 'type': 'True', 'children': []},{'id': '17', 'type': 'block', 'children': ['18', '134']},{'id': '18', 'type': 'for_statement', 'children': ['19', '20', '21']},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'column'},{'id': '20', 'type': 'identifier', 'children': [], 'value': 'features'},{'id': '21', 'type': 'block', 'children': ['22', '72', '85', '98']},{'id': '22', 'type': 'if_statement', 'children': ['23', '24', '54']},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'full'},{'id': '24', 'type': 'block', 'children': ['25', '40']},{'id': '25', 'type': 'expression_statement', 'children': ['26']},{'id': '26', 'type': 'assignment', 'children': ['27', '28']},{'id': '27', 'type': 'identifier', 'children': [], 'value': 'vs'},{'id': '28', 'type': 'call', 'children': ['29', '32']},{'id': '29', 'type': 'attribute', 'children': ['30', '31']},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'pd'},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'concat'},{'id': '32', 'type': 'argument_list', 'children': ['33']},{'id': '33', 'type': 'list', 'children': ['34', '37'], 'value': '[train[column], test[column]]'},{'id': '34', 'type': 'subscript', 'children': ['35', '36']},{'id': '35', 'type': 'identifier', 'children': [], 'value': 'train'},{'id': '36', 'type': 'identifier', 'children': [], 'value': 'column'},{'id': '37', 'type': 'subscript', 'children': ['38', '39']},{'id': '38', 'type': 'identifier', 'children': [], 'value': 'test'},{'id': '39', 'type': 'identifier', 'children': [], 'value': 'column'},{'id': '40', 'type': 'expression_statement', 'children': ['41']},{'id': '41', 'type': 'assignment', 'children': ['42', '45']},{'id': '42', 'type': 'pattern_list', 'children': ['43', '44']},{'id': '43', 'type': 'identifier', 'children': [], 'value': 'labels'},{'id': '44', 'type': 'identifier', 'children': [], 'value': 'indexer'},{'id': '45', 'type': 'call', 'children': ['46', '49']},{'id': '46', 'type': 'attribute', 'children': ['47', '48']},{'id': '47', 'type': 'identifier', 'children': [], 'value': 'pd'},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'factorize'},{'id': '49', 'type': 'argument_list', 'children': ['50', '51']},{'id': '50', 'type': 'identifier', 'children': [], 'value': 'vs'},{'id': '51', 'type': 'keyword_argument', 'children': ['52', '53']},{'id': '52', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '53', 'type': 'identifier', 'children': [], 'value': 'sort'},{'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', '61']},{'id': '58', 'type': 'pattern_list', 'children': ['59', '60']},{'id': '59', 'type': 'identifier', 'children': [], 'value': 'labels'},{'id': '60', 'type': 'identifier', 'children': [], 'value': 'indexer'},{'id': '61', 'type': 'call', 'children': ['62', '65']},{'id': '62', 'type': 'attribute', 'children': ['63', '64']},{'id': '63', 'type': 'identifier', 'children': [], 'value': 'pd'},{'id': '64', 'type': 'identifier', 'children': [], 'value': 'factorize'},{'id': '65', 'type': 'argument_list', 'children': ['66', '69']},{'id': '66', 'type': 'subscript', 'children': ['67', '68']},{'id': '67', 'type': 'identifier', 'children': [], 'value': 'train'},{'id': '68', 'type': 'identifier', 'children': [], 'value': 'column'},{'id': '69', 'type': 'keyword_argument', 'children': ['70', '71']},{'id': '70', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '71', 'type': 'identifier', 'children': [], 'value': 'sort'},{'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': 'train'},{'id': '76', 'type': 'identifier', 'children': [], 'value': 'column'},{'id': '77', 'type': 'call', 'children': ['78', '81']},{'id': '78', 'type': 'attribute', 'children': ['79', '80']},{'id': '79', 'type': 'identifier', 'children': [], 'value': 'indexer'},{'id': '80', 'type': 'identifier', 'children': [], 'value': 'get_indexer'},{'id': '81', 'type': 'argument_list', 'children': ['82']},{'id': '82', 'type': 'subscript', 'children': ['83', '84']},{'id': '83', 'type': 'identifier', 'children': [], 'value': 'train'},{'id': '84', 'type': 'identifier', 'children': [], 'value': 'column'},{'id': '85', 'type': 'expression_statement', 'children': ['86']},{'id': '86', 'type': 'assignment', 'children': ['87', '90']},{'id': '87', 'type': 'subscript', 'children': ['88', '89']},{'id': '88', 'type': 'identifier', 'children': [], 'value': 'test'},{'id': '89', 'type': 'identifier', 'children': [], 'value': 'column'},{'id': '90', 'type': 'call', 'children': ['91', '94']},{'id': '91', 'type': 'attribute', 'children': ['92', '93']},{'id': '92', 'type': 'identifier', 'children': [], 'value': 'indexer'},{'id': '93', 'type': 'identifier', 'children': [], 'value': 'get_indexer'},{'id': '94', 'type': 'argument_list', 'children': ['95']},{'id': '95', 'type': 'subscript', 'children': ['96', '97']},{'id': '96', 'type': 'identifier', 'children': [], 'value': 'test'},{'id': '97', 'type': 'identifier', 'children': [], 'value': 'column'},{'id': '98', 'type': 'if_statement', 'children': ['99', '103']},{'id': '99', 'type': 'comparison_operator', 'children': ['100', '101'], 'value': '!='},{'id': '100', 'type': 'identifier', 'children': [], 'value': 'na_value'},{'id': '101', 'type': 'unary_operator', 'children': ['102'], 'value': '-'},{'id': '102', 'type': 'integer', 'children': [], 'value': '1'},{'id': '103', 'type': 'block', 'children': ['104', '119']},{'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': 'train'},{'id': '108', 'type': 'identifier', 'children': [], 'value': 'column'},{'id': '109', 'type': 'call', 'children': ['110', '115']},{'id': '110', 'type': 'attribute', 'children': ['111', '114']},{'id': '111', 'type': 'subscript', 'children': ['112', '113']},{'id': '112', 'type': 'identifier', 'children': [], 'value': 'train'},{'id': '113', 'type': 'identifier', 'children': [], 'value': 'column'},{'id': '114', 'type': 'identifier', 'children': [], 'value': 'replace'},{'id': '115', 'type': 'argument_list', 'children': ['116', '118']},{'id': '116', 'type': 'unary_operator', 'children': ['117'], 'value': '-'},{'id': '117', 'type': 'integer', 'children': [], 'value': '1'},{'id': '118', 'type': 'identifier', 'children': [], 'value': 'na_value'},{'id': '119', 'type': 'expression_statement', 'children': ['120']},{'id': '120', 'type': 'assignment', 'children': ['121', '124']},{'id': '121', 'type': 'subscript', 'children': ['122', '123']},{'id': '122', 'type': 'identifier', 'children': [], 'value': 'test'},{'id': '123', 'type': 'identifier', 'children': [], 'value': 'column'},{'id': '124', 'type': 'call', 'children': ['125', '130']},{'id': '125', 'type': 'attribute', 'children': ['126', '129']},{'id': '126', 'type': 'subscript', 'children': ['127', '128']},{'id': '127', 'type': 'identifier', 'children': [], 'value': 'test'},{'id': '128', 'type': 'identifier', 'children': [], 'value': 'column'},{'id': '129', 'type': 'identifier', 'children': [], 'value': 'replace'},{'id': '130', 'type': 'argument_list', 'children': ['131', '133']},{'id': '131', 'type': 'unary_operator', 'children': ['132'], 'value': '-'},{'id': '132', 'type': 'integer', 'children': [], 'value': '1'},{'id': '133', 'type': 'identifier', 'children': [], 'value': 'na_value'},{'id': '134', 'type': 'return_statement', 'children': ['135']},{'id': '135', 'type': 'expression_list', 'children': ['136', '137']},{'id': '136', 'type': 'identifier', 'children': [], 'value': 'train'},{'id': '137', 'type': 'identifier', 'children': [], 'value': 'test'} | def factorize(train, test, features, na_value=-9999, full=False, sort=True):
for column in features:
if full:
vs = pd.concat([train[column], test[column]])
labels, indexer = pd.factorize(vs, sort=sort)
else:
labels, indexer = pd.factorize(train[column], sort=sort)
train[column] = indexer.get_indexer(train[column])
test[column] = indexer.get_indexer(test[column])
if na_value != -1:
train[column] = train[column].replace(-1, na_value)
test[column] = test[column].replace(-1, na_value)
return train, test |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '6']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'preferred_ordinal'},{'id': '3', 'type': 'parameters', 'children': ['4', '5']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'cls'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'attr_name'},{'id': '6', 'type': 'block', 'children': ['7', '16', '45']},{'id': '7', 'type': 'expression_statement', 'children': ['8']},{'id': '8', 'type': 'assignment', 'children': ['9', '10']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'attr_name'},{'id': '10', 'type': 'call', 'children': ['11', '14']},{'id': '11', 'type': 'attribute', 'children': ['12', '13']},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'cls'},{'id': '13', 'type': 'identifier', 'children': [], 'value': 'map'},{'id': '14', 'type': 'argument_list', 'children': ['15']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'attr_name'},{'id': '16', 'type': 'if_statement', 'children': ['17', '22', '34']},{'id': '17', 'type': 'comparison_operator', 'children': ['18', '19'], 'value': 'in'},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'attr_name'},{'id': '19', 'type': 'attribute', 'children': ['20', '21']},{'id': '20', 'type': 'identifier', 'children': [], 'value': 'cls'},{'id': '21', 'type': 'identifier', 'children': [], 'value': 'preferred_order'},{'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': 'ordinal'},{'id': '26', 'type': 'call', 'children': ['27', '32']},{'id': '27', 'type': 'attribute', 'children': ['28', '31']},{'id': '28', 'type': 'attribute', 'children': ['29', '30']},{'id': '29', 'type': 'identifier', 'children': [], 'value': 'cls'},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'preferred_order'},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'index'},{'id': '32', 'type': 'argument_list', 'children': ['33']},{'id': '33', 'type': 'identifier', 'children': [], 'value': 'attr_name'},{'id': '34', 'type': 'else_clause', 'children': ['35']},{'id': '35', 'type': 'block', 'children': ['36']},{'id': '36', 'type': 'expression_statement', 'children': ['37']},{'id': '37', 'type': 'assignment', 'children': ['38', '39']},{'id': '38', 'type': 'identifier', 'children': [], 'value': 'ordinal'},{'id': '39', 'type': 'call', 'children': ['40', '41']},{'id': '40', 'type': 'identifier', 'children': [], 'value': 'len'},{'id': '41', 'type': 'argument_list', 'children': ['42']},{'id': '42', 'type': 'attribute', 'children': ['43', '44']},{'id': '43', 'type': 'identifier', 'children': [], 'value': 'cls'},{'id': '44', 'type': 'identifier', 'children': [], 'value': 'preferred_order'},{'id': '45', 'type': 'return_statement', 'children': ['46']},{'id': '46', 'type': 'tuple', 'children': ['47', '48']},{'id': '47', 'type': 'identifier', 'children': [], 'value': 'ordinal'},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'attr_name'} | def preferred_ordinal(cls, attr_name):
attr_name = cls.map(attr_name)
if attr_name in cls.preferred_order:
ordinal = cls.preferred_order.index(attr_name)
else:
ordinal = len(cls.preferred_order)
return (ordinal, attr_name) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'patience_sort'},{'id': '3', 'type': 'parameters', 'children': ['4']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'xs'},{'id': '5', 'type': 'block', 'children': ['6', '8', '14']},{'id': '6', 'type': 'expression_statement', 'children': ['7']},{'id': '7', 'type': 'string', 'children': [], 'value': '\'\'\'Patience sort an iterable, xs.\n This function generates a series of pairs (x, pile), where "pile"\n is the 0-based index of the pile "x" should be placed on top of.\n Elements of "xs" must be less-than comparable.\n \'\'\''},{'id': '8', 'type': 'expression_statement', 'children': ['9']},{'id': '9', 'type': 'assignment', 'children': ['10', '11']},{'id': '10', 'type': 'identifier', 'children': [], 'value': 'pile_tops'},{'id': '11', 'type': 'call', 'children': ['12', '13']},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'list'},{'id': '13', 'type': 'argument_list', 'children': []},{'id': '14', 'type': 'for_statement', 'children': ['15', '16', '17']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'x'},{'id': '16', 'type': 'identifier', 'children': [], 'value': 'xs'},{'id': '17', 'type': 'block', 'children': ['18', '28', '51']},{'id': '18', 'type': 'expression_statement', 'children': ['19']},{'id': '19', 'type': 'assignment', 'children': ['20', '21']},{'id': '20', 'type': 'identifier', 'children': [], 'value': 'pile'},{'id': '21', 'type': 'call', 'children': ['22', '25']},{'id': '22', 'type': 'attribute', 'children': ['23', '24']},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'bisect'},{'id': '24', 'type': 'identifier', 'children': [], 'value': 'bisect_left'},{'id': '25', 'type': 'argument_list', 'children': ['26', '27']},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'pile_tops'},{'id': '27', 'type': 'identifier', 'children': [], 'value': 'x'},{'id': '28', 'type': 'if_statement', 'children': ['29', '35', '43']},{'id': '29', 'type': 'comparison_operator', 'children': ['30', '31'], 'value': '=='},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'pile'},{'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': 'pile_tops'},{'id': '35', 'type': 'block', 'children': ['36']},{'id': '36', 'type': 'expression_statement', 'children': ['37']},{'id': '37', 'type': 'call', 'children': ['38', '41']},{'id': '38', 'type': 'attribute', 'children': ['39', '40']},{'id': '39', 'type': 'identifier', 'children': [], 'value': 'pile_tops'},{'id': '40', 'type': 'identifier', 'children': [], 'value': 'append'},{'id': '41', 'type': 'argument_list', 'children': ['42']},{'id': '42', 'type': 'identifier', 'children': [], 'value': 'x'},{'id': '43', 'type': 'else_clause', 'children': ['44']},{'id': '44', 'type': 'block', 'children': ['45']},{'id': '45', 'type': 'expression_statement', 'children': ['46']},{'id': '46', 'type': 'assignment', 'children': ['47', '50']},{'id': '47', 'type': 'subscript', 'children': ['48', '49']},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'pile_tops'},{'id': '49', 'type': 'identifier', 'children': [], 'value': 'pile'},{'id': '50', 'type': 'identifier', 'children': [], 'value': 'x'},{'id': '51', 'type': 'expression_statement', 'children': ['52']},{'id': '52', 'type': 'yield', 'children': ['53']},{'id': '53', 'type': 'expression_list', 'children': ['54', '55']},{'id': '54', 'type': 'identifier', 'children': [], 'value': 'x'},{'id': '55', 'type': 'identifier', 'children': [], 'value': 'pile'} | def patience_sort(xs):
'''Patience sort an iterable, xs.
This function generates a series of pairs (x, pile), where "pile"
is the 0-based index of the pile "x" should be placed on top of.
Elements of "xs" must be less-than comparable.
'''
pile_tops = list()
for x in xs:
pile = bisect.bisect_left(pile_tops, x)
if pile == len(pile_tops):
pile_tops.append(x)
else:
pile_tops[pile] = x
yield x, pile |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'sort'},{'id': '3', 'type': 'parameters', 'children': ['4']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '5', 'type': 'block', 'children': ['6', '15', '31', '42', '61', '66', '80', '90', '98', '169', '189', '201', '207']},{'id': '6', 'type': 'expression_statement', 'children': ['7']},{'id': '7', 'type': 'assignment', 'children': ['8', '9']},{'id': '8', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '9', 'type': 'call', 'children': ['10', '11']},{'id': '10', 'type': 'identifier', 'children': [], 'value': 'OptionParser'},{'id': '11', 'type': 'argument_list', 'children': ['12']},{'id': '12', 'type': 'attribute', 'children': ['13', '14']},{'id': '13', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '14', 'type': 'identifier', 'children': [], 'value': '__doc__'},{'id': '15', 'type': 'expression_statement', 'children': ['16']},{'id': '16', 'type': 'call', 'children': ['17', '20']},{'id': '17', 'type': 'attribute', 'children': ['18', '19']},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'add_option'},{'id': '20', 'type': 'argument_list', 'children': ['21', '22', '25', '28']},{'id': '21', 'type': 'string', 'children': [], 'value': '"--sizes"'},{'id': '22', 'type': 'keyword_argument', 'children': ['23', '24']},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'default'},{'id': '24', 'type': 'False', 'children': []},{'id': '25', 'type': 'keyword_argument', 'children': ['26', '27']},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'action'},{'id': '27', 'type': 'string', 'children': [], 'value': '"store_true"'},{'id': '28', 'type': 'keyword_argument', 'children': ['29', '30']},{'id': '29', 'type': 'identifier', 'children': [], 'value': 'help'},{'id': '30', 'type': 'string', 'children': [], 'value': '"Sort by decreasing size [default: %default]"'},{'id': '31', 'type': 'expression_statement', 'children': ['32']},{'id': '32', 'type': 'assignment', 'children': ['33', '36']},{'id': '33', 'type': 'pattern_list', 'children': ['34', '35']},{'id': '34', 'type': 'identifier', 'children': [], 'value': 'opts'},{'id': '35', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '36', 'type': 'call', 'children': ['37', '40']},{'id': '37', 'type': 'attribute', 'children': ['38', '39']},{'id': '38', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '39', 'type': 'identifier', 'children': [], 'value': 'parse_args'},{'id': '40', 'type': 'argument_list', 'children': ['41']},{'id': '41', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '42', 'type': 'if_statement', 'children': ['43', '49']},{'id': '43', 'type': 'comparison_operator', 'children': ['44', '48'], 'value': '!='},{'id': '44', 'type': 'call', 'children': ['45', '46']},{'id': '45', 'type': 'identifier', 'children': [], 'value': 'len'},{'id': '46', 'type': 'argument_list', 'children': ['47']},{'id': '47', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '48', 'type': 'integer', 'children': [], 'value': '1'},{'id': '49', 'type': 'block', 'children': ['50']},{'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': 'sys'},{'id': '54', 'type': 'identifier', 'children': [], 'value': 'exit'},{'id': '55', 'type': 'argument_list', 'children': ['56']},{'id': '56', 'type': 'call', 'children': ['57', '60']},{'id': '57', 'type': 'attribute', 'children': ['58', '59']},{'id': '58', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '59', 'type': 'identifier', 'children': [], 'value': 'print_help'},{'id': '60', 'type': 'argument_list', 'children': []},{'id': '61', 'type': 'expression_statement', 'children': ['62']},{'id': '62', 'type': 'assignment', 'children': ['63', '65']},{'id': '63', 'type': 'pattern_list', 'children': ['64']},{'id': '64', 'type': 'identifier', 'children': [], 'value': 'fastafile'},{'id': '65', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '66', 'type': 'expression_statement', 'children': ['67']},{'id': '67', 'type': 'assignment', 'children': ['68', '69']},{'id': '68', 'type': 'identifier', 'children': [], 'value': 'sortedfastafile'},{'id': '69', 'type': 'binary_operator', 'children': ['70', '79'], 'value': '+'},{'id': '70', 'type': 'subscript', 'children': ['71', '78']},{'id': '71', 'type': 'call', 'children': ['72', '75']},{'id': '72', 'type': 'attribute', 'children': ['73', '74']},{'id': '73', 'type': 'identifier', 'children': [], 'value': 'fastafile'},{'id': '74', 'type': 'identifier', 'children': [], 'value': 'rsplit'},{'id': '75', 'type': 'argument_list', 'children': ['76', '77']},{'id': '76', 'type': 'string', 'children': [], 'value': '"."'},{'id': '77', 'type': 'integer', 'children': [], 'value': '1'},{'id': '78', 'type': 'integer', 'children': [], 'value': '0'},{'id': '79', 'type': 'string', 'children': [], 'value': '".sorted.fasta"'},{'id': '80', 'type': 'expression_statement', 'children': ['81']},{'id': '81', 'type': 'assignment', 'children': ['82', '83']},{'id': '82', 'type': 'identifier', 'children': [], 'value': 'f'},{'id': '83', 'type': 'call', 'children': ['84', '85']},{'id': '84', 'type': 'identifier', 'children': [], 'value': 'Fasta'},{'id': '85', 'type': 'argument_list', 'children': ['86', '87']},{'id': '86', 'type': 'identifier', 'children': [], 'value': 'fastafile'},{'id': '87', 'type': 'keyword_argument', 'children': ['88', '89']},{'id': '88', 'type': 'identifier', 'children': [], 'value': 'index'},{'id': '89', 'type': 'False', 'children': []},{'id': '90', 'type': 'expression_statement', 'children': ['91']},{'id': '91', 'type': 'assignment', 'children': ['92', '93']},{'id': '92', 'type': 'identifier', 'children': [], 'value': 'fw'},{'id': '93', 'type': 'call', 'children': ['94', '95']},{'id': '94', 'type': 'identifier', 'children': [], 'value': 'must_open'},{'id': '95', 'type': 'argument_list', 'children': ['96', '97']},{'id': '96', 'type': 'identifier', 'children': [], 'value': 'sortedfastafile'},{'id': '97', 'type': 'string', 'children': [], 'value': '"w"'},{'id': '98', 'type': 'if_statement', 'children': ['99', '102', '156']},{'id': '99', 'type': 'attribute', 'children': ['100', '101']},{'id': '100', 'type': 'identifier', 'children': [], 'value': 'opts'},{'id': '101', 'type': 'identifier', 'children': [], 'value': 'sizes'},{'id': '102', 'type': 'block', 'children': ['103', '127', '146']},{'id': '103', 'type': 'expression_statement', 'children': ['104']},{'id': '104', 'type': 'assignment', 'children': ['105', '106']},{'id': '105', 'type': 'identifier', 'children': [], 'value': 'sortlist'},{'id': '106', 'type': 'call', 'children': ['107', '108']},{'id': '107', 'type': 'identifier', 'children': [], 'value': 'sorted'},{'id': '108', 'type': 'argument_list', 'children': ['109', '114']},{'id': '109', 'type': 'call', 'children': ['110', '113']},{'id': '110', 'type': 'attribute', 'children': ['111', '112']},{'id': '111', 'type': 'identifier', 'children': [], 'value': 'f'},{'id': '112', 'type': 'identifier', 'children': [], 'value': 'itersizes'},{'id': '113', 'type': 'argument_list', 'children': []},{'id': '114', 'type': 'keyword_argument', 'children': ['115', '116']},{'id': '115', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '116', 'type': 'lambda', 'children': ['117', '119']},{'id': '117', 'type': 'lambda_parameters', 'children': ['118']},{'id': '118', 'type': 'identifier', 'children': [], 'value': 'x'},{'id': '119', 'type': 'tuple', 'children': ['120', '124']},{'id': '120', 'type': 'unary_operator', 'children': ['121'], 'value': '-'},{'id': '121', 'type': 'subscript', 'children': ['122', '123']},{'id': '122', 'type': 'identifier', 'children': [], 'value': 'x'},{'id': '123', 'type': 'integer', 'children': [], 'value': '1'},{'id': '124', 'type': 'subscript', 'children': ['125', '126']},{'id': '125', 'type': 'identifier', 'children': [], 'value': 'x'},{'id': '126', 'type': 'integer', 'children': [], 'value': '0'},{'id': '127', 'type': 'expression_statement', 'children': ['128']},{'id': '128', 'type': 'call', 'children': ['129', '132']},{'id': '129', 'type': 'attribute', 'children': ['130', '131']},{'id': '130', 'type': 'identifier', 'children': [], 'value': 'logging'},{'id': '131', 'type': 'identifier', 'children': [], 'value': 'debug'},{'id': '132', 'type': 'argument_list', 'children': ['133']},{'id': '133', 'type': 'call', 'children': ['134', '138']},{'id': '134', 'type': 'attribute', 'children': ['135', '136', '137']},{'id': '135', 'type': 'string', 'children': [], 'value': '"Sort by size: max: {0}, min: {1}"'},{'id': '136', 'type': 'line_continuation', 'children': [], 'value': '\\'},{'id': '137', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '138', 'type': 'argument_list', 'children': ['139', '142']},{'id': '139', 'type': 'subscript', 'children': ['140', '141']},{'id': '140', 'type': 'identifier', 'children': [], 'value': 'sortlist'},{'id': '141', 'type': 'integer', 'children': [], 'value': '0'},{'id': '142', 'type': 'subscript', 'children': ['143', '144']},{'id': '143', 'type': 'identifier', 'children': [], 'value': 'sortlist'},{'id': '144', 'type': 'unary_operator', 'children': ['145'], 'value': '-'},{'id': '145', 'type': 'integer', 'children': [], 'value': '1'},{'id': '146', 'type': 'expression_statement', 'children': ['147']},{'id': '147', 'type': 'assignment', 'children': ['148', '149']},{'id': '148', 'type': 'identifier', 'children': [], 'value': 'sortlist'},{'id': '149', 'type': 'list_comprehension', 'children': ['150', '151']},{'id': '150', 'type': 'identifier', 'children': [], 'value': 'x'},{'id': '151', 'type': 'for_in_clause', 'children': ['152', '155']},{'id': '152', 'type': 'pattern_list', 'children': ['153', '154']},{'id': '153', 'type': 'identifier', 'children': [], 'value': 'x'},{'id': '154', 'type': 'identifier', 'children': [], 'value': 's'},{'id': '155', 'type': 'identifier', 'children': [], 'value': 'sortlist'},{'id': '156', 'type': 'else_clause', 'children': ['157']},{'id': '157', 'type': 'block', 'children': ['158']},{'id': '158', 'type': 'expression_statement', 'children': ['159']},{'id': '159', 'type': 'assignment', 'children': ['160', '161']},{'id': '160', 'type': 'identifier', 'children': [], 'value': 'sortlist'},{'id': '161', 'type': 'call', 'children': ['162', '163']},{'id': '162', 'type': 'identifier', 'children': [], 'value': 'sorted'},{'id': '163', 'type': 'argument_list', 'children': ['164']},{'id': '164', 'type': 'call', 'children': ['165', '168']},{'id': '165', 'type': 'attribute', 'children': ['166', '167']},{'id': '166', 'type': 'identifier', 'children': [], 'value': 'f'},{'id': '167', 'type': 'identifier', 'children': [], 'value': 'iterkeys'},{'id': '168', 'type': 'argument_list', 'children': []},{'id': '169', 'type': 'for_statement', 'children': ['170', '171', '172']},{'id': '170', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '171', 'type': 'identifier', 'children': [], 'value': 'sortlist'},{'id': '172', 'type': 'block', 'children': ['173', '179']},{'id': '173', 'type': 'expression_statement', 'children': ['174']},{'id': '174', 'type': 'assignment', 'children': ['175', '176']},{'id': '175', 'type': 'identifier', 'children': [], 'value': 'rec'},{'id': '176', 'type': 'subscript', 'children': ['177', '178']},{'id': '177', 'type': 'identifier', 'children': [], 'value': 'f'},{'id': '178', 'type': 'identifier', 'children': [], 'value': 'key'},{'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': 'SeqIO'},{'id': '183', 'type': 'identifier', 'children': [], 'value': 'write'},{'id': '184', 'type': 'argument_list', 'children': ['185', '187', '188']},{'id': '185', 'type': 'list', 'children': ['186'], 'value': '[rec]'},{'id': '186', 'type': 'identifier', 'children': [], 'value': 'rec'},{'id': '187', 'type': 'identifier', 'children': [], 'value': 'fw'},{'id': '188', 'type': 'string', 'children': [], 'value': '"fasta"'},{'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': 'logging'},{'id': '193', 'type': 'identifier', 'children': [], 'value': 'debug'},{'id': '194', 'type': 'argument_list', 'children': ['195']},{'id': '195', 'type': 'call', 'children': ['196', '199']},{'id': '196', 'type': 'attribute', 'children': ['197', '198']},{'id': '197', 'type': 'string', 'children': [], 'value': '"Sorted file written to `{0}`."'},{'id': '198', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '199', 'type': 'argument_list', 'children': ['200']},{'id': '200', 'type': 'identifier', 'children': [], 'value': 'sortedfastafile'},{'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': 'fw'},{'id': '205', 'type': 'identifier', 'children': [], 'value': 'close'},{'id': '206', 'type': 'argument_list', 'children': []},{'id': '207', 'type': 'return_statement', 'children': ['208']},{'id': '208', 'type': 'identifier', 'children': [], 'value': 'sortedfastafile'} | def sort(args):
p = OptionParser(sort.__doc__)
p.add_option("--sizes", default=False, action="store_true",
help="Sort by decreasing size [default: %default]")
opts, args = p.parse_args(args)
if len(args) != 1:
sys.exit(p.print_help())
fastafile, = args
sortedfastafile = fastafile.rsplit(".", 1)[0] + ".sorted.fasta"
f = Fasta(fastafile, index=False)
fw = must_open(sortedfastafile, "w")
if opts.sizes:
sortlist = sorted(f.itersizes(), key=lambda x: (-x[1], x[0]))
logging.debug("Sort by size: max: {0}, min: {1}".\
format(sortlist[0], sortlist[-1]))
sortlist = [x for x, s in sortlist]
else:
sortlist = sorted(f.iterkeys())
for key in sortlist:
rec = f[key]
SeqIO.write([rec], fw, "fasta")
logging.debug("Sorted file written to `{0}`.".format(sortedfastafile))
fw.close()
return sortedfastafile |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'posmap'},{'id': '3', 'type': 'parameters', 'children': ['4']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '5', 'type': 'block', 'children': ['6', '15', '26', '45', '52', '62', '68', '85', '91', '100', '106', '119', '125', '146', '152', '172', '178', '197', '203', '209', '238', '244']},{'id': '6', 'type': 'expression_statement', 'children': ['7']},{'id': '7', 'type': 'assignment', 'children': ['8', '9']},{'id': '8', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '9', 'type': 'call', 'children': ['10', '11']},{'id': '10', 'type': 'identifier', 'children': [], 'value': 'OptionParser'},{'id': '11', 'type': 'argument_list', 'children': ['12']},{'id': '12', 'type': 'attribute', 'children': ['13', '14']},{'id': '13', 'type': 'identifier', 'children': [], 'value': 'posmap'},{'id': '14', 'type': 'identifier', 'children': [], 'value': '__doc__'},{'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': 'opts'},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '20', 'type': 'call', 'children': ['21', '24']},{'id': '21', 'type': 'attribute', 'children': ['22', '23']},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'parse_args'},{'id': '24', 'type': 'argument_list', 'children': ['25']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '26', 'type': 'if_statement', 'children': ['27', '33']},{'id': '27', 'type': 'comparison_operator', 'children': ['28', '32'], 'value': '!='},{'id': '28', 'type': 'call', 'children': ['29', '30']},{'id': '29', 'type': 'identifier', 'children': [], 'value': 'len'},{'id': '30', 'type': 'argument_list', 'children': ['31']},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '32', 'type': 'integer', 'children': [], 'value': '3'},{'id': '33', 'type': 'block', 'children': ['34']},{'id': '34', 'type': 'expression_statement', 'children': ['35']},{'id': '35', 'type': 'call', 'children': ['36', '39']},{'id': '36', 'type': 'attribute', 'children': ['37', '38']},{'id': '37', 'type': 'identifier', 'children': [], 'value': 'sys'},{'id': '38', 'type': 'identifier', 'children': [], 'value': 'exit'},{'id': '39', 'type': 'argument_list', 'children': ['40']},{'id': '40', 'type': 'call', 'children': ['41', '44']},{'id': '41', 'type': 'attribute', 'children': ['42', '43']},{'id': '42', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '43', 'type': 'identifier', 'children': [], 'value': 'print_help'},{'id': '44', 'type': 'argument_list', 'children': []},{'id': '45', 'type': 'expression_statement', 'children': ['46']},{'id': '46', 'type': 'assignment', 'children': ['47', '51']},{'id': '47', 'type': 'pattern_list', 'children': ['48', '49', '50']},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'frgscffile'},{'id': '49', 'type': 'identifier', 'children': [], 'value': 'fastafile'},{'id': '50', 'type': 'identifier', 'children': [], 'value': 'scf'},{'id': '51', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '52', 'type': 'expression_statement', 'children': ['53']},{'id': '53', 'type': 'assignment', 'children': ['54', '55']},{'id': '54', 'type': 'identifier', 'children': [], 'value': 'cmd'},{'id': '55', 'type': 'call', 'children': ['56', '59']},{'id': '56', 'type': 'attribute', 'children': ['57', '58']},{'id': '57', 'type': 'string', 'children': [], 'value': '"faOneRecord {0} {1}"'},{'id': '58', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '59', 'type': 'argument_list', 'children': ['60', '61']},{'id': '60', 'type': 'identifier', 'children': [], 'value': 'fastafile'},{'id': '61', 'type': 'identifier', 'children': [], 'value': 'scf'},{'id': '62', 'type': 'expression_statement', 'children': ['63']},{'id': '63', 'type': 'assignment', 'children': ['64', '65']},{'id': '64', 'type': 'identifier', 'children': [], 'value': 'scffastafile'},{'id': '65', 'type': 'binary_operator', 'children': ['66', '67'], 'value': '+'},{'id': '66', 'type': 'identifier', 'children': [], 'value': 'scf'},{'id': '67', 'type': 'string', 'children': [], 'value': '".fasta"'},{'id': '68', 'type': 'if_statement', 'children': ['69', '76']},{'id': '69', 'type': 'not_operator', 'children': ['70']},{'id': '70', 'type': 'call', 'children': ['71', '74']},{'id': '71', 'type': 'attribute', 'children': ['72', '73']},{'id': '72', 'type': 'identifier', 'children': [], 'value': 'op'},{'id': '73', 'type': 'identifier', 'children': [], 'value': 'exists'},{'id': '74', 'type': 'argument_list', 'children': ['75']},{'id': '75', 'type': 'identifier', 'children': [], 'value': 'scffastafile'},{'id': '76', 'type': 'block', 'children': ['77']},{'id': '77', 'type': 'expression_statement', 'children': ['78']},{'id': '78', 'type': 'call', 'children': ['79', '80']},{'id': '79', 'type': 'identifier', 'children': [], 'value': 'sh'},{'id': '80', 'type': 'argument_list', 'children': ['81', '82']},{'id': '81', 'type': 'identifier', 'children': [], 'value': 'cmd'},{'id': '82', 'type': 'keyword_argument', 'children': ['83', '84']},{'id': '83', 'type': 'identifier', 'children': [], 'value': 'outfile'},{'id': '84', 'type': 'identifier', 'children': [], 'value': 'scffastafile'},{'id': '85', 'type': 'expression_statement', 'children': ['86']},{'id': '86', 'type': 'assignment', 'children': ['87', '88']},{'id': '87', 'type': 'identifier', 'children': [], 'value': 'sizesfile'},{'id': '88', 'type': 'binary_operator', 'children': ['89', '90'], 'value': '+'},{'id': '89', 'type': 'identifier', 'children': [], 'value': 'scffastafile'},{'id': '90', 'type': 'string', 'children': [], 'value': '".sizes"'},{'id': '91', 'type': 'expression_statement', 'children': ['92']},{'id': '92', 'type': 'assignment', 'children': ['93', '94']},{'id': '93', 'type': 'identifier', 'children': [], 'value': 'sizes'},{'id': '94', 'type': 'attribute', 'children': ['95', '99']},{'id': '95', 'type': 'call', 'children': ['96', '97']},{'id': '96', 'type': 'identifier', 'children': [], 'value': 'Sizes'},{'id': '97', 'type': 'argument_list', 'children': ['98']},{'id': '98', 'type': 'identifier', 'children': [], 'value': 'scffastafile'},{'id': '99', 'type': 'identifier', 'children': [], 'value': 'mapping'},{'id': '100', 'type': 'expression_statement', 'children': ['101']},{'id': '101', 'type': 'assignment', 'children': ['102', '103']},{'id': '102', 'type': 'identifier', 'children': [], 'value': 'scfsize'},{'id': '103', 'type': 'subscript', 'children': ['104', '105']},{'id': '104', 'type': 'identifier', 'children': [], 'value': 'sizes'},{'id': '105', 'type': 'identifier', 'children': [], 'value': 'scf'},{'id': '106', 'type': 'expression_statement', 'children': ['107']},{'id': '107', 'type': 'call', 'children': ['108', '111']},{'id': '108', 'type': 'attribute', 'children': ['109', '110']},{'id': '109', 'type': 'identifier', 'children': [], 'value': 'logging'},{'id': '110', 'type': 'identifier', 'children': [], 'value': 'debug'},{'id': '111', 'type': 'argument_list', 'children': ['112']},{'id': '112', 'type': 'call', 'children': ['113', '116']},{'id': '113', 'type': 'attribute', 'children': ['114', '115']},{'id': '114', 'type': 'string', 'children': [], 'value': '"`{0}` has length of {1}."'},{'id': '115', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '116', 'type': 'argument_list', 'children': ['117', '118']},{'id': '117', 'type': 'identifier', 'children': [], 'value': 'scf'},{'id': '118', 'type': 'identifier', 'children': [], 'value': 'scfsize'},{'id': '119', 'type': 'expression_statement', 'children': ['120']},{'id': '120', 'type': 'assignment', 'children': ['121', '122']},{'id': '121', 'type': 'identifier', 'children': [], 'value': 'gapsbedfile'},{'id': '122', 'type': 'binary_operator', 'children': ['123', '124'], 'value': '+'},{'id': '123', 'type': 'identifier', 'children': [], 'value': 'scf'},{'id': '124', 'type': 'string', 'children': [], 'value': '".gaps.bed"'},{'id': '125', 'type': 'if_statement', 'children': ['126', '133']},{'id': '126', 'type': 'not_operator', 'children': ['127']},{'id': '127', 'type': 'call', 'children': ['128', '131']},{'id': '128', 'type': 'attribute', 'children': ['129', '130']},{'id': '129', 'type': 'identifier', 'children': [], 'value': 'op'},{'id': '130', 'type': 'identifier', 'children': [], 'value': 'exists'},{'id': '131', 'type': 'argument_list', 'children': ['132']},{'id': '132', 'type': 'identifier', 'children': [], 'value': 'gapsbedfile'},{'id': '133', 'type': 'block', 'children': ['134', '141']},{'id': '134', 'type': 'expression_statement', 'children': ['135']},{'id': '135', 'type': 'assignment', 'children': ['136', '137']},{'id': '136', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '137', 'type': 'list', 'children': ['138', '139', '140'], 'value': '[scffastafile, "--bed", "--mingap=100"]'},{'id': '138', 'type': 'identifier', 'children': [], 'value': 'scffastafile'},{'id': '139', 'type': 'string', 'children': [], 'value': '"--bed"'},{'id': '140', 'type': 'string', 'children': [], 'value': '"--mingap=100"'},{'id': '141', 'type': 'expression_statement', 'children': ['142']},{'id': '142', 'type': 'call', 'children': ['143', '144']},{'id': '143', 'type': 'identifier', 'children': [], 'value': 'gaps'},{'id': '144', 'type': 'argument_list', 'children': ['145']},{'id': '145', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '146', 'type': 'expression_statement', 'children': ['147']},{'id': '147', 'type': 'assignment', 'children': ['148', '149']},{'id': '148', 'type': 'identifier', 'children': [], 'value': 'posmapfile'},{'id': '149', 'type': 'binary_operator', 'children': ['150', '151'], 'value': '+'},{'id': '150', 'type': 'identifier', 'children': [], 'value': 'scf'},{'id': '151', 'type': 'string', 'children': [], 'value': '".posmap"'},{'id': '152', 'type': 'if_statement', 'children': ['153', '160']},{'id': '153', 'type': 'not_operator', 'children': ['154']},{'id': '154', 'type': 'call', 'children': ['155', '158']},{'id': '155', 'type': 'attribute', 'children': ['156', '157']},{'id': '156', 'type': 'identifier', 'children': [], 'value': 'op'},{'id': '157', 'type': 'identifier', 'children': [], 'value': 'exists'},{'id': '158', 'type': 'argument_list', 'children': ['159']},{'id': '159', 'type': 'identifier', 'children': [], 'value': 'posmapfile'},{'id': '160', 'type': 'block', 'children': ['161', '167']},{'id': '161', 'type': 'expression_statement', 'children': ['162']},{'id': '162', 'type': 'assignment', 'children': ['163', '164']},{'id': '163', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '164', 'type': 'list', 'children': ['165', '166'], 'value': '[frgscffile, scf]'},{'id': '165', 'type': 'identifier', 'children': [], 'value': 'frgscffile'},{'id': '166', 'type': 'identifier', 'children': [], 'value': 'scf'},{'id': '167', 'type': 'expression_statement', 'children': ['168']},{'id': '168', 'type': 'call', 'children': ['169', '170']},{'id': '169', 'type': 'identifier', 'children': [], 'value': 'query'},{'id': '170', 'type': 'argument_list', 'children': ['171']},{'id': '171', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '172', 'type': 'expression_statement', 'children': ['173']},{'id': '173', 'type': 'assignment', 'children': ['174', '175']},{'id': '174', 'type': 'identifier', 'children': [], 'value': 'bedfile'},{'id': '175', 'type': 'binary_operator', 'children': ['176', '177'], 'value': '+'},{'id': '176', 'type': 'identifier', 'children': [], 'value': 'scf'},{'id': '177', 'type': 'string', 'children': [], 'value': '".bed"'},{'id': '178', 'type': 'if_statement', 'children': ['179', '186']},{'id': '179', 'type': 'not_operator', 'children': ['180']},{'id': '180', 'type': 'call', 'children': ['181', '184']},{'id': '181', 'type': 'attribute', 'children': ['182', '183']},{'id': '182', 'type': 'identifier', 'children': [], 'value': 'op'},{'id': '183', 'type': 'identifier', 'children': [], 'value': 'exists'},{'id': '184', 'type': 'argument_list', 'children': ['185']},{'id': '185', 'type': 'identifier', 'children': [], 'value': 'bedfile'},{'id': '186', 'type': 'block', 'children': ['187', '192']},{'id': '187', 'type': 'expression_statement', 'children': ['188']},{'id': '188', 'type': 'assignment', 'children': ['189', '190']},{'id': '189', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '190', 'type': 'list', 'children': ['191'], 'value': '[posmapfile]'},{'id': '191', 'type': 'identifier', 'children': [], 'value': 'posmapfile'},{'id': '192', 'type': 'expression_statement', 'children': ['193']},{'id': '193', 'type': 'call', 'children': ['194', '195']},{'id': '194', 'type': 'identifier', 'children': [], 'value': 'bed'},{'id': '195', 'type': 'argument_list', 'children': ['196']},{'id': '196', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '197', 'type': 'expression_statement', 'children': ['198']},{'id': '198', 'type': 'assignment', 'children': ['199', '200']},{'id': '199', 'type': 'identifier', 'children': [], 'value': 'bedpefile'},{'id': '200', 'type': 'binary_operator', 'children': ['201', '202'], 'value': '+'},{'id': '201', 'type': 'identifier', 'children': [], 'value': 'scf'},{'id': '202', 'type': 'string', 'children': [], 'value': '".bedpe"'},{'id': '203', 'type': 'expression_statement', 'children': ['204']},{'id': '204', 'type': 'assignment', 'children': ['205', '206']},{'id': '205', 'type': 'identifier', 'children': [], 'value': 'pairsbedfile'},{'id': '206', 'type': 'binary_operator', 'children': ['207', '208'], 'value': '+'},{'id': '207', 'type': 'identifier', 'children': [], 'value': 'scf'},{'id': '208', 'type': 'string', 'children': [], 'value': '".pairs.bed"'},{'id': '209', 'type': 'if_statement', 'children': ['210', '225']},{'id': '210', 'type': 'not_operator', 'children': ['211']},{'id': '211', 'type': '()', 'children': ['212']},{'id': '212', 'type': 'boolean_operator', 'children': ['213', '219'], 'value': 'and'},{'id': '213', 'type': 'call', 'children': ['214', '217']},{'id': '214', 'type': 'attribute', 'children': ['215', '216']},{'id': '215', 'type': 'identifier', 'children': [], 'value': 'op'},{'id': '216', 'type': 'identifier', 'children': [], 'value': 'exists'},{'id': '217', 'type': 'argument_list', 'children': ['218']},{'id': '218', 'type': 'identifier', 'children': [], 'value': 'bedpefile'},{'id': '219', 'type': 'call', 'children': ['220', '223']},{'id': '220', 'type': 'attribute', 'children': ['221', '222']},{'id': '221', 'type': 'identifier', 'children': [], 'value': 'op'},{'id': '222', 'type': 'identifier', 'children': [], 'value': 'exists'},{'id': '223', 'type': 'argument_list', 'children': ['224']},{'id': '224', 'type': 'identifier', 'children': [], 'value': 'pairsbedfile'},{'id': '225', 'type': 'block', 'children': ['226']},{'id': '226', 'type': 'expression_statement', 'children': ['227']},{'id': '227', 'type': 'call', 'children': ['228', '229']},{'id': '228', 'type': 'identifier', 'children': [], 'value': 'bed_to_bedpe'},{'id': '229', 'type': 'argument_list', 'children': ['230', '231', '232', '235']},{'id': '230', 'type': 'identifier', 'children': [], 'value': 'bedfile'},{'id': '231', 'type': 'identifier', 'children': [], 'value': 'bedpefile'},{'id': '232', 'type': 'keyword_argument', 'children': ['233', '234']},{'id': '233', 'type': 'identifier', 'children': [], 'value': 'pairsbedfile'},{'id': '234', 'type': 'identifier', 'children': [], 'value': 'pairsbedfile'},{'id': '235', 'type': 'keyword_argument', 'children': ['236', '237']},{'id': '236', 'type': 'identifier', 'children': [], 'value': 'ca'},{'id': '237', 'type': 'True', 'children': []},{'id': '238', 'type': 'expression_statement', 'children': ['239']},{'id': '239', 'type': 'call', 'children': ['240', '241']},{'id': '240', 'type': 'identifier', 'children': [], 'value': 'Coverage'},{'id': '241', 'type': 'argument_list', 'children': ['242', '243']},{'id': '242', 'type': 'identifier', 'children': [], 'value': 'bedfile'},{'id': '243', 'type': 'identifier', 'children': [], 'value': 'sizesfile'},{'id': '244', 'type': 'expression_statement', 'children': ['245']},{'id': '245', 'type': 'call', 'children': ['246', '247']},{'id': '246', 'type': 'identifier', 'children': [], 'value': 'Coverage'},{'id': '247', 'type': 'argument_list', 'children': ['248', '249']},{'id': '248', 'type': 'identifier', 'children': [], 'value': 'pairsbedfile'},{'id': '249', 'type': 'identifier', 'children': [], 'value': 'sizesfile'} | def posmap(args):
p = OptionParser(posmap.__doc__)
opts, args = p.parse_args(args)
if len(args) != 3:
sys.exit(p.print_help())
frgscffile, fastafile, scf = args
cmd = "faOneRecord {0} {1}".format(fastafile, scf)
scffastafile = scf + ".fasta"
if not op.exists(scffastafile):
sh(cmd, outfile=scffastafile)
sizesfile = scffastafile + ".sizes"
sizes = Sizes(scffastafile).mapping
scfsize = sizes[scf]
logging.debug("`{0}` has length of {1}.".format(scf, scfsize))
gapsbedfile = scf + ".gaps.bed"
if not op.exists(gapsbedfile):
args = [scffastafile, "--bed", "--mingap=100"]
gaps(args)
posmapfile = scf + ".posmap"
if not op.exists(posmapfile):
args = [frgscffile, scf]
query(args)
bedfile = scf + ".bed"
if not op.exists(bedfile):
args = [posmapfile]
bed(args)
bedpefile = scf + ".bedpe"
pairsbedfile = scf + ".pairs.bed"
if not (op.exists(bedpefile) and op.exists(pairsbedfile)):
bed_to_bedpe(bedfile, bedpefile, pairsbedfile=pairsbedfile, ca=True)
Coverage(bedfile, sizesfile)
Coverage(pairsbedfile, sizesfile) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'shred'},{'id': '3', 'type': 'parameters', 'children': ['4']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '5', 'type': 'block', 'children': ['6', '15', '26', '46', '51', '58', '64']},{'id': '6', 'type': 'expression_statement', 'children': ['7']},{'id': '7', 'type': 'assignment', 'children': ['8', '9']},{'id': '8', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '9', 'type': 'call', 'children': ['10', '11']},{'id': '10', 'type': 'identifier', 'children': [], 'value': 'OptionParser'},{'id': '11', 'type': 'argument_list', 'children': ['12']},{'id': '12', 'type': 'attribute', 'children': ['13', '14']},{'id': '13', 'type': 'identifier', 'children': [], 'value': 'shred'},{'id': '14', 'type': 'identifier', 'children': [], 'value': '__doc__'},{'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': 'opts'},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '20', 'type': 'call', 'children': ['21', '24']},{'id': '21', 'type': 'attribute', 'children': ['22', '23']},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'parse_args'},{'id': '24', 'type': 'argument_list', 'children': ['25']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '26', 'type': 'if_statement', 'children': ['27', '33']},{'id': '27', 'type': 'comparison_operator', 'children': ['28', '32'], 'value': '!='},{'id': '28', 'type': 'call', 'children': ['29', '30']},{'id': '29', 'type': 'identifier', 'children': [], 'value': 'len'},{'id': '30', 'type': 'argument_list', 'children': ['31']},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '32', 'type': 'integer', 'children': [], 'value': '1'},{'id': '33', 'type': 'block', 'children': ['34']},{'id': '34', 'type': 'expression_statement', 'children': ['35']},{'id': '35', 'type': 'call', 'children': ['36', '39']},{'id': '36', 'type': 'attribute', 'children': ['37', '38']},{'id': '37', 'type': 'identifier', 'children': [], 'value': 'sys'},{'id': '38', 'type': 'identifier', 'children': [], 'value': 'exit'},{'id': '39', 'type': 'argument_list', 'children': ['40']},{'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': 'p'},{'id': '44', 'type': 'identifier', 'children': [], 'value': 'print_help'},{'id': '45', 'type': 'argument_list', 'children': []},{'id': '46', 'type': 'expression_statement', 'children': ['47']},{'id': '47', 'type': 'assignment', 'children': ['48', '50']},{'id': '48', 'type': 'pattern_list', 'children': ['49']},{'id': '49', 'type': 'identifier', 'children': [], 'value': 's'},{'id': '50', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '51', 'type': 'expression_statement', 'children': ['52']},{'id': '52', 'type': 'assignment', 'children': ['53', '54']},{'id': '53', 'type': 'identifier', 'children': [], 'value': 'u'},{'id': '54', 'type': 'call', 'children': ['55', '56']},{'id': '55', 'type': 'identifier', 'children': [], 'value': 'UnitigLayout'},{'id': '56', 'type': 'argument_list', 'children': ['57']},{'id': '57', 'type': 'identifier', 'children': [], 'value': 's'},{'id': '58', 'type': 'expression_statement', 'children': ['59']},{'id': '59', 'type': 'call', 'children': ['60', '63']},{'id': '60', 'type': 'attribute', 'children': ['61', '62']},{'id': '61', 'type': 'identifier', 'children': [], 'value': 'u'},{'id': '62', 'type': 'identifier', 'children': [], 'value': 'shred'},{'id': '63', 'type': 'argument_list', 'children': []},{'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': 'u'},{'id': '68', 'type': 'identifier', 'children': [], 'value': 'print_to_file'},{'id': '69', 'type': 'argument_list', 'children': ['70']},{'id': '70', 'type': 'keyword_argument', 'children': ['71', '72']},{'id': '71', 'type': 'identifier', 'children': [], 'value': 'inplace'},{'id': '72', 'type': 'True', 'children': []} | def shred(args):
p = OptionParser(shred.__doc__)
opts, args = p.parse_args(args)
if len(args) != 1:
sys.exit(not p.print_help())
s, = args
u = UnitigLayout(s)
u.shred()
u.print_to_file(inplace=True) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'index'},{'id': '3', 'type': 'parameters', 'children': ['4']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '5', 'type': 'block', 'children': ['6', '15', '26', '45', '50', '56', '65', '82', '88', '97']},{'id': '6', 'type': 'expression_statement', 'children': ['7']},{'id': '7', 'type': 'assignment', 'children': ['8', '9']},{'id': '8', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '9', 'type': 'call', 'children': ['10', '11']},{'id': '10', 'type': 'identifier', 'children': [], 'value': 'OptionParser'},{'id': '11', 'type': 'argument_list', 'children': ['12']},{'id': '12', 'type': 'attribute', 'children': ['13', '14']},{'id': '13', 'type': 'identifier', 'children': [], 'value': 'index'},{'id': '14', 'type': 'identifier', 'children': [], 'value': '__doc__'},{'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': 'opts'},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '20', 'type': 'call', 'children': ['21', '24']},{'id': '21', 'type': 'attribute', 'children': ['22', '23']},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'parse_args'},{'id': '24', 'type': 'argument_list', 'children': ['25']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '26', 'type': 'if_statement', 'children': ['27', '33']},{'id': '27', 'type': 'comparison_operator', 'children': ['28', '32'], 'value': '!='},{'id': '28', 'type': 'call', 'children': ['29', '30']},{'id': '29', 'type': 'identifier', 'children': [], 'value': 'len'},{'id': '30', 'type': 'argument_list', 'children': ['31']},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '32', 'type': 'integer', 'children': [], 'value': '1'},{'id': '33', 'type': 'block', 'children': ['34']},{'id': '34', 'type': 'expression_statement', 'children': ['35']},{'id': '35', 'type': 'call', 'children': ['36', '39']},{'id': '36', 'type': 'attribute', 'children': ['37', '38']},{'id': '37', 'type': 'identifier', 'children': [], 'value': 'sys'},{'id': '38', 'type': 'identifier', 'children': [], 'value': 'exit'},{'id': '39', 'type': 'argument_list', 'children': ['40']},{'id': '40', 'type': 'call', 'children': ['41', '44']},{'id': '41', 'type': 'attribute', 'children': ['42', '43']},{'id': '42', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '43', 'type': 'identifier', 'children': [], 'value': 'print_help'},{'id': '44', 'type': 'argument_list', 'children': []},{'id': '45', 'type': 'expression_statement', 'children': ['46']},{'id': '46', 'type': 'assignment', 'children': ['47', '49']},{'id': '47', 'type': 'pattern_list', 'children': ['48']},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'frgscffile'},{'id': '49', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '50', 'type': 'expression_statement', 'children': ['51']},{'id': '51', 'type': 'assignment', 'children': ['52', '53']},{'id': '52', 'type': 'identifier', 'children': [], 'value': 'gzfile'},{'id': '53', 'type': 'binary_operator', 'children': ['54', '55'], 'value': '+'},{'id': '54', 'type': 'identifier', 'children': [], 'value': 'frgscffile'},{'id': '55', 'type': 'string', 'children': [], 'value': '".gz"'},{'id': '56', 'type': 'expression_statement', 'children': ['57']},{'id': '57', 'type': 'assignment', 'children': ['58', '59']},{'id': '58', 'type': 'identifier', 'children': [], 'value': 'cmd'},{'id': '59', 'type': 'call', 'children': ['60', '63']},{'id': '60', 'type': 'attribute', 'children': ['61', '62']},{'id': '61', 'type': 'string', 'children': [], 'value': '"bgzip -c {0}"'},{'id': '62', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '63', 'type': 'argument_list', 'children': ['64']},{'id': '64', 'type': 'identifier', 'children': [], 'value': 'frgscffile'},{'id': '65', 'type': 'if_statement', 'children': ['66', '73']},{'id': '66', 'type': 'not_operator', 'children': ['67']},{'id': '67', 'type': 'call', 'children': ['68', '71']},{'id': '68', 'type': 'attribute', 'children': ['69', '70']},{'id': '69', 'type': 'identifier', 'children': [], 'value': 'op'},{'id': '70', 'type': 'identifier', 'children': [], 'value': 'exists'},{'id': '71', 'type': 'argument_list', 'children': ['72']},{'id': '72', 'type': 'identifier', 'children': [], 'value': 'gzfile'},{'id': '73', 'type': 'block', 'children': ['74']},{'id': '74', 'type': 'expression_statement', 'children': ['75']},{'id': '75', 'type': 'call', 'children': ['76', '77']},{'id': '76', 'type': 'identifier', 'children': [], 'value': 'sh'},{'id': '77', 'type': 'argument_list', 'children': ['78', '79']},{'id': '78', 'type': 'identifier', 'children': [], 'value': 'cmd'},{'id': '79', 'type': 'keyword_argument', 'children': ['80', '81']},{'id': '80', 'type': 'identifier', 'children': [], 'value': 'outfile'},{'id': '81', 'type': 'identifier', 'children': [], 'value': 'gzfile'},{'id': '82', 'type': 'expression_statement', 'children': ['83']},{'id': '83', 'type': 'assignment', 'children': ['84', '85']},{'id': '84', 'type': 'identifier', 'children': [], 'value': 'tbifile'},{'id': '85', 'type': 'binary_operator', 'children': ['86', '87'], 'value': '+'},{'id': '86', 'type': 'identifier', 'children': [], 'value': 'gzfile'},{'id': '87', 'type': 'string', 'children': [], 'value': '".tbi"'},{'id': '88', 'type': 'expression_statement', 'children': ['89']},{'id': '89', 'type': 'assignment', 'children': ['90', '91']},{'id': '90', 'type': 'identifier', 'children': [], 'value': 'cmd'},{'id': '91', 'type': 'call', 'children': ['92', '95']},{'id': '92', 'type': 'attribute', 'children': ['93', '94']},{'id': '93', 'type': 'string', 'children': [], 'value': '"tabix -s 2 -b 3 -e 4 {0}"'},{'id': '94', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '95', 'type': 'argument_list', 'children': ['96']},{'id': '96', 'type': 'identifier', 'children': [], 'value': 'gzfile'},{'id': '97', 'type': 'if_statement', 'children': ['98', '105']},{'id': '98', 'type': 'not_operator', 'children': ['99']},{'id': '99', 'type': 'call', 'children': ['100', '103']},{'id': '100', 'type': 'attribute', 'children': ['101', '102']},{'id': '101', 'type': 'identifier', 'children': [], 'value': 'op'},{'id': '102', 'type': 'identifier', 'children': [], 'value': 'exists'},{'id': '103', 'type': 'argument_list', 'children': ['104']},{'id': '104', 'type': 'identifier', 'children': [], 'value': 'tbifile'},{'id': '105', 'type': 'block', 'children': ['106']},{'id': '106', 'type': 'expression_statement', 'children': ['107']},{'id': '107', 'type': 'call', 'children': ['108', '109']},{'id': '108', 'type': 'identifier', 'children': [], 'value': 'sh'},{'id': '109', 'type': 'argument_list', 'children': ['110']},{'id': '110', 'type': 'identifier', 'children': [], 'value': 'cmd'} | def index(args):
p = OptionParser(index.__doc__)
opts, args = p.parse_args(args)
if len(args) != 1:
sys.exit(p.print_help())
frgscffile, = args
gzfile = frgscffile + ".gz"
cmd = "bgzip -c {0}".format(frgscffile)
if not op.exists(gzfile):
sh(cmd, outfile=gzfile)
tbifile = gzfile + ".tbi"
cmd = "tabix -s 2 -b 3 -e 4 {0}".format(gzfile)
if not op.exists(tbifile):
sh(cmd) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'sort'},{'id': '3', 'type': 'parameters', 'children': ['4']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '5', 'type': 'block', 'children': ['6', '12', '21', '37', '56', '62', '68', '75', '86', '106', '111', '117', '157']},{'id': '6', 'type': 'expression_statement', 'children': ['7']},{'id': '7', 'type': 'assignment', 'children': ['8', '9']},{'id': '8', 'type': 'identifier', 'children': [], 'value': 'valid_sort_methods'},{'id': '9', 'type': 'tuple', 'children': ['10', '11']},{'id': '10', 'type': 'string', 'children': [], 'value': '"unix"'},{'id': '11', 'type': 'string', 'children': [], 'value': '"topo"'},{'id': '12', 'type': 'expression_statement', 'children': ['13']},{'id': '13', 'type': 'assignment', 'children': ['14', '15']},{'id': '14', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '15', 'type': 'call', 'children': ['16', '17']},{'id': '16', 'type': 'identifier', 'children': [], 'value': 'OptionParser'},{'id': '17', 'type': 'argument_list', 'children': ['18']},{'id': '18', 'type': 'attribute', 'children': ['19', '20']},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '20', 'type': 'identifier', 'children': [], 'value': '__doc__'},{'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': 'p'},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'add_option'},{'id': '26', 'type': 'argument_list', 'children': ['27', '28', '31', '34']},{'id': '27', 'type': 'string', 'children': [], 'value': '"--method"'},{'id': '28', 'type': 'keyword_argument', 'children': ['29', '30']},{'id': '29', 'type': 'identifier', 'children': [], 'value': 'default'},{'id': '30', 'type': 'string', 'children': [], 'value': '"unix"'},{'id': '31', 'type': 'keyword_argument', 'children': ['32', '33']},{'id': '32', 'type': 'identifier', 'children': [], 'value': 'choices'},{'id': '33', 'type': 'identifier', 'children': [], 'value': 'valid_sort_methods'},{'id': '34', 'type': 'keyword_argument', 'children': ['35', '36']},{'id': '35', 'type': 'identifier', 'children': [], 'value': 'help'},{'id': '36', 'type': 'string', 'children': [], 'value': '"Specify sort method [default: %default]"'},{'id': '37', 'type': 'expression_statement', 'children': ['38']},{'id': '38', 'type': 'call', 'children': ['39', '42']},{'id': '39', 'type': 'attribute', 'children': ['40', '41']},{'id': '40', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '41', 'type': 'identifier', 'children': [], 'value': 'add_option'},{'id': '42', 'type': 'argument_list', 'children': ['43', '44', '47', '50', '53']},{'id': '43', 'type': 'string', 'children': [], 'value': '"-i"'},{'id': '44', 'type': 'keyword_argument', 'children': ['45', '46']},{'id': '45', 'type': 'identifier', 'children': [], 'value': 'dest'},{'id': '46', 'type': 'string', 'children': [], 'value': '"inplace"'},{'id': '47', 'type': 'keyword_argument', 'children': ['48', '49']},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'default'},{'id': '49', 'type': 'False', 'children': []},{'id': '50', 'type': 'keyword_argument', 'children': ['51', '52']},{'id': '51', 'type': 'identifier', 'children': [], 'value': 'action'},{'id': '52', 'type': 'string', 'children': [], 'value': '"store_true"'},{'id': '53', 'type': 'keyword_argument', 'children': ['54', '55']},{'id': '54', 'type': 'identifier', 'children': [], 'value': 'help'},{'id': '55', 'type': 'string', 'children': [], 'value': '"If doing a unix sort, perform sort inplace [default: %default]"'},{'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': 'p'},{'id': '60', 'type': 'identifier', 'children': [], 'value': 'set_tmpdir'},{'id': '61', 'type': 'argument_list', 'children': []},{'id': '62', 'type': 'expression_statement', 'children': ['63']},{'id': '63', 'type': 'call', 'children': ['64', '67']},{'id': '64', 'type': 'attribute', 'children': ['65', '66']},{'id': '65', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '66', 'type': 'identifier', 'children': [], 'value': 'set_outfile'},{'id': '67', 'type': 'argument_list', 'children': []},{'id': '68', 'type': 'expression_statement', 'children': ['69']},{'id': '69', 'type': 'call', 'children': ['70', '73']},{'id': '70', 'type': 'attribute', 'children': ['71', '72']},{'id': '71', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '72', 'type': 'identifier', 'children': [], 'value': 'set_home'},{'id': '73', 'type': 'argument_list', 'children': ['74']},{'id': '74', 'type': 'string', 'children': [], 'value': '"gt"'},{'id': '75', 'type': 'expression_statement', 'children': ['76']},{'id': '76', 'type': 'assignment', 'children': ['77', '80']},{'id': '77', 'type': 'pattern_list', 'children': ['78', '79']},{'id': '78', 'type': 'identifier', 'children': [], 'value': 'opts'},{'id': '79', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '80', 'type': 'call', 'children': ['81', '84']},{'id': '81', 'type': 'attribute', 'children': ['82', '83']},{'id': '82', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '83', 'type': 'identifier', 'children': [], 'value': 'parse_args'},{'id': '84', 'type': 'argument_list', 'children': ['85']},{'id': '85', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '86', 'type': 'if_statement', 'children': ['87', '93']},{'id': '87', 'type': 'comparison_operator', 'children': ['88', '92'], 'value': '!='},{'id': '88', 'type': 'call', 'children': ['89', '90']},{'id': '89', 'type': 'identifier', 'children': [], 'value': 'len'},{'id': '90', 'type': 'argument_list', 'children': ['91']},{'id': '91', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '92', 'type': 'integer', 'children': [], 'value': '1'},{'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': 'sys'},{'id': '98', 'type': 'identifier', 'children': [], 'value': 'exit'},{'id': '99', 'type': 'argument_list', 'children': ['100']},{'id': '100', 'type': 'not_operator', 'children': ['101']},{'id': '101', 'type': 'call', 'children': ['102', '105']},{'id': '102', 'type': 'attribute', 'children': ['103', '104']},{'id': '103', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '104', 'type': 'identifier', 'children': [], 'value': 'print_help'},{'id': '105', 'type': 'argument_list', 'children': []},{'id': '106', 'type': 'expression_statement', 'children': ['107']},{'id': '107', 'type': 'assignment', 'children': ['108', '110']},{'id': '108', 'type': 'pattern_list', 'children': ['109']},{'id': '109', 'type': 'identifier', 'children': [], 'value': 'gffile'},{'id': '110', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '111', 'type': 'expression_statement', 'children': ['112']},{'id': '112', 'type': 'assignment', 'children': ['113', '114']},{'id': '113', 'type': 'identifier', 'children': [], 'value': 'sortedgff'},{'id': '114', 'type': 'attribute', 'children': ['115', '116']},{'id': '115', 'type': 'identifier', 'children': [], 'value': 'opts'},{'id': '116', 'type': 'identifier', 'children': [], 'value': 'outfile'},{'id': '117', 'type': 'if_statement', 'children': ['118', '121']},{'id': '118', 'type': 'attribute', 'children': ['119', '120']},{'id': '119', 'type': 'identifier', 'children': [], 'value': 'opts'},{'id': '120', 'type': 'identifier', 'children': [], 'value': 'inplace'},{'id': '121', 'type': 'block', 'children': ['122']},{'id': '122', 'type': 'if_statement', 'children': ['123', '141']},{'id': '123', 'type': 'boolean_operator', 'children': ['124', '129'], 'value': 'or'},{'id': '124', 'type': 'comparison_operator', 'children': ['125', '128'], 'value': '=='},{'id': '125', 'type': 'attribute', 'children': ['126', '127']},{'id': '126', 'type': 'identifier', 'children': [], 'value': 'opts'},{'id': '127', 'type': 'identifier', 'children': [], 'value': 'method'},{'id': '128', 'type': 'string', 'children': [], 'value': '"topo"'},{'id': '129', 'type': '()', 'children': ['130']},{'id': '130', 'type': 'boolean_operator', 'children': ['131', '136'], 'value': 'and'},{'id': '131', 'type': 'comparison_operator', 'children': ['132', '135'], 'value': '=='},{'id': '132', 'type': 'attribute', 'children': ['133', '134']},{'id': '133', 'type': 'identifier', 'children': [], 'value': 'opts'},{'id': '134', 'type': 'identifier', 'children': [], 'value': 'method'},{'id': '135', 'type': 'string', 'children': [], 'value': '"unix"'},{'id': '136', 'type': 'comparison_operator', 'children': ['137', '138'], 'value': 'in'},{'id': '137', 'type': 'identifier', 'children': [], 'value': 'gffile'},{'id': '138', 'type': 'tuple', 'children': ['139', '140']},{'id': '139', 'type': 'string', 'children': [], 'value': '"-"'},{'id': '140', 'type': 'string', 'children': [], 'value': '"stdin"'},{'id': '141', 'type': 'block', 'children': ['142', '151']},{'id': '142', 'type': 'expression_statement', 'children': ['143']},{'id': '143', 'type': 'call', 'children': ['144', '147']},{'id': '144', 'type': 'attribute', 'children': ['145', '146']},{'id': '145', 'type': 'identifier', 'children': [], 'value': 'logging'},{'id': '146', 'type': 'identifier', 'children': [], 'value': 'error'},{'id': '147', 'type': 'argument_list', 'children': ['148']},{'id': '148', 'type': 'binary_operator', 'children': ['149', '150'], 'value': '+'},{'id': '149', 'type': 'string', 'children': [], 'value': '"Cannot perform inplace sort when method is `topo`"'},{'id': '150', 'type': 'string', 'children': [], 'value': '" or method is `unix` and input is `stdin` stream"'},{'id': '151', 'type': 'expression_statement', 'children': ['152']},{'id': '152', 'type': 'call', 'children': ['153', '156']},{'id': '153', 'type': 'attribute', 'children': ['154', '155']},{'id': '154', 'type': 'identifier', 'children': [], 'value': 'sys'},{'id': '155', 'type': 'identifier', 'children': [], 'value': 'exit'},{'id': '156', 'type': 'argument_list', 'children': []},{'id': '157', 'type': 'if_statement', 'children': ['158', '163', '216']},{'id': '158', 'type': 'comparison_operator', 'children': ['159', '162'], 'value': '=='},{'id': '159', 'type': 'attribute', 'children': ['160', '161']},{'id': '160', 'type': 'identifier', 'children': [], 'value': 'opts'},{'id': '161', 'type': 'identifier', 'children': [], 'value': 'method'},{'id': '162', 'type': 'string', 'children': [], 'value': '"unix"'},{'id': '163', 'type': 'block', 'children': ['164', '168', '177', '193', '208']},{'id': '164', 'type': 'expression_statement', 'children': ['165']},{'id': '165', 'type': 'assignment', 'children': ['166', '167']},{'id': '166', 'type': 'identifier', 'children': [], 'value': 'cmd'},{'id': '167', 'type': 'string', 'children': [], 'value': '"sort"'},{'id': '168', 'type': 'expression_statement', 'children': ['169']},{'id': '169', 'type': 'augmented_assignment', 'children': ['170', '171'], 'value': '+='},{'id': '170', 'type': 'identifier', 'children': [], 'value': 'cmd'},{'id': '171', 'type': 'call', 'children': ['172', '175']},{'id': '172', 'type': 'attribute', 'children': ['173', '174']},{'id': '173', 'type': 'string', 'children': [], 'value': '" -k1,1 -k4,4n {0}"'},{'id': '174', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '175', 'type': 'argument_list', 'children': ['176']},{'id': '176', 'type': 'identifier', 'children': [], 'value': 'gffile'},{'id': '177', 'type': 'if_statement', 'children': ['178', '181']},{'id': '178', 'type': 'attribute', 'children': ['179', '180']},{'id': '179', 'type': 'identifier', 'children': [], 'value': 'opts'},{'id': '180', 'type': 'identifier', 'children': [], 'value': 'tmpdir'},{'id': '181', 'type': 'block', 'children': ['182']},{'id': '182', 'type': 'expression_statement', 'children': ['183']},{'id': '183', 'type': 'augmented_assignment', 'children': ['184', '185'], 'value': '+='},{'id': '184', 'type': 'identifier', 'children': [], 'value': 'cmd'},{'id': '185', 'type': 'call', 'children': ['186', '189']},{'id': '186', 'type': 'attribute', 'children': ['187', '188']},{'id': '187', 'type': 'string', 'children': [], 'value': '" -T {0}"'},{'id': '188', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '189', 'type': 'argument_list', 'children': ['190']},{'id': '190', 'type': 'attribute', 'children': ['191', '192']},{'id': '191', 'type': 'identifier', 'children': [], 'value': 'opts'},{'id': '192', 'type': 'identifier', 'children': [], 'value': 'tmpdir'},{'id': '193', 'type': 'if_statement', 'children': ['194', '197']},{'id': '194', 'type': 'attribute', 'children': ['195', '196']},{'id': '195', 'type': 'identifier', 'children': [], 'value': 'opts'},{'id': '196', 'type': 'identifier', 'children': [], 'value': 'inplace'},{'id': '197', 'type': 'block', 'children': ['198', '204']},{'id': '198', 'type': 'expression_statement', 'children': ['199']},{'id': '199', 'type': 'augmented_assignment', 'children': ['200', '201'], 'value': '+='},{'id': '200', 'type': 'identifier', 'children': [], 'value': 'cmd'},{'id': '201', 'type': 'attribute', 'children': ['202', '203']},{'id': '202', 'type': 'string', 'children': [], 'value': '" -o {0}"'},{'id': '203', 'type': 'identifier', 'children': [], 'value': 'gffile'},{'id': '204', 'type': 'expression_statement', 'children': ['205']},{'id': '205', 'type': 'assignment', 'children': ['206', '207']},{'id': '206', 'type': 'identifier', 'children': [], 'value': 'sortedgff'},{'id': '207', 'type': 'None', 'children': []},{'id': '208', 'type': 'expression_statement', 'children': ['209']},{'id': '209', 'type': 'call', 'children': ['210', '211']},{'id': '210', 'type': 'identifier', 'children': [], 'value': 'sh'},{'id': '211', 'type': 'argument_list', 'children': ['212', '213']},{'id': '212', 'type': 'identifier', 'children': [], 'value': 'cmd'},{'id': '213', 'type': 'keyword_argument', 'children': ['214', '215']},{'id': '214', 'type': 'identifier', 'children': [], 'value': 'outfile'},{'id': '215', 'type': 'identifier', 'children': [], 'value': 'sortedgff'},{'id': '216', 'type': 'elif_clause', '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': 'opts'},{'id': '220', 'type': 'identifier', 'children': [], 'value': 'method'},{'id': '221', 'type': 'string', 'children': [], 'value': '"topo"'},{'id': '222', 'type': 'block', 'children': ['223', '229', '256', '272', '281']},{'id': '223', 'type': 'expression_statement', 'children': ['224']},{'id': '224', 'type': 'assignment', 'children': ['225', '226']},{'id': '225', 'type': 'identifier', 'children': [], 'value': 'GT_HOME'},{'id': '226', 'type': 'attribute', 'children': ['227', '228']},{'id': '227', 'type': 'identifier', 'children': [], 'value': 'opts'},{'id': '228', 'type': 'identifier', 'children': [], 'value': 'gt_home'},{'id': '229', 'type': 'if_statement', 'children': ['230', '237']},{'id': '230', 'type': 'not_operator', 'children': ['231']},{'id': '231', 'type': 'call', 'children': ['232', '235']},{'id': '232', 'type': 'attribute', 'children': ['233', '234']},{'id': '233', 'type': 'identifier', 'children': [], 'value': 'op'},{'id': '234', 'type': 'identifier', 'children': [], 'value': 'isdir'},{'id': '235', 'type': 'argument_list', 'children': ['236']},{'id': '236', 'type': 'identifier', 'children': [], 'value': 'GT_HOME'},{'id': '237', 'type': 'block', 'children': ['238', '250']},{'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': 'logging'},{'id': '242', 'type': 'identifier', 'children': [], 'value': 'error'},{'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': '"GT_HOME={0} directory does not exist"'},{'id': '247', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '248', 'type': 'argument_list', 'children': ['249']},{'id': '249', 'type': 'identifier', 'children': [], 'value': 'GT_HOME'},{'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': 'sys'},{'id': '254', 'type': 'identifier', 'children': [], 'value': 'exit'},{'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': 'cmd'},{'id': '259', 'type': 'call', 'children': ['260', '263']},{'id': '260', 'type': 'attribute', 'children': ['261', '262']},{'id': '261', 'type': 'string', 'children': [], 'value': '"{0}"'},{'id': '262', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '263', 'type': 'argument_list', 'children': ['264']},{'id': '264', 'type': 'call', 'children': ['265', '268']},{'id': '265', 'type': 'attribute', 'children': ['266', '267']},{'id': '266', 'type': 'identifier', 'children': [], 'value': 'op'},{'id': '267', 'type': 'identifier', 'children': [], 'value': 'join'},{'id': '268', 'type': 'argument_list', 'children': ['269', '270', '271']},{'id': '269', 'type': 'identifier', 'children': [], 'value': 'GT_HOME'},{'id': '270', 'type': 'string', 'children': [], 'value': '"bin"'},{'id': '271', 'type': 'string', 'children': [], 'value': '"gt"'},{'id': '272', 'type': 'expression_statement', 'children': ['273']},{'id': '273', 'type': 'augmented_assignment', 'children': ['274', '275'], 'value': '+='},{'id': '274', 'type': 'identifier', 'children': [], 'value': 'cmd'},{'id': '275', 'type': 'call', 'children': ['276', '279']},{'id': '276', 'type': 'attribute', 'children': ['277', '278']},{'id': '277', 'type': 'string', 'children': [], 'value': '" gff3 -sort -tidy -retainids -addids no {0}"'},{'id': '278', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '279', 'type': 'argument_list', 'children': ['280']},{'id': '280', 'type': 'identifier', 'children': [], 'value': 'gffile'},{'id': '281', 'type': 'expression_statement', 'children': ['282']},{'id': '282', 'type': 'call', 'children': ['283', '284']},{'id': '283', 'type': 'identifier', 'children': [], 'value': 'sh'},{'id': '284', 'type': 'argument_list', 'children': ['285', '286']},{'id': '285', 'type': 'identifier', 'children': [], 'value': 'cmd'},{'id': '286', 'type': 'keyword_argument', 'children': ['287', '288']},{'id': '287', 'type': 'identifier', 'children': [], 'value': 'outfile'},{'id': '288', 'type': 'identifier', 'children': [], 'value': 'sortedgff'} | def sort(args):
valid_sort_methods = ("unix", "topo")
p = OptionParser(sort.__doc__)
p.add_option("--method", default="unix", choices=valid_sort_methods,
help="Specify sort method [default: %default]")
p.add_option("-i", dest="inplace", default=False, action="store_true",
help="If doing a unix sort, perform sort inplace [default: %default]")
p.set_tmpdir()
p.set_outfile()
p.set_home("gt")
opts, args = p.parse_args(args)
if len(args) != 1:
sys.exit(not p.print_help())
gffile, = args
sortedgff = opts.outfile
if opts.inplace:
if opts.method == "topo" or (opts.method == "unix" and gffile in ("-", "stdin")):
logging.error("Cannot perform inplace sort when method is `topo`" + \
" or method is `unix` and input is `stdin` stream")
sys.exit()
if opts.method == "unix":
cmd = "sort"
cmd += " -k1,1 -k4,4n {0}".format(gffile)
if opts.tmpdir:
cmd += " -T {0}".format(opts.tmpdir)
if opts.inplace:
cmd += " -o {0}".gffile
sortedgff = None
sh(cmd, outfile=sortedgff)
elif opts.method == "topo":
GT_HOME = opts.gt_home
if not op.isdir(GT_HOME):
logging.error("GT_HOME={0} directory does not exist".format(GT_HOME))
sys.exit()
cmd = "{0}".format(op.join(GT_HOME, "bin", "gt"))
cmd += " gff3 -sort -tidy -retainids -addids no {0}".format(gffile)
sh(cmd, outfile=sortedgff) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '9']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'sort_layout'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '6']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'thread'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'listfile'},{'id': '6', 'type': 'default_parameter', 'children': ['7', '8']},{'id': '7', 'type': 'identifier', 'children': [], 'value': 'column'},{'id': '8', 'type': 'integer', 'children': [], 'value': '0'},{'id': '9', 'type': 'block', 'children': ['10', '17', '31', '37', '45', '58', '62', '68', '104', '114', '127', '143', '150', '181', '198', '204']},{'id': '10', 'type': 'import_from_statement', 'children': ['11', '15']},{'id': '11', 'type': 'dotted_name', 'children': ['12', '13', '14']},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'jcvi'},{'id': '13', 'type': 'identifier', 'children': [], 'value': 'formats'},{'id': '14', 'type': 'identifier', 'children': [], 'value': 'base'},{'id': '15', 'type': 'dotted_name', 'children': ['16']},{'id': '16', 'type': 'identifier', 'children': [], 'value': 'DictFile'},{'id': '17', 'type': 'expression_statement', 'children': ['18']},{'id': '18', 'type': 'assignment', 'children': ['19', '20']},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'outfile'},{'id': '20', 'type': 'binary_operator', 'children': ['21', '30'], 'value': '+'},{'id': '21', 'type': 'subscript', 'children': ['22', '29']},{'id': '22', 'type': 'call', 'children': ['23', '26']},{'id': '23', 'type': 'attribute', 'children': ['24', '25']},{'id': '24', 'type': 'identifier', 'children': [], 'value': 'listfile'},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'rsplit'},{'id': '26', 'type': 'argument_list', 'children': ['27', '28']},{'id': '27', 'type': 'string', 'children': [], 'value': '"."'},{'id': '28', 'type': 'integer', 'children': [], 'value': '1'},{'id': '29', 'type': 'integer', 'children': [], 'value': '0'},{'id': '30', 'type': 'string', 'children': [], 'value': '".sorted.list"'},{'id': '31', 'type': 'expression_statement', 'children': ['32']},{'id': '32', 'type': 'assignment', 'children': ['33', '34']},{'id': '33', 'type': 'identifier', 'children': [], 'value': 'threadorder'},{'id': '34', 'type': 'attribute', 'children': ['35', '36']},{'id': '35', 'type': 'identifier', 'children': [], 'value': 'thread'},{'id': '36', 'type': 'identifier', 'children': [], 'value': 'order'},{'id': '37', 'type': 'expression_statement', 'children': ['38']},{'id': '38', 'type': 'assignment', 'children': ['39', '40']},{'id': '39', 'type': 'identifier', 'children': [], 'value': 'fw'},{'id': '40', 'type': 'call', 'children': ['41', '42']},{'id': '41', 'type': 'identifier', 'children': [], 'value': 'open'},{'id': '42', 'type': 'argument_list', 'children': ['43', '44']},{'id': '43', 'type': 'identifier', 'children': [], 'value': 'outfile'},{'id': '44', 'type': 'string', 'children': [], 'value': '"w"'},{'id': '45', 'type': 'expression_statement', 'children': ['46']},{'id': '46', 'type': 'assignment', 'children': ['47', '48']},{'id': '47', 'type': 'identifier', 'children': [], 'value': 'lt'},{'id': '48', 'type': 'call', 'children': ['49', '50']},{'id': '49', 'type': 'identifier', 'children': [], 'value': 'DictFile'},{'id': '50', 'type': 'argument_list', 'children': ['51', '52', '55']},{'id': '51', 'type': 'identifier', 'children': [], 'value': 'listfile'},{'id': '52', 'type': 'keyword_argument', 'children': ['53', '54']},{'id': '53', 'type': 'identifier', 'children': [], 'value': 'keypos'},{'id': '54', 'type': 'identifier', 'children': [], 'value': 'column'},{'id': '55', 'type': 'keyword_argument', 'children': ['56', '57']},{'id': '56', 'type': 'identifier', 'children': [], 'value': 'valuepos'},{'id': '57', 'type': 'None', 'children': []},{'id': '58', 'type': 'expression_statement', 'children': ['59']},{'id': '59', 'type': 'assignment', 'children': ['60', '61']},{'id': '60', 'type': 'identifier', 'children': [], 'value': 'threaded'},{'id': '61', 'type': 'list', 'children': [], 'value': '[]'},{'id': '62', 'type': 'expression_statement', 'children': ['63']},{'id': '63', 'type': 'assignment', 'children': ['64', '65']},{'id': '64', 'type': 'identifier', 'children': [], 'value': 'imported'},{'id': '65', 'type': 'call', 'children': ['66', '67']},{'id': '66', 'type': 'identifier', 'children': [], 'value': 'set'},{'id': '67', 'type': 'argument_list', 'children': []},{'id': '68', 'type': 'for_statement', 'children': ['69', '70', '71']},{'id': '69', 'type': 'identifier', 'children': [], 'value': 't'},{'id': '70', 'type': 'identifier', 'children': [], 'value': 'thread'},{'id': '71', 'type': 'block', 'children': ['72', '78', '84', '91', '97']},{'id': '72', 'type': 'expression_statement', 'children': ['73']},{'id': '73', 'type': 'assignment', 'children': ['74', '75']},{'id': '74', 'type': 'identifier', 'children': [], 'value': 'accn'},{'id': '75', 'type': 'attribute', 'children': ['76', '77']},{'id': '76', 'type': 'identifier', 'children': [], 'value': 't'},{'id': '77', 'type': 'identifier', 'children': [], 'value': 'accn'},{'id': '78', 'type': 'if_statement', 'children': ['79', '82']},{'id': '79', 'type': 'comparison_operator', 'children': ['80', '81'], 'value': 'not'},{'id': '80', 'type': 'identifier', 'children': [], 'value': 'accn'},{'id': '81', 'type': 'identifier', 'children': [], 'value': 'lt'},{'id': '82', 'type': 'block', 'children': ['83']},{'id': '83', 'type': 'continue_statement', 'children': []},{'id': '84', 'type': 'expression_statement', 'children': ['85']},{'id': '85', 'type': 'call', 'children': ['86', '89']},{'id': '86', 'type': 'attribute', 'children': ['87', '88']},{'id': '87', 'type': 'identifier', 'children': [], 'value': 'imported'},{'id': '88', 'type': 'identifier', 'children': [], 'value': 'add'},{'id': '89', 'type': 'argument_list', 'children': ['90']},{'id': '90', 'type': 'identifier', 'children': [], 'value': 'accn'},{'id': '91', 'type': 'expression_statement', 'children': ['92']},{'id': '92', 'type': 'assignment', 'children': ['93', '94']},{'id': '93', 'type': 'identifier', 'children': [], 'value': 'atoms'},{'id': '94', 'type': 'subscript', 'children': ['95', '96']},{'id': '95', 'type': 'identifier', 'children': [], 'value': 'lt'},{'id': '96', 'type': 'identifier', 'children': [], 'value': 'accn'},{'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': 'threaded'},{'id': '101', 'type': 'identifier', 'children': [], 'value': 'append'},{'id': '102', 'type': 'argument_list', 'children': ['103']},{'id': '103', 'type': 'identifier', 'children': [], 'value': 'atoms'},{'id': '104', 'type': 'assert_statement', 'children': ['105']},{'id': '105', 'type': 'comparison_operator', 'children': ['106', '110'], 'value': '=='},{'id': '106', 'type': 'call', 'children': ['107', '108']},{'id': '107', 'type': 'identifier', 'children': [], 'value': 'len'},{'id': '108', 'type': 'argument_list', 'children': ['109']},{'id': '109', 'type': 'identifier', 'children': [], 'value': 'threaded'},{'id': '110', 'type': 'call', 'children': ['111', '112']},{'id': '111', 'type': 'identifier', 'children': [], 'value': 'len'},{'id': '112', 'type': 'argument_list', 'children': ['113']},{'id': '113', 'type': 'identifier', 'children': [], 'value': 'imported'},{'id': '114', 'type': 'expression_statement', 'children': ['115']},{'id': '115', 'type': 'assignment', 'children': ['116', '117']},{'id': '116', 'type': 'identifier', 'children': [], 'value': 'total'},{'id': '117', 'type': 'call', 'children': ['118', '119']},{'id': '118', 'type': 'identifier', 'children': [], 'value': 'sum'},{'id': '119', 'type': 'generator_expression', 'children': ['120', '121']},{'id': '120', 'type': 'integer', 'children': [], 'value': '1'},{'id': '121', 'type': 'for_in_clause', 'children': ['122', '123']},{'id': '122', 'type': 'identifier', 'children': [], 'value': 'x'},{'id': '123', 'type': 'call', 'children': ['124', '125']},{'id': '124', 'type': 'identifier', 'children': [], 'value': 'open'},{'id': '125', 'type': 'argument_list', 'children': ['126']},{'id': '126', 'type': 'identifier', 'children': [], 'value': 'listfile'},{'id': '127', 'type': 'expression_statement', 'children': ['128']},{'id': '128', 'type': 'call', 'children': ['129', '132']},{'id': '129', 'type': 'attribute', 'children': ['130', '131']},{'id': '130', 'type': 'identifier', 'children': [], 'value': 'logging'},{'id': '131', 'type': 'identifier', 'children': [], 'value': 'debug'},{'id': '132', 'type': 'argument_list', 'children': ['133']},{'id': '133', 'type': 'call', 'children': ['134', '137']},{'id': '134', 'type': 'attribute', 'children': ['135', '136']},{'id': '135', 'type': 'string', 'children': [], 'value': '"Total: {0}, currently threaded: {1}"'},{'id': '136', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '137', 'type': 'argument_list', 'children': ['138', '139']},{'id': '138', 'type': 'identifier', 'children': [], 'value': 'total'},{'id': '139', 'type': 'call', 'children': ['140', '141']},{'id': '140', 'type': 'identifier', 'children': [], 'value': 'len'},{'id': '141', 'type': 'argument_list', 'children': ['142']},{'id': '142', 'type': 'identifier', 'children': [], 'value': 'threaded'},{'id': '143', 'type': 'expression_statement', 'children': ['144']},{'id': '144', 'type': 'assignment', 'children': ['145', '146']},{'id': '145', 'type': 'identifier', 'children': [], 'value': 'fp'},{'id': '146', 'type': 'call', 'children': ['147', '148']},{'id': '147', 'type': 'identifier', 'children': [], 'value': 'open'},{'id': '148', 'type': 'argument_list', 'children': ['149']},{'id': '149', 'type': 'identifier', 'children': [], 'value': 'listfile'},{'id': '150', 'type': 'for_statement', 'children': ['151', '152', '153']},{'id': '151', 'type': 'identifier', 'children': [], 'value': 'row'},{'id': '152', 'type': 'identifier', 'children': [], 'value': 'fp'},{'id': '153', 'type': 'block', 'children': ['154', '162', '168', '174']},{'id': '154', 'type': 'expression_statement', 'children': ['155']},{'id': '155', 'type': 'assignment', 'children': ['156', '157']},{'id': '156', 'type': 'identifier', 'children': [], 'value': 'atoms'},{'id': '157', 'type': 'call', 'children': ['158', '161']},{'id': '158', 'type': 'attribute', 'children': ['159', '160']},{'id': '159', 'type': 'identifier', 'children': [], 'value': 'row'},{'id': '160', 'type': 'identifier', 'children': [], 'value': 'split'},{'id': '161', 'type': 'argument_list', 'children': []},{'id': '162', 'type': 'expression_statement', 'children': ['163']},{'id': '163', 'type': 'assignment', 'children': ['164', '165']},{'id': '164', 'type': 'identifier', 'children': [], 'value': 'accn'},{'id': '165', 'type': 'subscript', 'children': ['166', '167']},{'id': '166', 'type': 'identifier', 'children': [], 'value': 'atoms'},{'id': '167', 'type': 'integer', 'children': [], 'value': '0'},{'id': '168', 'type': 'if_statement', 'children': ['169', '172']},{'id': '169', 'type': 'comparison_operator', 'children': ['170', '171'], 'value': 'in'},{'id': '170', 'type': 'identifier', 'children': [], 'value': 'accn'},{'id': '171', 'type': 'identifier', 'children': [], 'value': 'imported'},{'id': '172', 'type': 'block', 'children': ['173']},{'id': '173', 'type': 'continue_statement', 'children': []},{'id': '174', 'type': 'expression_statement', 'children': ['175']},{'id': '175', 'type': 'call', 'children': ['176', '177']},{'id': '176', 'type': 'identifier', 'children': [], 'value': 'insert_into_threaded'},{'id': '177', 'type': 'argument_list', 'children': ['178', '179', '180']},{'id': '178', 'type': 'identifier', 'children': [], 'value': 'atoms'},{'id': '179', 'type': 'identifier', 'children': [], 'value': 'threaded'},{'id': '180', 'type': 'identifier', 'children': [], 'value': 'threadorder'},{'id': '181', 'type': 'for_statement', 'children': ['182', '183', '184']},{'id': '182', 'type': 'identifier', 'children': [], 'value': 'atoms'},{'id': '183', 'type': 'identifier', 'children': [], 'value': 'threaded'},{'id': '184', 'type': 'block', 'children': ['185']},{'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', '195']},{'id': '189', 'type': 'call', 'children': ['190', '193']},{'id': '190', 'type': 'attribute', 'children': ['191', '192']},{'id': '191', 'type': 'string', 'children': [], 'value': '"\\t"'},{'id': '192', 'type': 'identifier', 'children': [], 'value': 'join'},{'id': '193', 'type': 'argument_list', 'children': ['194']},{'id': '194', 'type': 'identifier', 'children': [], 'value': 'atoms'},{'id': '195', 'type': 'keyword_argument', 'children': ['196', '197']},{'id': '196', 'type': 'identifier', 'children': [], 'value': 'file'},{'id': '197', 'type': 'identifier', 'children': [], 'value': 'fw'},{'id': '198', 'type': 'expression_statement', 'children': ['199']},{'id': '199', 'type': 'call', 'children': ['200', '203']},{'id': '200', 'type': 'attribute', 'children': ['201', '202']},{'id': '201', 'type': 'identifier', 'children': [], 'value': 'fw'},{'id': '202', 'type': 'identifier', 'children': [], 'value': 'close'},{'id': '203', 'type': 'argument_list', 'children': []},{'id': '204', 'type': 'expression_statement', 'children': ['205']},{'id': '205', 'type': 'call', 'children': ['206', '209']},{'id': '206', 'type': 'attribute', 'children': ['207', '208']},{'id': '207', 'type': 'identifier', 'children': [], 'value': 'logging'},{'id': '208', 'type': 'identifier', 'children': [], 'value': 'debug'},{'id': '209', 'type': 'argument_list', 'children': ['210']},{'id': '210', 'type': 'call', 'children': ['211', '214']},{'id': '211', 'type': 'attribute', 'children': ['212', '213']},{'id': '212', 'type': 'string', 'children': [], 'value': '"File `{0}` sorted to `{1}`."'},{'id': '213', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '214', 'type': 'argument_list', 'children': ['215', '216']},{'id': '215', 'type': 'identifier', 'children': [], 'value': 'outfile'},{'id': '216', 'type': 'attribute', 'children': ['217', '218']},{'id': '217', 'type': 'identifier', 'children': [], 'value': 'thread'},{'id': '218', 'type': 'identifier', 'children': [], 'value': 'filename'} | def sort_layout(thread, listfile, column=0):
from jcvi.formats.base import DictFile
outfile = listfile.rsplit(".", 1)[0] + ".sorted.list"
threadorder = thread.order
fw = open(outfile, "w")
lt = DictFile(listfile, keypos=column, valuepos=None)
threaded = []
imported = set()
for t in thread:
accn = t.accn
if accn not in lt:
continue
imported.add(accn)
atoms = lt[accn]
threaded.append(atoms)
assert len(threaded) == len(imported)
total = sum(1 for x in open(listfile))
logging.debug("Total: {0}, currently threaded: {1}".format(total, len(threaded)))
fp = open(listfile)
for row in fp:
atoms = row.split()
accn = atoms[0]
if accn in imported:
continue
insert_into_threaded(atoms, threaded, threadorder)
for atoms in threaded:
print("\t".join(atoms), file=fw)
fw.close()
logging.debug("File `{0}` sorted to `{1}`.".format(outfile, thread.filename)) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'fromgroups'},{'id': '3', 'type': 'parameters', 'children': ['4']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '5', 'type': 'block', 'children': ['6', '13', '22', '33', '53', '59', '67', '78', '85', '102']},{'id': '6', 'type': 'import_from_statement', 'children': ['7', '11']},{'id': '7', 'type': 'dotted_name', 'children': ['8', '9', '10']},{'id': '8', 'type': 'identifier', 'children': [], 'value': 'jcvi'},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'formats'},{'id': '10', 'type': 'identifier', 'children': [], 'value': 'bed'},{'id': '11', 'type': 'dotted_name', 'children': ['12']},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'Bed'},{'id': '13', 'type': 'expression_statement', 'children': ['14']},{'id': '14', 'type': 'assignment', 'children': ['15', '16']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '16', 'type': 'call', 'children': ['17', '18']},{'id': '17', 'type': 'identifier', 'children': [], 'value': 'OptionParser'},{'id': '18', 'type': 'argument_list', 'children': ['19']},{'id': '19', 'type': 'attribute', 'children': ['20', '21']},{'id': '20', 'type': 'identifier', 'children': [], 'value': 'fromgroups'},{'id': '21', 'type': 'identifier', 'children': [], 'value': '__doc__'},{'id': '22', 'type': 'expression_statement', 'children': ['23']},{'id': '23', 'type': 'assignment', 'children': ['24', '27']},{'id': '24', 'type': 'pattern_list', 'children': ['25', '26']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'opts'},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '27', 'type': 'call', 'children': ['28', '31']},{'id': '28', 'type': 'attribute', 'children': ['29', '30']},{'id': '29', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'parse_args'},{'id': '31', 'type': 'argument_list', 'children': ['32']},{'id': '32', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '33', 'type': 'if_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': 'args'},{'id': '39', 'type': 'integer', 'children': [], 'value': '2'},{'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': 'sys'},{'id': '45', 'type': 'identifier', 'children': [], 'value': 'exit'},{'id': '46', 'type': 'argument_list', 'children': ['47']},{'id': '47', 'type': 'not_operator', 'children': ['48']},{'id': '48', 'type': 'call', 'children': ['49', '52']},{'id': '49', 'type': 'attribute', 'children': ['50', '51']},{'id': '50', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '51', 'type': 'identifier', 'children': [], 'value': 'print_help'},{'id': '52', 'type': 'argument_list', 'children': []},{'id': '53', 'type': 'expression_statement', 'children': ['54']},{'id': '54', 'type': 'assignment', 'children': ['55', '56']},{'id': '55', 'type': 'identifier', 'children': [], 'value': 'groupsfile'},{'id': '56', 'type': 'subscript', 'children': ['57', '58']},{'id': '57', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '58', 'type': 'integer', 'children': [], 'value': '0'},{'id': '59', 'type': 'expression_statement', 'children': ['60']},{'id': '60', 'type': 'assignment', 'children': ['61', '62']},{'id': '61', 'type': 'identifier', 'children': [], 'value': 'bedfiles'},{'id': '62', 'type': 'subscript', 'children': ['63', '64']},{'id': '63', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '64', 'type': 'slice', 'children': ['65', '66']},{'id': '65', 'type': 'integer', 'children': [], 'value': '1'},{'id': '66', 'type': 'colon', 'children': []},{'id': '67', 'type': 'expression_statement', 'children': ['68']},{'id': '68', 'type': 'assignment', 'children': ['69', '70']},{'id': '69', 'type': 'identifier', 'children': [], 'value': 'beds'},{'id': '70', 'type': 'list_comprehension', 'children': ['71', '75']},{'id': '71', 'type': 'call', 'children': ['72', '73']},{'id': '72', 'type': 'identifier', 'children': [], 'value': 'Bed'},{'id': '73', 'type': 'argument_list', 'children': ['74']},{'id': '74', 'type': 'identifier', 'children': [], 'value': 'x'},{'id': '75', 'type': 'for_in_clause', 'children': ['76', '77']},{'id': '76', 'type': 'identifier', 'children': [], 'value': 'x'},{'id': '77', 'type': 'identifier', 'children': [], 'value': 'bedfiles'},{'id': '78', 'type': 'expression_statement', 'children': ['79']},{'id': '79', 'type': 'assignment', 'children': ['80', '81']},{'id': '80', 'type': 'identifier', 'children': [], 'value': 'fp'},{'id': '81', 'type': 'call', 'children': ['82', '83']},{'id': '82', 'type': 'identifier', 'children': [], 'value': 'open'},{'id': '83', 'type': 'argument_list', 'children': ['84']},{'id': '84', 'type': 'identifier', 'children': [], 'value': 'groupsfile'},{'id': '85', 'type': 'expression_statement', 'children': ['86']},{'id': '86', 'type': 'assignment', 'children': ['87', '88']},{'id': '87', 'type': 'identifier', 'children': [], 'value': 'groups'},{'id': '88', 'type': 'list_comprehension', 'children': ['89', '99']},{'id': '89', 'type': 'call', 'children': ['90', '97']},{'id': '90', 'type': 'attribute', 'children': ['91', '96']},{'id': '91', 'type': 'call', 'children': ['92', '95']},{'id': '92', 'type': 'attribute', 'children': ['93', '94']},{'id': '93', 'type': 'identifier', 'children': [], 'value': 'row'},{'id': '94', 'type': 'identifier', 'children': [], 'value': 'strip'},{'id': '95', 'type': 'argument_list', 'children': []},{'id': '96', 'type': 'identifier', 'children': [], 'value': 'split'},{'id': '97', 'type': 'argument_list', 'children': ['98']},{'id': '98', 'type': 'string', 'children': [], 'value': '","'},{'id': '99', 'type': 'for_in_clause', 'children': ['100', '101']},{'id': '100', 'type': 'identifier', 'children': [], 'value': 'row'},{'id': '101', 'type': 'identifier', 'children': [], 'value': 'fp'},{'id': '102', 'type': 'for_statement', 'children': ['103', '106', '113']},{'id': '103', 'type': 'pattern_list', 'children': ['104', '105']},{'id': '104', 'type': 'identifier', 'children': [], 'value': 'b1'},{'id': '105', 'type': 'identifier', 'children': [], 'value': 'b2'},{'id': '106', 'type': 'call', 'children': ['107', '108']},{'id': '107', 'type': 'identifier', 'children': [], 'value': 'product'},{'id': '108', 'type': 'argument_list', 'children': ['109', '110']},{'id': '109', 'type': 'identifier', 'children': [], 'value': 'beds'},{'id': '110', 'type': 'keyword_argument', 'children': ['111', '112']},{'id': '111', 'type': 'identifier', 'children': [], 'value': 'repeat'},{'id': '112', 'type': 'integer', 'children': [], 'value': '2'},{'id': '113', 'type': 'block', 'children': ['114']},{'id': '114', 'type': 'expression_statement', 'children': ['115']},{'id': '115', 'type': 'call', 'children': ['116', '117']},{'id': '116', 'type': 'identifier', 'children': [], 'value': 'extract_pairs'},{'id': '117', 'type': 'argument_list', 'children': ['118', '119', '120']},{'id': '118', 'type': 'identifier', 'children': [], 'value': 'b1'},{'id': '119', 'type': 'identifier', 'children': [], 'value': 'b2'},{'id': '120', 'type': 'identifier', 'children': [], 'value': 'groups'} | def fromgroups(args):
from jcvi.formats.bed import Bed
p = OptionParser(fromgroups.__doc__)
opts, args = p.parse_args(args)
if len(args) < 2:
sys.exit(not p.print_help())
groupsfile = args[0]
bedfiles = args[1:]
beds = [Bed(x) for x in bedfiles]
fp = open(groupsfile)
groups = [row.strip().split(",") for row in fp]
for b1, b2 in product(beds, repeat=2):
extract_pairs(b1, b2, groups) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '8']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'merge_paths'},{'id': '3', 'type': 'parameters', 'children': ['4', '5']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'paths'},{'id': '5', 'type': 'default_parameter', 'children': ['6', '7']},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'weights'},{'id': '7', 'type': 'None', 'children': []},{'id': '8', 'type': 'block', 'children': ['9', '19', '26']},{'id': '9', 'type': 'expression_statement', 'children': ['10']},{'id': '10', 'type': 'assignment', 'children': ['11', '12']},{'id': '11', 'type': 'identifier', 'children': [], 'value': 'G'},{'id': '12', 'type': 'call', 'children': ['13', '14']},{'id': '13', 'type': 'identifier', 'children': [], 'value': 'make_paths'},{'id': '14', 'type': 'argument_list', 'children': ['15', '16']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'paths'},{'id': '16', 'type': 'keyword_argument', 'children': ['17', '18']},{'id': '17', 'type': 'identifier', 'children': [], 'value': 'weights'},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'weights'},{'id': '19', 'type': 'expression_statement', 'children': ['20']},{'id': '20', 'type': 'assignment', 'children': ['21', '22']},{'id': '21', 'type': 'identifier', 'children': [], 'value': 'G'},{'id': '22', 'type': 'call', 'children': ['23', '24']},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'reduce_paths'},{'id': '24', 'type': 'argument_list', 'children': ['25']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'G'},{'id': '26', 'type': 'return_statement', 'children': ['27']},{'id': '27', 'type': 'identifier', 'children': [], 'value': 'G'} | def merge_paths(paths, weights=None):
G = make_paths(paths, weights=weights)
G = reduce_paths(G)
return G |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'build'},{'id': '3', 'type': 'parameters', 'children': ['4']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '5', 'type': 'block', 'children': ['6', '13', '20', '27', '36', '52', '63', '83', '90', '106', '115', '123', '132', '138', '147', '153', '163', '168', '174']},{'id': '6', 'type': 'import_from_statement', 'children': ['7', '11']},{'id': '7', 'type': 'dotted_name', 'children': ['8', '9', '10']},{'id': '8', 'type': 'identifier', 'children': [], 'value': 'jcvi'},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'apps'},{'id': '10', 'type': 'identifier', 'children': [], 'value': 'cdhit'},{'id': '11', 'type': 'dotted_name', 'children': ['12']},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'deduplicate'},{'id': '13', 'type': 'import_from_statement', 'children': ['14', '18']},{'id': '14', 'type': 'dotted_name', 'children': ['15', '16', '17']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'jcvi'},{'id': '16', 'type': 'identifier', 'children': [], 'value': 'apps'},{'id': '17', 'type': 'identifier', 'children': [], 'value': 'vecscreen'},{'id': '18', 'type': 'dotted_name', 'children': ['19']},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'mask'},{'id': '20', 'type': 'import_from_statement', 'children': ['21', '25']},{'id': '21', 'type': 'dotted_name', 'children': ['22', '23', '24']},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'jcvi'},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'formats'},{'id': '24', 'type': 'identifier', 'children': [], 'value': 'fasta'},{'id': '25', 'type': 'dotted_name', 'children': ['26']},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '27', 'type': 'expression_statement', 'children': ['28']},{'id': '28', 'type': 'assignment', 'children': ['29', '30']},{'id': '29', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '30', 'type': 'call', 'children': ['31', '32']},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'OptionParser'},{'id': '32', 'type': 'argument_list', 'children': ['33']},{'id': '33', 'type': 'attribute', 'children': ['34', '35']},{'id': '34', 'type': 'identifier', 'children': [], 'value': 'build'},{'id': '35', 'type': 'identifier', 'children': [], 'value': '__doc__'},{'id': '36', 'type': 'expression_statement', 'children': ['37']},{'id': '37', 'type': 'call', 'children': ['38', '41']},{'id': '38', 'type': 'attribute', 'children': ['39', '40']},{'id': '39', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '40', 'type': 'identifier', 'children': [], 'value': 'add_option'},{'id': '41', 'type': 'argument_list', 'children': ['42', '43', '46', '49']},{'id': '42', 'type': 'string', 'children': [], 'value': '"--nodedup"'},{'id': '43', 'type': 'keyword_argument', 'children': ['44', '45']},{'id': '44', 'type': 'identifier', 'children': [], 'value': 'default'},{'id': '45', 'type': 'False', 'children': []},{'id': '46', 'type': 'keyword_argument', 'children': ['47', '48']},{'id': '47', 'type': 'identifier', 'children': [], 'value': 'action'},{'id': '48', 'type': 'string', 'children': [], 'value': '"store_true"'},{'id': '49', 'type': 'keyword_argument', 'children': ['50', '51']},{'id': '50', 'type': 'identifier', 'children': [], 'value': 'help'},{'id': '51', 'type': 'string', 'children': [], 'value': '"Do not deduplicate [default: deduplicate]"'},{'id': '52', 'type': 'expression_statement', 'children': ['53']},{'id': '53', 'type': 'assignment', 'children': ['54', '57']},{'id': '54', 'type': 'pattern_list', 'children': ['55', '56']},{'id': '55', 'type': 'identifier', 'children': [], 'value': 'opts'},{'id': '56', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '57', 'type': 'call', 'children': ['58', '61']},{'id': '58', 'type': 'attribute', 'children': ['59', '60']},{'id': '59', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '60', 'type': 'identifier', 'children': [], 'value': 'parse_args'},{'id': '61', 'type': 'argument_list', 'children': ['62']},{'id': '62', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '63', 'type': 'if_statement', 'children': ['64', '70']},{'id': '64', 'type': 'comparison_operator', 'children': ['65', '69'], 'value': '!='},{'id': '65', 'type': 'call', 'children': ['66', '67']},{'id': '66', 'type': 'identifier', 'children': [], 'value': 'len'},{'id': '67', 'type': 'argument_list', 'children': ['68']},{'id': '68', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '69', 'type': 'integer', 'children': [], 'value': '3'},{'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': 'sys'},{'id': '75', 'type': 'identifier', 'children': [], 'value': 'exit'},{'id': '76', 'type': 'argument_list', 'children': ['77']},{'id': '77', 'type': 'not_operator', 'children': ['78']},{'id': '78', 'type': 'call', 'children': ['79', '82']},{'id': '79', 'type': 'attribute', 'children': ['80', '81']},{'id': '80', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '81', 'type': 'identifier', 'children': [], 'value': 'print_help'},{'id': '82', 'type': 'argument_list', 'children': []},{'id': '83', 'type': 'expression_statement', 'children': ['84']},{'id': '84', 'type': 'assignment', 'children': ['85', '89']},{'id': '85', 'type': 'pattern_list', 'children': ['86', '87', '88']},{'id': '86', 'type': 'identifier', 'children': [], 'value': 'fastafile'},{'id': '87', 'type': 'identifier', 'children': [], 'value': 'bacteria'},{'id': '88', 'type': 'identifier', 'children': [], 'value': 'pf'},{'id': '89', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '90', 'type': 'expression_statement', 'children': ['91']},{'id': '91', 'type': 'assignment', 'children': ['92', '93']},{'id': '92', 'type': 'identifier', 'children': [], 'value': 'dd'},{'id': '93', 'type': 'conditional_expression', 'children': ['94', '100', '101', '105'], 'value': 'if'},{'id': '94', 'type': 'call', 'children': ['95', '96']},{'id': '95', 'type': 'identifier', 'children': [], 'value': 'deduplicate'},{'id': '96', 'type': 'argument_list', 'children': ['97']},{'id': '97', 'type': 'list', 'children': ['98', '99'], 'value': '[fastafile, "--pctid=100"]'},{'id': '98', 'type': 'identifier', 'children': [], 'value': 'fastafile'},{'id': '99', 'type': 'string', 'children': [], 'value': '"--pctid=100"'},{'id': '100', 'type': 'line_continuation', 'children': [], 'value': '\\'},{'id': '101', 'type': 'not_operator', 'children': ['102']},{'id': '102', 'type': 'attribute', 'children': ['103', '104']},{'id': '103', 'type': 'identifier', 'children': [], 'value': 'opts'},{'id': '104', 'type': 'identifier', 'children': [], 'value': 'nodedup'},{'id': '105', 'type': 'identifier', 'children': [], 'value': 'fastafile'},{'id': '106', 'type': 'expression_statement', 'children': ['107']},{'id': '107', 'type': 'assignment', 'children': ['108', '109']},{'id': '108', 'type': 'identifier', 'children': [], 'value': 'screenfasta'},{'id': '109', 'type': 'call', 'children': ['110', '111']},{'id': '110', 'type': 'identifier', 'children': [], 'value': 'screen'},{'id': '111', 'type': 'argument_list', 'children': ['112']},{'id': '112', 'type': 'list', 'children': ['113', '114'], 'value': '[dd, bacteria]'},{'id': '113', 'type': 'identifier', 'children': [], 'value': 'dd'},{'id': '114', 'type': 'identifier', 'children': [], 'value': 'bacteria'},{'id': '115', 'type': 'expression_statement', 'children': ['116']},{'id': '116', 'type': 'assignment', 'children': ['117', '118']},{'id': '117', 'type': 'identifier', 'children': [], 'value': 'tidyfasta'},{'id': '118', 'type': 'call', 'children': ['119', '120']},{'id': '119', 'type': 'identifier', 'children': [], 'value': 'mask'},{'id': '120', 'type': 'argument_list', 'children': ['121']},{'id': '121', 'type': 'list', 'children': ['122'], 'value': '[screenfasta]'},{'id': '122', 'type': 'identifier', 'children': [], 'value': 'screenfasta'},{'id': '123', 'type': 'expression_statement', 'children': ['124']},{'id': '124', 'type': 'assignment', 'children': ['125', '126']},{'id': '125', 'type': 'identifier', 'children': [], 'value': 'sortedfasta'},{'id': '126', 'type': 'call', 'children': ['127', '128']},{'id': '127', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '128', 'type': 'argument_list', 'children': ['129']},{'id': '129', 'type': 'list', 'children': ['130', '131'], 'value': '[tidyfasta, "--sizes"]'},{'id': '130', 'type': 'identifier', 'children': [], 'value': 'tidyfasta'},{'id': '131', 'type': 'string', 'children': [], 'value': '"--sizes"'},{'id': '132', 'type': 'expression_statement', 'children': ['133']},{'id': '133', 'type': 'assignment', 'children': ['134', '135']},{'id': '134', 'type': 'identifier', 'children': [], 'value': 'scaffoldfasta'},{'id': '135', 'type': 'binary_operator', 'children': ['136', '137'], 'value': '+'},{'id': '136', 'type': 'identifier', 'children': [], 'value': 'pf'},{'id': '137', 'type': 'string', 'children': [], 'value': '".assembly.fasta"'},{'id': '138', 'type': 'expression_statement', 'children': ['139']},{'id': '139', 'type': 'call', 'children': ['140', '141']},{'id': '140', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '141', 'type': 'argument_list', 'children': ['142']},{'id': '142', 'type': 'list', 'children': ['143', '144', '145', '146'], 'value': '[sortedfasta, scaffoldfasta, "--prefix=scaffold_", "--sequential"]'},{'id': '143', 'type': 'identifier', 'children': [], 'value': 'sortedfasta'},{'id': '144', 'type': 'identifier', 'children': [], 'value': 'scaffoldfasta'},{'id': '145', 'type': 'string', 'children': [], 'value': '"--prefix=scaffold_"'},{'id': '146', 'type': 'string', 'children': [], 'value': '"--sequential"'},{'id': '147', 'type': 'expression_statement', 'children': ['148']},{'id': '148', 'type': 'assignment', 'children': ['149', '150']},{'id': '149', 'type': 'identifier', 'children': [], 'value': 'gapsplitfasta'},{'id': '150', 'type': 'binary_operator', 'children': ['151', '152'], 'value': '+'},{'id': '151', 'type': 'identifier', 'children': [], 'value': 'pf'},{'id': '152', 'type': 'string', 'children': [], 'value': '".gapSplit.fasta"'},{'id': '153', 'type': 'expression_statement', 'children': ['154']},{'id': '154', 'type': 'assignment', 'children': ['155', '156']},{'id': '155', 'type': 'identifier', 'children': [], 'value': 'cmd'},{'id': '156', 'type': 'call', 'children': ['157', '160']},{'id': '157', 'type': 'attribute', 'children': ['158', '159']},{'id': '158', 'type': 'string', 'children': [], 'value': '"gapSplit -minGap=10 {0} {1}"'},{'id': '159', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '160', 'type': 'argument_list', 'children': ['161', '162']},{'id': '161', 'type': 'identifier', 'children': [], 'value': 'scaffoldfasta'},{'id': '162', 'type': 'identifier', 'children': [], 'value': 'gapsplitfasta'},{'id': '163', 'type': 'expression_statement', 'children': ['164']},{'id': '164', 'type': 'call', 'children': ['165', '166']},{'id': '165', 'type': 'identifier', 'children': [], 'value': 'sh'},{'id': '166', 'type': 'argument_list', 'children': ['167']},{'id': '167', 'type': 'identifier', 'children': [], 'value': 'cmd'},{'id': '168', 'type': 'expression_statement', 'children': ['169']},{'id': '169', 'type': 'assignment', 'children': ['170', '171']},{'id': '170', 'type': 'identifier', 'children': [], 'value': 'contigsfasta'},{'id': '171', 'type': 'binary_operator', 'children': ['172', '173'], 'value': '+'},{'id': '172', 'type': 'identifier', 'children': [], 'value': 'pf'},{'id': '173', 'type': 'string', 'children': [], 'value': '".contigs.fasta"'},{'id': '174', 'type': 'expression_statement', 'children': ['175']},{'id': '175', 'type': 'call', 'children': ['176', '177']},{'id': '176', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '177', 'type': 'argument_list', 'children': ['178']},{'id': '178', 'type': 'list', 'children': ['179', '180', '181', '182'], 'value': '[gapsplitfasta, contigsfasta, "--prefix=contig_", "--sequential"]'},{'id': '179', 'type': 'identifier', 'children': [], 'value': 'gapsplitfasta'},{'id': '180', 'type': 'identifier', 'children': [], 'value': 'contigsfasta'},{'id': '181', 'type': 'string', 'children': [], 'value': '"--prefix=contig_"'},{'id': '182', 'type': 'string', 'children': [], 'value': '"--sequential"'} | def build(args):
from jcvi.apps.cdhit import deduplicate
from jcvi.apps.vecscreen import mask
from jcvi.formats.fasta import sort
p = OptionParser(build.__doc__)
p.add_option("--nodedup", default=False, action="store_true",
help="Do not deduplicate [default: deduplicate]")
opts, args = p.parse_args(args)
if len(args) != 3:
sys.exit(not p.print_help())
fastafile, bacteria, pf = args
dd = deduplicate([fastafile, "--pctid=100"]) \
if not opts.nodedup else fastafile
screenfasta = screen([dd, bacteria])
tidyfasta = mask([screenfasta])
sortedfasta = sort([tidyfasta, "--sizes"])
scaffoldfasta = pf + ".assembly.fasta"
format([sortedfasta, scaffoldfasta, "--prefix=scaffold_", "--sequential"])
gapsplitfasta = pf + ".gapSplit.fasta"
cmd = "gapSplit -minGap=10 {0} {1}".format(scaffoldfasta, gapsplitfasta)
sh(cmd)
contigsfasta = pf + ".contigs.fasta"
format([gapsplitfasta, contigsfasta, "--prefix=contig_", "--sequential"]) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'sort'},{'id': '3', 'type': 'parameters', 'children': ['4']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '5', 'type': 'block', 'children': ['6', '11']},{'id': '6', 'type': 'import_statement', 'children': ['7']},{'id': '7', 'type': 'dotted_name', 'children': ['8', '9', '10']},{'id': '8', 'type': 'identifier', 'children': [], 'value': 'jcvi'},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'formats'},{'id': '10', 'type': 'identifier', 'children': [], 'value': 'blast'},{'id': '11', 'type': 'return_statement', 'children': ['12']},{'id': '12', 'type': 'call', 'children': ['13', '20']},{'id': '13', 'type': 'attribute', 'children': ['14', '19']},{'id': '14', 'type': 'attribute', 'children': ['15', '18']},{'id': '15', 'type': 'attribute', 'children': ['16', '17']},{'id': '16', 'type': 'identifier', 'children': [], 'value': 'jcvi'},{'id': '17', 'type': 'identifier', 'children': [], 'value': 'formats'},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'blast'},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '20', 'type': 'argument_list', 'children': ['21']},{'id': '21', 'type': 'binary_operator', 'children': ['22', '23'], 'value': '+'},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '23', 'type': 'list', 'children': ['24'], 'value': '["--coords"]'},{'id': '24', 'type': 'string', 'children': [], 'value': '"--coords"'} | def sort(args):
import jcvi.formats.blast
return jcvi.formats.blast.sort(args + ["--coords"]) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'coverage'},{'id': '3', 'type': 'parameters', 'children': ['4']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '5', 'type': 'block', 'children': ['6', '15', '34', '50', '56', '67', '87', '93', '99', '127', '139', '148', '158', '215', '221', '236', '243', '253', '283']},{'id': '6', 'type': 'expression_statement', 'children': ['7']},{'id': '7', 'type': 'assignment', 'children': ['8', '9']},{'id': '8', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '9', 'type': 'call', 'children': ['10', '11']},{'id': '10', 'type': 'identifier', 'children': [], 'value': 'OptionParser'},{'id': '11', 'type': 'argument_list', 'children': ['12']},{'id': '12', 'type': 'attribute', 'children': ['13', '14']},{'id': '13', 'type': 'identifier', 'children': [], 'value': 'coverage'},{'id': '14', 'type': 'identifier', 'children': [], 'value': '__doc__'},{'id': '15', 'type': 'expression_statement', 'children': ['16']},{'id': '16', 'type': 'call', 'children': ['17', '20']},{'id': '17', 'type': 'attribute', 'children': ['18', '19']},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'add_option'},{'id': '20', 'type': 'argument_list', 'children': ['21', '22', '25', '31']},{'id': '21', 'type': 'string', 'children': [], 'value': '"--format"'},{'id': '22', 'type': 'keyword_argument', 'children': ['23', '24']},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'default'},{'id': '24', 'type': 'string', 'children': [], 'value': '"bigwig"'},{'id': '25', 'type': 'keyword_argument', 'children': ['26', '27']},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'choices'},{'id': '27', 'type': 'tuple', 'children': ['28', '29', '30']},{'id': '28', 'type': 'string', 'children': [], 'value': '"bedgraph"'},{'id': '29', 'type': 'string', 'children': [], 'value': '"bigwig"'},{'id': '30', 'type': 'string', 'children': [], 'value': '"coverage"'},{'id': '31', 'type': 'keyword_argument', 'children': ['32', '33']},{'id': '32', 'type': 'identifier', 'children': [], 'value': 'help'},{'id': '33', 'type': 'string', 'children': [], 'value': '"Output format"'},{'id': '34', 'type': 'expression_statement', 'children': ['35']},{'id': '35', 'type': 'call', 'children': ['36', '39']},{'id': '36', 'type': 'attribute', 'children': ['37', '38']},{'id': '37', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '38', 'type': 'identifier', 'children': [], 'value': 'add_option'},{'id': '39', 'type': 'argument_list', 'children': ['40', '41', '44', '47']},{'id': '40', 'type': 'string', 'children': [], 'value': '"--nosort"'},{'id': '41', 'type': 'keyword_argument', 'children': ['42', '43']},{'id': '42', 'type': 'identifier', 'children': [], 'value': 'default'},{'id': '43', 'type': 'False', 'children': []},{'id': '44', 'type': 'keyword_argument', 'children': ['45', '46']},{'id': '45', 'type': 'identifier', 'children': [], 'value': 'action'},{'id': '46', 'type': 'string', 'children': [], 'value': '"store_true"'},{'id': '47', 'type': 'keyword_argument', 'children': ['48', '49']},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'help'},{'id': '49', 'type': 'string', 'children': [], 'value': '"Do not sort BAM"'},{'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': 'p'},{'id': '54', 'type': 'identifier', 'children': [], 'value': 'set_outfile'},{'id': '55', 'type': 'argument_list', 'children': []},{'id': '56', 'type': 'expression_statement', 'children': ['57']},{'id': '57', 'type': 'assignment', 'children': ['58', '61']},{'id': '58', 'type': 'pattern_list', 'children': ['59', '60']},{'id': '59', 'type': 'identifier', 'children': [], 'value': 'opts'},{'id': '60', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '61', 'type': 'call', 'children': ['62', '65']},{'id': '62', 'type': 'attribute', 'children': ['63', '64']},{'id': '63', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '64', 'type': 'identifier', 'children': [], 'value': 'parse_args'},{'id': '65', 'type': 'argument_list', 'children': ['66']},{'id': '66', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '67', 'type': 'if_statement', 'children': ['68', '74']},{'id': '68', 'type': 'comparison_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': 'args'},{'id': '73', 'type': 'integer', 'children': [], 'value': '2'},{'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': 'sys'},{'id': '79', 'type': 'identifier', 'children': [], 'value': 'exit'},{'id': '80', 'type': 'argument_list', 'children': ['81']},{'id': '81', 'type': 'not_operator', 'children': ['82']},{'id': '82', 'type': 'call', 'children': ['83', '86']},{'id': '83', 'type': 'attribute', 'children': ['84', '85']},{'id': '84', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '85', 'type': 'identifier', 'children': [], 'value': 'print_help'},{'id': '86', 'type': 'argument_list', 'children': []},{'id': '87', 'type': 'expression_statement', 'children': ['88']},{'id': '88', 'type': 'assignment', 'children': ['89', '92']},{'id': '89', 'type': 'pattern_list', 'children': ['90', '91']},{'id': '90', 'type': 'identifier', 'children': [], 'value': 'fastafile'},{'id': '91', 'type': 'identifier', 'children': [], 'value': 'bamfile'},{'id': '92', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '93', 'type': 'expression_statement', 'children': ['94']},{'id': '94', 'type': 'assignment', 'children': ['95', '96']},{'id': '95', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '96', 'type': 'attribute', 'children': ['97', '98']},{'id': '97', 'type': 'identifier', 'children': [], 'value': 'opts'},{'id': '98', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '99', 'type': 'if_statement', 'children': ['100', '103', '111']},{'id': '100', 'type': 'attribute', 'children': ['101', '102']},{'id': '101', 'type': 'identifier', 'children': [], 'value': 'opts'},{'id': '102', 'type': 'identifier', 'children': [], 'value': 'nosort'},{'id': '103', 'type': 'block', 'children': ['104']},{'id': '104', 'type': 'expression_statement', 'children': ['105']},{'id': '105', 'type': 'call', 'children': ['106', '109']},{'id': '106', 'type': 'attribute', 'children': ['107', '108']},{'id': '107', 'type': 'identifier', 'children': [], 'value': 'logging'},{'id': '108', 'type': 'identifier', 'children': [], 'value': 'debug'},{'id': '109', 'type': 'argument_list', 'children': ['110']},{'id': '110', 'type': 'string', 'children': [], 'value': '"BAM sorting skipped"'},{'id': '111', 'type': 'else_clause', 'children': ['112']},{'id': '112', 'type': 'block', 'children': ['113']},{'id': '113', 'type': 'expression_statement', 'children': ['114']},{'id': '114', 'type': 'assignment', 'children': ['115', '116']},{'id': '115', 'type': 'identifier', 'children': [], 'value': 'bamfile'},{'id': '116', 'type': 'call', 'children': ['117', '118']},{'id': '117', 'type': 'identifier', 'children': [], 'value': 'index'},{'id': '118', 'type': 'argument_list', 'children': ['119']},{'id': '119', 'type': 'list', 'children': ['120', '121'], 'value': '[bamfile, "--fasta={0}".format(fastafile)]'},{'id': '120', 'type': 'identifier', 'children': [], 'value': 'bamfile'},{'id': '121', 'type': 'call', 'children': ['122', '125']},{'id': '122', 'type': 'attribute', 'children': ['123', '124']},{'id': '123', 'type': 'string', 'children': [], 'value': '"--fasta={0}"'},{'id': '124', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '125', 'type': 'argument_list', 'children': ['126']},{'id': '126', 'type': 'identifier', 'children': [], 'value': 'fastafile'},{'id': '127', 'type': 'expression_statement', 'children': ['128']},{'id': '128', 'type': 'assignment', 'children': ['129', '130']},{'id': '129', 'type': 'identifier', 'children': [], 'value': 'pf'},{'id': '130', 'type': 'subscript', 'children': ['131', '138']},{'id': '131', 'type': 'call', 'children': ['132', '135']},{'id': '132', 'type': 'attribute', 'children': ['133', '134']},{'id': '133', 'type': 'identifier', 'children': [], 'value': 'bamfile'},{'id': '134', 'type': 'identifier', 'children': [], 'value': 'rsplit'},{'id': '135', 'type': 'argument_list', 'children': ['136', '137']},{'id': '136', 'type': 'string', 'children': [], 'value': '"."'},{'id': '137', 'type': 'integer', 'children': [], 'value': '2'},{'id': '138', 'type': 'integer', 'children': [], 'value': '0'},{'id': '139', 'type': 'expression_statement', 'children': ['140']},{'id': '140', 'type': 'assignment', 'children': ['141', '142']},{'id': '141', 'type': 'identifier', 'children': [], 'value': 'sizesfile'},{'id': '142', 'type': 'attribute', 'children': ['143', '147']},{'id': '143', 'type': 'call', 'children': ['144', '145']},{'id': '144', 'type': 'identifier', 'children': [], 'value': 'Sizes'},{'id': '145', 'type': 'argument_list', 'children': ['146']},{'id': '146', 'type': 'identifier', 'children': [], 'value': 'fastafile'},{'id': '147', 'type': 'identifier', 'children': [], 'value': 'filename'},{'id': '148', 'type': 'expression_statement', 'children': ['149']},{'id': '149', 'type': 'assignment', 'children': ['150', '151']},{'id': '150', 'type': 'identifier', 'children': [], 'value': 'cmd'},{'id': '151', 'type': 'call', 'children': ['152', '155']},{'id': '152', 'type': 'attribute', 'children': ['153', '154']},{'id': '153', 'type': 'string', 'children': [], 'value': '"genomeCoverageBed -ibam {0} -g {1}"'},{'id': '154', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '155', 'type': 'argument_list', 'children': ['156', '157']},{'id': '156', 'type': 'identifier', 'children': [], 'value': 'bamfile'},{'id': '157', 'type': 'identifier', 'children': [], 'value': 'sizesfile'},{'id': '158', 'type': 'if_statement', 'children': ['159', '164']},{'id': '159', 'type': 'comparison_operator', 'children': ['160', '161'], 'value': 'in'},{'id': '160', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '161', 'type': 'tuple', 'children': ['162', '163']},{'id': '162', 'type': 'string', 'children': [], 'value': '"bedgraph"'},{'id': '163', 'type': 'string', 'children': [], 'value': '"bigwig"'},{'id': '164', 'type': 'block', 'children': ['165', '169', '175', '183', '190', '196', '208', '213']},{'id': '165', 'type': 'expression_statement', 'children': ['166']},{'id': '166', 'type': 'augmented_assignment', 'children': ['167', '168'], 'value': '+='},{'id': '167', 'type': 'identifier', 'children': [], 'value': 'cmd'},{'id': '168', 'type': 'string', 'children': [], 'value': '" -bg"'},{'id': '169', 'type': 'expression_statement', 'children': ['170']},{'id': '170', 'type': 'assignment', 'children': ['171', '172']},{'id': '171', 'type': 'identifier', 'children': [], 'value': 'bedgraphfile'},{'id': '172', 'type': 'binary_operator', 'children': ['173', '174'], 'value': '+'},{'id': '173', 'type': 'identifier', 'children': [], 'value': 'pf'},{'id': '174', 'type': 'string', 'children': [], 'value': '".bedgraph"'},{'id': '175', 'type': 'expression_statement', 'children': ['176']},{'id': '176', 'type': 'call', 'children': ['177', '178']},{'id': '177', 'type': 'identifier', 'children': [], 'value': 'sh'},{'id': '178', 'type': 'argument_list', 'children': ['179', '180']},{'id': '179', 'type': 'identifier', 'children': [], 'value': 'cmd'},{'id': '180', 'type': 'keyword_argument', 'children': ['181', '182']},{'id': '181', 'type': 'identifier', 'children': [], 'value': 'outfile'},{'id': '182', 'type': 'identifier', 'children': [], 'value': 'bedgraphfile'},{'id': '183', 'type': 'if_statement', 'children': ['184', '187']},{'id': '184', 'type': 'comparison_operator', 'children': ['185', '186'], 'value': '=='},{'id': '185', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '186', 'type': 'string', 'children': [], 'value': '"bedgraph"'},{'id': '187', 'type': 'block', 'children': ['188']},{'id': '188', 'type': 'return_statement', 'children': ['189']},{'id': '189', 'type': 'identifier', 'children': [], 'value': 'bedgraphfile'},{'id': '190', 'type': 'expression_statement', 'children': ['191']},{'id': '191', 'type': 'assignment', 'children': ['192', '193']},{'id': '192', 'type': 'identifier', 'children': [], 'value': 'bigwigfile'},{'id': '193', 'type': 'binary_operator', 'children': ['194', '195'], 'value': '+'},{'id': '194', 'type': 'identifier', 'children': [], 'value': 'pf'},{'id': '195', 'type': 'string', 'children': [], 'value': '".bigwig"'},{'id': '196', 'type': 'expression_statement', 'children': ['197']},{'id': '197', 'type': 'assignment', 'children': ['198', '199']},{'id': '198', 'type': 'identifier', 'children': [], 'value': 'cmd'},{'id': '199', 'type': 'call', 'children': ['200', '204']},{'id': '200', 'type': 'attribute', 'children': ['201', '202', '203']},{'id': '201', 'type': 'string', 'children': [], 'value': '"bedGraphToBigWig {0} {1} {2}"'},{'id': '202', 'type': 'line_continuation', 'children': [], 'value': '\\'},{'id': '203', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '204', 'type': 'argument_list', 'children': ['205', '206', '207']},{'id': '205', 'type': 'identifier', 'children': [], 'value': 'bedgraphfile'},{'id': '206', 'type': 'identifier', 'children': [], 'value': 'sizesfile'},{'id': '207', 'type': 'identifier', 'children': [], 'value': 'bigwigfile'},{'id': '208', 'type': 'expression_statement', 'children': ['209']},{'id': '209', 'type': 'call', 'children': ['210', '211']},{'id': '210', 'type': 'identifier', 'children': [], 'value': 'sh'},{'id': '211', 'type': 'argument_list', 'children': ['212']},{'id': '212', 'type': 'identifier', 'children': [], 'value': 'cmd'},{'id': '213', 'type': 'return_statement', 'children': ['214']},{'id': '214', 'type': 'identifier', 'children': [], 'value': 'bigwigfile'},{'id': '215', 'type': 'expression_statement', 'children': ['216']},{'id': '216', 'type': 'assignment', 'children': ['217', '218']},{'id': '217', 'type': 'identifier', 'children': [], 'value': 'coveragefile'},{'id': '218', 'type': 'binary_operator', 'children': ['219', '220'], 'value': '+'},{'id': '219', 'type': 'identifier', 'children': [], 'value': 'pf'},{'id': '220', 'type': 'string', 'children': [], 'value': '".coverage"'},{'id': '221', 'type': 'if_statement', 'children': ['222', '227']},{'id': '222', 'type': 'call', 'children': ['223', '224']},{'id': '223', 'type': 'identifier', 'children': [], 'value': 'need_update'},{'id': '224', 'type': 'argument_list', 'children': ['225', '226']},{'id': '225', 'type': 'identifier', 'children': [], 'value': 'fastafile'},{'id': '226', 'type': 'identifier', 'children': [], 'value': 'coveragefile'},{'id': '227', 'type': 'block', 'children': ['228']},{'id': '228', 'type': 'expression_statement', 'children': ['229']},{'id': '229', 'type': 'call', 'children': ['230', '231']},{'id': '230', 'type': 'identifier', 'children': [], 'value': 'sh'},{'id': '231', 'type': 'argument_list', 'children': ['232', '233']},{'id': '232', 'type': 'identifier', 'children': [], 'value': 'cmd'},{'id': '233', 'type': 'keyword_argument', 'children': ['234', '235']},{'id': '234', 'type': 'identifier', 'children': [], 'value': 'outfile'},{'id': '235', 'type': 'identifier', 'children': [], 'value': 'coveragefile'},{'id': '236', 'type': 'expression_statement', 'children': ['237']},{'id': '237', 'type': 'assignment', 'children': ['238', '239']},{'id': '238', 'type': 'identifier', 'children': [], 'value': 'gcf'},{'id': '239', 'type': 'call', 'children': ['240', '241']},{'id': '240', 'type': 'identifier', 'children': [], 'value': 'GenomeCoverageFile'},{'id': '241', 'type': 'argument_list', 'children': ['242']},{'id': '242', 'type': 'identifier', 'children': [], 'value': 'coveragefile'},{'id': '243', 'type': 'expression_statement', 'children': ['244']},{'id': '244', 'type': 'assignment', 'children': ['245', '246']},{'id': '245', 'type': 'identifier', 'children': [], 'value': 'fw'},{'id': '246', 'type': 'call', 'children': ['247', '248']},{'id': '247', 'type': 'identifier', 'children': [], 'value': 'must_open'},{'id': '248', 'type': 'argument_list', 'children': ['249', '252']},{'id': '249', 'type': 'attribute', 'children': ['250', '251']},{'id': '250', 'type': 'identifier', 'children': [], 'value': 'opts'},{'id': '251', 'type': 'identifier', 'children': [], 'value': 'outfile'},{'id': '252', 'type': 'string', 'children': [], 'value': '"w"'},{'id': '253', 'type': 'for_statement', 'children': ['254', '257', '262']},{'id': '254', 'type': 'pattern_list', 'children': ['255', '256']},{'id': '255', 'type': 'identifier', 'children': [], 'value': 'seqid'},{'id': '256', 'type': 'identifier', 'children': [], 'value': 'cov'},{'id': '257', 'type': 'call', 'children': ['258', '261']},{'id': '258', 'type': 'attribute', 'children': ['259', '260']},{'id': '259', 'type': 'identifier', 'children': [], 'value': 'gcf'},{'id': '260', 'type': 'identifier', 'children': [], 'value': 'iter_coverage_seqid'},{'id': '261', 'type': 'argument_list', 'children': []},{'id': '262', 'type': 'block', 'children': ['263']},{'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', '280']},{'id': '267', 'type': 'call', 'children': ['268', '271']},{'id': '268', 'type': 'attribute', 'children': ['269', '270']},{'id': '269', 'type': 'string', 'children': [], 'value': '"\\t"'},{'id': '270', 'type': 'identifier', 'children': [], 'value': 'join'},{'id': '271', 'type': 'argument_list', 'children': ['272']},{'id': '272', 'type': 'tuple', 'children': ['273', '274']},{'id': '273', 'type': 'identifier', 'children': [], 'value': 'seqid'},{'id': '274', 'type': 'call', 'children': ['275', '278']},{'id': '275', 'type': 'attribute', 'children': ['276', '277']},{'id': '276', 'type': 'string', 'children': [], 'value': '"{0:.1f}"'},{'id': '277', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '278', 'type': 'argument_list', 'children': ['279']},{'id': '279', 'type': 'identifier', 'children': [], 'value': 'cov'},{'id': '280', 'type': 'keyword_argument', 'children': ['281', '282']},{'id': '281', 'type': 'identifier', 'children': [], 'value': 'file'},{'id': '282', 'type': 'identifier', 'children': [], 'value': 'fw'},{'id': '283', 'type': 'expression_statement', 'children': ['284']},{'id': '284', 'type': 'call', 'children': ['285', '288']},{'id': '285', 'type': 'attribute', 'children': ['286', '287']},{'id': '286', 'type': 'identifier', 'children': [], 'value': 'fw'},{'id': '287', 'type': 'identifier', 'children': [], 'value': 'close'},{'id': '288', 'type': 'argument_list', 'children': []} | def coverage(args):
p = OptionParser(coverage.__doc__)
p.add_option("--format", default="bigwig",
choices=("bedgraph", "bigwig", "coverage"),
help="Output format")
p.add_option("--nosort", default=False, action="store_true",
help="Do not sort BAM")
p.set_outfile()
opts, args = p.parse_args(args)
if len(args) != 2:
sys.exit(not p.print_help())
fastafile, bamfile = args
format = opts.format
if opts.nosort:
logging.debug("BAM sorting skipped")
else:
bamfile = index([bamfile, "--fasta={0}".format(fastafile)])
pf = bamfile.rsplit(".", 2)[0]
sizesfile = Sizes(fastafile).filename
cmd = "genomeCoverageBed -ibam {0} -g {1}".format(bamfile, sizesfile)
if format in ("bedgraph", "bigwig"):
cmd += " -bg"
bedgraphfile = pf + ".bedgraph"
sh(cmd, outfile=bedgraphfile)
if format == "bedgraph":
return bedgraphfile
bigwigfile = pf + ".bigwig"
cmd = "bedGraphToBigWig {0} {1} {2}".\
format(bedgraphfile, sizesfile, bigwigfile)
sh(cmd)
return bigwigfile
coveragefile = pf + ".coverage"
if need_update(fastafile, coveragefile):
sh(cmd, outfile=coveragefile)
gcf = GenomeCoverageFile(coveragefile)
fw = must_open(opts.outfile, "w")
for seqid, cov in gcf.iter_coverage_seqid():
print("\t".join((seqid, "{0:.1f}".format(cov))), file=fw)
fw.close() |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '7']},{'id': '2', 'type': 'function_name', 'children': [], 'value': '_number_finder'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '6']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 's'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'regex'},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'numconv'},{'id': '7', 'type': 'block', 'children': ['8', '17', '30', '37', '64']},{'id': '8', 'type': 'expression_statement', 'children': ['9']},{'id': '9', 'type': 'assignment', 'children': ['10', '11']},{'id': '10', 'type': 'identifier', 'children': [], 'value': 's'},{'id': '11', 'type': 'call', 'children': ['12', '15']},{'id': '12', 'type': 'attribute', 'children': ['13', '14']},{'id': '13', 'type': 'identifier', 'children': [], 'value': 'regex'},{'id': '14', 'type': 'identifier', 'children': [], 'value': 'split'},{'id': '15', 'type': 'argument_list', 'children': ['16']},{'id': '16', 'type': 'identifier', 'children': [], 'value': 's'},{'id': '17', 'type': 'if_statement', 'children': ['18', '24']},{'id': '18', 'type': 'comparison_operator', 'children': ['19', '23'], 'value': '=='},{'id': '19', 'type': 'call', 'children': ['20', '21']},{'id': '20', 'type': 'identifier', 'children': [], 'value': 'len'},{'id': '21', 'type': 'argument_list', 'children': ['22']},{'id': '22', 'type': 'identifier', 'children': [], 'value': 's'},{'id': '23', 'type': 'integer', 'children': [], 'value': '1'},{'id': '24', 'type': 'block', 'children': ['25']},{'id': '25', 'type': 'return_statement', 'children': ['26']},{'id': '26', 'type': 'call', 'children': ['27', '28']},{'id': '27', 'type': 'identifier', 'children': [], 'value': 'tuple'},{'id': '28', 'type': 'argument_list', 'children': ['29']},{'id': '29', 'type': 'identifier', 'children': [], 'value': 's'},{'id': '30', 'type': 'expression_statement', 'children': ['31']},{'id': '31', 'type': 'assignment', 'children': ['32', '33']},{'id': '32', 'type': 'identifier', 'children': [], 'value': 's'},{'id': '33', 'type': 'call', 'children': ['34', '35']},{'id': '34', 'type': 'identifier', 'children': [], 'value': 'remove_empty'},{'id': '35', 'type': 'argument_list', 'children': ['36']},{'id': '36', 'type': 'identifier', 'children': [], 'value': 's'},{'id': '37', 'type': 'for_statement', 'children': ['38', '39', '46']},{'id': '38', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '39', 'type': 'call', 'children': ['40', '41']},{'id': '40', 'type': 'identifier', 'children': [], 'value': 'range'},{'id': '41', 'type': 'argument_list', 'children': ['42']},{'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': 's'},{'id': '46', 'type': 'block', 'children': ['47']},{'id': '47', 'type': 'try_statement', 'children': ['48', '60']},{'id': '48', 'type': 'block', 'children': ['49']},{'id': '49', 'type': 'expression_statement', 'children': ['50']},{'id': '50', 'type': 'assignment', 'children': ['51', '54']},{'id': '51', 'type': 'subscript', 'children': ['52', '53']},{'id': '52', 'type': 'identifier', 'children': [], 'value': 's'},{'id': '53', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '54', 'type': 'call', 'children': ['55', '56']},{'id': '55', 'type': 'identifier', 'children': [], 'value': 'numconv'},{'id': '56', 'type': 'argument_list', 'children': ['57']},{'id': '57', 'type': 'subscript', 'children': ['58', '59']},{'id': '58', 'type': 'identifier', 'children': [], 'value': 's'},{'id': '59', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '60', 'type': 'except_clause', 'children': ['61', '62']},{'id': '61', 'type': 'identifier', 'children': [], 'value': 'ValueError'},{'id': '62', 'type': 'block', 'children': ['63']},{'id': '63', 'type': 'pass_statement', 'children': []},{'id': '64', 'type': 'if_statement', 'children': ['65', '75', '81']},{'id': '65', 'type': 'not_operator', 'children': ['66']},{'id': '66', 'type': 'call', 'children': ['67', '68']},{'id': '67', 'type': 'identifier', 'children': [], 'value': 'isinstance'},{'id': '68', 'type': 'argument_list', 'children': ['69', '72']},{'id': '69', 'type': 'subscript', 'children': ['70', '71']},{'id': '70', 'type': 'identifier', 'children': [], 'value': 's'},{'id': '71', 'type': 'integer', 'children': [], 'value': '0'},{'id': '72', 'type': 'attribute', 'children': ['73', '74']},{'id': '73', 'type': 'identifier', 'children': [], 'value': 'six'},{'id': '74', 'type': 'identifier', 'children': [], 'value': 'string_types'},{'id': '75', 'type': 'block', 'children': ['76']},{'id': '76', 'type': 'return_statement', 'children': ['77']},{'id': '77', 'type': 'binary_operator', 'children': ['78', '80'], 'value': '+'},{'id': '78', 'type': 'list', 'children': ['79'], 'value': "['']"},{'id': '79', 'type': 'string', 'children': [], 'value': "''"},{'id': '80', 'type': 'identifier', 'children': [], 'value': 's'},{'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': 's'} | def _number_finder(s, regex, numconv):
s = regex.split(s)
if len(s) == 1:
return tuple(s)
s = remove_empty(s)
for i in range(len(s)):
try:
s[i] = numconv(s[i])
except ValueError:
pass
if not isinstance(s[0], six.string_types):
return [''] + s
else:
return s |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '20']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'index_natsorted'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '11', '14', '17']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'seq'},{'id': '5', 'type': 'default_parameter', 'children': ['6', '7']},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '7', 'type': 'lambda', 'children': ['8', '10']},{'id': '8', 'type': 'lambda_parameters', 'children': ['9']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'x'},{'id': '10', 'type': 'identifier', 'children': [], 'value': 'x'},{'id': '11', 'type': 'default_parameter', 'children': ['12', '13']},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'number_type'},{'id': '13', 'type': 'identifier', 'children': [], 'value': 'float'},{'id': '14', 'type': 'default_parameter', 'children': ['15', '16']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'signed'},{'id': '16', 'type': 'True', 'children': []},{'id': '17', 'type': 'default_parameter', 'children': ['18', '19']},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'exp'},{'id': '19', 'type': 'True', 'children': []},{'id': '20', 'type': 'block', 'children': ['21', '26', '33', '58', '85']},{'id': '21', 'type': 'import_from_statement', 'children': ['22', '24']},{'id': '22', 'type': 'dotted_name', 'children': ['23']},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'operator'},{'id': '24', 'type': 'dotted_name', 'children': ['25']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'itemgetter'},{'id': '26', 'type': 'expression_statement', 'children': ['27']},{'id': '27', 'type': 'assignment', 'children': ['28', '29']},{'id': '28', 'type': 'identifier', 'children': [], 'value': 'item1'},{'id': '29', 'type': 'call', 'children': ['30', '31']},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'itemgetter'},{'id': '31', 'type': 'argument_list', 'children': ['32']},{'id': '32', 'type': 'integer', 'children': [], 'value': '1'},{'id': '33', 'type': 'expression_statement', 'children': ['34']},{'id': '34', 'type': 'assignment', 'children': ['35', '36']},{'id': '35', 'type': 'identifier', 'children': [], 'value': 'index_seq_pair'},{'id': '36', 'type': 'list_comprehension', 'children': ['37', '43']},{'id': '37', 'type': 'list', 'children': ['38', '39'], 'value': '[x, key(y)]'},{'id': '38', 'type': 'identifier', 'children': [], 'value': 'x'},{'id': '39', 'type': 'call', 'children': ['40', '41']},{'id': '40', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '41', 'type': 'argument_list', 'children': ['42']},{'id': '42', 'type': 'identifier', 'children': [], 'value': 'y'},{'id': '43', 'type': 'for_in_clause', 'children': ['44', '47']},{'id': '44', 'type': 'pattern_list', 'children': ['45', '46']},{'id': '45', 'type': 'identifier', 'children': [], 'value': 'x'},{'id': '46', 'type': 'identifier', 'children': [], 'value': 'y'},{'id': '47', 'type': 'call', 'children': ['48', '49']},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'zip'},{'id': '49', 'type': 'argument_list', 'children': ['50', '57']},{'id': '50', 'type': 'call', 'children': ['51', '52']},{'id': '51', 'type': 'identifier', 'children': [], 'value': 'range'},{'id': '52', 'type': 'argument_list', 'children': ['53']},{'id': '53', 'type': 'call', 'children': ['54', '55']},{'id': '54', 'type': 'identifier', 'children': [], 'value': 'len'},{'id': '55', 'type': 'argument_list', 'children': ['56']},{'id': '56', 'type': 'identifier', 'children': [], 'value': 'seq'},{'id': '57', 'type': 'identifier', 'children': [], 'value': 'seq'},{'id': '58', 'type': 'expression_statement', 'children': ['59']},{'id': '59', 'type': 'call', 'children': ['60', '63']},{'id': '60', 'type': 'attribute', 'children': ['61', '62']},{'id': '61', 'type': 'identifier', 'children': [], 'value': 'index_seq_pair'},{'id': '62', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '63', 'type': 'argument_list', 'children': ['64']},{'id': '64', 'type': 'keyword_argument', 'children': ['65', '66']},{'id': '65', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '66', 'type': 'lambda', 'children': ['67', '69']},{'id': '67', 'type': 'lambda_parameters', 'children': ['68']},{'id': '68', 'type': 'identifier', 'children': [], 'value': 'x'},{'id': '69', 'type': 'call', 'children': ['70', '71']},{'id': '70', 'type': 'identifier', 'children': [], 'value': 'natsort_key'},{'id': '71', 'type': 'argument_list', 'children': ['72', '76', '79', '82']},{'id': '72', 'type': 'call', 'children': ['73', '74']},{'id': '73', 'type': 'identifier', 'children': [], 'value': 'item1'},{'id': '74', 'type': 'argument_list', 'children': ['75']},{'id': '75', 'type': 'identifier', 'children': [], 'value': 'x'},{'id': '76', 'type': 'keyword_argument', 'children': ['77', '78']},{'id': '77', 'type': 'identifier', 'children': [], 'value': 'number_type'},{'id': '78', 'type': 'identifier', 'children': [], 'value': 'number_type'},{'id': '79', 'type': 'keyword_argument', 'children': ['80', '81']},{'id': '80', 'type': 'identifier', 'children': [], 'value': 'signed'},{'id': '81', 'type': 'identifier', 'children': [], 'value': 'signed'},{'id': '82', 'type': 'keyword_argument', 'children': ['83', '84']},{'id': '83', 'type': 'identifier', 'children': [], 'value': 'exp'},{'id': '84', 'type': 'identifier', 'children': [], 'value': 'exp'},{'id': '85', 'type': 'return_statement', 'children': ['86']},{'id': '86', 'type': 'list_comprehension', 'children': ['87', '90']},{'id': '87', 'type': 'subscript', 'children': ['88', '89']},{'id': '88', 'type': 'identifier', 'children': [], 'value': 'x'},{'id': '89', 'type': 'integer', 'children': [], 'value': '0'},{'id': '90', 'type': 'for_in_clause', 'children': ['91', '92']},{'id': '91', 'type': 'identifier', 'children': [], 'value': 'x'},{'id': '92', 'type': 'identifier', 'children': [], 'value': 'index_seq_pair'} | def index_natsorted(seq, key=lambda x: x, number_type=float, signed=True, exp=True):
from operator import itemgetter
item1 = itemgetter(1)
index_seq_pair = [[x, key(y)] for x, y in zip(range(len(seq)), seq)]
index_seq_pair.sort(key=lambda x: natsort_key(item1(x),
number_type=number_type,
signed=signed, exp=exp))
return [x[0] for x in index_seq_pair] |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'sort'},{'id': '3', 'type': 'parameters', 'children': ['4']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '5', 'type': 'block', 'children': ['6', '15', '35', '54', '70', '79', '85', '96', '116', '121', '127', '137', '143', '182', '192', '196', '212', '221', '232', '246']},{'id': '6', 'type': 'expression_statement', 'children': ['7']},{'id': '7', 'type': 'assignment', 'children': ['8', '9']},{'id': '8', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '9', 'type': 'call', 'children': ['10', '11']},{'id': '10', 'type': 'identifier', 'children': [], 'value': 'OptionParser'},{'id': '11', 'type': 'argument_list', 'children': ['12']},{'id': '12', 'type': 'attribute', 'children': ['13', '14']},{'id': '13', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '14', 'type': 'identifier', 'children': [], 'value': '__doc__'},{'id': '15', 'type': 'expression_statement', 'children': ['16']},{'id': '16', 'type': 'call', 'children': ['17', '20']},{'id': '17', 'type': 'attribute', 'children': ['18', '19']},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'add_option'},{'id': '20', 'type': 'argument_list', 'children': ['21', '22', '23', '26', '29', '32']},{'id': '21', 'type': 'string', 'children': [], 'value': '"-i"'},{'id': '22', 'type': 'string', 'children': [], 'value': '"--inplace"'},{'id': '23', 'type': 'keyword_argument', 'children': ['24', '25']},{'id': '24', 'type': 'identifier', 'children': [], 'value': 'dest'},{'id': '25', 'type': 'string', 'children': [], 'value': '"inplace"'},{'id': '26', 'type': 'keyword_argument', 'children': ['27', '28']},{'id': '27', 'type': 'identifier', 'children': [], 'value': 'default'},{'id': '28', 'type': 'False', 'children': []},{'id': '29', 'type': 'keyword_argument', 'children': ['30', '31']},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'action'},{'id': '31', 'type': 'string', 'children': [], 'value': '"store_true"'},{'id': '32', 'type': 'keyword_argument', 'children': ['33', '34']},{'id': '33', 'type': 'identifier', 'children': [], 'value': 'help'},{'id': '34', 'type': 'string', 'children': [], 'value': '"Sort bed file in place [default: %default]"'},{'id': '35', 'type': 'expression_statement', 'children': ['36']},{'id': '36', 'type': 'call', 'children': ['37', '40']},{'id': '37', 'type': 'attribute', 'children': ['38', '39']},{'id': '38', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '39', 'type': 'identifier', 'children': [], 'value': 'add_option'},{'id': '40', 'type': 'argument_list', 'children': ['41', '42', '45', '48', '51']},{'id': '41', 'type': 'string', 'children': [], 'value': '"-u"'},{'id': '42', 'type': 'keyword_argument', 'children': ['43', '44']},{'id': '43', 'type': 'identifier', 'children': [], 'value': 'dest'},{'id': '44', 'type': 'string', 'children': [], 'value': '"unique"'},{'id': '45', 'type': 'keyword_argument', 'children': ['46', '47']},{'id': '46', 'type': 'identifier', 'children': [], 'value': 'default'},{'id': '47', 'type': 'False', 'children': []},{'id': '48', 'type': 'keyword_argument', 'children': ['49', '50']},{'id': '49', 'type': 'identifier', 'children': [], 'value': 'action'},{'id': '50', 'type': 'string', 'children': [], 'value': '"store_true"'},{'id': '51', 'type': 'keyword_argument', 'children': ['52', '53']},{'id': '52', 'type': 'identifier', 'children': [], 'value': 'help'},{'id': '53', 'type': 'string', 'children': [], 'value': '"Uniqify the bed file"'},{'id': '54', 'type': 'expression_statement', 'children': ['55']},{'id': '55', 'type': 'call', 'children': ['56', '59']},{'id': '56', 'type': 'attribute', 'children': ['57', '58']},{'id': '57', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '58', 'type': 'identifier', 'children': [], 'value': 'add_option'},{'id': '59', 'type': 'argument_list', 'children': ['60', '61', '64', '67']},{'id': '60', 'type': 'string', 'children': [], 'value': '"--accn"'},{'id': '61', 'type': 'keyword_argument', 'children': ['62', '63']},{'id': '62', 'type': 'identifier', 'children': [], 'value': 'default'},{'id': '63', 'type': 'False', 'children': []},{'id': '64', 'type': 'keyword_argument', 'children': ['65', '66']},{'id': '65', 'type': 'identifier', 'children': [], 'value': 'action'},{'id': '66', 'type': 'string', 'children': [], 'value': '"store_true"'},{'id': '67', 'type': 'keyword_argument', 'children': ['68', '69']},{'id': '68', 'type': 'identifier', 'children': [], 'value': 'help'},{'id': '69', 'type': 'string', 'children': [], 'value': '"Sort based on the accessions [default: %default]"'},{'id': '70', 'type': 'expression_statement', 'children': ['71']},{'id': '71', 'type': 'call', 'children': ['72', '75']},{'id': '72', 'type': 'attribute', 'children': ['73', '74']},{'id': '73', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '74', 'type': 'identifier', 'children': [], 'value': 'set_outfile'},{'id': '75', 'type': 'argument_list', 'children': ['76']},{'id': '76', 'type': 'keyword_argument', 'children': ['77', '78']},{'id': '77', 'type': 'identifier', 'children': [], 'value': 'outfile'},{'id': '78', 'type': 'None', 'children': []},{'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': 'p'},{'id': '83', 'type': 'identifier', 'children': [], 'value': 'set_tmpdir'},{'id': '84', 'type': 'argument_list', 'children': []},{'id': '85', 'type': 'expression_statement', 'children': ['86']},{'id': '86', 'type': 'assignment', 'children': ['87', '90']},{'id': '87', 'type': 'pattern_list', 'children': ['88', '89']},{'id': '88', 'type': 'identifier', 'children': [], 'value': 'opts'},{'id': '89', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '90', 'type': 'call', 'children': ['91', '94']},{'id': '91', 'type': 'attribute', 'children': ['92', '93']},{'id': '92', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '93', 'type': 'identifier', 'children': [], 'value': 'parse_args'},{'id': '94', 'type': 'argument_list', 'children': ['95']},{'id': '95', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '96', 'type': 'if_statement', 'children': ['97', '103']},{'id': '97', 'type': 'comparison_operator', 'children': ['98', '102'], 'value': '!='},{'id': '98', 'type': 'call', 'children': ['99', '100']},{'id': '99', 'type': 'identifier', 'children': [], 'value': 'len'},{'id': '100', 'type': 'argument_list', 'children': ['101']},{'id': '101', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '102', 'type': 'integer', 'children': [], 'value': '1'},{'id': '103', 'type': 'block', 'children': ['104']},{'id': '104', 'type': 'expression_statement', 'children': ['105']},{'id': '105', 'type': 'call', 'children': ['106', '109']},{'id': '106', 'type': 'attribute', 'children': ['107', '108']},{'id': '107', 'type': 'identifier', 'children': [], 'value': 'sys'},{'id': '108', 'type': 'identifier', 'children': [], 'value': 'exit'},{'id': '109', 'type': 'argument_list', 'children': ['110']},{'id': '110', 'type': 'not_operator', 'children': ['111']},{'id': '111', 'type': 'call', 'children': ['112', '115']},{'id': '112', 'type': 'attribute', 'children': ['113', '114']},{'id': '113', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '114', 'type': 'identifier', 'children': [], 'value': 'print_help'},{'id': '115', 'type': 'argument_list', 'children': []},{'id': '116', 'type': 'expression_statement', 'children': ['117']},{'id': '117', 'type': 'assignment', 'children': ['118', '120']},{'id': '118', 'type': 'pattern_list', 'children': ['119']},{'id': '119', 'type': 'identifier', 'children': [], 'value': 'bedfile'},{'id': '120', 'type': 'identifier', 'children': [], 'value': 'args'},{'id': '121', 'type': 'expression_statement', 'children': ['122']},{'id': '122', 'type': 'assignment', 'children': ['123', '124']},{'id': '123', 'type': 'identifier', 'children': [], 'value': 'inplace'},{'id': '124', 'type': 'attribute', 'children': ['125', '126']},{'id': '125', 'type': 'identifier', 'children': [], 'value': 'opts'},{'id': '126', 'type': 'identifier', 'children': [], 'value': 'inplace'},{'id': '127', 'type': 'if_statement', 'children': ['128', '134']},{'id': '128', 'type': 'boolean_operator', 'children': ['129', '131'], 'value': 'and'},{'id': '129', 'type': 'not_operator', 'children': ['130']},{'id': '130', 'type': 'identifier', 'children': [], 'value': 'inplace'},{'id': '131', 'type': 'comparison_operator', 'children': ['132', '133'], 'value': 'in'},{'id': '132', 'type': 'string', 'children': [], 'value': '".sorted."'},{'id': '133', 'type': 'identifier', 'children': [], 'value': 'bedfile'},{'id': '134', 'type': 'block', 'children': ['135']},{'id': '135', 'type': 'return_statement', 'children': ['136']},{'id': '136', 'type': 'identifier', 'children': [], 'value': 'bedfile'},{'id': '137', 'type': 'expression_statement', 'children': ['138']},{'id': '138', 'type': 'assignment', 'children': ['139', '140']},{'id': '139', 'type': 'identifier', 'children': [], 'value': 'sortedbed'},{'id': '140', 'type': 'attribute', 'children': ['141', '142']},{'id': '141', 'type': 'identifier', 'children': [], 'value': 'opts'},{'id': '142', 'type': 'identifier', 'children': [], 'value': 'outfile'},{'id': '143', 'type': 'if_statement', 'children': ['144', '145', '150']},{'id': '144', 'type': 'identifier', 'children': [], 'value': 'inplace'},{'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': 'sortedbed'},{'id': '149', 'type': 'identifier', 'children': [], 'value': 'bedfile'},{'id': '150', 'type': 'elif_clause', 'children': ['151', '156']},{'id': '151', 'type': 'comparison_operator', 'children': ['152', '155'], 'value': 'is'},{'id': '152', 'type': 'attribute', 'children': ['153', '154']},{'id': '153', 'type': 'identifier', 'children': [], 'value': 'opts'},{'id': '154', 'type': 'identifier', 'children': [], 'value': 'outfile'},{'id': '155', 'type': 'None', 'children': []},{'id': '156', 'type': 'block', 'children': ['157', '174']},{'id': '157', 'type': 'expression_statement', 'children': ['158']},{'id': '158', 'type': 'assignment', 'children': ['159', '162']},{'id': '159', 'type': 'pattern_list', 'children': ['160', '161']},{'id': '160', 'type': 'identifier', 'children': [], 'value': 'pf'},{'id': '161', 'type': 'identifier', 'children': [], 'value': 'sf'},{'id': '162', 'type': 'call', 'children': ['163', '171']},{'id': '163', 'type': 'attribute', 'children': ['164', '170']},{'id': '164', 'type': 'call', 'children': ['165', '168']},{'id': '165', 'type': 'attribute', 'children': ['166', '167']},{'id': '166', 'type': 'identifier', 'children': [], 'value': 'op'},{'id': '167', 'type': 'identifier', 'children': [], 'value': 'basename'},{'id': '168', 'type': 'argument_list', 'children': ['169']},{'id': '169', 'type': 'identifier', 'children': [], 'value': 'bedfile'},{'id': '170', 'type': 'identifier', 'children': [], 'value': 'rsplit'},{'id': '171', 'type': 'argument_list', 'children': ['172', '173']},{'id': '172', 'type': 'string', 'children': [], 'value': '"."'},{'id': '173', 'type': 'integer', 'children': [], 'value': '1'},{'id': '174', 'type': 'expression_statement', 'children': ['175']},{'id': '175', 'type': 'assignment', 'children': ['176', '177']},{'id': '176', 'type': 'identifier', 'children': [], 'value': 'sortedbed'},{'id': '177', 'type': 'binary_operator', 'children': ['178', '181'], 'value': '+'},{'id': '178', 'type': 'binary_operator', 'children': ['179', '180'], 'value': '+'},{'id': '179', 'type': 'identifier', 'children': [], 'value': 'pf'},{'id': '180', 'type': 'string', 'children': [], 'value': '".sorted."'},{'id': '181', 'type': 'identifier', 'children': [], 'value': 'sf'},{'id': '182', 'type': 'expression_statement', 'children': ['183']},{'id': '183', 'type': 'assignment', 'children': ['184', '185']},{'id': '184', 'type': 'identifier', 'children': [], 'value': 'sortopt'},{'id': '185', 'type': 'conditional_expression', 'children': ['186', '187', '191'], 'value': 'if'},{'id': '186', 'type': 'string', 'children': [], 'value': '"-k1,1 -k2,2n -k3,3n -k4,4"'},{'id': '187', 'type': 'not_operator', 'children': ['188']},{'id': '188', 'type': 'attribute', 'children': ['189', '190']},{'id': '189', 'type': 'identifier', 'children': [], 'value': 'opts'},{'id': '190', 'type': 'identifier', 'children': [], 'value': 'accn'},{'id': '191', 'type': 'string', 'children': [], 'value': '"-k4,4 -k1,1 -k2,2n -k3,3n"'},{'id': '192', 'type': 'expression_statement', 'children': ['193']},{'id': '193', 'type': 'assignment', 'children': ['194', '195']},{'id': '194', 'type': 'identifier', 'children': [], 'value': 'cmd'},{'id': '195', 'type': 'string', 'children': [], 'value': '"sort"'},{'id': '196', 'type': 'if_statement', 'children': ['197', '200']},{'id': '197', 'type': 'attribute', 'children': ['198', '199']},{'id': '198', 'type': 'identifier', 'children': [], 'value': 'opts'},{'id': '199', 'type': 'identifier', 'children': [], 'value': 'tmpdir'},{'id': '200', 'type': 'block', 'children': ['201']},{'id': '201', 'type': 'expression_statement', 'children': ['202']},{'id': '202', 'type': 'augmented_assignment', 'children': ['203', '204'], 'value': '+='},{'id': '203', 'type': 'identifier', 'children': [], 'value': 'cmd'},{'id': '204', 'type': 'call', 'children': ['205', '208']},{'id': '205', 'type': 'attribute', 'children': ['206', '207']},{'id': '206', 'type': 'string', 'children': [], 'value': '" -T {0}"'},{'id': '207', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '208', 'type': 'argument_list', 'children': ['209']},{'id': '209', 'type': 'attribute', 'children': ['210', '211']},{'id': '210', 'type': 'identifier', 'children': [], 'value': 'opts'},{'id': '211', 'type': 'identifier', 'children': [], 'value': 'tmpdir'},{'id': '212', 'type': 'if_statement', 'children': ['213', '216']},{'id': '213', 'type': 'attribute', 'children': ['214', '215']},{'id': '214', 'type': 'identifier', 'children': [], 'value': 'opts'},{'id': '215', 'type': 'identifier', 'children': [], 'value': 'unique'},{'id': '216', 'type': 'block', 'children': ['217']},{'id': '217', 'type': 'expression_statement', 'children': ['218']},{'id': '218', 'type': 'augmented_assignment', 'children': ['219', '220'], 'value': '+='},{'id': '219', 'type': 'identifier', 'children': [], 'value': 'cmd'},{'id': '220', 'type': 'string', 'children': [], 'value': '" -u"'},{'id': '221', 'type': 'expression_statement', 'children': ['222']},{'id': '222', 'type': 'augmented_assignment', 'children': ['223', '224'], 'value': '+='},{'id': '223', 'type': 'identifier', 'children': [], 'value': 'cmd'},{'id': '224', 'type': 'call', 'children': ['225', '228']},{'id': '225', 'type': 'attribute', 'children': ['226', '227']},{'id': '226', 'type': 'string', 'children': [], 'value': '" {0} {1} -o {2}"'},{'id': '227', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '228', 'type': 'argument_list', 'children': ['229', '230', '231']},{'id': '229', 'type': 'identifier', 'children': [], 'value': 'sortopt'},{'id': '230', 'type': 'identifier', 'children': [], 'value': 'bedfile'},{'id': '231', 'type': 'identifier', 'children': [], 'value': 'sortedbed'},{'id': '232', 'type': 'if_statement', 'children': ['233', '240']},{'id': '233', 'type': 'boolean_operator', 'children': ['234', '235'], 'value': 'or'},{'id': '234', 'type': 'identifier', 'children': [], 'value': 'inplace'},{'id': '235', 'type': 'call', 'children': ['236', '237']},{'id': '236', 'type': 'identifier', 'children': [], 'value': 'need_update'},{'id': '237', 'type': 'argument_list', 'children': ['238', '239']},{'id': '238', 'type': 'identifier', 'children': [], 'value': 'bedfile'},{'id': '239', 'type': 'identifier', 'children': [], 'value': 'sortedbed'},{'id': '240', 'type': 'block', 'children': ['241']},{'id': '241', 'type': 'expression_statement', 'children': ['242']},{'id': '242', 'type': 'call', 'children': ['243', '244']},{'id': '243', 'type': 'identifier', 'children': [], 'value': 'sh'},{'id': '244', 'type': 'argument_list', 'children': ['245']},{'id': '245', 'type': 'identifier', 'children': [], 'value': 'cmd'},{'id': '246', 'type': 'return_statement', 'children': ['247']},{'id': '247', 'type': 'identifier', 'children': [], 'value': 'sortedbed'} | def sort(args):
p = OptionParser(sort.__doc__)
p.add_option("-i", "--inplace", dest="inplace",
default=False, action="store_true",
help="Sort bed file in place [default: %default]")
p.add_option("-u", dest="unique",
default=False, action="store_true",
help="Uniqify the bed file")
p.add_option("--accn", default=False, action="store_true",
help="Sort based on the accessions [default: %default]")
p.set_outfile(outfile=None)
p.set_tmpdir()
opts, args = p.parse_args(args)
if len(args) != 1:
sys.exit(not p.print_help())
bedfile, = args
inplace = opts.inplace
if not inplace and ".sorted." in bedfile:
return bedfile
sortedbed = opts.outfile
if inplace:
sortedbed = bedfile
elif opts.outfile is None:
pf, sf = op.basename(bedfile).rsplit(".", 1)
sortedbed = pf + ".sorted." + sf
sortopt = "-k1,1 -k2,2n -k3,3n -k4,4" if not opts.accn else \
"-k4,4 -k1,1 -k2,2n -k3,3n"
cmd = "sort"
if opts.tmpdir:
cmd += " -T {0}".format(opts.tmpdir)
if opts.unique:
cmd += " -u"
cmd += " {0} {1} -o {2}".format(sortopt, bedfile, sortedbed)
if inplace or need_update(bedfile, sortedbed):
sh(cmd)
return sortedbed |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '6']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'by_image_seq'},{'id': '3', 'type': 'parameters', 'children': ['4', '5']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'blocks'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'image_seq'},{'id': '6', 'type': 'block', 'children': ['7']},{'id': '7', 'type': 'return_statement', 'children': ['8']},{'id': '8', 'type': 'call', 'children': ['9', '10']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'list'},{'id': '10', 'type': 'argument_list', 'children': ['11']},{'id': '11', 'type': 'call', 'children': ['12', '13']},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'filter'},{'id': '13', 'type': 'argument_list', 'children': ['14', '26']},{'id': '14', 'type': 'lambda', 'children': ['15', '17']},{'id': '15', 'type': 'lambda_parameters', 'children': ['16']},{'id': '16', 'type': 'identifier', 'children': [], 'value': 'block'},{'id': '17', 'type': 'comparison_operator', 'children': ['18', '25'], 'value': '=='},{'id': '18', 'type': 'attribute', 'children': ['19', '24']},{'id': '19', 'type': 'attribute', 'children': ['20', '23']},{'id': '20', 'type': 'subscript', 'children': ['21', '22']},{'id': '21', 'type': 'identifier', 'children': [], 'value': 'blocks'},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'block'},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'ec_hdr'},{'id': '24', 'type': 'identifier', 'children': [], 'value': 'image_seq'},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'image_seq'},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'blocks'} | def by_image_seq(blocks, image_seq):
return list(filter(lambda block: blocks[block].ec_hdr.image_seq == image_seq, blocks)) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '8']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'by_vol_id'},{'id': '3', 'type': 'parameters', 'children': ['4', '5']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'blocks'},{'id': '5', 'type': 'default_parameter', 'children': ['6', '7']},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'slist'},{'id': '7', 'type': 'None', 'children': []},{'id': '8', 'type': 'block', 'children': ['9', '13', '76']},{'id': '9', 'type': 'expression_statement', 'children': ['10']},{'id': '10', 'type': 'assignment', 'children': ['11', '12']},{'id': '11', 'type': 'identifier', 'children': [], 'value': 'vol_blocks'},{'id': '12', 'type': 'dictionary', 'children': []},{'id': '13', 'type': 'for_statement', 'children': ['14', '15', '16']},{'id': '14', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'blocks'},{'id': '16', 'type': 'block', 'children': ['17', '34', '57']},{'id': '17', 'type': 'if_statement', 'children': ['18', '23', '25']},{'id': '18', 'type': 'boolean_operator', 'children': ['19', '20'], 'value': 'and'},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'slist'},{'id': '20', 'type': 'comparison_operator', 'children': ['21', '22'], 'value': 'not'},{'id': '21', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'slist'},{'id': '23', 'type': 'block', 'children': ['24']},{'id': '24', 'type': 'continue_statement', 'children': []},{'id': '25', 'type': 'elif_clause', 'children': ['26', '32']},{'id': '26', 'type': 'not_operator', 'children': ['27']},{'id': '27', 'type': 'attribute', 'children': ['28', '31']},{'id': '28', 'type': 'subscript', 'children': ['29', '30']},{'id': '29', 'type': 'identifier', 'children': [], 'value': 'blocks'},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'is_valid'},{'id': '32', 'type': 'block', 'children': ['33']},{'id': '33', 'type': 'continue_statement', 'children': []},{'id': '34', 'type': 'if_statement', 'children': ['35', '44']},{'id': '35', 'type': 'comparison_operator', 'children': ['36', '43'], 'value': 'not'},{'id': '36', 'type': 'attribute', 'children': ['37', '42']},{'id': '37', 'type': 'attribute', 'children': ['38', '41']},{'id': '38', 'type': 'subscript', 'children': ['39', '40']},{'id': '39', 'type': 'identifier', 'children': [], 'value': 'blocks'},{'id': '40', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '41', 'type': 'identifier', 'children': [], 'value': 'vid_hdr'},{'id': '42', 'type': 'identifier', 'children': [], 'value': 'vol_id'},{'id': '43', 'type': 'identifier', 'children': [], 'value': 'vol_blocks'},{'id': '44', 'type': 'block', 'children': ['45']},{'id': '45', 'type': 'expression_statement', 'children': ['46']},{'id': '46', 'type': 'assignment', 'children': ['47', '56']},{'id': '47', 'type': 'subscript', 'children': ['48', '49']},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'vol_blocks'},{'id': '49', 'type': 'attribute', 'children': ['50', '55']},{'id': '50', 'type': 'attribute', 'children': ['51', '54']},{'id': '51', 'type': 'subscript', 'children': ['52', '53']},{'id': '52', 'type': 'identifier', 'children': [], 'value': 'blocks'},{'id': '53', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '54', 'type': 'identifier', 'children': [], 'value': 'vid_hdr'},{'id': '55', 'type': 'identifier', 'children': [], 'value': 'vol_id'},{'id': '56', 'type': 'list', 'children': [], 'value': '[]'},{'id': '57', 'type': 'expression_statement', 'children': ['58']},{'id': '58', 'type': 'call', 'children': ['59', '70']},{'id': '59', 'type': 'attribute', 'children': ['60', '69']},{'id': '60', 'type': 'subscript', 'children': ['61', '62']},{'id': '61', 'type': 'identifier', 'children': [], 'value': 'vol_blocks'},{'id': '62', 'type': 'attribute', 'children': ['63', '68']},{'id': '63', 'type': 'attribute', 'children': ['64', '67']},{'id': '64', 'type': 'subscript', 'children': ['65', '66']},{'id': '65', 'type': 'identifier', 'children': [], 'value': 'blocks'},{'id': '66', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '67', 'type': 'identifier', 'children': [], 'value': 'vid_hdr'},{'id': '68', 'type': 'identifier', 'children': [], 'value': 'vol_id'},{'id': '69', 'type': 'identifier', 'children': [], 'value': 'append'},{'id': '70', 'type': 'argument_list', 'children': ['71']},{'id': '71', 'type': 'attribute', 'children': ['72', '75']},{'id': '72', 'type': 'subscript', 'children': ['73', '74']},{'id': '73', 'type': 'identifier', 'children': [], 'value': 'blocks'},{'id': '74', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '75', 'type': 'identifier', 'children': [], 'value': 'peb_num'},{'id': '76', 'type': 'return_statement', 'children': ['77']},{'id': '77', 'type': 'identifier', 'children': [], 'value': 'vol_blocks'} | def by_vol_id(blocks, slist=None):
vol_blocks = {}
for i in blocks:
if slist and i not in slist:
continue
elif not blocks[i].is_valid:
continue
if blocks[i].vid_hdr.vol_id not in vol_blocks:
vol_blocks[blocks[i].vid_hdr.vol_id] = []
vol_blocks[blocks[i].vid_hdr.vol_id].append(blocks[i].peb_num)
return vol_blocks |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '8']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'by_type'},{'id': '3', 'type': 'parameters', 'children': ['4', '5']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'blocks'},{'id': '5', 'type': 'default_parameter', 'children': ['6', '7']},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'slist'},{'id': '7', 'type': 'None', 'children': []},{'id': '8', 'type': 'block', 'children': ['9', '13', '17', '21', '25', '100']},{'id': '9', 'type': 'expression_statement', 'children': ['10']},{'id': '10', 'type': 'assignment', 'children': ['11', '12']},{'id': '11', 'type': 'identifier', 'children': [], 'value': 'layout'},{'id': '12', 'type': 'list', 'children': [], 'value': '[]'},{'id': '13', 'type': 'expression_statement', 'children': ['14']},{'id': '14', 'type': 'assignment', 'children': ['15', '16']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'data'},{'id': '16', 'type': 'list', 'children': [], 'value': '[]'},{'id': '17', 'type': 'expression_statement', 'children': ['18']},{'id': '18', 'type': 'assignment', 'children': ['19', '20']},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'int_vol'},{'id': '20', 'type': 'list', 'children': [], 'value': '[]'},{'id': '21', 'type': 'expression_statement', 'children': ['22']},{'id': '22', 'type': 'assignment', 'children': ['23', '24']},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'unknown'},{'id': '24', 'type': 'list', 'children': [], 'value': '[]'},{'id': '25', 'type': 'for_statement', 'children': ['26', '27', '28']},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '27', 'type': 'identifier', 'children': [], 'value': 'blocks'},{'id': '28', 'type': 'block', 'children': ['29', '37']},{'id': '29', 'type': 'if_statement', 'children': ['30', '35']},{'id': '30', 'type': 'boolean_operator', 'children': ['31', '32'], 'value': 'and'},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'slist'},{'id': '32', 'type': 'comparison_operator', 'children': ['33', '34'], 'value': 'not'},{'id': '33', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '34', 'type': 'identifier', 'children': [], 'value': 'slist'},{'id': '35', 'type': 'block', 'children': ['36']},{'id': '36', 'type': 'continue_statement', 'children': []},{'id': '37', 'type': 'if_statement', 'children': ['38', '49', '57', '77', '91']},{'id': '38', 'type': 'boolean_operator', 'children': ['39', '44'], 'value': 'and'},{'id': '39', 'type': 'attribute', 'children': ['40', '43']},{'id': '40', 'type': 'subscript', 'children': ['41', '42']},{'id': '41', 'type': 'identifier', 'children': [], 'value': 'blocks'},{'id': '42', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '43', 'type': 'identifier', 'children': [], 'value': 'is_vtbl'},{'id': '44', 'type': 'attribute', 'children': ['45', '48']},{'id': '45', 'type': 'subscript', 'children': ['46', '47']},{'id': '46', 'type': 'identifier', 'children': [], 'value': 'blocks'},{'id': '47', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'is_valid'},{'id': '49', 'type': 'block', 'children': ['50']},{'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': 'layout'},{'id': '54', 'type': 'identifier', 'children': [], 'value': 'append'},{'id': '55', 'type': 'argument_list', 'children': ['56']},{'id': '56', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '57', 'type': 'elif_clause', 'children': ['58', '69']},{'id': '58', 'type': 'boolean_operator', 'children': ['59', '64'], 'value': 'and'},{'id': '59', 'type': 'attribute', 'children': ['60', '63']},{'id': '60', 'type': 'subscript', 'children': ['61', '62']},{'id': '61', 'type': 'identifier', 'children': [], 'value': 'blocks'},{'id': '62', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '63', 'type': 'identifier', 'children': [], 'value': 'is_internal_vol'},{'id': '64', 'type': 'attribute', 'children': ['65', '68']},{'id': '65', 'type': 'subscript', 'children': ['66', '67']},{'id': '66', 'type': 'identifier', 'children': [], 'value': 'blocks'},{'id': '67', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '68', 'type': 'identifier', 'children': [], 'value': 'is_valid'},{'id': '69', 'type': 'block', 'children': ['70']},{'id': '70', 'type': 'expression_statement', 'children': ['71']},{'id': '71', 'type': 'call', 'children': ['72', '75']},{'id': '72', 'type': 'attribute', 'children': ['73', '74']},{'id': '73', 'type': 'identifier', 'children': [], 'value': 'int_vol'},{'id': '74', 'type': 'identifier', 'children': [], 'value': 'append'},{'id': '75', 'type': 'argument_list', 'children': ['76']},{'id': '76', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '77', 'type': 'elif_clause', 'children': ['78', '83']},{'id': '78', 'type': 'attribute', 'children': ['79', '82']},{'id': '79', 'type': 'subscript', 'children': ['80', '81']},{'id': '80', 'type': 'identifier', 'children': [], 'value': 'blocks'},{'id': '81', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '82', 'type': 'identifier', 'children': [], 'value': 'is_valid'},{'id': '83', 'type': 'block', 'children': ['84']},{'id': '84', 'type': 'expression_statement', 'children': ['85']},{'id': '85', 'type': 'call', 'children': ['86', '89']},{'id': '86', 'type': 'attribute', 'children': ['87', '88']},{'id': '87', 'type': 'identifier', 'children': [], 'value': 'data'},{'id': '88', 'type': 'identifier', 'children': [], 'value': 'append'},{'id': '89', 'type': 'argument_list', 'children': ['90']},{'id': '90', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '91', 'type': 'else_clause', 'children': ['92']},{'id': '92', 'type': 'block', 'children': ['93']},{'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': 'unknown'},{'id': '97', 'type': 'identifier', 'children': [], 'value': 'append'},{'id': '98', 'type': 'argument_list', 'children': ['99']},{'id': '99', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '100', 'type': 'return_statement', 'children': ['101']},{'id': '101', 'type': 'expression_list', 'children': ['102', '103', '104', '105']},{'id': '102', 'type': 'identifier', 'children': [], 'value': 'layout'},{'id': '103', 'type': 'identifier', 'children': [], 'value': 'data'},{'id': '104', 'type': 'identifier', 'children': [], 'value': 'int_vol'},{'id': '105', 'type': 'identifier', 'children': [], 'value': 'unknown'} | def by_type(blocks, slist=None):
layout = []
data = []
int_vol = []
unknown = []
for i in blocks:
if slist and i not in slist:
continue
if blocks[i].is_vtbl and blocks[i].is_valid:
layout.append(i)
elif blocks[i].is_internal_vol and blocks[i].is_valid:
int_vol.append(i)
elif blocks[i].is_valid:
data.append(i)
else:
unknown.append(i)
return layout, data, int_vol, unknown |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '6']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'group_pairs'},{'id': '3', 'type': 'parameters', 'children': ['4', '5']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'blocks'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'layout_blocks_list'},{'id': '6', 'type': 'block', 'children': ['7', '11', '48', '63']},{'id': '7', 'type': 'expression_statement', 'children': ['8']},{'id': '8', 'type': 'assignment', 'children': ['9', '10']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'image_dict'},{'id': '10', 'type': 'dictionary', 'children': []},{'id': '11', 'type': 'for_statement', 'children': ['12', '13', '14']},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'block_id'},{'id': '13', 'type': 'identifier', 'children': [], 'value': 'layout_blocks_list'},{'id': '14', 'type': 'block', 'children': ['15', '25']},{'id': '15', 'type': 'expression_statement', 'children': ['16']},{'id': '16', 'type': 'assignment', 'children': ['17', '18']},{'id': '17', 'type': 'identifier', 'children': [], 'value': 'image_seq'},{'id': '18', 'type': 'attribute', 'children': ['19', '24']},{'id': '19', 'type': 'attribute', 'children': ['20', '23']},{'id': '20', 'type': 'subscript', 'children': ['21', '22']},{'id': '21', 'type': 'identifier', 'children': [], 'value': 'blocks'},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'block_id'},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'ec_hdr'},{'id': '24', 'type': 'identifier', 'children': [], 'value': 'image_seq'},{'id': '25', 'type': 'if_statement', 'children': ['26', '29', '37']},{'id': '26', 'type': 'comparison_operator', 'children': ['27', '28'], 'value': 'not'},{'id': '27', 'type': 'identifier', 'children': [], 'value': 'image_seq'},{'id': '28', 'type': 'identifier', 'children': [], 'value': 'image_dict'},{'id': '29', 'type': 'block', 'children': ['30']},{'id': '30', 'type': 'expression_statement', 'children': ['31']},{'id': '31', 'type': 'assignment', 'children': ['32', '35']},{'id': '32', 'type': 'subscript', 'children': ['33', '34']},{'id': '33', 'type': 'identifier', 'children': [], 'value': 'image_dict'},{'id': '34', 'type': 'identifier', 'children': [], 'value': 'image_seq'},{'id': '35', 'type': 'list', 'children': ['36'], 'value': '[block_id]'},{'id': '36', 'type': 'identifier', 'children': [], 'value': 'block_id'},{'id': '37', 'type': 'else_clause', 'children': ['38']},{'id': '38', 'type': 'block', 'children': ['39']},{'id': '39', 'type': 'expression_statement', 'children': ['40']},{'id': '40', 'type': 'call', 'children': ['41', '46']},{'id': '41', 'type': 'attribute', 'children': ['42', '45']},{'id': '42', 'type': 'subscript', 'children': ['43', '44']},{'id': '43', 'type': 'identifier', 'children': [], 'value': 'image_dict'},{'id': '44', 'type': 'identifier', 'children': [], 'value': 'image_seq'},{'id': '45', 'type': 'identifier', 'children': [], 'value': 'append'},{'id': '46', 'type': 'argument_list', 'children': ['47']},{'id': '47', 'type': 'identifier', 'children': [], 'value': 'block_id'},{'id': '48', 'type': 'expression_statement', 'children': ['49']},{'id': '49', 'type': 'call', 'children': ['50', '51']},{'id': '50', 'type': 'identifier', 'children': [], 'value': 'log'},{'id': '51', 'type': 'argument_list', 'children': ['52', '53']},{'id': '52', 'type': 'identifier', 'children': [], 'value': 'group_pairs'},{'id': '53', 'type': 'binary_operator', 'children': ['54', '55'], 'value': '%'},{'id': '54', 'type': 'string', 'children': [], 'value': "'Layout blocks found at PEBs: %s'"},{'id': '55', 'type': 'call', 'children': ['56', '57']},{'id': '56', 'type': 'identifier', 'children': [], 'value': 'list'},{'id': '57', 'type': 'argument_list', 'children': ['58']},{'id': '58', 'type': 'call', 'children': ['59', '62']},{'id': '59', 'type': 'attribute', 'children': ['60', '61']},{'id': '60', 'type': 'identifier', 'children': [], 'value': 'image_dict'},{'id': '61', 'type': 'identifier', 'children': [], 'value': 'values'},{'id': '62', 'type': 'argument_list', 'children': []},{'id': '63', 'type': 'return_statement', 'children': ['64']},{'id': '64', 'type': 'call', 'children': ['65', '66']},{'id': '65', 'type': 'identifier', 'children': [], 'value': 'list'},{'id': '66', 'type': 'argument_list', 'children': ['67']},{'id': '67', 'type': 'call', 'children': ['68', '71']},{'id': '68', 'type': 'attribute', 'children': ['69', '70']},{'id': '69', 'type': 'identifier', 'children': [], 'value': 'image_dict'},{'id': '70', 'type': 'identifier', 'children': [], 'value': 'values'},{'id': '71', 'type': 'argument_list', 'children': []} | def group_pairs(blocks, layout_blocks_list):
image_dict={}
for block_id in layout_blocks_list:
image_seq=blocks[block_id].ec_hdr.image_seq
if image_seq not in image_dict:
image_dict[image_seq]=[block_id]
else:
image_dict[image_seq].append(block_id)
log(group_pairs, 'Layout blocks found at PEBs: %s' % list(image_dict.values()))
return list(image_dict.values()) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'read_cBpack'},{'id': '3', 'type': 'parameters', 'children': ['4']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'filename'},{'id': '5', 'type': 'block', 'children': ['6', '32', '38', '72']},{'id': '6', 'type': 'with_statement', 'children': ['7', '19']},{'id': '7', 'type': 'with_clause', 'children': ['8']},{'id': '8', 'type': 'with_item', 'children': ['9']},{'id': '9', 'type': 'as_pattern', 'children': ['10', '17']},{'id': '10', 'type': 'call', 'children': ['11', '14']},{'id': '11', 'type': 'attribute', 'children': ['12', '13']},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'gzip'},{'id': '13', 'type': 'identifier', 'children': [], 'value': 'open'},{'id': '14', 'type': 'argument_list', 'children': ['15', '16']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'filename'},{'id': '16', 'type': 'string', 'children': [], 'value': "'rb'"},{'id': '17', 'type': 'as_pattern_target', 'children': ['18']},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'infile'},{'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': 'data'},{'id': '23', 'type': 'call', 'children': ['24', '27']},{'id': '24', 'type': 'attribute', 'children': ['25', '26']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'msgpack'},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'load'},{'id': '27', 'type': 'argument_list', 'children': ['28', '29']},{'id': '28', 'type': 'identifier', 'children': [], 'value': 'infile'},{'id': '29', 'type': 'keyword_argument', 'children': ['30', '31']},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'raw'},{'id': '31', 'type': 'False', 'children': []},{'id': '32', 'type': 'expression_statement', 'children': ['33']},{'id': '33', 'type': 'assignment', 'children': ['34', '35']},{'id': '34', 'type': 'identifier', 'children': [], 'value': 'header'},{'id': '35', 'type': 'subscript', 'children': ['36', '37']},{'id': '36', 'type': 'identifier', 'children': [], 'value': 'data'},{'id': '37', 'type': 'integer', 'children': [], 'value': '0'},{'id': '38', 'type': 'if_statement', 'children': ['39', '64']},{'id': '39', 'type': '()', 'children': ['40']},{'id': '40', 'type': 'boolean_operator', 'children': ['41', '56'], 'value': 'or'},{'id': '41', 'type': 'boolean_operator', 'children': ['42', '48'], 'value': 'or'},{'id': '42', 'type': 'not_operator', 'children': ['43']},{'id': '43', 'type': 'call', 'children': ['44', '45']},{'id': '44', 'type': 'identifier', 'children': [], 'value': 'isinstance'},{'id': '45', 'type': 'argument_list', 'children': ['46', '47']},{'id': '46', 'type': 'identifier', 'children': [], 'value': 'header'},{'id': '47', 'type': 'identifier', 'children': [], 'value': 'dict'},{'id': '48', 'type': 'comparison_operator', 'children': ['49', '55'], 'value': '!='},{'id': '49', 'type': 'call', 'children': ['50', '53']},{'id': '50', 'type': 'attribute', 'children': ['51', '52']},{'id': '51', 'type': 'identifier', 'children': [], 'value': 'header'},{'id': '52', 'type': 'identifier', 'children': [], 'value': 'get'},{'id': '53', 'type': 'argument_list', 'children': ['54']},{'id': '54', 'type': 'string', 'children': [], 'value': "'format'"},{'id': '55', 'type': 'string', 'children': [], 'value': "'cB'"},{'id': '56', 'type': 'comparison_operator', 'children': ['57', '63'], 'value': '!='},{'id': '57', 'type': 'call', 'children': ['58', '61']},{'id': '58', 'type': 'attribute', 'children': ['59', '60']},{'id': '59', 'type': 'identifier', 'children': [], 'value': 'header'},{'id': '60', 'type': 'identifier', 'children': [], 'value': 'get'},{'id': '61', 'type': 'argument_list', 'children': ['62']},{'id': '62', 'type': 'string', 'children': [], 'value': "'version'"},{'id': '63', 'type': 'integer', 'children': [], 'value': '1'},{'id': '64', 'type': 'block', 'children': ['65']},{'id': '65', 'type': 'raise_statement', 'children': ['66']},{'id': '66', 'type': 'call', 'children': ['67', '68']},{'id': '67', 'type': 'identifier', 'children': [], 'value': 'ValueError'},{'id': '68', 'type': 'argument_list', 'children': ['69']},{'id': '69', 'type': 'binary_operator', 'children': ['70', '71'], 'value': '%'},{'id': '70', 'type': 'string', 'children': [], 'value': '"Unexpected header: %r"'},{'id': '71', 'type': 'identifier', 'children': [], 'value': 'header'},{'id': '72', 'type': 'return_statement', 'children': ['73']},{'id': '73', 'type': 'subscript', 'children': ['74', '75']},{'id': '74', 'type': 'identifier', 'children': [], 'value': 'data'},{'id': '75', 'type': 'slice', 'children': ['76', '77']},{'id': '76', 'type': 'integer', 'children': [], 'value': '1'},{'id': '77', 'type': 'colon', 'children': []} | def read_cBpack(filename):
with gzip.open(filename, 'rb') as infile:
data = msgpack.load(infile, raw=False)
header = data[0]
if (
not isinstance(header, dict) or header.get('format') != 'cB'
or header.get('version') != 1
):
raise ValueError("Unexpected header: %r" % header)
return data[1:] |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '10']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'addDiscreteOutcomeConstantMean'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '7']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'distribution'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'x'},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '7', 'type': 'default_parameter', 'children': ['8', '9']},{'id': '8', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '9', 'type': 'False', 'children': []},{'id': '10', 'type': 'block', 'children': ['11', '13', '37', '54', '78']},{'id': '11', 'type': 'expression_statement', 'children': ['12']},{'id': '12', 'type': 'string', 'children': [], 'value': "'''\n Adds a discrete outcome of x with probability p to an existing distribution,\n holding constant the relative probabilities of other outcomes and overall mean.\n Parameters\n ----------\n distribution : [np.array]\n Two element list containing a list of probabilities and a list of outcomes.\n x : float\n The new value to be added to the distribution.\n p : float\n The probability of the discrete outcome x occuring.\n sort: bool\n Whether or not to sort X before returning it\n Returns\n -------\n X : np.array\n Discrete points for discrete probability mass function.\n pmf : np.array\n Probability associated with each point in X.\n Written by Matthew N. White\n Latest update: 08 December 2015 by David Low\n '''"},{'id': '13', 'type': 'expression_statement', 'children': ['14']},{'id': '14', 'type': 'assignment', 'children': ['15', '16']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'X'},{'id': '16', 'type': 'call', 'children': ['17', '20']},{'id': '17', 'type': 'attribute', 'children': ['18', '19']},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'append'},{'id': '20', 'type': 'argument_list', 'children': ['21', '22']},{'id': '21', 'type': 'identifier', 'children': [], 'value': 'x'},{'id': '22', 'type': 'binary_operator', 'children': ['23', '33'], 'value': '/'},{'id': '23', 'type': 'binary_operator', 'children': ['24', '27'], 'value': '*'},{'id': '24', 'type': 'subscript', 'children': ['25', '26']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'distribution'},{'id': '26', 'type': 'integer', 'children': [], 'value': '1'},{'id': '27', 'type': '()', 'children': ['28']},{'id': '28', 'type': 'binary_operator', 'children': ['29', '30'], 'value': '-'},{'id': '29', 'type': 'integer', 'children': [], 'value': '1'},{'id': '30', 'type': 'binary_operator', 'children': ['31', '32'], 'value': '*'},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '32', 'type': 'identifier', 'children': [], 'value': 'x'},{'id': '33', 'type': '()', 'children': ['34']},{'id': '34', 'type': 'binary_operator', 'children': ['35', '36'], 'value': '-'},{'id': '35', 'type': 'integer', 'children': [], 'value': '1'},{'id': '36', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '37', 'type': 'expression_statement', 'children': ['38']},{'id': '38', 'type': 'assignment', 'children': ['39', '40']},{'id': '39', 'type': 'identifier', 'children': [], 'value': 'pmf'},{'id': '40', 'type': 'call', 'children': ['41', '44']},{'id': '41', 'type': 'attribute', 'children': ['42', '43']},{'id': '42', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '43', 'type': 'identifier', 'children': [], 'value': 'append'},{'id': '44', 'type': 'argument_list', 'children': ['45', '46']},{'id': '45', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '46', 'type': 'binary_operator', 'children': ['47', '50'], 'value': '*'},{'id': '47', 'type': 'subscript', 'children': ['48', '49']},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'distribution'},{'id': '49', 'type': 'integer', 'children': [], 'value': '0'},{'id': '50', 'type': '()', 'children': ['51']},{'id': '51', 'type': 'binary_operator', 'children': ['52', '53'], 'value': '-'},{'id': '52', 'type': 'integer', 'children': [], 'value': '1'},{'id': '53', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '54', 'type': 'if_statement', 'children': ['55', '56']},{'id': '55', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '56', 'type': 'block', 'children': ['57', '66', '72']},{'id': '57', 'type': 'expression_statement', 'children': ['58']},{'id': '58', 'type': 'assignment', 'children': ['59', '60']},{'id': '59', 'type': 'identifier', 'children': [], 'value': 'indices'},{'id': '60', 'type': 'call', 'children': ['61', '64']},{'id': '61', 'type': 'attribute', 'children': ['62', '63']},{'id': '62', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '63', 'type': 'identifier', 'children': [], 'value': 'argsort'},{'id': '64', 'type': 'argument_list', 'children': ['65']},{'id': '65', 'type': 'identifier', 'children': [], 'value': 'X'},{'id': '66', 'type': 'expression_statement', 'children': ['67']},{'id': '67', 'type': 'assignment', 'children': ['68', '69']},{'id': '68', 'type': 'identifier', 'children': [], 'value': 'X'},{'id': '69', 'type': 'subscript', 'children': ['70', '71']},{'id': '70', 'type': 'identifier', 'children': [], 'value': 'X'},{'id': '71', 'type': 'identifier', 'children': [], 'value': 'indices'},{'id': '72', 'type': 'expression_statement', 'children': ['73']},{'id': '73', 'type': 'assignment', 'children': ['74', '75']},{'id': '74', 'type': 'identifier', 'children': [], 'value': 'pmf'},{'id': '75', 'type': 'subscript', 'children': ['76', '77']},{'id': '76', 'type': 'identifier', 'children': [], 'value': 'pmf'},{'id': '77', 'type': 'identifier', 'children': [], 'value': 'indices'},{'id': '78', 'type': 'return_statement', 'children': ['79']},{'id': '79', 'type': '()', 'children': ['80']},{'id': '80', 'type': 'list', 'children': ['81', '82'], 'value': '[pmf,X]'},{'id': '81', 'type': 'identifier', 'children': [], 'value': 'pmf'},{'id': '82', 'type': 'identifier', 'children': [], 'value': 'X'} | def addDiscreteOutcomeConstantMean(distribution, x, p, sort = False):
'''
Adds a discrete outcome of x with probability p to an existing distribution,
holding constant the relative probabilities of other outcomes and overall mean.
Parameters
----------
distribution : [np.array]
Two element list containing a list of probabilities and a list of outcomes.
x : float
The new value to be added to the distribution.
p : float
The probability of the discrete outcome x occuring.
sort: bool
Whether or not to sort X before returning it
Returns
-------
X : np.array
Discrete points for discrete probability mass function.
pmf : np.array
Probability associated with each point in X.
Written by Matthew N. White
Latest update: 08 December 2015 by David Low
'''
X = np.append(x,distribution[1]*(1-p*x)/(1-p))
pmf = np.append(p,distribution[0]*(1-p))
if sort:
indices = np.argsort(X)
X = X[indices]
pmf = pmf[indices]
return([pmf,X]) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '10']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'runStickyEregressionsInStata'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '7', '8', '9']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'infile_name'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'interval_size'},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'meas_err'},{'id': '7', 'type': 'identifier', 'children': [], 'value': 'sticky'},{'id': '8', 'type': 'identifier', 'children': [], 'value': 'all_specs'},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'stata_exe'},{'id': '10', 'type': 'block', 'children': ['11', '13', '17', '32', '45', '58', '75', '87', '97', '112', '157']},{'id': '11', 'type': 'expression_statement', 'children': ['12']},{'id': '12', 'type': 'string', 'children': [], 'value': '\'\'\'\n Runs regressions for the main tables of the StickyC paper in Stata and produces a\n LaTeX table with results for one "panel". Running in Stata allows production of\n the KP-statistic, for which there is currently no command in statsmodels.api.\n Parameters\n ----------\n infile_name : str\n Name of tab-delimited text file with simulation data. Assumed to be in\n the results directory, and was almost surely generated by makeStickyEdataFile\n unless we resort to fabricating simulated data. THAT\'S A JOKE, FUTURE REFEREES.\n interval_size : int\n Number of periods in each regression sample (or interval).\n meas_err : bool\n Indicator for whether to add measurement error to DeltaLogC.\n sticky : bool\n Indicator for whether these results used sticky expectations.\n all_specs : bool\n Indicator for whether this panel should include all specifications or\n just the OLS on lagged consumption growth.\n stata_exe : str\n Absolute location where the Stata executable can be found on the computer\n running this code. Usually set at the top of StickyEparams.py.\n Returns\n -------\n panel_text : str\n String with one panel\'s worth of LaTeX input.\n \'\'\''},{'id': '13', 'type': 'expression_statement', 'children': ['14']},{'id': '14', 'type': 'assignment', 'children': ['15', '16']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'dofile'},{'id': '16', 'type': 'string', 'children': [], 'value': '"StickyETimeSeries.do"'},{'id': '17', 'type': 'expression_statement', 'children': ['18']},{'id': '18', 'type': 'assignment', 'children': ['19', '20']},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'infile_name_full'},{'id': '20', 'type': 'call', 'children': ['21', '26']},{'id': '21', 'type': 'attribute', 'children': ['22', '25']},{'id': '22', 'type': 'attribute', 'children': ['23', '24']},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'os'},{'id': '24', 'type': 'identifier', 'children': [], 'value': 'path'},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'abspath'},{'id': '26', 'type': 'argument_list', 'children': ['27']},{'id': '27', 'type': 'binary_operator', 'children': ['28', '31'], 'value': '+'},{'id': '28', 'type': 'binary_operator', 'children': ['29', '30'], 'value': '+'},{'id': '29', 'type': 'identifier', 'children': [], 'value': 'results_dir'},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'infile_name'},{'id': '31', 'type': 'string', 'children': [], 'value': '".txt"'},{'id': '32', 'type': 'expression_statement', 'children': ['33']},{'id': '33', 'type': 'assignment', 'children': ['34', '35']},{'id': '34', 'type': 'identifier', 'children': [], 'value': 'temp_name_full'},{'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': 'os'},{'id': '39', 'type': 'identifier', 'children': [], 'value': 'path'},{'id': '40', 'type': 'identifier', 'children': [], 'value': 'abspath'},{'id': '41', 'type': 'argument_list', 'children': ['42']},{'id': '42', 'type': 'binary_operator', 'children': ['43', '44'], 'value': '+'},{'id': '43', 'type': 'identifier', 'children': [], 'value': 'results_dir'},{'id': '44', 'type': 'string', 'children': [], 'value': '"temp.txt"'},{'id': '45', 'type': 'if_statement', 'children': ['46', '47', '52']},{'id': '46', 'type': 'identifier', 'children': [], 'value': 'meas_err'},{'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': 'meas_err_stata'},{'id': '51', 'type': 'integer', 'children': [], 'value': '1'},{'id': '52', 'type': 'else_clause', 'children': ['53']},{'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': 'meas_err_stata'},{'id': '57', 'type': 'integer', 'children': [], 'value': '0'},{'id': '58', 'type': 'expression_statement', 'children': ['59']},{'id': '59', 'type': 'assignment', 'children': ['60', '61']},{'id': '60', 'type': 'identifier', 'children': [], 'value': 'cmd'},{'id': '61', 'type': 'list', 'children': ['62', '63', '64', '65', '66', '67', '71'], 'value': '[stata_exe, "do", dofile, infile_name_full, temp_name_full, str(interval_size), str(meas_err_stata)]'},{'id': '62', 'type': 'identifier', 'children': [], 'value': 'stata_exe'},{'id': '63', 'type': 'string', 'children': [], 'value': '"do"'},{'id': '64', 'type': 'identifier', 'children': [], 'value': 'dofile'},{'id': '65', 'type': 'identifier', 'children': [], 'value': 'infile_name_full'},{'id': '66', 'type': 'identifier', 'children': [], 'value': 'temp_name_full'},{'id': '67', 'type': 'call', 'children': ['68', '69']},{'id': '68', 'type': 'identifier', 'children': [], 'value': 'str'},{'id': '69', 'type': 'argument_list', 'children': ['70']},{'id': '70', 'type': 'identifier', 'children': [], 'value': 'interval_size'},{'id': '71', 'type': 'call', 'children': ['72', '73']},{'id': '72', 'type': 'identifier', 'children': [], 'value': 'str'},{'id': '73', 'type': 'argument_list', 'children': ['74']},{'id': '74', 'type': 'identifier', 'children': [], 'value': 'meas_err_stata'},{'id': '75', 'type': 'expression_statement', 'children': ['76']},{'id': '76', 'type': 'assignment', 'children': ['77', '78']},{'id': '77', 'type': 'identifier', 'children': [], 'value': 'stata_status'},{'id': '78', 'type': 'call', 'children': ['79', '82']},{'id': '79', 'type': 'attribute', 'children': ['80', '81']},{'id': '80', 'type': 'identifier', 'children': [], 'value': 'subprocess'},{'id': '81', 'type': 'identifier', 'children': [], 'value': 'call'},{'id': '82', 'type': 'argument_list', 'children': ['83', '84']},{'id': '83', 'type': 'identifier', 'children': [], 'value': 'cmd'},{'id': '84', 'type': 'keyword_argument', 'children': ['85', '86']},{'id': '85', 'type': 'identifier', 'children': [], 'value': 'shell'},{'id': '86', 'type': 'string', 'children': [], 'value': "'true'"},{'id': '87', 'type': 'if_statement', 'children': ['88', '91']},{'id': '88', 'type': 'comparison_operator', 'children': ['89', '90'], 'value': '!='},{'id': '89', 'type': 'identifier', 'children': [], 'value': 'stata_status'},{'id': '90', 'type': 'integer', 'children': [], 'value': '0'},{'id': '91', 'type': 'block', 'children': ['92']},{'id': '92', 'type': 'raise_statement', 'children': ['93']},{'id': '93', 'type': 'call', 'children': ['94', '95']},{'id': '94', 'type': 'identifier', 'children': [], 'value': 'ValueError'},{'id': '95', 'type': 'argument_list', 'children': ['96']},{'id': '96', 'type': 'string', 'children': [], 'value': "'Stata code could not run. Check the stata_exe in StickyEparams.py'"},{'id': '97', 'type': 'expression_statement', 'children': ['98']},{'id': '98', 'type': 'assignment', 'children': ['99', '100']},{'id': '99', 'type': 'identifier', 'children': [], 'value': 'stata_output'},{'id': '100', 'type': 'call', 'children': ['101', '104']},{'id': '101', 'type': 'attribute', 'children': ['102', '103']},{'id': '102', 'type': 'identifier', 'children': [], 'value': 'pd'},{'id': '103', 'type': 'identifier', 'children': [], 'value': 'read_csv'},{'id': '104', 'type': 'argument_list', 'children': ['105', '106', '109']},{'id': '105', 'type': 'identifier', 'children': [], 'value': 'temp_name_full'},{'id': '106', 'type': 'keyword_argument', 'children': ['107', '108']},{'id': '107', 'type': 'identifier', 'children': [], 'value': 'sep'},{'id': '108', 'type': 'string', 'children': [], 'value': "','"},{'id': '109', 'type': 'keyword_argument', 'children': ['110', '111']},{'id': '110', 'type': 'identifier', 'children': [], 'value': 'header'},{'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': 'panel_text'},{'id': '115', 'type': 'call', 'children': ['116', '117']},{'id': '116', 'type': 'identifier', 'children': [], 'value': 'makeResultsPanel'},{'id': '117', 'type': 'argument_list', 'children': ['118', '123', '128', '133', '138', '143', '148', '151', '154']},{'id': '118', 'type': 'keyword_argument', 'children': ['119', '120']},{'id': '119', 'type': 'identifier', 'children': [], 'value': 'Coeffs'},{'id': '120', 'type': 'attribute', 'children': ['121', '122']},{'id': '121', 'type': 'identifier', 'children': [], 'value': 'stata_output'},{'id': '122', 'type': 'identifier', 'children': [], 'value': 'CoeffsArray'},{'id': '123', 'type': 'keyword_argument', 'children': ['124', '125']},{'id': '124', 'type': 'identifier', 'children': [], 'value': 'StdErrs'},{'id': '125', 'type': 'attribute', 'children': ['126', '127']},{'id': '126', 'type': 'identifier', 'children': [], 'value': 'stata_output'},{'id': '127', 'type': 'identifier', 'children': [], 'value': 'StdErrArray'},{'id': '128', 'type': 'keyword_argument', 'children': ['129', '130']},{'id': '129', 'type': 'identifier', 'children': [], 'value': 'Rsq'},{'id': '130', 'type': 'attribute', 'children': ['131', '132']},{'id': '131', 'type': 'identifier', 'children': [], 'value': 'stata_output'},{'id': '132', 'type': 'identifier', 'children': [], 'value': 'RsqArray'},{'id': '133', 'type': 'keyword_argument', 'children': ['134', '135']},{'id': '134', 'type': 'identifier', 'children': [], 'value': 'Pvals'},{'id': '135', 'type': 'attribute', 'children': ['136', '137']},{'id': '136', 'type': 'identifier', 'children': [], 'value': 'stata_output'},{'id': '137', 'type': 'identifier', 'children': [], 'value': 'PvalArray'},{'id': '138', 'type': 'keyword_argument', 'children': ['139', '140']},{'id': '139', 'type': 'identifier', 'children': [], 'value': 'OID'},{'id': '140', 'type': 'attribute', 'children': ['141', '142']},{'id': '141', 'type': 'identifier', 'children': [], 'value': 'stata_output'},{'id': '142', 'type': 'identifier', 'children': [], 'value': 'OIDarray'},{'id': '143', 'type': 'keyword_argument', 'children': ['144', '145']},{'id': '144', 'type': 'identifier', 'children': [], 'value': 'Counts'},{'id': '145', 'type': 'attribute', 'children': ['146', '147']},{'id': '146', 'type': 'identifier', 'children': [], 'value': 'stata_output'},{'id': '147', 'type': 'identifier', 'children': [], 'value': 'ExtraInfo'},{'id': '148', 'type': 'keyword_argument', 'children': ['149', '150']},{'id': '149', 'type': 'identifier', 'children': [], 'value': 'meas_err'},{'id': '150', 'type': 'identifier', 'children': [], 'value': 'meas_err'},{'id': '151', 'type': 'keyword_argument', 'children': ['152', '153']},{'id': '152', 'type': 'identifier', 'children': [], 'value': 'sticky'},{'id': '153', 'type': 'identifier', 'children': [], 'value': 'sticky'},{'id': '154', 'type': 'keyword_argument', 'children': ['155', '156']},{'id': '155', 'type': 'identifier', 'children': [], 'value': 'all_specs'},{'id': '156', 'type': 'identifier', 'children': [], 'value': 'all_specs'},{'id': '157', 'type': 'return_statement', 'children': ['158']},{'id': '158', 'type': 'identifier', 'children': [], 'value': 'panel_text'} | def runStickyEregressionsInStata(infile_name,interval_size,meas_err,sticky,all_specs,stata_exe):
'''
Runs regressions for the main tables of the StickyC paper in Stata and produces a
LaTeX table with results for one "panel". Running in Stata allows production of
the KP-statistic, for which there is currently no command in statsmodels.api.
Parameters
----------
infile_name : str
Name of tab-delimited text file with simulation data. Assumed to be in
the results directory, and was almost surely generated by makeStickyEdataFile
unless we resort to fabricating simulated data. THAT'S A JOKE, FUTURE REFEREES.
interval_size : int
Number of periods in each regression sample (or interval).
meas_err : bool
Indicator for whether to add measurement error to DeltaLogC.
sticky : bool
Indicator for whether these results used sticky expectations.
all_specs : bool
Indicator for whether this panel should include all specifications or
just the OLS on lagged consumption growth.
stata_exe : str
Absolute location where the Stata executable can be found on the computer
running this code. Usually set at the top of StickyEparams.py.
Returns
-------
panel_text : str
String with one panel's worth of LaTeX input.
'''
dofile = "StickyETimeSeries.do"
infile_name_full = os.path.abspath(results_dir + infile_name + ".txt")
temp_name_full = os.path.abspath(results_dir + "temp.txt")
if meas_err:
meas_err_stata = 1
else:
meas_err_stata = 0
cmd = [stata_exe, "do", dofile, infile_name_full, temp_name_full, str(interval_size), str(meas_err_stata)]
stata_status = subprocess.call(cmd,shell = 'true')
if stata_status!=0:
raise ValueError('Stata code could not run. Check the stata_exe in StickyEparams.py')
stata_output = pd.read_csv(temp_name_full, sep=',',header=0)
panel_text = makeResultsPanel(Coeffs=stata_output.CoeffsArray,
StdErrs=stata_output.StdErrArray,
Rsq=stata_output.RsqArray,
Pvals=stata_output.PvalArray,
OID=stata_output.OIDarray,
Counts=stata_output.ExtraInfo,
meas_err=meas_err,
sticky=sticky,
all_specs=all_specs)
return panel_text |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '6']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'capability_functions'},{'id': '3', 'type': 'parameters', 'children': ['4', '5']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'fn'},{'id': '6', 'type': 'block', 'children': ['7', '18', '22', '66', '80', '91']},{'id': '7', 'type': 'if_statement', 'children': ['8', '9']},{'id': '8', 'type': 'identifier', 'children': [], 'value': '_debug'},{'id': '9', 'type': 'block', 'children': ['10']},{'id': '10', 'type': 'expression_statement', 'children': ['11']},{'id': '11', 'type': 'call', 'children': ['12', '15']},{'id': '12', 'type': 'attribute', 'children': ['13', '14']},{'id': '13', 'type': 'identifier', 'children': [], 'value': 'Collector'},{'id': '14', 'type': 'identifier', 'children': [], 'value': '_debug'},{'id': '15', 'type': 'argument_list', 'children': ['16', '17']},{'id': '16', 'type': 'string', 'children': [], 'value': '"capability_functions %r"'},{'id': '17', 'type': 'identifier', 'children': [], 'value': 'fn'},{'id': '18', 'type': 'expression_statement', 'children': ['19']},{'id': '19', 'type': 'assignment', 'children': ['20', '21']},{'id': '20', 'type': 'identifier', 'children': [], 'value': 'fns'},{'id': '21', 'type': 'list', 'children': [], 'value': '[]'},{'id': '22', 'type': 'for_statement', 'children': ['23', '24', '27']},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'cls'},{'id': '24', 'type': 'attribute', 'children': ['25', '26']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'capabilities'},{'id': '27', 'type': 'block', 'children': ['28', '37', '49']},{'id': '28', 'type': 'expression_statement', 'children': ['29']},{'id': '29', 'type': 'assignment', 'children': ['30', '31']},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'xfn'},{'id': '31', 'type': 'call', 'children': ['32', '33']},{'id': '32', 'type': 'identifier', 'children': [], 'value': 'getattr'},{'id': '33', 'type': 'argument_list', 'children': ['34', '35', '36']},{'id': '34', 'type': 'identifier', 'children': [], 'value': 'cls'},{'id': '35', 'type': 'identifier', 'children': [], 'value': 'fn'},{'id': '36', 'type': 'None', 'children': []},{'id': '37', 'type': 'if_statement', 'children': ['38', '39']},{'id': '38', 'type': 'identifier', 'children': [], 'value': '_debug'},{'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': 'Collector'},{'id': '44', 'type': 'identifier', 'children': [], 'value': '_debug'},{'id': '45', 'type': 'argument_list', 'children': ['46', '47', '48']},{'id': '46', 'type': 'string', 'children': [], 'value': '" - cls, xfn: %r, %r"'},{'id': '47', 'type': 'identifier', 'children': [], 'value': 'cls'},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'xfn'},{'id': '49', 'type': 'if_statement', 'children': ['50', '51']},{'id': '50', 'type': 'identifier', 'children': [], 'value': 'xfn'},{'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': 'fns'},{'id': '56', 'type': 'identifier', 'children': [], 'value': 'append'},{'id': '57', 'type': 'argument_list', 'children': ['58']},{'id': '58', 'type': 'tuple', 'children': ['59', '65']},{'id': '59', 'type': 'call', 'children': ['60', '61']},{'id': '60', 'type': 'identifier', 'children': [], 'value': 'getattr'},{'id': '61', 'type': 'argument_list', 'children': ['62', '63', '64']},{'id': '62', 'type': 'identifier', 'children': [], 'value': 'cls'},{'id': '63', 'type': 'string', 'children': [], 'value': "'_zindex'"},{'id': '64', 'type': 'None', 'children': []},{'id': '65', 'type': 'identifier', 'children': [], 'value': 'xfn'},{'id': '66', 'type': 'expression_statement', 'children': ['67']},{'id': '67', 'type': 'call', 'children': ['68', '71']},{'id': '68', 'type': 'attribute', 'children': ['69', '70']},{'id': '69', 'type': 'identifier', 'children': [], 'value': 'fns'},{'id': '70', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '71', 'type': 'argument_list', 'children': ['72']},{'id': '72', 'type': 'keyword_argument', 'children': ['73', '74']},{'id': '73', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '74', 'type': 'lambda', 'children': ['75', '77']},{'id': '75', 'type': 'lambda_parameters', 'children': ['76']},{'id': '76', 'type': 'identifier', 'children': [], 'value': 'v'},{'id': '77', 'type': 'subscript', 'children': ['78', '79']},{'id': '78', 'type': 'identifier', 'children': [], 'value': 'v'},{'id': '79', 'type': 'integer', 'children': [], 'value': '0'},{'id': '80', 'type': 'if_statement', 'children': ['81', '82']},{'id': '81', 'type': 'identifier', 'children': [], 'value': '_debug'},{'id': '82', 'type': 'block', 'children': ['83']},{'id': '83', 'type': 'expression_statement', 'children': ['84']},{'id': '84', 'type': 'call', 'children': ['85', '88']},{'id': '85', 'type': 'attribute', 'children': ['86', '87']},{'id': '86', 'type': 'identifier', 'children': [], 'value': 'Collector'},{'id': '87', 'type': 'identifier', 'children': [], 'value': '_debug'},{'id': '88', 'type': 'argument_list', 'children': ['89', '90']},{'id': '89', 'type': 'string', 'children': [], 'value': '" - fns: %r"'},{'id': '90', 'type': 'identifier', 'children': [], 'value': 'fns'},{'id': '91', 'type': 'for_statement', 'children': ['92', '95', '96']},{'id': '92', 'type': 'pattern_list', 'children': ['93', '94']},{'id': '93', 'type': 'identifier', 'children': [], 'value': 'xindx'},{'id': '94', 'type': 'identifier', 'children': [], 'value': 'xfn'},{'id': '95', 'type': 'identifier', 'children': [], 'value': 'fns'},{'id': '96', 'type': 'block', 'children': ['97', '108']},{'id': '97', 'type': 'if_statement', 'children': ['98', '99']},{'id': '98', 'type': 'identifier', 'children': [], 'value': '_debug'},{'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': 'Collector'},{'id': '104', 'type': 'identifier', 'children': [], 'value': '_debug'},{'id': '105', 'type': 'argument_list', 'children': ['106', '107']},{'id': '106', 'type': 'string', 'children': [], 'value': '" - yield xfn: %r"'},{'id': '107', 'type': 'identifier', 'children': [], 'value': 'xfn'},{'id': '108', 'type': 'expression_statement', 'children': ['109']},{'id': '109', 'type': 'yield', 'children': ['110']},{'id': '110', 'type': 'identifier', 'children': [], 'value': 'xfn'} | def capability_functions(self, fn):
if _debug: Collector._debug("capability_functions %r", fn)
fns = []
for cls in self.capabilities:
xfn = getattr(cls, fn, None)
if _debug: Collector._debug(" - cls, xfn: %r, %r", cls, xfn)
if xfn:
fns.append( (getattr(cls, '_zindex', None), xfn) )
fns.sort(key=lambda v: v[0])
if _debug: Collector._debug(" - fns: %r", fns)
for xindx, xfn in fns:
if _debug: Collector._debug(" - yield xfn: %r", xfn)
yield xfn |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '7']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'add'},{'id': '3', 'type': 'parameters', 'children': ['4', '5']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'list_splat_pattern', 'children': ['6']},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'items'},{'id': '7', 'type': 'block', 'children': ['8', '35']},{'id': '8', 'type': 'for_statement', 'children': ['9', '10', '11']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'item'},{'id': '10', 'type': 'identifier', 'children': [], 'value': 'items'},{'id': '11', 'type': 'block', 'children': ['12', '21', '27']},{'id': '12', 'type': 'expression_statement', 'children': ['13']},{'id': '13', 'type': 'call', 'children': ['14', '19']},{'id': '14', 'type': 'attribute', 'children': ['15', '18']},{'id': '15', 'type': 'attribute', 'children': ['16', '17']},{'id': '16', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '17', 'type': 'identifier', 'children': [], 'value': 'unsorted'},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'append'},{'id': '19', 'type': 'argument_list', 'children': ['20']},{'id': '20', 'type': 'identifier', 'children': [], 'value': 'item'},{'id': '21', 'type': 'expression_statement', 'children': ['22']},{'id': '22', 'type': 'assignment', 'children': ['23', '24']},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '24', 'type': 'subscript', 'children': ['25', '26']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'item'},{'id': '26', 'type': 'integer', 'children': [], 'value': '0'},{'id': '27', 'type': 'expression_statement', 'children': ['28']},{'id': '28', 'type': 'assignment', 'children': ['29', '34']},{'id': '29', 'type': 'subscript', 'children': ['30', '33']},{'id': '30', 'type': 'attribute', 'children': ['31', '32']},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '32', 'type': 'identifier', 'children': [], 'value': 'index'},{'id': '33', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '34', 'type': 'identifier', 'children': [], 'value': 'item'},{'id': '35', 'type': 'return_statement', 'children': ['36']},{'id': '36', 'type': 'identifier', 'children': [], 'value': 'self'} | def add(self, *items):
for item in items:
self.unsorted.append(item)
key = item[0]
self.index[key] = item
return self |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'sort'},{'id': '3', 'type': 'parameters', 'children': ['4']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'block', 'children': ['6', '14', '22', '129', '137']},{'id': '6', 'type': 'expression_statement', 'children': ['7']},{'id': '7', 'type': 'assignment', 'children': ['8', '11']},{'id': '8', 'type': 'attribute', 'children': ['9', '10']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '10', 'type': 'identifier', 'children': [], 'value': 'sorted'},{'id': '11', 'type': 'call', 'children': ['12', '13']},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'list'},{'id': '13', 'type': 'argument_list', 'children': []},{'id': '14', 'type': 'expression_statement', 'children': ['15']},{'id': '15', 'type': 'assignment', 'children': ['16', '19']},{'id': '16', 'type': 'attribute', 'children': ['17', '18']},{'id': '17', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'pushed'},{'id': '19', 'type': 'call', 'children': ['20', '21']},{'id': '20', 'type': 'identifier', 'children': [], 'value': 'set'},{'id': '21', 'type': 'argument_list', 'children': []},{'id': '22', 'type': 'for_statement', 'children': ['23', '24', '27']},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'item'},{'id': '24', 'type': 'attribute', 'children': ['25', '26']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'unsorted'},{'id': '27', 'type': 'block', 'children': ['28', '32', '39', '116']},{'id': '28', 'type': 'expression_statement', 'children': ['29']},{'id': '29', 'type': 'assignment', 'children': ['30', '31']},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'popped'},{'id': '31', 'type': 'list', 'children': [], 'value': '[]'},{'id': '32', 'type': 'expression_statement', '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': 'push'},{'id': '37', 'type': 'argument_list', 'children': ['38']},{'id': '38', 'type': 'identifier', 'children': [], 'value': 'item'},{'id': '39', 'type': 'while_statement', 'children': ['40', '46']},{'id': '40', 'type': 'call', 'children': ['41', '42']},{'id': '41', 'type': 'identifier', 'children': [], 'value': 'len'},{'id': '42', 'type': 'argument_list', 'children': ['43']},{'id': '43', 'type': 'attribute', 'children': ['44', '45']},{'id': '44', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '45', 'type': 'identifier', 'children': [], 'value': 'stack'},{'id': '46', 'type': 'block', 'children': ['47']},{'id': '47', 'type': 'try_statement', 'children': ['48', '101']},{'id': '48', 'type': 'block', 'children': ['49', '57', '66', '77', '94']},{'id': '49', 'type': 'expression_statement', 'children': ['50']},{'id': '50', 'type': 'assignment', 'children': ['51', '52']},{'id': '51', 'type': 'identifier', 'children': [], 'value': 'top'},{'id': '52', 'type': 'call', 'children': ['53', '56']},{'id': '53', 'type': 'attribute', 'children': ['54', '55']},{'id': '54', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '55', 'type': 'identifier', 'children': [], 'value': 'top'},{'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': 'ref'},{'id': '60', 'type': 'call', 'children': ['61', '62']},{'id': '61', 'type': 'identifier', 'children': [], 'value': 'next'},{'id': '62', 'type': 'argument_list', 'children': ['63']},{'id': '63', 'type': 'subscript', 'children': ['64', '65']},{'id': '64', 'type': 'identifier', 'children': [], 'value': 'top'},{'id': '65', 'type': 'integer', 'children': [], 'value': '1'},{'id': '66', 'type': 'expression_statement', 'children': ['67']},{'id': '67', 'type': 'assignment', 'children': ['68', '69']},{'id': '68', 'type': 'identifier', 'children': [], 'value': 'refd'},{'id': '69', 'type': 'call', 'children': ['70', '75']},{'id': '70', 'type': 'attribute', 'children': ['71', '74']},{'id': '71', 'type': 'attribute', 'children': ['72', '73']},{'id': '72', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '73', 'type': 'identifier', 'children': [], 'value': 'index'},{'id': '74', 'type': 'identifier', 'children': [], 'value': 'get'},{'id': '75', 'type': 'argument_list', 'children': ['76']},{'id': '76', 'type': 'identifier', 'children': [], 'value': 'ref'},{'id': '77', 'type': 'if_statement', 'children': ['78', '81']},{'id': '78', 'type': 'comparison_operator', 'children': ['79', '80'], 'value': 'is'},{'id': '79', 'type': 'identifier', 'children': [], 'value': 'refd'},{'id': '80', 'type': 'None', 'children': []},{'id': '81', 'type': 'block', 'children': ['82', '93']},{'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': 'log'},{'id': '86', 'type': 'identifier', 'children': [], 'value': 'debug'},{'id': '87', 'type': 'argument_list', 'children': ['88', '89']},{'id': '88', 'type': 'string', 'children': [], 'value': '\'"%s" not found, skipped\''},{'id': '89', 'type': 'call', 'children': ['90', '91']},{'id': '90', 'type': 'identifier', 'children': [], 'value': 'Repr'},{'id': '91', 'type': 'argument_list', 'children': ['92']},{'id': '92', 'type': 'identifier', 'children': [], 'value': 'ref'},{'id': '93', 'type': 'continue_statement', 'children': []},{'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': 'self'},{'id': '98', 'type': 'identifier', 'children': [], 'value': 'push'},{'id': '99', 'type': 'argument_list', 'children': ['100']},{'id': '100', 'type': 'identifier', 'children': [], 'value': 'refd'},{'id': '101', 'type': 'except_clause', 'children': ['102', '103']},{'id': '102', 'type': 'identifier', 'children': [], 'value': 'StopIteration'},{'id': '103', 'type': 'block', 'children': ['104', '115']},{'id': '104', 'type': 'expression_statement', 'children': ['105']},{'id': '105', 'type': 'call', 'children': ['106', '109']},{'id': '106', 'type': 'attribute', 'children': ['107', '108']},{'id': '107', 'type': 'identifier', 'children': [], 'value': 'popped'},{'id': '108', 'type': 'identifier', 'children': [], 'value': 'append'},{'id': '109', 'type': 'argument_list', 'children': ['110']},{'id': '110', 'type': 'call', 'children': ['111', '114']},{'id': '111', 'type': 'attribute', 'children': ['112', '113']},{'id': '112', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '113', 'type': 'identifier', 'children': [], 'value': 'pop'},{'id': '114', 'type': 'argument_list', 'children': []},{'id': '115', 'type': 'continue_statement', 'children': []},{'id': '116', 'type': 'for_statement', 'children': ['117', '118', '119']},{'id': '117', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '118', 'type': 'identifier', 'children': [], 'value': 'popped'},{'id': '119', 'type': 'block', 'children': ['120']},{'id': '120', 'type': 'expression_statement', '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': 'self'},{'id': '125', 'type': 'identifier', 'children': [], 'value': 'sorted'},{'id': '126', 'type': 'identifier', 'children': [], 'value': 'append'},{'id': '127', 'type': 'argument_list', 'children': ['128']},{'id': '128', 'type': 'identifier', 'children': [], 'value': 'p'},{'id': '129', 'type': 'expression_statement', 'children': ['130']},{'id': '130', 'type': 'assignment', 'children': ['131', '134']},{'id': '131', 'type': 'attribute', 'children': ['132', '133']},{'id': '132', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '133', 'type': 'identifier', 'children': [], 'value': 'unsorted'},{'id': '134', 'type': 'attribute', 'children': ['135', '136']},{'id': '135', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '136', 'type': 'identifier', 'children': [], 'value': 'sorted'},{'id': '137', 'type': 'return_statement', 'children': ['138']},{'id': '138', 'type': 'attribute', 'children': ['139', '140']},{'id': '139', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '140', 'type': 'identifier', 'children': [], 'value': 'sorted'} | def sort(self):
self.sorted = list()
self.pushed = set()
for item in self.unsorted:
popped = []
self.push(item)
while len(self.stack):
try:
top = self.top()
ref = next(top[1])
refd = self.index.get(ref)
if refd is None:
log.debug('"%s" not found, skipped', Repr(ref))
continue
self.push(refd)
except StopIteration:
popped.append(self.pop())
continue
for p in popped:
self.sorted.append(p)
self.unsorted = self.sorted
return self.sorted |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '6']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'push'},{'id': '3', 'type': 'parameters', 'children': ['4', '5']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'item'},{'id': '6', 'type': 'block', 'children': ['7', '15', '26', '35']},{'id': '7', 'type': 'if_statement', 'children': ['8', '13']},{'id': '8', 'type': 'comparison_operator', 'children': ['9', '10'], 'value': 'in'},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'item'},{'id': '10', 'type': 'attribute', 'children': ['11', '12']},{'id': '11', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'pushed'},{'id': '13', 'type': 'block', 'children': ['14']},{'id': '14', 'type': 'return_statement', 'children': []},{'id': '15', 'type': 'expression_statement', 'children': ['16']},{'id': '16', 'type': 'assignment', 'children': ['17', '18']},{'id': '17', 'type': 'identifier', 'children': [], 'value': 'frame'},{'id': '18', 'type': 'tuple', 'children': ['19', '20']},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'item'},{'id': '20', 'type': 'call', 'children': ['21', '22']},{'id': '21', 'type': 'identifier', 'children': [], 'value': 'iter'},{'id': '22', 'type': 'argument_list', 'children': ['23']},{'id': '23', 'type': 'subscript', 'children': ['24', '25']},{'id': '24', 'type': 'identifier', 'children': [], 'value': 'item'},{'id': '25', 'type': 'integer', 'children': [], 'value': '1'},{'id': '26', 'type': 'expression_statement', 'children': ['27']},{'id': '27', 'type': 'call', 'children': ['28', '33']},{'id': '28', 'type': 'attribute', 'children': ['29', '32']},{'id': '29', 'type': 'attribute', 'children': ['30', '31']},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'stack'},{'id': '32', 'type': 'identifier', 'children': [], 'value': 'append'},{'id': '33', 'type': 'argument_list', 'children': ['34']},{'id': '34', 'type': 'identifier', 'children': [], 'value': 'frame'},{'id': '35', 'type': 'expression_statement', 'children': ['36']},{'id': '36', 'type': 'call', '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': 'pushed'},{'id': '41', 'type': 'identifier', 'children': [], 'value': 'add'},{'id': '42', 'type': 'argument_list', 'children': ['43']},{'id': '43', 'type': 'identifier', 'children': [], 'value': 'item'} | def push(self, item):
if item in self.pushed:
return
frame = (item, iter(item[1]))
self.stack.append(frame)
self.pushed.add(item) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '6']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'sort'},{'id': '3', 'type': 'parameters', 'children': ['4', '5']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'content'},{'id': '6', 'type': 'block', 'children': ['7', '13', '39']},{'id': '7', 'type': 'expression_statement', 'children': ['8']},{'id': '8', 'type': 'assignment', 'children': ['9', '10']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'v'},{'id': '10', 'type': 'attribute', 'children': ['11', '12']},{'id': '11', 'type': 'identifier', 'children': [], 'value': 'content'},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'value'},{'id': '13', 'type': 'if_statement', 'children': ['14', '19']},{'id': '14', 'type': 'call', 'children': ['15', '16']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'isinstance'},{'id': '16', 'type': 'argument_list', 'children': ['17', '18']},{'id': '17', 'type': 'identifier', 'children': [], 'value': 'v'},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'Object'},{'id': '19', 'type': 'block', 'children': ['20', '26']},{'id': '20', 'type': 'expression_statement', 'children': ['21']},{'id': '21', 'type': 'assignment', 'children': ['22', '23']},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'md'},{'id': '23', 'type': 'attribute', 'children': ['24', '25']},{'id': '24', 'type': 'identifier', 'children': [], 'value': 'v'},{'id': '25', 'type': 'identifier', 'children': [], 'value': '__metadata__'},{'id': '26', 'type': 'expression_statement', 'children': ['27']},{'id': '27', 'type': 'assignment', 'children': ['28', '31']},{'id': '28', 'type': 'attribute', 'children': ['29', '30']},{'id': '29', 'type': 'identifier', 'children': [], 'value': 'md'},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'ordering'},{'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': 'ordering'},{'id': '35', 'type': 'argument_list', 'children': ['36']},{'id': '36', 'type': 'attribute', 'children': ['37', '38']},{'id': '37', 'type': 'identifier', 'children': [], 'value': 'content'},{'id': '38', 'type': 'identifier', 'children': [], 'value': 'real'},{'id': '39', 'type': 'return_statement', 'children': ['40']},{'id': '40', 'type': 'identifier', 'children': [], 'value': 'self'} | def sort(self, content):
v = content.value
if isinstance(v, Object):
md = v.__metadata__
md.ordering = self.ordering(content.real)
return self |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '8']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'alerts'},{'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': 'alert_level'},{'id': '7', 'type': 'string', 'children': [], 'value': "'High'"},{'id': '8', 'type': 'block', 'children': ['9', '21', '29', '65']},{'id': '9', 'type': 'expression_statement', 'children': ['10']},{'id': '10', 'type': 'assignment', 'children': ['11', '12']},{'id': '11', 'type': 'identifier', 'children': [], 'value': 'alerts'},{'id': '12', 'type': 'call', 'children': ['13', '20']},{'id': '13', 'type': 'attribute', 'children': ['14', '19']},{'id': '14', 'type': 'attribute', 'children': ['15', '18']},{'id': '15', 'type': 'attribute', 'children': ['16', '17']},{'id': '16', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '17', 'type': 'identifier', 'children': [], 'value': 'zap'},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'core'},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'alerts'},{'id': '20', 'type': 'argument_list', 'children': []},{'id': '21', 'type': 'expression_statement', 'children': ['22']},{'id': '22', 'type': 'assignment', 'children': ['23', '24']},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'alert_level_value'},{'id': '24', 'type': 'subscript', 'children': ['25', '28']},{'id': '25', 'type': 'attribute', 'children': ['26', '27']},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '27', 'type': 'identifier', 'children': [], 'value': 'alert_levels'},{'id': '28', 'type': 'identifier', 'children': [], 'value': 'alert_level'},{'id': '29', 'type': 'expression_statement', 'children': ['30']},{'id': '30', 'type': 'assignment', 'children': ['31', '32']},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'alerts'},{'id': '32', 'type': 'call', 'children': ['33', '34']},{'id': '33', 'type': 'identifier', 'children': [], 'value': 'sorted'},{'id': '34', 'type': 'argument_list', 'children': ['35', '50', '62']},{'id': '35', 'type': 'generator_expression', 'children': ['36', '37', '40']},{'id': '36', 'type': 'identifier', 'children': [], 'value': 'a'},{'id': '37', 'type': 'for_in_clause', 'children': ['38', '39']},{'id': '38', 'type': 'identifier', 'children': [], 'value': 'a'},{'id': '39', 'type': 'identifier', 'children': [], 'value': 'alerts'},{'id': '40', 'type': 'if_clause', 'children': ['41']},{'id': '41', 'type': 'comparison_operator', 'children': ['42', '49'], 'value': '>='},{'id': '42', 'type': 'subscript', 'children': ['43', '46']},{'id': '43', 'type': 'attribute', 'children': ['44', '45']},{'id': '44', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '45', 'type': 'identifier', 'children': [], 'value': 'alert_levels'},{'id': '46', 'type': 'subscript', 'children': ['47', '48']},{'id': '47', 'type': 'identifier', 'children': [], 'value': 'a'},{'id': '48', 'type': 'string', 'children': [], 'value': "'risk'"},{'id': '49', 'type': 'identifier', 'children': [], 'value': 'alert_level_value'},{'id': '50', 'type': 'keyword_argument', 'children': ['51', '52']},{'id': '51', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '52', 'type': 'lambda', 'children': ['53', '55']},{'id': '53', 'type': 'lambda_parameters', 'children': ['54']},{'id': '54', 'type': 'identifier', 'children': [], 'value': 'k'},{'id': '55', 'type': 'subscript', 'children': ['56', '59']},{'id': '56', 'type': 'attribute', 'children': ['57', '58']},{'id': '57', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '58', 'type': 'identifier', 'children': [], 'value': 'alert_levels'},{'id': '59', 'type': 'subscript', 'children': ['60', '61']},{'id': '60', 'type': 'identifier', 'children': [], 'value': 'k'},{'id': '61', 'type': 'string', 'children': [], 'value': "'risk'"},{'id': '62', 'type': 'keyword_argument', 'children': ['63', '64']},{'id': '63', 'type': 'identifier', 'children': [], 'value': 'reverse'},{'id': '64', 'type': 'True', 'children': []},{'id': '65', 'type': 'return_statement', 'children': ['66']},{'id': '66', 'type': 'identifier', 'children': [], 'value': 'alerts'} | def alerts(self, alert_level='High'):
alerts = self.zap.core.alerts()
alert_level_value = self.alert_levels[alert_level]
alerts = sorted((a for a in alerts if self.alert_levels[a['risk']] >= alert_level_value),
key=lambda k: self.alert_levels[k['risk']], reverse=True)
return alerts |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '8']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'assortativity_bin'},{'id': '3', 'type': 'parameters', 'children': ['4', '5']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'CIJ'},{'id': '5', 'type': 'default_parameter', 'children': ['6', '7']},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'flag'},{'id': '7', 'type': 'integer', 'children': [], 'value': '0'},{'id': '8', 'type': 'block', 'children': ['9', '11', '168', '181', '202', '222', '234']},{'id': '9', 'type': 'expression_statement', 'children': ['10']},{'id': '10', 'type': 'string', 'children': [], 'value': "'''\n The assortativity coefficient is a correlation coefficient between the\n degrees of all nodes on two opposite ends of a link. A positive\n assortativity coefficient indicates that nodes tend to link to other\n nodes with the same or similar degree.\n Parameters\n ----------\n CIJ : NxN np.ndarray\n binary directed/undirected connection matrix\n flag : int\n 0 : undirected graph; degree/degree correlation\n 1 : directed graph; out-degree/in-degree correlation\n 2 : directed graph; in-degree/out-degree correlation\n 3 : directed graph; out-degree/out-degree correlation\n 4 : directed graph; in-degree/in-degreen correlation\n Returns\n -------\n r : float\n assortativity coefficient\n Notes\n -----\n The function accepts weighted networks, but all connection\n weights are ignored. The main diagonal should be empty. For flag 1\n the function computes the directed assortativity described in Rubinov\n and Sporns (2010) NeuroImage.\n '''"},{'id': '11', 'type': 'if_statement', 'children': ['12', '15', '61']},{'id': '12', 'type': 'comparison_operator', 'children': ['13', '14'], 'value': '=='},{'id': '13', 'type': 'identifier', 'children': [], 'value': 'flag'},{'id': '14', 'type': 'integer', 'children': [], 'value': '0'},{'id': '15', 'type': 'block', 'children': ['16', '23', '42', '49', '55']},{'id': '16', 'type': 'expression_statement', 'children': ['17']},{'id': '17', 'type': 'assignment', 'children': ['18', '19']},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'deg'},{'id': '19', 'type': 'call', 'children': ['20', '21']},{'id': '20', 'type': 'identifier', 'children': [], 'value': 'degrees_und'},{'id': '21', 'type': 'argument_list', 'children': ['22']},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'CIJ'},{'id': '23', 'type': 'expression_statement', 'children': ['24']},{'id': 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[], 'value': 'CIJ'},{'id': '40', 'type': 'integer', 'children': [], 'value': '1'},{'id': '41', 'type': 'integer', 'children': [], 'value': '0'},{'id': '42', 'type': 'expression_statement', 'children': ['43']},{'id': '43', 'type': 'assignment', 'children': ['44', '45']},{'id': '44', 'type': 'identifier', 'children': [], 'value': 'K'},{'id': '45', 'type': 'call', 'children': ['46', '47']},{'id': '46', 'type': 'identifier', 'children': [], 'value': 'len'},{'id': '47', 'type': 'argument_list', 'children': ['48']},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '49', 'type': 'expression_statement', 'children': ['50']},{'id': '50', 'type': 'assignment', 'children': ['51', '52']},{'id': '51', 'type': 'identifier', 'children': [], 'value': 'degi'},{'id': '52', 'type': 'subscript', 'children': ['53', '54']},{'id': '53', 'type': 'identifier', 'children': [], 'value': 'deg'},{'id': '54', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '55', 'type': 'expression_statement', 'children': ['56']},{'id': '56', 'type': 'assignment', 'children': ['57', '58']},{'id': '57', 'type': 'identifier', 'children': [], 'value': 'degj'},{'id': '58', 'type': 'subscript', 'children': ['59', '60']},{'id': '59', 'type': 'identifier', 'children': [], 'value': 'deg'},{'id': '60', 'type': 'identifier', 'children': [], 'value': 'j'},{'id': '61', 'type': 'else_clause', 'children': ['62']},{'id': '62', 'type': 'block', 'children': ['63', '73', '86', '93']},{'id': '63', 'type': 'expression_statement', 'children': ['64']},{'id': '64', 'type': 'assignment', 'children': ['65', '69']},{'id': '65', 'type': 'pattern_list', 'children': ['66', '67', '68']},{'id': '66', 'type': 'identifier', 'children': [], 'value': 'id'},{'id': '67', 'type': 'identifier', 'children': [], 'value': 'od'},{'id': '68', 'type': 'identifier', 'children': [], 'value': 'deg'},{'id': '69', 'type': 'call', 'children': ['70', '71']},{'id': '70', 'type': 'identifier', 'children': [], 'value': 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'expression_statement', 'children': ['87']},{'id': '87', 'type': 'assignment', 'children': ['88', '89']},{'id': '88', 'type': 'identifier', 'children': [], 'value': 'K'},{'id': '89', 'type': 'call', 'children': ['90', '91']},{'id': '90', 'type': 'identifier', 'children': [], 'value': 'len'},{'id': '91', 'type': 'argument_list', 'children': ['92']},{'id': '92', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '93', 'type': 'if_statement', 'children': ['94', '97', '110', '127', '144', '161']},{'id': '94', 'type': 'comparison_operator', 'children': ['95', '96'], 'value': '=='},{'id': '95', 'type': 'identifier', 'children': [], 'value': 'flag'},{'id': '96', 'type': 'integer', 'children': [], 'value': '1'},{'id': '97', 'type': 'block', 'children': ['98', '104']},{'id': '98', 'type': 'expression_statement', 'children': ['99']},{'id': '99', 'type': 'assignment', 'children': ['100', '101']},{'id': '100', 'type': 'identifier', 'children': [], 'value': 'degi'},{'id': '101', 'type': 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'type': 'assignment', 'children': ['117', '118']},{'id': '117', 'type': 'identifier', 'children': [], 'value': 'degi'},{'id': '118', 'type': 'subscript', 'children': ['119', '120']},{'id': '119', 'type': 'identifier', 'children': [], 'value': 'id'},{'id': '120', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '121', 'type': 'expression_statement', 'children': ['122']},{'id': '122', 'type': 'assignment', 'children': ['123', '124']},{'id': '123', 'type': 'identifier', 'children': [], 'value': 'degj'},{'id': '124', 'type': 'subscript', 'children': ['125', '126']},{'id': '125', 'type': 'identifier', 'children': [], 'value': 'od'},{'id': '126', 'type': 'identifier', 'children': [], 'value': 'j'},{'id': '127', 'type': 'elif_clause', 'children': ['128', '131']},{'id': '128', 'type': 'comparison_operator', 'children': ['129', '130'], 'value': '=='},{'id': '129', 'type': 'identifier', 'children': [], 'value': 'flag'},{'id': '130', 'type': 'integer', 'children': [], 'value': '3'},{'id': '131', 'type': 'block', 'children': ['132', '138']},{'id': '132', 'type': 'expression_statement', 'children': ['133']},{'id': '133', 'type': 'assignment', 'children': ['134', '135']},{'id': '134', 'type': 'identifier', 'children': [], 'value': 'degi'},{'id': '135', 'type': 'subscript', 'children': ['136', '137']},{'id': '136', 'type': 'identifier', 'children': [], 'value': 'od'},{'id': '137', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '138', 'type': 'expression_statement', 'children': ['139']},{'id': '139', 'type': 'assignment', 'children': ['140', '141']},{'id': '140', 'type': 'identifier', 'children': [], 'value': 'degj'},{'id': '141', 'type': 'subscript', 'children': ['142', '143']},{'id': '142', 'type': 'identifier', 'children': [], 'value': 'od'},{'id': '143', 'type': 'identifier', 'children': [], 'value': 'j'},{'id': '144', 'type': 'elif_clause', 'children': ['145', '148']},{'id': '145', 'type': 'comparison_operator', 'children': ['146', '147'], 'value': '=='},{'id': '146', 'type': 'identifier', 'children': [], 'value': 'flag'},{'id': '147', 'type': 'integer', 'children': [], 'value': '4'},{'id': '148', 'type': 'block', 'children': ['149', '155']},{'id': '149', 'type': 'expression_statement', 'children': ['150']},{'id': '150', 'type': 'assignment', 'children': ['151', '152']},{'id': '151', 'type': 'identifier', 'children': [], 'value': 'degi'},{'id': '152', 'type': 'subscript', 'children': ['153', '154']},{'id': '153', 'type': 'identifier', 'children': [], 'value': 'id'},{'id': '154', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '155', 'type': 'expression_statement', 'children': ['156']},{'id': '156', 'type': 'assignment', 'children': ['157', '158']},{'id': '157', 'type': 'identifier', 'children': [], 'value': 'degj'},{'id': '158', 'type': 'subscript', 'children': ['159', '160']},{'id': '159', 'type': 'identifier', 'children': [], 'value': 'id'},{'id': '160', 'type': 'identifier', 'children': [], 'value': 'j'},{'id': '161', 'type': 'else_clause', 'children': ['162']},{'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': 'ValueError'},{'id': '166', 'type': 'argument_list', 'children': ['167']},{'id': '167', 'type': 'string', 'children': [], 'value': "'Flag must be 0-4'"},{'id': '168', 'type': 'expression_statement', 'children': ['169']},{'id': '169', 'type': 'assignment', 'children': ['170', '171']},{'id': '170', 'type': 'identifier', 'children': [], 'value': 'term1'},{'id': '171', 'type': 'binary_operator', 'children': ['172', '180'], 'value': '/'},{'id': '172', 'type': 'call', 'children': ['173', '176']},{'id': '173', 'type': 'attribute', 'children': ['174', '175']},{'id': '174', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '175', 'type': 'identifier', 'children': [], 'value': 'sum'},{'id': '176', 'type': 'argument_list', 'children': ['177']},{'id': '177', 'type': 'binary_operator', 'children': ['178', '179'], 'value': '*'},{'id': '178', 'type': 'identifier', 'children': [], 'value': 'degi'},{'id': '179', 'type': 'identifier', 'children': [], 'value': 'degj'},{'id': '180', 'type': 'identifier', 'children': [], 'value': 'K'},{'id': '181', 'type': 'expression_statement', 'children': ['182']},{'id': '182', 'type': 'assignment', 'children': ['183', '184']},{'id': '183', 'type': 'identifier', 'children': [], 'value': 'term2'},{'id': '184', 'type': 'call', 'children': ['185', '188']},{'id': '185', 'type': 'attribute', 'children': ['186', '187']},{'id': '186', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '187', 'type': 'identifier', 'children': [], 'value': 'square'},{'id': '188', 'type': 'argument_list', 'children': ['189']},{'id': '189', 'type': 'binary_operator', 'children': ['190', '201'], 'value': '/'},{'id': '190', 'type': 'call', 'children': ['191', '194']},{'id': '191', 'type': 'attribute', 'children': ['192', '193']},{'id': '192', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '193', 'type': 'identifier', 'children': [], 'value': 'sum'},{'id': '194', 'type': 'argument_list', 'children': ['195']},{'id': '195', 'type': 'binary_operator', 'children': ['196', '197'], 'value': '*'},{'id': '196', 'type': 'float', 'children': [], 'value': '.5'},{'id': '197', 'type': '()', 'children': ['198']},{'id': '198', 'type': 'binary_operator', 'children': ['199', '200'], 'value': '+'},{'id': '199', 'type': 'identifier', 'children': [], 'value': 'degi'},{'id': '200', 'type': 'identifier', 'children': [], 'value': 'degj'},{'id': '201', 'type': 'identifier', 'children': [], 'value': 'K'},{'id': '202', 'type': 'expression_statement', 'children': ['203']},{'id': '203', 'type': 'assignment', 'children': ['204', '205']},{'id': '204', 'type': 'identifier', 'children': [], 'value': 'term3'},{'id': '205', 'type': 'binary_operator', 'children': ['206', '221'], 'value': '/'},{'id': '206', 'type': 'call', 'children': ['207', '210']},{'id': '207', 'type': 'attribute', 'children': ['208', '209']},{'id': '208', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '209', 'type': 'identifier', 'children': [], 'value': 'sum'},{'id': '210', 'type': 'argument_list', 'children': ['211']},{'id': '211', 'type': 'binary_operator', 'children': ['212', '213'], 'value': '*'},{'id': '212', 'type': 'float', 'children': [], 'value': '.5'},{'id': '213', 'type': '()', 'children': ['214']},{'id': '214', 'type': 'binary_operator', 'children': ['215', '218'], 'value': '+'},{'id': '215', 'type': 'binary_operator', 'children': ['216', '217'], 'value': '*'},{'id': '216', 'type': 'identifier', 'children': [], 'value': 'degi'},{'id': '217', 'type': 'identifier', 'children': [], 'value': 'degi'},{'id': '218', 'type': 'binary_operator', 'children': ['219', '220'], 'value': '*'},{'id': '219', 'type': 'identifier', 'children': [], 'value': 'degj'},{'id': '220', 'type': 'identifier', 'children': [], 'value': 'degj'},{'id': '221', 'type': 'identifier', 'children': [], 'value': 'K'},{'id': '222', 'type': 'expression_statement', 'children': ['223']},{'id': '223', 'type': 'assignment', 'children': ['224', '225']},{'id': '224', 'type': 'identifier', 'children': [], 'value': 'r'},{'id': '225', 'type': 'binary_operator', 'children': ['226', '230'], 'value': '/'},{'id': '226', 'type': '()', 'children': ['227']},{'id': '227', 'type': 'binary_operator', 'children': ['228', '229'], 'value': '-'},{'id': '228', 'type': 'identifier', 'children': [], 'value': 'term1'},{'id': '229', 'type': 'identifier', 'children': [], 'value': 'term2'},{'id': '230', 'type': '()', 'children': ['231']},{'id': '231', 'type': 'binary_operator', 'children': ['232', '233'], 'value': '-'},{'id': '232', 'type': 'identifier', 'children': [], 'value': 'term3'},{'id': '233', 'type': 'identifier', 'children': [], 'value': 'term2'},{'id': '234', 'type': 'return_statement', 'children': ['235']},{'id': '235', 'type': 'identifier', 'children': [], 'value': 'r'} | def assortativity_bin(CIJ, flag=0):
'''
The assortativity coefficient is a correlation coefficient between the
degrees of all nodes on two opposite ends of a link. A positive
assortativity coefficient indicates that nodes tend to link to other
nodes with the same or similar degree.
Parameters
----------
CIJ : NxN np.ndarray
binary directed/undirected connection matrix
flag : int
0 : undirected graph; degree/degree correlation
1 : directed graph; out-degree/in-degree correlation
2 : directed graph; in-degree/out-degree correlation
3 : directed graph; out-degree/out-degree correlation
4 : directed graph; in-degree/in-degreen correlation
Returns
-------
r : float
assortativity coefficient
Notes
-----
The function accepts weighted networks, but all connection
weights are ignored. The main diagonal should be empty. For flag 1
the function computes the directed assortativity described in Rubinov
and Sporns (2010) NeuroImage.
'''
if flag == 0:
deg = degrees_und(CIJ)
i, j = np.where(np.triu(CIJ, 1) > 0)
K = len(i)
degi = deg[i]
degj = deg[j]
else:
id, od, deg = degrees_dir(CIJ)
i, j = np.where(CIJ > 0)
K = len(i)
if flag == 1:
degi = od[i]
degj = id[j]
elif flag == 2:
degi = id[i]
degj = od[j]
elif flag == 3:
degi = od[i]
degj = od[j]
elif flag == 4:
degi = id[i]
degj = id[j]
else:
raise ValueError('Flag must be 0-4')
term1 = np.sum(degi * degj) / K
term2 = np.square(np.sum(.5 * (degi + degj)) / K)
term3 = np.sum(.5 * (degi * degi + degj * degj)) / K
r = (term1 - term2) / (term3 - term2)
return r |
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import iris
order = {'T': -2, 'Z': -1, 'X': 1, 'Y': 2}
axis = iris.util.guess_coord_axis(coord)
return (order.get(axis, 0), coord and coord.name()) |
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'compute_optimum'},{'id': '15', 'type': 'argument_list', 'children': ['16', '20']},{'id': '16', 'type': 'call', 'children': ['17', '18']},{'id': '17', 'type': 'identifier', 'children': [], 'value': 'len'},{'id': '18', 'type': 'argument_list', 'children': ['19']},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'groups'},{'id': '20', 'type': 'identifier', 'children': [], 'value': 'total'},{'id': '21', 'type': 'expression_statement', 'children': ['22']},{'id': '22', 'type': 'assignment', 'children': ['23', '27']},{'id': '23', 'type': 'pattern_list', 'children': ['24', '25', '26']},{'id': '24', 'type': 'identifier', 'children': [], 'value': 'over_loaded'},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'under_loaded'},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'optimal'},{'id': '27', 'type': 'call', 'children': ['28', '29']},{'id': '28', 'type': 'identifier', 'children': [], 'value': '_smart_separate_groups'},{'id': '29', 'type': 'argument_list', 'children': ['30', '31', '32']},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'groups'},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '32', 'type': 'identifier', 'children': [], 'value': 'total'},{'id': '33', 'type': 'if_statement', 'children': ['34', '36']},{'id': '34', 'type': 'not_operator', 'children': ['35']},{'id': '35', 'type': 'identifier', 'children': [], 'value': 'extra'},{'id': '36', 'type': 'block', 'children': ['37']},{'id': '37', 'type': 'return_statement', 'children': ['38']},{'id': '38', 'type': 'expression_list', 'children': ['39', '40']},{'id': '39', 'type': 'identifier', 'children': [], 'value': 'over_loaded'},{'id': '40', 'type': 'identifier', 'children': [], 'value': 'under_loaded'},{'id': '41', 'type': 'expression_statement', 'children': ['42']},{'id': '42', 'type': 'assignment', 'children': ['43', '44']},{'id': '43', 'type': 'identifier', 'children': [], 'value': 'potential_under_loaded'},{'id': '44', 'type': 'list_comprehension', 'children': ['45', '46', '49']},{'id': '45', 'type': 'identifier', 'children': [], 'value': 'group'},{'id': '46', 'type': 'for_in_clause', 'children': ['47', '48']},{'id': '47', 'type': 'identifier', 'children': [], 'value': 'group'},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'optimal'},{'id': '49', 'type': 'if_clause', 'children': ['50']},{'id': '50', 'type': 'comparison_operator', 'children': ['51', '55'], 'value': '=='},{'id': '51', 'type': 'call', 'children': ['52', '53']},{'id': '52', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '53', 'type': 'argument_list', 'children': ['54']},{'id': '54', 'type': 'identifier', 'children': [], 'value': 'group'},{'id': '55', 'type': 'identifier', 'children': [], 'value': 'optimum'},{'id': '56', 'type': 'expression_statement', 'children': ['57']},{'id': '57', 'type': 'assignment', 'children': ['58', '59']},{'id': '58', 'type': 'identifier', 'children': [], 'value': 'potential_over_loaded'},{'id': '59', 'type': 'list_comprehension', 'children': ['60', '61', '64']},{'id': '60', 'type': 'identifier', 'children': [], 'value': 'group'},{'id': '61', 'type': 'for_in_clause', 'children': ['62', '63']},{'id': '62', 'type': 'identifier', 'children': [], 'value': 'group'},{'id': '63', 'type': 'identifier', 'children': [], 'value': 'optimal'},{'id': '64', 'type': 'if_clause', 'children': ['65']},{'id': '65', 'type': 'comparison_operator', 'children': ['66', '70'], 'value': '>'},{'id': '66', 'type': 'call', 'children': ['67', '68']},{'id': '67', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '68', 'type': 'argument_list', 'children': ['69']},{'id': '69', 'type': 'identifier', 'children': [], 'value': 'group'},{'id': '70', 'type': 'identifier', 'children': [], 'value': 'optimum'},{'id': '71', 'type': 'expression_statement', 'children': ['72']},{'id': '72', 'type': 'assignment', 'children': ['73', '74']},{'id': '73', 'type': 'identifier', 'children': [], 'value': 'revised_under_loaded'},{'id': '74', 'type': 'binary_operator', 'children': ['75', '76'], 'value': '+'},{'id': '75', 'type': 'identifier', 'children': [], 'value': 'under_loaded'},{'id': '76', 'type': 'identifier', 'children': [], 'value': 'potential_under_loaded'},{'id': '77', 'type': 'expression_statement', 'children': ['78']},{'id': '78', 'type': 'assignment', 'children': ['79', '80']},{'id': '79', 'type': 'identifier', 'children': [], 'value': 'revised_over_loaded'},{'id': '80', 'type': 'binary_operator', 'children': ['81', '82'], 'value': '+'},{'id': '81', 'type': 'identifier', 'children': [], 'value': 'over_loaded'},{'id': '82', 'type': 'identifier', 'children': [], 'value': 'potential_over_loaded'},{'id': '83', 'type': 'return_statement', 'children': ['84']},{'id': '84', 'type': 'tuple', 'children': ['85', '95']},{'id': '85', 'type': 'call', 'children': ['86', '87']},{'id': '86', 'type': 'identifier', 'children': [], 'value': 'sorted'},{'id': '87', 'type': 'argument_list', 'children': ['88', '89', '92']},{'id': '88', 'type': 'identifier', 'children': [], 'value': 'revised_over_loaded'},{'id': '89', 'type': 'keyword_argument', 'children': ['90', '91']},{'id': '90', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '91', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '92', 'type': 'keyword_argument', 'children': ['93', '94']},{'id': '93', 'type': 'identifier', 'children': [], 'value': 'reverse'},{'id': '94', 'type': 'True', 'children': []},{'id': '95', 'type': 'call', 'children': ['96', '97']},{'id': '96', 'type': 'identifier', 'children': [], 'value': 'sorted'},{'id': '97', 'type': 'argument_list', 'children': ['98', '99']},{'id': '98', 'type': 'identifier', 'children': [], 'value': 'revised_under_loaded'},{'id': '99', 'type': 'keyword_argument', 'children': ['100', '101']},{'id': '100', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '101', 'type': 'identifier', 'children': [], 'value': 'key'} | def separate_groups(groups, key, total):
optimum, extra = compute_optimum(len(groups), total)
over_loaded, under_loaded, optimal = _smart_separate_groups(groups, key, total)
if not extra:
return over_loaded, under_loaded
potential_under_loaded = [
group for group in optimal
if key(group) == optimum
]
potential_over_loaded = [
group for group in optimal
if key(group) > optimum
]
revised_under_loaded = under_loaded + potential_under_loaded
revised_over_loaded = over_loaded + potential_over_loaded
return (
sorted(revised_over_loaded, key=key, reverse=True),
sorted(revised_under_loaded, key=key),
) |
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'type': 'identifier', 'children': [], 'value': 'score_cast_func'},{'id': '16', 'type': 'identifier', 'children': [], 'value': 'float'},{'id': '17', 'type': 'block', 'children': ['18', '33', '41', '54', '64']},{'id': '18', 'type': 'if_statement', 'children': ['19', '20']},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'desc'},{'id': '20', 'type': 'block', 'children': ['21']},{'id': '21', 'type': 'return_statement', 'children': ['22']},{'id': '22', 'type': 'await', 'children': ['23']},{'id': '23', 'type': 'call', 'children': ['24', '27']},{'id': '24', 'type': 'attribute', 'children': ['25', '26']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'zrevrange'},{'id': '27', 'type': 'argument_list', 'children': ['28', '29', '30', '31', '32']},{'id': '28', 'type': 'identifier', 'children': [], 'value': 'name'},{'id': '29', 'type': 'identifier', 'children': [], 'value': 'start'},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'end'},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'withscores'},{'id': '32', 'type': 'identifier', 'children': [], 'value': 'score_cast_func'},{'id': '33', 'type': 'expression_statement', 'children': ['34']},{'id': '34', 'type': 'assignment', 'children': ['35', '36']},{'id': '35', 'type': 'identifier', 'children': [], 'value': 'pieces'},{'id': '36', 'type': 'list', 'children': ['37', '38', '39', '40'], 'value': "['ZRANGE', name, start, end]"},{'id': '37', 'type': 'string', 'children': [], 'value': "'ZRANGE'"},{'id': '38', 'type': 'identifier', 'children': [], 'value': 'name'},{'id': '39', 'type': 'identifier', 'children': [], 'value': 'start'},{'id': '40', 'type': 'identifier', 'children': [], 'value': 'end'},{'id': '41', 'type': 'if_statement', 'children': ['42', '43']},{'id': '42', 'type': 'identifier', 'children': [], 'value': 'withscores'},{'id': '43', 'type': 'block', 'children': ['44']},{'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': 'pieces'},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'append'},{'id': '49', 'type': 'argument_list', 'children': ['50']},{'id': '50', 'type': 'call', 'children': ['51', '52']},{'id': '51', 'type': 'identifier', 'children': [], 'value': 'b'},{'id': '52', 'type': 'argument_list', 'children': ['53']},{'id': '53', 'type': 'string', 'children': [], 'value': "'WITHSCORES'"},{'id': '54', 'type': 'expression_statement', 'children': ['55']},{'id': '55', 'type': 'assignment', 'children': ['56', '57']},{'id': '56', 'type': 'identifier', 'children': [], 'value': 'options'},{'id': '57', 'type': 'dictionary', 'children': ['58', '61']},{'id': '58', 'type': 'pair', 'children': ['59', '60']},{'id': '59', 'type': 'string', 'children': [], 'value': "'withscores'"},{'id': '60', 'type': 'identifier', 'children': [], 'value': 'withscores'},{'id': '61', 'type': 'pair', 'children': ['62', '63']},{'id': '62', 'type': 'string', 'children': [], 'value': "'score_cast_func'"},{'id': '63', 'type': 'identifier', 'children': [], 'value': 'score_cast_func'},{'id': '64', 'type': 'return_statement', 'children': ['65']},{'id': '65', 'type': 'await', 'children': ['66']},{'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': 'execute_command'},{'id': '70', 'type': 'argument_list', 'children': ['71', '73']},{'id': '71', 'type': 'list_splat', 'children': ['72']},{'id': '72', 'type': 'identifier', 'children': [], 'value': 'pieces'},{'id': '73', 'type': 'dictionary_splat', 'children': ['74']},{'id': '74', 'type': 'identifier', 'children': [], 'value': 'options'} | async def zrange(self, name, start, end, desc=False, withscores=False,
score_cast_func=float):
if desc:
return await self.zrevrange(name, start, end, withscores,
score_cast_func)
pieces = ['ZRANGE', name, start, end]
if withscores:
pieces.append(b('WITHSCORES'))
options = {
'withscores': withscores,
'score_cast_func': score_cast_func
}
return await self.execute_command(*pieces, **options) |
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return await self.execute_command('ZREMRANGEBYSCORE', name, min, max) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '33']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'georadius'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '7', '8', '9', '12', '15', '18', '21', '24', '27', '30']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'name'},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'longitude'},{'id': '7', 'type': 'identifier', 'children': [], 'value': 'latitude'},{'id': '8', 'type': 'identifier', 'children': [], 'value': 'radius'},{'id': '9', 'type': 'default_parameter', 'children': ['10', '11']},{'id': '10', 'type': 'identifier', 'children': [], 'value': 'unit'},{'id': '11', 'type': 'None', 'children': []},{'id': '12', 'type': 'default_parameter', 'children': ['13', '14']},{'id': '13', 'type': 'identifier', 'children': [], 'value': 'withdist'},{'id': '14', 'type': 'False', 'children': []},{'id': '15', 'type': 'default_parameter', 'children': ['16', '17']},{'id': '16', 'type': 'identifier', 'children': [], 'value': 'withcoord'},{'id': '17', 'type': 'False', 'children': []},{'id': '18', 'type': 'default_parameter', 'children': ['19', '20']},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'withhash'},{'id': '20', 'type': 'False', 'children': []},{'id': '21', 'type': 'default_parameter', 'children': ['22', '23']},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'count'},{'id': '23', 'type': 'None', 'children': []},{'id': '24', 'type': 'default_parameter', 'children': ['25', '26']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '26', 'type': 'None', 'children': []},{'id': '27', 'type': 'default_parameter', 'children': ['28', '29']},{'id': '28', 'type': 'identifier', 'children': [], 'value': 'store'},{'id': '29', 'type': 'None', 'children': []},{'id': '30', 'type': 'default_parameter', 'children': ['31', '32']},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'store_dist'},{'id': '32', 'type': 'None', 'children': []},{'id': '33', 'type': 'block', 'children': ['34']},{'id': '34', 'type': 'return_statement', 'children': ['35']},{'id': '35', 'type': 'await', 'children': ['36']},{'id': '36', 'type': 'call', 'children': ['37', '40']},{'id': '37', 'type': 'attribute', 'children': ['38', '39']},{'id': '38', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '39', 'type': 'identifier', 'children': [], 'value': '_georadiusgeneric'},{'id': '40', 'type': 'argument_list', 'children': ['41', '42', '43', '44', '45', '46', '49', '52', '55', '58', '61', '64', '67']},{'id': '41', 'type': 'string', 'children': [], 'value': "'GEORADIUS'"},{'id': '42', 'type': 'identifier', 'children': [], 'value': 'name'},{'id': '43', 'type': 'identifier', 'children': [], 'value': 'longitude'},{'id': '44', 'type': 'identifier', 'children': [], 'value': 'latitude'},{'id': '45', 'type': 'identifier', 'children': [], 'value': 'radius'},{'id': '46', 'type': 'keyword_argument', 'children': ['47', '48']},{'id': '47', 'type': 'identifier', 'children': [], 'value': 'unit'},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'unit'},{'id': '49', 'type': 'keyword_argument', 'children': ['50', '51']},{'id': '50', 'type': 'identifier', 'children': [], 'value': 'withdist'},{'id': '51', 'type': 'identifier', 'children': [], 'value': 'withdist'},{'id': '52', 'type': 'keyword_argument', 'children': ['53', '54']},{'id': '53', 'type': 'identifier', 'children': [], 'value': 'withcoord'},{'id': '54', 'type': 'identifier', 'children': [], 'value': 'withcoord'},{'id': '55', 'type': 'keyword_argument', 'children': ['56', '57']},{'id': '56', 'type': 'identifier', 'children': [], 'value': 'withhash'},{'id': '57', 'type': 'identifier', 'children': [], 'value': 'withhash'},{'id': '58', 'type': 'keyword_argument', 'children': ['59', '60']},{'id': '59', 'type': 'identifier', 'children': [], 'value': 'count'},{'id': '60', 'type': 'identifier', 'children': [], 'value': 'count'},{'id': '61', 'type': 'keyword_argument', 'children': ['62', '63']},{'id': '62', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '63', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '64', 'type': 'keyword_argument', 'children': ['65', '66']},{'id': '65', 'type': 'identifier', 'children': [], 'value': 'store'},{'id': '66', 'type': 'identifier', 'children': [], 'value': 'store'},{'id': '67', 'type': 'keyword_argument', 'children': ['68', '69']},{'id': '68', 'type': 'identifier', 'children': [], 'value': 'store_dist'},{'id': '69', 'type': 'identifier', 'children': [], 'value': 'store_dist'} | async def georadius(self, name, longitude, latitude, radius, unit=None,
withdist=False, withcoord=False, withhash=False, count=None,
sort=None, store=None, store_dist=None):
return await self._georadiusgeneric('GEORADIUS',
name, longitude, latitude, radius,
unit=unit, withdist=withdist,
withcoord=withcoord, withhash=withhash,
count=count, sort=sort, store=store,
store_dist=store_dist) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '32']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'georadiusbymember'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '7', '8', '11', '14', '17', '20', '23', '26', '29']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'name'},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'member'},{'id': '7', 'type': 'identifier', 'children': [], 'value': 'radius'},{'id': '8', 'type': 'default_parameter', 'children': ['9', '10']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'unit'},{'id': '10', 'type': 'None', 'children': []},{'id': '11', 'type': 'default_parameter', 'children': ['12', '13']},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'withdist'},{'id': '13', 'type': 'False', 'children': []},{'id': '14', 'type': 'default_parameter', 'children': ['15', '16']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'withcoord'},{'id': '16', 'type': 'False', 'children': []},{'id': '17', 'type': 'default_parameter', 'children': ['18', '19']},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'withhash'},{'id': '19', 'type': 'False', 'children': []},{'id': '20', 'type': 'default_parameter', 'children': ['21', '22']},{'id': '21', 'type': 'identifier', 'children': [], 'value': 'count'},{'id': '22', 'type': 'None', 'children': []},{'id': '23', 'type': 'default_parameter', 'children': ['24', '25']},{'id': '24', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '25', 'type': 'None', 'children': []},{'id': '26', 'type': 'default_parameter', 'children': ['27', '28']},{'id': '27', 'type': 'identifier', 'children': [], 'value': 'store'},{'id': '28', 'type': 'None', 'children': []},{'id': '29', 'type': 'default_parameter', 'children': ['30', '31']},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'store_dist'},{'id': '31', 'type': 'None', 'children': []},{'id': '32', 'type': 'block', 'children': ['33']},{'id': '33', 'type': 'return_statement', 'children': ['34']},{'id': '34', 'type': 'await', 'children': ['35']},{'id': '35', 'type': 'call', 'children': ['36', '39']},{'id': '36', 'type': 'attribute', 'children': ['37', '38']},{'id': '37', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '38', 'type': 'identifier', 'children': [], 'value': '_georadiusgeneric'},{'id': '39', 'type': 'argument_list', 'children': ['40', '41', '42', '43', '44', '47', '50', '53', '56', '59', '62', '65']},{'id': '40', 'type': 'string', 'children': [], 'value': "'GEORADIUSBYMEMBER'"},{'id': '41', 'type': 'identifier', 'children': [], 'value': 'name'},{'id': '42', 'type': 'identifier', 'children': [], 'value': 'member'},{'id': '43', 'type': 'identifier', 'children': [], 'value': 'radius'},{'id': '44', 'type': 'keyword_argument', 'children': ['45', '46']},{'id': '45', 'type': 'identifier', 'children': [], 'value': 'unit'},{'id': '46', 'type': 'identifier', 'children': [], 'value': 'unit'},{'id': '47', 'type': 'keyword_argument', 'children': ['48', '49']},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'withdist'},{'id': '49', 'type': 'identifier', 'children': [], 'value': 'withdist'},{'id': '50', 'type': 'keyword_argument', 'children': ['51', '52']},{'id': '51', 'type': 'identifier', 'children': [], 'value': 'withcoord'},{'id': '52', 'type': 'identifier', 'children': [], 'value': 'withcoord'},{'id': '53', 'type': 'keyword_argument', 'children': ['54', '55']},{'id': '54', 'type': 'identifier', 'children': [], 'value': 'withhash'},{'id': '55', 'type': 'identifier', 'children': [], 'value': 'withhash'},{'id': '56', 'type': 'keyword_argument', 'children': ['57', '58']},{'id': '57', 'type': 'identifier', 'children': [], 'value': 'count'},{'id': '58', 'type': 'identifier', 'children': [], 'value': 'count'},{'id': '59', 'type': 'keyword_argument', 'children': ['60', '61']},{'id': '60', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '61', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '62', 'type': 'keyword_argument', 'children': ['63', '64']},{'id': '63', 'type': 'identifier', 'children': [], 'value': 'store'},{'id': '64', 'type': 'identifier', 'children': [], 'value': 'store'},{'id': '65', 'type': 'keyword_argument', 'children': ['66', '67']},{'id': '66', 'type': 'identifier', 'children': [], 'value': 'store_dist'},{'id': '67', 'type': 'identifier', 'children': [], 'value': 'store_dist'} | async def georadiusbymember(self, name, member, radius, unit=None,
withdist=False, withcoord=False, withhash=False,
count=None, sort=None, store=None, store_dist=None):
return await self._georadiusgeneric('GEORADIUSBYMEMBER',
name, member, radius, unit=unit,
withdist=withdist, withcoord=withcoord,
withhash=withhash, count=count,
sort=sort, store=store,
store_dist=store_dist) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '32']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'search'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '8', '11', '14', '17', '20', '23', '26', '29']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'default_parameter', 'children': ['6', '7']},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'page'},{'id': '7', 'type': 'integer', 'children': [], 'value': '0'},{'id': '8', 'type': 'default_parameter', 'children': ['9', '10']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'per_page'},{'id': '10', 'type': 'integer', 'children': [], 'value': '50'},{'id': '11', 'type': 'default_parameter', 'children': ['12', '13']},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '13', 'type': 'None', 'children': []},{'id': '14', 'type': 'default_parameter', 'children': ['15', '16']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'q'},{'id': '16', 'type': 'None', 'children': []},{'id': '17', 'type': 'default_parameter', 'children': ['18', '19']},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'include_totals'},{'id': '19', 'type': 'True', 'children': []},{'id': '20', 'type': 'default_parameter', 'children': ['21', '22']},{'id': '21', 'type': 'identifier', 'children': [], 'value': 'fields'},{'id': '22', 'type': 'None', 'children': []},{'id': '23', 'type': 'default_parameter', 'children': ['24', '25']},{'id': '24', 'type': 'identifier', 'children': [], 'value': 'from_param'},{'id': '25', 'type': 'None', 'children': []},{'id': '26', 'type': 'default_parameter', 'children': ['27', '28']},{'id': '27', 'type': 'identifier', 'children': [], 'value': 'take'},{'id': '28', 'type': 'None', 'children': []},{'id': '29', 'type': 'default_parameter', 'children': ['30', '31']},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'include_fields'},{'id': '31', 'type': 'True', 'children': []},{'id': '32', 'type': 'block', 'children': ['33', '87']},{'id': '33', 'type': 'expression_statement', 'children': ['34']},{'id': '34', 'type': 'assignment', 'children': ['35', '36']},{'id': '35', 'type': 'identifier', 'children': [], 'value': 'params'},{'id': '36', 'type': 'dictionary', 'children': ['37', '40', '43', '53', '56', '68', '78', '81', '84']},{'id': '37', 'type': 'pair', 'children': ['38', '39']},{'id': '38', 'type': 'string', 'children': [], 'value': "'per_page'"},{'id': '39', 'type': 'identifier', 'children': [], 'value': 'per_page'},{'id': '40', 'type': 'pair', 'children': ['41', '42']},{'id': '41', 'type': 'string', 'children': [], 'value': "'page'"},{'id': '42', 'type': 'identifier', 'children': [], 'value': 'page'},{'id': '43', 'type': 'pair', 'children': ['44', '45']},{'id': '44', 'type': 'string', 'children': [], 'value': "'include_totals'"},{'id': '45', 'type': 'call', 'children': ['46', '52']},{'id': '46', 'type': 'attribute', 'children': ['47', '51']},{'id': '47', 'type': 'call', 'children': ['48', '49']},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'str'},{'id': '49', 'type': 'argument_list', 'children': ['50']},{'id': '50', 'type': 'identifier', 'children': [], 'value': 'include_totals'},{'id': '51', 'type': 'identifier', 'children': [], 'value': 'lower'},{'id': '52', 'type': 'argument_list', 'children': []},{'id': '53', 'type': 'pair', 'children': ['54', '55']},{'id': '54', 'type': 'string', 'children': [], 'value': "'sort'"},{'id': '55', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '56', 'type': 'pair', 'children': ['57', '58']},{'id': '57', 'type': 'string', 'children': [], 'value': "'fields'"},{'id': '58', 'type': 'boolean_operator', 'children': ['59', '67'], 'value': 'or'},{'id': '59', 'type': 'boolean_operator', 'children': ['60', '61'], 'value': 'and'},{'id': '60', 'type': 'identifier', 'children': [], 'value': 'fields'},{'id': '61', 'type': 'call', 'children': ['62', '65']},{'id': '62', 'type': 'attribute', 'children': ['63', '64']},{'id': '63', 'type': 'string', 'children': [], 'value': "','"},{'id': '64', 'type': 'identifier', 'children': [], 'value': 'join'},{'id': '65', 'type': 'argument_list', 'children': ['66']},{'id': '66', 'type': 'identifier', 'children': [], 'value': 'fields'},{'id': '67', 'type': 'None', 'children': []},{'id': '68', 'type': 'pair', 'children': ['69', '70']},{'id': '69', 'type': 'string', 'children': [], 'value': "'include_fields'"},{'id': '70', 'type': 'call', 'children': ['71', '77']},{'id': '71', 'type': 'attribute', 'children': ['72', '76']},{'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': 'include_fields'},{'id': '76', 'type': 'identifier', 'children': [], 'value': 'lower'},{'id': '77', 'type': 'argument_list', 'children': []},{'id': '78', 'type': 'pair', 'children': ['79', '80']},{'id': '79', 'type': 'string', 'children': [], 'value': "'q'"},{'id': '80', 'type': 'identifier', 'children': [], 'value': 'q'},{'id': '81', 'type': 'pair', 'children': ['82', '83']},{'id': '82', 'type': 'string', 'children': [], 'value': "'from'"},{'id': '83', 'type': 'identifier', 'children': [], 'value': 'from_param'},{'id': '84', 'type': 'pair', 'children': ['85', '86']},{'id': '85', 'type': 'string', 'children': [], 'value': "'take'"},{'id': '86', 'type': 'identifier', 'children': [], 'value': 'take'},{'id': '87', 'type': 'return_statement', 'children': ['88']},{'id': '88', 'type': 'call', 'children': ['89', '94']},{'id': '89', 'type': 'attribute', 'children': ['90', '93']},{'id': '90', 'type': 'attribute', 'children': ['91', '92']},{'id': '91', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '92', 'type': 'identifier', 'children': [], 'value': 'client'},{'id': '93', 'type': 'identifier', 'children': [], 'value': 'get'},{'id': '94', 'type': 'argument_list', 'children': ['95', '100']},{'id': '95', 'type': 'call', 'children': ['96', '99']},{'id': '96', 'type': 'attribute', 'children': ['97', '98']},{'id': '97', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '98', 'type': 'identifier', 'children': [], 'value': '_url'},{'id': '99', 'type': 'argument_list', 'children': []},{'id': '100', 'type': 'keyword_argument', 'children': ['101', '102']},{'id': '101', 'type': 'identifier', 'children': [], 'value': 'params'},{'id': '102', 'type': 'identifier', 'children': [], 'value': 'params'} | def search(self, page=0, per_page=50, sort=None, q=None,
include_totals=True, fields=None, from_param=None, take=None,
include_fields=True):
params = {
'per_page': per_page,
'page': page,
'include_totals': str(include_totals).lower(),
'sort': sort,
'fields': fields and ','.join(fields) or None,
'include_fields': str(include_fields).lower(),
'q': q,
'from': from_param,
'take': take
}
return self.client.get(self._url(), params=params) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '32']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'list'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '8', '11', '14', '17', '20', '23', '26', '29']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'default_parameter', 'children': ['6', '7']},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'page'},{'id': '7', 'type': 'integer', 'children': [], 'value': '0'},{'id': '8', 'type': 'default_parameter', 'children': ['9', '10']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'per_page'},{'id': '10', 'type': 'integer', 'children': [], 'value': '25'},{'id': '11', 'type': 'default_parameter', 'children': ['12', '13']},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '13', 'type': 'None', 'children': []},{'id': '14', 'type': 'default_parameter', 'children': ['15', '16']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'connection'},{'id': '16', 'type': 'None', 'children': []},{'id': '17', 'type': 'default_parameter', 'children': ['18', '19']},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'q'},{'id': '19', 'type': 'None', 'children': []},{'id': '20', 'type': 'default_parameter', 'children': ['21', '22']},{'id': '21', 'type': 'identifier', 'children': [], 'value': 'search_engine'},{'id': '22', 'type': 'None', 'children': []},{'id': '23', 'type': 'default_parameter', 'children': ['24', '25']},{'id': '24', 'type': 'identifier', 'children': [], 'value': 'include_totals'},{'id': '25', 'type': 'True', 'children': []},{'id': '26', 'type': 'default_parameter', 'children': ['27', '28']},{'id': '27', 'type': 'identifier', 'children': [], 'value': 'fields'},{'id': '28', 'type': 'None', 'children': []},{'id': '29', 'type': 'default_parameter', 'children': ['30', '31']},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'include_fields'},{'id': '31', 'type': 'True', 'children': []},{'id': '32', 'type': 'block', 'children': ['33', '87']},{'id': '33', 'type': 'expression_statement', 'children': ['34']},{'id': '34', 'type': 'assignment', 'children': ['35', '36']},{'id': '35', 'type': 'identifier', 'children': [], 'value': 'params'},{'id': '36', 'type': 'dictionary', 'children': ['37', '40', '43', '53', '56', '59', '71', '81', '84']},{'id': '37', 'type': 'pair', 'children': ['38', '39']},{'id': '38', 'type': 'string', 'children': [], 'value': "'per_page'"},{'id': '39', 'type': 'identifier', 'children': [], 'value': 'per_page'},{'id': '40', 'type': 'pair', 'children': ['41', '42']},{'id': '41', 'type': 'string', 'children': [], 'value': "'page'"},{'id': '42', 'type': 'identifier', 'children': [], 'value': 'page'},{'id': '43', 'type': 'pair', 'children': ['44', '45']},{'id': '44', 'type': 'string', 'children': [], 'value': "'include_totals'"},{'id': '45', 'type': 'call', 'children': ['46', '52']},{'id': '46', 'type': 'attribute', 'children': ['47', '51']},{'id': '47', 'type': 'call', 'children': ['48', '49']},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'str'},{'id': '49', 'type': 'argument_list', 'children': ['50']},{'id': '50', 'type': 'identifier', 'children': [], 'value': 'include_totals'},{'id': '51', 'type': 'identifier', 'children': [], 'value': 'lower'},{'id': '52', 'type': 'argument_list', 'children': []},{'id': '53', 'type': 'pair', 'children': ['54', '55']},{'id': '54', 'type': 'string', 'children': [], 'value': "'sort'"},{'id': '55', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '56', 'type': 'pair', 'children': ['57', '58']},{'id': '57', 'type': 'string', 'children': [], 'value': "'connection'"},{'id': '58', 'type': 'identifier', 'children': [], 'value': 'connection'},{'id': '59', 'type': 'pair', 'children': ['60', '61']},{'id': '60', 'type': 'string', 'children': [], 'value': "'fields'"},{'id': '61', 'type': 'boolean_operator', 'children': ['62', '70'], 'value': 'or'},{'id': '62', 'type': 'boolean_operator', 'children': ['63', '64'], 'value': 'and'},{'id': '63', 'type': 'identifier', 'children': [], 'value': 'fields'},{'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': 'identifier', 'children': [], 'value': 'fields'},{'id': '70', 'type': 'None', 'children': []},{'id': '71', 'type': 'pair', 'children': ['72', '73']},{'id': '72', 'type': 'string', 'children': [], 'value': "'include_fields'"},{'id': '73', 'type': 'call', 'children': ['74', '80']},{'id': '74', 'type': 'attribute', 'children': ['75', '79']},{'id': '75', 'type': 'call', 'children': ['76', '77']},{'id': '76', 'type': 'identifier', 'children': [], 'value': 'str'},{'id': '77', 'type': 'argument_list', 'children': ['78']},{'id': '78', 'type': 'identifier', 'children': [], 'value': 'include_fields'},{'id': '79', 'type': 'identifier', 'children': [], 'value': 'lower'},{'id': '80', 'type': 'argument_list', 'children': []},{'id': '81', 'type': 'pair', 'children': ['82', '83']},{'id': '82', 'type': 'string', 'children': [], 'value': "'q'"},{'id': '83', 'type': 'identifier', 'children': [], 'value': 'q'},{'id': '84', 'type': 'pair', 'children': ['85', '86']},{'id': '85', 'type': 'string', 'children': [], 'value': "'search_engine'"},{'id': '86', 'type': 'identifier', 'children': [], 'value': 'search_engine'},{'id': '87', 'type': 'return_statement', 'children': ['88']},{'id': '88', 'type': 'call', 'children': ['89', '94']},{'id': '89', 'type': 'attribute', 'children': ['90', '93']},{'id': '90', 'type': 'attribute', 'children': ['91', '92']},{'id': '91', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '92', 'type': 'identifier', 'children': [], 'value': 'client'},{'id': '93', 'type': 'identifier', 'children': [], 'value': 'get'},{'id': '94', 'type': 'argument_list', 'children': ['95', '100']},{'id': '95', 'type': 'call', 'children': ['96', '99']},{'id': '96', 'type': 'attribute', 'children': ['97', '98']},{'id': '97', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '98', 'type': 'identifier', 'children': [], 'value': '_url'},{'id': '99', 'type': 'argument_list', 'children': []},{'id': '100', 'type': 'keyword_argument', 'children': ['101', '102']},{'id': '101', 'type': 'identifier', 'children': [], 'value': 'params'},{'id': '102', 'type': 'identifier', 'children': [], 'value': 'params'} | def list(self, page=0, per_page=25, sort=None, connection=None, q=None,
search_engine=None, include_totals=True, fields=None,
include_fields=True):
params = {
'per_page': per_page,
'page': page,
'include_totals': str(include_totals).lower(),
'sort': sort,
'connection': connection,
'fields': fields and ','.join(fields) or None,
'include_fields': str(include_fields).lower(),
'q': q,
'search_engine': search_engine
}
return self.client.get(self._url(), params=params) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '18']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'get_log_events'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '9', '12', '15']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'user_id'},{'id': '6', 'type': 'default_parameter', 'children': ['7', '8']},{'id': '7', 'type': 'identifier', 'children': [], 'value': 'page'},{'id': '8', 'type': 'integer', 'children': [], 'value': '0'},{'id': '9', 'type': 'default_parameter', 'children': ['10', '11']},{'id': '10', 'type': 'identifier', 'children': [], 'value': 'per_page'},{'id': '11', 'type': 'integer', 'children': [], 'value': '50'},{'id': '12', 'type': 'default_parameter', 'children': ['13', '14']},{'id': '13', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '14', 'type': 'None', 'children': []},{'id': '15', 'type': 'default_parameter', 'children': ['16', '17']},{'id': '16', 'type': 'identifier', 'children': [], 'value': 'include_totals'},{'id': '17', 'type': 'False', 'children': []},{'id': '18', 'type': 'block', 'children': ['19', '42', '56']},{'id': '19', 'type': 'expression_statement', 'children': ['20']},{'id': '20', 'type': 'assignment', 'children': ['21', '22']},{'id': '21', 'type': 'identifier', 'children': [], 'value': 'params'},{'id': '22', 'type': 'dictionary', 'children': ['23', '26', '29', '39']},{'id': '23', 'type': 'pair', 'children': ['24', '25']},{'id': '24', 'type': 'string', 'children': [], 'value': "'per_page'"},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'per_page'},{'id': '26', 'type': 'pair', 'children': ['27', '28']},{'id': '27', 'type': 'string', 'children': [], 'value': "'page'"},{'id': '28', 'type': 'identifier', 'children': [], 'value': 'page'},{'id': '29', 'type': 'pair', 'children': ['30', '31']},{'id': '30', 'type': 'string', 'children': [], 'value': "'include_totals'"},{'id': '31', 'type': 'call', 'children': ['32', '38']},{'id': '32', 'type': 'attribute', 'children': ['33', '37']},{'id': '33', 'type': 'call', 'children': ['34', '35']},{'id': '34', 'type': 'identifier', 'children': [], 'value': 'str'},{'id': '35', 'type': 'argument_list', 'children': ['36']},{'id': '36', 'type': 'identifier', 'children': [], 'value': 'include_totals'},{'id': '37', 'type': 'identifier', 'children': [], 'value': 'lower'},{'id': '38', 'type': 'argument_list', 'children': []},{'id': '39', 'type': 'pair', 'children': ['40', '41']},{'id': '40', 'type': 'string', 'children': [], 'value': "'sort'"},{'id': '41', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '42', 'type': 'expression_statement', 'children': ['43']},{'id': '43', 'type': 'assignment', 'children': ['44', '45']},{'id': '44', 'type': 'identifier', 'children': [], 'value': 'url'},{'id': '45', 'type': 'call', 'children': ['46', '49']},{'id': '46', 'type': 'attribute', 'children': ['47', '48']},{'id': '47', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '48', 'type': 'identifier', 'children': [], 'value': '_url'},{'id': '49', 'type': 'argument_list', 'children': ['50']},{'id': '50', 'type': 'call', 'children': ['51', '54']},{'id': '51', 'type': 'attribute', 'children': ['52', '53']},{'id': '52', 'type': 'string', 'children': [], 'value': "'{}/logs'"},{'id': '53', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '54', 'type': 'argument_list', 'children': ['55']},{'id': '55', 'type': 'identifier', 'children': [], 'value': 'user_id'},{'id': '56', 'type': 'return_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': 'client'},{'id': '62', 'type': 'identifier', 'children': [], 'value': 'get'},{'id': '63', 'type': 'argument_list', 'children': ['64', '65']},{'id': '64', 'type': 'identifier', 'children': [], 'value': 'url'},{'id': '65', 'type': 'keyword_argument', 'children': ['66', '67']},{'id': '66', 'type': 'identifier', 'children': [], 'value': 'params'},{'id': '67', 'type': 'identifier', 'children': [], 'value': 'params'} | def get_log_events(self, user_id, page=0, per_page=50, sort=None,
include_totals=False):
params = {
'per_page': per_page,
'page': page,
'include_totals': str(include_totals).lower(),
'sort': sort
}
url = self._url('{}/logs'.format(user_id))
return self.client.get(url, params=params) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '14']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'get_activities'},{'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': 'before'},{'id': '7', 'type': 'None', 'children': []},{'id': '8', 'type': 'default_parameter', 'children': ['9', '10']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'after'},{'id': '10', 'type': 'None', 'children': []},{'id': '11', 'type': 'default_parameter', 'children': ['12', '13']},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'limit'},{'id': '13', 'type': 'None', 'children': []},{'id': '14', 'type': 'block', 'children': ['15', '27', '39', '51', '67']},{'id': '15', 'type': 'if_statement', 'children': ['16', '17']},{'id': '16', 'type': 'identifier', 'children': [], 'value': 'before'},{'id': '17', 'type': 'block', 'children': ['18']},{'id': '18', 'type': 'expression_statement', 'children': ['19']},{'id': '19', 'type': 'assignment', 'children': ['20', '21']},{'id': '20', 'type': 'identifier', 'children': [], 'value': 'before'},{'id': '21', 'type': 'call', 'children': ['22', '25']},{'id': '22', 'type': 'attribute', 'children': ['23', '24']},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '24', 'type': 'identifier', 'children': [], 'value': '_utc_datetime_to_epoch'},{'id': '25', 'type': 'argument_list', 'children': ['26']},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'before'},{'id': '27', 'type': 'if_statement', 'children': ['28', '29']},{'id': '28', 'type': 'identifier', 'children': [], 'value': 'after'},{'id': '29', 'type': 'block', 'children': ['30']},{'id': '30', 'type': 'expression_statement', 'children': ['31']},{'id': '31', 'type': 'assignment', 'children': ['32', '33']},{'id': '32', 'type': 'identifier', 'children': [], 'value': 'after'},{'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': '_utc_datetime_to_epoch'},{'id': '37', 'type': 'argument_list', 'children': ['38']},{'id': '38', 'type': 'identifier', 'children': [], 'value': 'after'},{'id': '39', 'type': 'expression_statement', 'children': ['40']},{'id': '40', 'type': 'assignment', 'children': ['41', '42']},{'id': '41', 'type': 'identifier', 'children': [], 'value': 'params'},{'id': '42', 'type': 'call', 'children': ['43', '44']},{'id': '43', 'type': 'identifier', 'children': [], 'value': 'dict'},{'id': '44', 'type': 'argument_list', 'children': ['45', '48']},{'id': '45', 'type': 'keyword_argument', 'children': ['46', '47']},{'id': '46', 'type': 'identifier', 'children': [], 'value': 'before'},{'id': '47', 'type': 'identifier', 'children': [], 'value': 'before'},{'id': '48', 'type': 'keyword_argument', 'children': ['49', '50']},{'id': '49', 'type': 'identifier', 'children': [], 'value': 'after'},{'id': '50', 'type': 'identifier', 'children': [], 'value': 'after'},{'id': '51', 'type': 'expression_statement', 'children': ['52']},{'id': '52', 'type': 'assignment', 'children': ['53', '54']},{'id': '53', 'type': 'identifier', 'children': [], 'value': 'result_fetcher'},{'id': '54', 'type': 'call', 'children': ['55', '58']},{'id': '55', 'type': 'attribute', 'children': ['56', '57']},{'id': '56', 'type': 'identifier', 'children': [], 'value': 'functools'},{'id': '57', 'type': 'identifier', 'children': [], 'value': 'partial'},{'id': '58', 'type': 'argument_list', 'children': ['59', '64', '65']},{'id': '59', 'type': 'attribute', 'children': ['60', '63']},{'id': '60', 'type': 'attribute', 'children': ['61', '62']},{'id': '61', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '62', 'type': 'identifier', 'children': [], 'value': 'protocol'},{'id': '63', 'type': 'identifier', 'children': [], 'value': 'get'},{'id': '64', 'type': 'string', 'children': [], 'value': "'/athlete/activities'"},{'id': '65', 'type': 'dictionary_splat', 'children': ['66']},{'id': '66', 'type': 'identifier', 'children': [], 'value': 'params'},{'id': '67', 'type': 'return_statement', 'children': ['68']},{'id': '68', 'type': 'call', 'children': ['69', '70']},{'id': '69', 'type': 'identifier', 'children': [], 'value': 'BatchedResultsIterator'},{'id': '70', 'type': 'argument_list', 'children': ['71', '76', '79', '82']},{'id': '71', 'type': 'keyword_argument', 'children': ['72', '73']},{'id': '72', 'type': 'identifier', 'children': [], 'value': 'entity'},{'id': '73', 'type': 'attribute', 'children': ['74', '75']},{'id': '74', 'type': 'identifier', 'children': [], 'value': 'model'},{'id': '75', 'type': 'identifier', 'children': [], 'value': 'Activity'},{'id': '76', 'type': 'keyword_argument', 'children': ['77', '78']},{'id': '77', 'type': 'identifier', 'children': [], 'value': 'bind_client'},{'id': '78', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '79', 'type': 'keyword_argument', 'children': ['80', '81']},{'id': '80', 'type': 'identifier', 'children': [], 'value': 'result_fetcher'},{'id': '81', 'type': 'identifier', 'children': [], 'value': 'result_fetcher'},{'id': '82', 'type': 'keyword_argument', 'children': ['83', '84']},{'id': '83', 'type': 'identifier', 'children': [], 'value': 'limit'},{'id': '84', 'type': 'identifier', 'children': [], 'value': 'limit'} | def get_activities(self, before=None, after=None, limit=None):
if before:
before = self._utc_datetime_to_epoch(before)
if after:
after = self._utc_datetime_to_epoch(after)
params = dict(before=before, after=after)
result_fetcher = functools.partial(self.protocol.get,
'/athlete/activities',
**params)
return BatchedResultsIterator(entity=model.Activity,
bind_client=self,
result_fetcher=result_fetcher,
limit=limit) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '33']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'get_segment_leaderboard'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '9', '12', '15', '18', '21', '24', '27', '30']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'segment_id'},{'id': '6', 'type': 'default_parameter', 'children': ['7', '8']},{'id': '7', 'type': 'identifier', 'children': [], 'value': 'gender'},{'id': '8', 'type': 'None', 'children': []},{'id': '9', 'type': 'default_parameter', 'children': ['10', '11']},{'id': '10', 'type': 'identifier', 'children': [], 'value': 'age_group'},{'id': '11', 'type': 'None', 'children': []},{'id': '12', 'type': 'default_parameter', 'children': ['13', '14']},{'id': '13', 'type': 'identifier', 'children': [], 'value': 'weight_class'},{'id': '14', 'type': 'None', 'children': []},{'id': '15', 'type': 'default_parameter', 'children': ['16', '17']},{'id': '16', 'type': 'identifier', 'children': [], 'value': 'following'},{'id': '17', 'type': 'None', 'children': []},{'id': '18', 'type': 'default_parameter', 'children': ['19', '20']},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'club_id'},{'id': '20', 'type': 'None', 'children': []},{'id': '21', 'type': 'default_parameter', 'children': ['22', '23']},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'timeframe'},{'id': '23', 'type': 'None', 'children': []},{'id': '24', 'type': 'default_parameter', 'children': ['25', '26']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'top_results_limit'},{'id': '26', 'type': 'None', 'children': []},{'id': '27', 'type': 'default_parameter', 'children': ['28', '29']},{'id': '28', 'type': 'identifier', 'children': [], 'value': 'page'},{'id': '29', 'type': 'None', 'children': []},{'id': '30', 'type': 'default_parameter', 'children': ['31', '32']},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'context_entries'},{'id': '32', 'type': 'None', 'children': []},{'id': '33', 'type': 'block', 'children': ['34', '38', '70', '80', '108', '124', '152', '166', '177', '213', '224', '235', '246']},{'id': '34', 'type': 'expression_statement', 'children': ['35']},{'id': '35', 'type': 'assignment', 'children': ['36', '37']},{'id': '36', 'type': 'identifier', 'children': [], 'value': 'params'},{'id': '37', 'type': 'dictionary', 'children': []},{'id': '38', 'type': 'if_statement', 'children': ['39', '42']},{'id': '39', 'type': 'comparison_operator', 'children': ['40', '41'], 'value': 'is'},{'id': '40', 'type': 'identifier', 'children': [], 'value': 'gender'},{'id': '41', 'type': 'None', 'children': []},{'id': '42', 'type': 'block', 'children': ['43', '64']},{'id': '43', 'type': 'if_statement', 'children': ['44', '53']},{'id': '44', 'type': 'comparison_operator', 'children': ['45', '50'], 'value': 'not'},{'id': '45', 'type': 'call', 'children': ['46', '49']},{'id': '46', 'type': 'attribute', 'children': ['47', '48']},{'id': '47', 'type': 'identifier', 'children': [], 'value': 'gender'},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'upper'},{'id': '49', 'type': 'argument_list', 'children': []},{'id': '50', 'type': 'tuple', 'children': ['51', '52']},{'id': '51', 'type': 'string', 'children': [], 'value': "'M'"},{'id': '52', 'type': 'string', 'children': [], 'value': "'F'"},{'id': '53', 'type': 'block', 'children': ['54']},{'id': '54', 'type': 'raise_statement', 'children': ['55']},{'id': '55', 'type': 'call', 'children': ['56', '57']},{'id': '56', 'type': 'identifier', 'children': [], 'value': 'ValueError'},{'id': '57', 'type': 'argument_list', 'children': ['58']},{'id': '58', 'type': 'call', 'children': ['59', '62']},{'id': '59', 'type': 'attribute', 'children': ['60', '61']},{'id': '60', 'type': 'string', 'children': [], 'value': '"Invalid gender: {0}. Possible values: \'M\' or \'F\'"'},{'id': '61', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '62', 'type': 'argument_list', 'children': ['63']},{'id': '63', 'type': 'identifier', 'children': [], 'value': 'gender'},{'id': '64', 'type': 'expression_statement', 'children': ['65']},{'id': '65', 'type': 'assignment', 'children': ['66', '69']},{'id': '66', 'type': 'subscript', 'children': ['67', '68']},{'id': '67', 'type': 'identifier', 'children': [], 'value': 'params'},{'id': '68', 'type': 'string', 'children': [], 'value': "'gender'"},{'id': '69', 'type': 'identifier', 'children': [], 'value': 'gender'},{'id': '70', 'type': 'expression_statement', 'children': ['71']},{'id': '71', 'type': 'assignment', 'children': ['72', '73']},{'id': '72', 'type': 'identifier', 'children': [], 'value': 'valid_age_groups'},{'id': '73', 'type': 'tuple', 'children': ['74', '75', '76', '77', '78', '79']},{'id': '74', 'type': 'string', 'children': [], 'value': "'0_24'"},{'id': '75', 'type': 'string', 'children': [], 'value': "'25_34'"},{'id': '76', 'type': 'string', 'children': [], 'value': "'35_44'"},{'id': '77', 'type': 'string', 'children': [], 'value': "'45_54'"},{'id': '78', 'type': 'string', 'children': [], 'value': "'55_64'"},{'id': '79', 'type': 'string', 'children': [], 'value': "'65_plus'"},{'id': '80', 'type': 'if_statement', 'children': ['81', '84']},{'id': '81', 'type': 'comparison_operator', 'children': ['82', '83'], 'value': 'is'},{'id': '82', 'type': 'identifier', 'children': [], 'value': 'age_group'},{'id': '83', 'type': 'None', 'children': []},{'id': '84', 'type': 'block', 'children': ['85', '102']},{'id': '85', 'type': 'if_statement', 'children': ['86', '90']},{'id': '86', 'type': 'not_operator', 'children': ['87']},{'id': '87', 'type': 'comparison_operator', 'children': ['88', '89'], 'value': 'in'},{'id': '88', 'type': 'identifier', 'children': [], 'value': 'age_group'},{'id': '89', 'type': 'identifier', 'children': [], 'value': 'valid_age_groups'},{'id': '90', 'type': 'block', 'children': ['91']},{'id': '91', 'type': 'raise_statement', 'children': ['92']},{'id': '92', 'type': 'call', 'children': ['93', '94']},{'id': '93', 'type': 'identifier', 'children': [], 'value': 'ValueError'},{'id': '94', 'type': 'argument_list', 'children': ['95']},{'id': '95', 'type': 'call', 'children': ['96', '99']},{'id': '96', 'type': 'attribute', 'children': ['97', '98']},{'id': '97', 'type': 'string', 'children': [], 'value': '"Invalid age group: {0}. Possible values: {1!r}"'},{'id': '98', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '99', 'type': 'argument_list', 'children': ['100', '101']},{'id': '100', 'type': 'identifier', 'children': [], 'value': 'age_group'},{'id': '101', 'type': 'identifier', 'children': [], 'value': 'valid_age_groups'},{'id': '102', 'type': 'expression_statement', 'children': ['103']},{'id': '103', 'type': 'assignment', 'children': ['104', '107']},{'id': '104', 'type': 'subscript', 'children': ['105', '106']},{'id': '105', 'type': 'identifier', 'children': [], 'value': 'params'},{'id': '106', 'type': 'string', 'children': [], 'value': "'age_group'"},{'id': '107', 'type': 'identifier', 'children': [], 'value': 'age_group'},{'id': '108', 'type': 'expression_statement', 'children': ['109']},{'id': '109', 'type': 'assignment', 'children': ['110', '111']},{'id': '110', 'type': 'identifier', 'children': [], 'value': 'valid_weight_classes'},{'id': '111', 'type': 'tuple', 'children': ['112', '113', '114', '115', '116', '117', '118', '119', '120', '121', '122', '123']},{'id': '112', 'type': 'string', 'children': [], 'value': "'0_124'"},{'id': '113', 'type': 'string', 'children': [], 'value': "'125_149'"},{'id': '114', 'type': 'string', 'children': [], 'value': "'150_164'"},{'id': '115', 'type': 'string', 'children': [], 'value': "'165_179'"},{'id': '116', 'type': 'string', 'children': [], 'value': "'180_199'"},{'id': '117', 'type': 'string', 'children': [], 'value': "'200_plus'"},{'id': '118', 'type': 'string', 'children': [], 'value': "'0_54'"},{'id': '119', 'type': 'string', 'children': [], 'value': "'55_64'"},{'id': '120', 'type': 'string', 'children': [], 'value': "'65_74'"},{'id': '121', 'type': 'string', 'children': [], 'value': "'75_84'"},{'id': '122', 'type': 'string', 'children': [], 'value': "'85_94'"},{'id': '123', 'type': 'string', 'children': [], 'value': "'95_plus'"},{'id': '124', 'type': 'if_statement', 'children': ['125', '128']},{'id': '125', 'type': 'comparison_operator', 'children': ['126', '127'], 'value': 'is'},{'id': '126', 'type': 'identifier', 'children': [], 'value': 'weight_class'},{'id': '127', 'type': 'None', 'children': []},{'id': '128', 'type': 'block', 'children': ['129', '146']},{'id': '129', 'type': 'if_statement', 'children': ['130', '134']},{'id': '130', 'type': 'not_operator', 'children': ['131']},{'id': '131', 'type': 'comparison_operator', 'children': ['132', '133'], 'value': 'in'},{'id': '132', 'type': 'identifier', 'children': [], 'value': 'weight_class'},{'id': '133', 'type': 'identifier', 'children': [], 'value': 'valid_weight_classes'},{'id': '134', 'type': 'block', 'children': ['135']},{'id': '135', 'type': 'raise_statement', 'children': ['136']},{'id': '136', 'type': 'call', 'children': ['137', '138']},{'id': '137', 'type': 'identifier', 'children': [], 'value': 'ValueError'},{'id': '138', 'type': 'argument_list', 'children': ['139']},{'id': '139', 'type': 'call', 'children': ['140', '143']},{'id': '140', 'type': 'attribute', 'children': ['141', '142']},{'id': '141', 'type': 'string', 'children': [], 'value': '"Invalid weight class: {0}. Possible values: {1!r}"'},{'id': '142', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '143', 'type': 'argument_list', 'children': ['144', '145']},{'id': '144', 'type': 'identifier', 'children': [], 'value': 'weight_class'},{'id': '145', 'type': 'identifier', 'children': [], 'value': 'valid_weight_classes'},{'id': '146', 'type': 'expression_statement', 'children': ['147']},{'id': '147', 'type': 'assignment', 'children': ['148', '151']},{'id': '148', 'type': 'subscript', 'children': ['149', '150']},{'id': '149', 'type': 'identifier', 'children': [], 'value': 'params'},{'id': '150', 'type': 'string', 'children': [], 'value': "'weight_class'"},{'id': '151', 'type': 'identifier', 'children': [], 'value': 'weight_class'},{'id': '152', 'type': 'if_statement', 'children': ['153', '156']},{'id': '153', 'type': 'comparison_operator', 'children': ['154', '155'], 'value': 'is'},{'id': '154', 'type': 'identifier', 'children': [], 'value': 'following'},{'id': '155', 'type': 'None', 'children': []},{'id': '156', 'type': 'block', 'children': ['157']},{'id': '157', 'type': 'expression_statement', 'children': ['158']},{'id': '158', 'type': 'assignment', 'children': ['159', '162']},{'id': '159', 'type': 'subscript', 'children': ['160', '161']},{'id': '160', 'type': 'identifier', 'children': [], 'value': 'params'},{'id': '161', 'type': 'string', 'children': [], 'value': "'following'"},{'id': '162', 'type': 'call', 'children': ['163', '164']},{'id': '163', 'type': 'identifier', 'children': [], 'value': 'int'},{'id': '164', 'type': 'argument_list', 'children': ['165']},{'id': '165', 'type': 'identifier', 'children': [], 'value': 'following'},{'id': '166', 'type': 'if_statement', 'children': ['167', '170']},{'id': '167', 'type': 'comparison_operator', 'children': ['168', '169'], 'value': 'is'},{'id': '168', 'type': 'identifier', 'children': [], 'value': 'club_id'},{'id': '169', 'type': 'None', 'children': []},{'id': '170', 'type': 'block', 'children': ['171']},{'id': '171', 'type': 'expression_statement', 'children': ['172']},{'id': '172', 'type': 'assignment', 'children': ['173', '176']},{'id': '173', 'type': 'subscript', 'children': ['174', '175']},{'id': '174', 'type': 'identifier', 'children': [], 'value': 'params'},{'id': '175', 'type': 'string', 'children': [], 'value': "'club_id'"},{'id': '176', 'type': 'identifier', 'children': [], 'value': 'club_id'},{'id': '177', 'type': 'if_statement', 'children': ['178', '181']},{'id': '178', 'type': 'comparison_operator', 'children': ['179', '180'], 'value': 'is'},{'id': '179', 'type': 'identifier', 'children': [], 'value': 'timeframe'},{'id': '180', 'type': 'None', 'children': []},{'id': '181', 'type': 'block', 'children': ['182', '190', '207']},{'id': '182', 'type': 'expression_statement', 'children': ['183']},{'id': '183', 'type': 'assignment', 'children': ['184', '185']},{'id': '184', 'type': 'identifier', 'children': [], 'value': 'valid_timeframes'},{'id': '185', 'type': 'expression_list', 'children': ['186', '187', '188', '189']},{'id': '186', 'type': 'string', 'children': [], 'value': "'this_year'"},{'id': '187', 'type': 'string', 'children': [], 'value': "'this_month'"},{'id': '188', 'type': 'string', 'children': [], 'value': "'this_week'"},{'id': '189', 'type': 'string', 'children': [], 'value': "'today'"},{'id': '190', 'type': 'if_statement', 'children': ['191', '195']},{'id': '191', 'type': 'not_operator', 'children': ['192']},{'id': '192', 'type': 'comparison_operator', 'children': ['193', '194'], 'value': 'in'},{'id': '193', 'type': 'identifier', 'children': [], 'value': 'timeframe'},{'id': '194', 'type': 'identifier', 'children': [], 'value': 'valid_timeframes'},{'id': '195', 'type': 'block', 'children': ['196']},{'id': '196', 'type': 'raise_statement', 'children': ['197']},{'id': '197', 'type': 'call', 'children': ['198', '199']},{'id': '198', 'type': 'identifier', 'children': [], 'value': 'ValueError'},{'id': '199', 'type': 'argument_list', 'children': ['200']},{'id': '200', 'type': 'call', 'children': ['201', '204']},{'id': '201', 'type': 'attribute', 'children': ['202', '203']},{'id': '202', 'type': 'string', 'children': [], 'value': '"Invalid timeframe: {0}. Possible values: {1!r}"'},{'id': '203', 'type': 'identifier', 'children': [], 'value': 'format'},{'id': '204', 'type': 'argument_list', 'children': ['205', '206']},{'id': '205', 'type': 'identifier', 'children': [], 'value': 'timeframe'},{'id': '206', 'type': 'identifier', 'children': [], 'value': 'valid_timeframes'},{'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': 'params'},{'id': '211', 'type': 'string', 'children': [], 'value': "'date_range'"},{'id': '212', 'type': 'identifier', 'children': [], 'value': 'timeframe'},{'id': '213', 'type': 'if_statement', 'children': ['214', '217']},{'id': '214', 'type': 'comparison_operator', 'children': ['215', '216'], 'value': 'is'},{'id': '215', 'type': 'identifier', 'children': [], 'value': 'top_results_limit'},{'id': '216', 'type': 'None', 'children': []},{'id': '217', 'type': 'block', 'children': ['218']},{'id': '218', 'type': 'expression_statement', 'children': ['219']},{'id': '219', 'type': 'assignment', 'children': ['220', '223']},{'id': '220', 'type': 'subscript', 'children': ['221', '222']},{'id': '221', 'type': 'identifier', 'children': [], 'value': 'params'},{'id': '222', 'type': 'string', 'children': [], 'value': "'per_page'"},{'id': '223', 'type': 'identifier', 'children': [], 'value': 'top_results_limit'},{'id': '224', 'type': 'if_statement', 'children': ['225', '228']},{'id': '225', 'type': 'comparison_operator', 'children': ['226', '227'], 'value': 'is'},{'id': '226', 'type': 'identifier', 'children': [], 'value': 'page'},{'id': '227', 'type': 'None', 'children': []},{'id': '228', 'type': 'block', 'children': ['229']},{'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': 'params'},{'id': '233', 'type': 'string', 'children': [], 'value': "'page'"},{'id': '234', 'type': 'identifier', 'children': [], 'value': 'page'},{'id': '235', 'type': 'if_statement', 'children': ['236', '239']},{'id': '236', 'type': 'comparison_operator', 'children': ['237', '238'], 'value': 'is'},{'id': '237', 'type': 'identifier', 'children': [], 'value': 'context_entries'},{'id': '238', 'type': 'None', 'children': []},{'id': '239', 'type': 'block', 'children': ['240']},{'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': 'params'},{'id': '244', 'type': 'string', 'children': [], 'value': "'context_entries'"},{'id': '245', 'type': 'identifier', 'children': [], 'value': 'context_entries'},{'id': '246', 'type': 'return_statement', 'children': ['247']},{'id': '247', 'type': 'call', 'children': ['248', '253']},{'id': '248', 'type': 'attribute', 'children': ['249', '252']},{'id': '249', 'type': 'attribute', 'children': ['250', '251']},{'id': '250', 'type': 'identifier', 'children': [], 'value': 'model'},{'id': '251', 'type': 'identifier', 'children': [], 'value': 'SegmentLeaderboard'},{'id': '252', 'type': 'identifier', 'children': [], 'value': 'deserialize'},{'id': '253', 'type': 'argument_list', 'children': ['254', '267']},{'id': '254', 'type': 'call', 'children': ['255', '260']},{'id': '255', 'type': 'attribute', 'children': ['256', '259']},{'id': '256', 'type': 'attribute', 'children': ['257', '258']},{'id': '257', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '258', 'type': 'identifier', 'children': [], 'value': 'protocol'},{'id': '259', 'type': 'identifier', 'children': [], 'value': 'get'},{'id': '260', 'type': 'argument_list', 'children': ['261', '262', '265']},{'id': '261', 'type': 'string', 'children': [], 'value': "'/segments/{id}/leaderboard'"},{'id': '262', 'type': 'keyword_argument', 'children': ['263', '264']},{'id': '263', 'type': 'identifier', 'children': [], 'value': 'id'},{'id': '264', 'type': 'identifier', 'children': [], 'value': 'segment_id'},{'id': '265', 'type': 'dictionary_splat', 'children': ['266']},{'id': '266', 'type': 'identifier', 'children': [], 'value': 'params'},{'id': '267', 'type': 'keyword_argument', 'children': ['268', '269']},{'id': '268', 'type': 'identifier', 'children': [], 'value': 'bind_client'},{'id': '269', 'type': 'identifier', 'children': [], 'value': 'self'} | def get_segment_leaderboard(self, segment_id, gender=None, age_group=None, weight_class=None,
following=None, club_id=None, timeframe=None, top_results_limit=None,
page=None, context_entries = None):
params = {}
if gender is not None:
if gender.upper() not in ('M', 'F'):
raise ValueError("Invalid gender: {0}. Possible values: 'M' or 'F'".format(gender))
params['gender'] = gender
valid_age_groups = ('0_24', '25_34', '35_44', '45_54', '55_64', '65_plus')
if age_group is not None:
if not age_group in valid_age_groups:
raise ValueError("Invalid age group: {0}. Possible values: {1!r}".format(age_group, valid_age_groups))
params['age_group'] = age_group
valid_weight_classes = ('0_124', '125_149', '150_164', '165_179', '180_199', '200_plus',
'0_54', '55_64', '65_74', '75_84', '85_94', '95_plus')
if weight_class is not None:
if not weight_class in valid_weight_classes:
raise ValueError("Invalid weight class: {0}. Possible values: {1!r}".format(weight_class, valid_weight_classes))
params['weight_class'] = weight_class
if following is not None:
params['following'] = int(following)
if club_id is not None:
params['club_id'] = club_id
if timeframe is not None:
valid_timeframes = 'this_year', 'this_month', 'this_week', 'today'
if not timeframe in valid_timeframes:
raise ValueError("Invalid timeframe: {0}. Possible values: {1!r}".format(timeframe, valid_timeframes))
params['date_range'] = timeframe
if top_results_limit is not None:
params['per_page'] = top_results_limit
if page is not None:
params['page'] = page
if context_entries is not None:
params['context_entries'] = context_entries
return model.SegmentLeaderboard.deserialize(self.protocol.get('/segments/{id}/leaderboard',
id=segment_id,
**params),
bind_client=self) |
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'15', 'type': 'default_parameter', 'children': ['16', '17']},{'id': '16', 'type': 'identifier', 'children': [], 'value': 'limit'},{'id': '17', 'type': 'None', 'children': []},{'id': '18', 'type': 'block', 'children': ['19', '26', '37', '71', '105', '116', '132']},{'id': '19', 'type': 'expression_statement', 'children': ['20']},{'id': '20', 'type': 'assignment', 'children': ['21', '22']},{'id': '21', 'type': 'identifier', 'children': [], 'value': 'params'},{'id': '22', 'type': 'dictionary', 'children': ['23']},{'id': '23', 'type': 'pair', 'children': ['24', '25']},{'id': '24', 'type': 'string', 'children': [], 'value': '"segment_id"'},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'segment_id'},{'id': '26', 'type': 'if_statement', 'children': ['27', '30']},{'id': '27', 'type': 'comparison_operator', 'children': ['28', '29'], 'value': 'is'},{'id': '28', 'type': 'identifier', 'children': [], 'value': 'athlete_id'},{'id': '29', 'type': 'None', 'children': []},{'id': '30', 'type': 'block', 'children': ['31']},{'id': '31', 'type': 'expression_statement', 'children': ['32']},{'id': '32', 'type': 'assignment', 'children': ['33', '36']},{'id': '33', 'type': 'subscript', 'children': ['34', '35']},{'id': '34', 'type': 'identifier', 'children': [], 'value': 'params'},{'id': '35', 'type': 'string', 'children': [], 'value': "'athlete_id'"},{'id': '36', 'type': 'identifier', 'children': [], 'value': 'athlete_id'},{'id': '37', 'type': 'if_statement', 'children': ['38', '39']},{'id': '38', 'type': 'identifier', 'children': [], 'value': 'start_date_local'},{'id': '39', 'type': 'block', 'children': ['40', '60']},{'id': '40', 'type': 'if_statement', 'children': ['41', '48']},{'id': '41', 'type': 'call', 'children': ['42', '43']},{'id': '42', 'type': 'identifier', 'children': [], 'value': 'isinstance'},{'id': '43', 'type': 'argument_list', 'children': ['44', '45']},{'id': '44', 'type': 'identifier', 'children': [], 'value': 'start_date_local'},{'id': '45', 'type': 'attribute', 'children': ['46', '47']},{'id': '46', 'type': 'identifier', 'children': [], 'value': 'six'},{'id': '47', 'type': 'identifier', 'children': [], 'value': 'string_types'},{'id': '48', 'type': 'block', 'children': ['49']},{'id': '49', 'type': 'expression_statement', 'children': ['50']},{'id': '50', 'type': 'assignment', 'children': ['51', '52']},{'id': '51', 'type': 'identifier', 'children': [], 'value': 'start_date_local'},{'id': '52', 'type': 'attribute', 'children': ['53', '59']},{'id': '53', 'type': 'call', 'children': ['54', '57']},{'id': '54', 'type': 'attribute', 'children': ['55', '56']},{'id': '55', 'type': 'identifier', 'children': [], 'value': 'arrow'},{'id': '56', 'type': 'identifier', 'children': [], 'value': 'get'},{'id': '57', 'type': 'argument_list', 'children': ['58']},{'id': '58', 'type': 'identifier', 'children': [], 'value': 'start_date_local'},{'id': '59', 'type': 'identifier', 'children': [], 'value': 'naive'},{'id': '60', 'type': 'expression_statement', 'children': ['61']},{'id': '61', 'type': 'assignment', 'children': ['62', '65']},{'id': '62', 'type': 'subscript', 'children': ['63', '64']},{'id': '63', 'type': 'identifier', 'children': [], 'value': 'params'},{'id': '64', 'type': 'string', 'children': [], 'value': '"start_date_local"'},{'id': '65', 'type': 'call', 'children': ['66', '69']},{'id': '66', 'type': 'attribute', 'children': ['67', '68']},{'id': '67', 'type': 'identifier', 'children': [], 'value': 'start_date_local'},{'id': '68', 'type': 'identifier', 'children': [], 'value': 'strftime'},{'id': '69', 'type': 'argument_list', 'children': ['70']},{'id': '70', 'type': 'string', 'children': [], 'value': '"%Y-%m-%dT%H:%M:%SZ"'},{'id': '71', 'type': 'if_statement', 'children': ['72', '73']},{'id': '72', 'type': 'identifier', 'children': [], 'value': 'end_date_local'},{'id': '73', 'type': 'block', 'children': ['74', '94']},{'id': '74', 'type': 'if_statement', 'children': ['75', '82']},{'id': '75', 'type': 'call', 'children': ['76', '77']},{'id': '76', 'type': 'identifier', 'children': [], 'value': 'isinstance'},{'id': '77', 'type': 'argument_list', 'children': ['78', '79']},{'id': '78', 'type': 'identifier', 'children': [], 'value': 'end_date_local'},{'id': '79', 'type': 'attribute', 'children': ['80', '81']},{'id': '80', 'type': 'identifier', 'children': [], 'value': 'six'},{'id': '81', 'type': 'identifier', 'children': [], 'value': 'string_types'},{'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': 'end_date_local'},{'id': '86', 'type': 'attribute', 'children': ['87', '93']},{'id': '87', 'type': 'call', 'children': ['88', '91']},{'id': '88', 'type': 'attribute', 'children': ['89', '90']},{'id': '89', 'type': 'identifier', 'children': [], 'value': 'arrow'},{'id': '90', 'type': 'identifier', 'children': [], 'value': 'get'},{'id': '91', 'type': 'argument_list', 'children': ['92']},{'id': '92', 'type': 'identifier', 'children': [], 'value': 'end_date_local'},{'id': '93', 'type': 'identifier', 'children': [], 'value': 'naive'},{'id': '94', 'type': 'expression_statement', 'children': ['95']},{'id': '95', 'type': 'assignment', 'children': ['96', '99']},{'id': '96', 'type': 'subscript', 'children': ['97', '98']},{'id': '97', 'type': 'identifier', 'children': [], 'value': 'params'},{'id': '98', 'type': 'string', 'children': [], 'value': '"end_date_local"'},{'id': '99', 'type': 'call', 'children': ['100', '103']},{'id': '100', 'type': 'attribute', 'children': ['101', '102']},{'id': '101', 'type': 'identifier', 'children': [], 'value': 'end_date_local'},{'id': '102', 'type': 'identifier', 'children': [], 'value': 'strftime'},{'id': '103', 'type': 'argument_list', 'children': ['104']},{'id': '104', 'type': 'string', 'children': [], 'value': '"%Y-%m-%dT%H:%M:%SZ"'},{'id': '105', 'type': 'if_statement', 'children': ['106', '109']},{'id': '106', 'type': 'comparison_operator', 'children': ['107', '108'], 'value': 'is'},{'id': '107', 'type': 'identifier', 'children': [], 'value': 'limit'},{'id': '108', 'type': 'None', 'children': []},{'id': '109', 'type': 'block', 'children': ['110']},{'id': '110', 'type': 'expression_statement', 'children': ['111']},{'id': '111', 'type': 'assignment', 'children': ['112', '115']},{'id': '112', 'type': 'subscript', 'children': ['113', '114']},{'id': '113', 'type': 'identifier', 'children': [], 'value': 'params'},{'id': '114', 'type': 'string', 'children': [], 'value': '"limit"'},{'id': '115', 'type': 'identifier', 'children': [], 'value': 'limit'},{'id': '116', 'type': 'expression_statement', 'children': ['117']},{'id': '117', 'type': 'assignment', 'children': ['118', '119']},{'id': '118', 'type': 'identifier', 'children': [], 'value': 'result_fetcher'},{'id': '119', 'type': 'call', 'children': ['120', '123']},{'id': '120', 'type': 'attribute', 'children': ['121', '122']},{'id': '121', 'type': 'identifier', 'children': [], 'value': 'functools'},{'id': '122', 'type': 'identifier', 'children': [], 'value': 'partial'},{'id': '123', 'type': 'argument_list', 'children': ['124', '129', '130']},{'id': '124', 'type': 'attribute', 'children': ['125', '128']},{'id': '125', 'type': 'attribute', 'children': ['126', '127']},{'id': '126', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '127', 'type': 'identifier', 'children': [], 'value': 'protocol'},{'id': '128', 'type': 'identifier', 'children': [], 'value': 'get'},{'id': '129', 'type': 'string', 'children': [], 'value': "'/segments/{segment_id}/all_efforts'"},{'id': '130', 'type': 'dictionary_splat', 'children': ['131']},{'id': '131', 'type': 'identifier', 'children': [], 'value': 'params'},{'id': '132', 'type': 'return_statement', 'children': ['133']},{'id': '133', 'type': 'call', 'children': ['134', '135']},{'id': '134', 'type': 'identifier', 'children': [], 'value': 'BatchedResultsIterator'},{'id': '135', 'type': 'argument_list', 'children': ['136', '141', '144', '147']},{'id': '136', 'type': 'keyword_argument', 'children': ['137', '138']},{'id': '137', 'type': 'identifier', 'children': [], 'value': 'entity'},{'id': '138', 'type': 'attribute', 'children': ['139', '140']},{'id': '139', 'type': 'identifier', 'children': [], 'value': 'model'},{'id': '140', 'type': 'identifier', 'children': [], 'value': 'BaseEffort'},{'id': '141', 'type': 'keyword_argument', 'children': ['142', '143']},{'id': '142', 'type': 'identifier', 'children': [], 'value': 'bind_client'},{'id': '143', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '144', 'type': 'keyword_argument', 'children': ['145', '146']},{'id': '145', 'type': 'identifier', 'children': [], 'value': 'result_fetcher'},{'id': '146', 'type': 'identifier', 'children': [], 'value': 'result_fetcher'},{'id': '147', 'type': 'keyword_argument', 'children': ['148', '149']},{'id': '148', 'type': 'identifier', 'children': [], 'value': 'limit'},{'id': '149', 'type': 'identifier', 'children': [], 'value': 'limit'} | def get_segment_efforts(self, segment_id, athlete_id=None,
start_date_local=None, end_date_local=None,
limit=None):
params = {"segment_id": segment_id}
if athlete_id is not None:
params['athlete_id'] = athlete_id
if start_date_local:
if isinstance(start_date_local, six.string_types):
start_date_local = arrow.get(start_date_local).naive
params["start_date_local"] = start_date_local.strftime("%Y-%m-%dT%H:%M:%SZ")
if end_date_local:
if isinstance(end_date_local, six.string_types):
end_date_local = arrow.get(end_date_local).naive
params["end_date_local"] = end_date_local.strftime("%Y-%m-%dT%H:%M:%SZ")
if limit is not None:
params["limit"] = limit
result_fetcher = functools.partial(self.protocol.get,
'/segments/{segment_id}/all_efforts',
**params)
return BatchedResultsIterator(entity=model.BaseEffort, bind_client=self,
result_fetcher=result_fetcher, limit=limit) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '16']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'range'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '7', '10', '13']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'low'},{'id': '6', 'type': 'identifier', 'children': [], 'value': 'high'},{'id': '7', 'type': 'default_parameter', 'children': ['8', '9']},{'id': '8', 'type': 'identifier', 'children': [], 'value': 'with_scores'},{'id': '9', 'type': 'False', 'children': []},{'id': '10', 'type': 'default_parameter', 'children': ['11', '12']},{'id': '11', 'type': 'identifier', 'children': [], 'value': 'desc'},{'id': '12', 'type': 'False', 'children': []},{'id': '13', 'type': 'default_parameter', 'children': ['14', '15']},{'id': '14', 'type': 'identifier', 'children': [], 'value': 'reverse'},{'id': '15', 'type': 'False', 'children': []},{'id': '16', 'type': 'block', 'children': ['17']},{'id': '17', 'type': 'if_statement', 'children': ['18', '19', '34']},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'reverse'},{'id': '19', 'type': 'block', 'children': ['20']},{'id': '20', 'type': 'return_statement', 'children': ['21']},{'id': '21', 'type': 'call', 'children': ['22', '27']},{'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': 'database'},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'zrevrange'},{'id': '27', 'type': 'argument_list', 'children': ['28', '31', '32', '33']},{'id': '28', 'type': 'attribute', 'children': ['29', '30']},{'id': '29', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'low'},{'id': '32', 'type': 'identifier', 'children': [], 'value': 'high'},{'id': '33', 'type': 'identifier', 'children': [], 'value': 'with_scores'},{'id': '34', 'type': 'else_clause', 'children': ['35']},{'id': '35', 'type': 'block', 'children': ['36']},{'id': '36', 'type': 'return_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': 'self'},{'id': '41', 'type': 'identifier', 'children': [], 'value': 'database'},{'id': '42', 'type': 'identifier', 'children': [], 'value': 'zrange'},{'id': '43', 'type': 'argument_list', 'children': ['44', '47', '48', '49', '50']},{'id': '44', 'type': 'attribute', 'children': ['45', '46']},{'id': '45', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '46', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '47', 'type': 'identifier', 'children': [], 'value': 'low'},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'high'},{'id': '49', 'type': 'identifier', 'children': [], 'value': 'desc'},{'id': '50', 'type': 'identifier', 'children': [], 'value': 'with_scores'} | def range(self, low, high, with_scores=False, desc=False, reverse=False):
if reverse:
return self.database.zrevrange(self.key, low, high, with_scores)
else:
return self.database.zrange(self.key, low, high, desc, with_scores) |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'sfiles_to_event'},{'id': '3', 'type': 'parameters', 'children': ['4']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'sfile_list'},{'id': '5', 'type': 'block', 'children': ['6', '10', '29', '43', '53', '59', '87', '92']},{'id': '6', 'type': 'expression_statement', 'children': ['7']},{'id': '7', 'type': 'assignment', 'children': ['8', '9']},{'id': '8', 'type': 'identifier', 'children': [], 'value': 'event_list'},{'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': 'sort_list'},{'id': '13', 'type': 'list_comprehension', 'children': ['14', '26']},{'id': '14', 'type': 'tuple', 'children': ['15', '25']},{'id': '15', 'type': 'attribute', 'children': ['16', '24']},{'id': '16', 'type': 'subscript', 'children': ['17', '23']},{'id': '17', 'type': 'attribute', 'children': ['18', '22']},{'id': '18', 'type': 'call', 'children': ['19', '20']},{'id': '19', 'type': 'identifier', 'children': [], 'value': 'readheader'},{'id': '20', 'type': 'argument_list', 'children': ['21']},{'id': '21', 'type': 'identifier', 'children': [], 'value': 'sfile'},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'origins'},{'id': '23', 'type': 'integer', 'children': [], 'value': '0'},{'id': '24', 'type': 'identifier', 'children': [], 'value': 'time'},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'sfile'},{'id': '26', 'type': 'for_in_clause', 'children': ['27', '28']},{'id': '27', 'type': 'identifier', 'children': [], 'value': 'sfile'},{'id': '28', 'type': 'identifier', 'children': [], 'value': 'sfile_list'},{'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': 'sort_list'},{'id': '33', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '34', 'type': 'argument_list', 'children': ['35']},{'id': '35', 'type': 'keyword_argument', 'children': ['36', '37']},{'id': '36', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '37', 'type': 'lambda', 'children': ['38', '40']},{'id': '38', 'type': 'lambda_parameters', 'children': ['39']},{'id': '39', 'type': 'identifier', 'children': [], 'value': 'tup'},{'id': '40', 'type': 'subscript', 'children': ['41', '42']},{'id': '41', 'type': 'identifier', 'children': [], 'value': 'tup'},{'id': '42', 'type': 'integer', 'children': [], 'value': '0'},{'id': '43', 'type': 'expression_statement', 'children': ['44']},{'id': '44', 'type': 'assignment', 'children': ['45', '46']},{'id': '45', 'type': 'identifier', 'children': [], 'value': 'sfile_list'},{'id': '46', 'type': 'list_comprehension', 'children': ['47', '50']},{'id': '47', 'type': 'subscript', 'children': ['48', '49']},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'sfile'},{'id': '49', 'type': 'integer', 'children': [], 'value': '1'},{'id': '50', 'type': 'for_in_clause', 'children': ['51', '52']},{'id': '51', 'type': 'identifier', 'children': [], 'value': 'sfile'},{'id': '52', 'type': 'identifier', 'children': [], 'value': 'sort_list'},{'id': '53', 'type': 'expression_statement', 'children': ['54']},{'id': '54', 'type': 'assignment', 'children': ['55', '56']},{'id': '55', 'type': 'identifier', 'children': [], 'value': 'catalog'},{'id': '56', 'type': 'call', 'children': ['57', '58']},{'id': '57', 'type': 'identifier', 'children': [], 'value': 'Catalog'},{'id': '58', 'type': 'argument_list', 'children': []},{'id': '59', 'type': 'for_statement', 'children': ['60', '63', '67']},{'id': '60', 'type': 'pattern_list', 'children': ['61', '62']},{'id': '61', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '62', 'type': 'identifier', 'children': [], 'value': 'sfile'},{'id': '63', 'type': 'call', 'children': ['64', '65']},{'id': '64', 'type': 'identifier', 'children': [], 'value': 'enumerate'},{'id': '65', 'type': 'argument_list', 'children': ['66']},{'id': '66', 'type': 'identifier', 'children': [], 'value': 'sfile_list'},{'id': '67', 'type': 'block', 'children': ['68', '77']},{'id': '68', 'type': 'expression_statement', 'children': ['69']},{'id': '69', 'type': 'call', 'children': ['70', '73']},{'id': '70', 'type': 'attribute', 'children': ['71', '72']},{'id': '71', 'type': 'identifier', 'children': [], 'value': 'event_list'},{'id': '72', 'type': 'identifier', 'children': [], 'value': 'append'},{'id': '73', 'type': 'argument_list', 'children': ['74']},{'id': '74', 'type': 'tuple', 'children': ['75', '76']},{'id': '75', 'type': 'identifier', 'children': [], 'value': 'i'},{'id': '76', 'type': 'identifier', 'children': [], 'value': 'sfile'},{'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': 'catalog'},{'id': '81', 'type': 'identifier', 'children': [], 'value': 'append'},{'id': '82', 'type': 'argument_list', 'children': ['83']},{'id': '83', 'type': 'call', 'children': ['84', '85']},{'id': '84', 'type': 'identifier', 'children': [], 'value': 'readheader'},{'id': '85', 'type': 'argument_list', 'children': ['86']},{'id': '86', 'type': 'identifier', 'children': [], 'value': 'sfile'},{'id': '87', 'type': 'expression_statement', 'children': ['88']},{'id': '88', 'type': 'call', 'children': ['89', '90']},{'id': '89', 'type': 'identifier', 'children': [], 'value': 'write_event'},{'id': '90', 'type': 'argument_list', 'children': ['91']},{'id': '91', 'type': 'identifier', 'children': [], 'value': 'catalog'},{'id': '92', 'type': 'return_statement', 'children': ['93']},{'id': '93', 'type': 'identifier', 'children': [], 'value': 'event_list'} | def sfiles_to_event(sfile_list):
event_list = []
sort_list = [(readheader(sfile).origins[0].time, sfile)
for sfile in sfile_list]
sort_list.sort(key=lambda tup: tup[0])
sfile_list = [sfile[1] for sfile in sort_list]
catalog = Catalog()
for i, sfile in enumerate(sfile_list):
event_list.append((i, sfile))
catalog.append(readheader(sfile))
write_event(catalog)
return event_list |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'sort'},{'id': '3', 'type': 'parameters', 'children': ['4']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'block', 'children': ['6', '24']},{'id': '6', 'type': 'expression_statement', 'children': ['7']},{'id': '7', 'type': 'call', 'children': ['8', '13']},{'id': '8', 'type': 'attribute', 'children': ['9', '12']},{'id': '9', 'type': 'attribute', 'children': ['10', '11']},{'id': '10', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '11', 'type': 'identifier', 'children': [], 'value': 'families'},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'sort'},{'id': '13', 'type': 'argument_list', 'children': ['14']},{'id': '14', 'type': 'keyword_argument', 'children': ['15', '16']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '16', 'type': 'lambda', 'children': ['17', '19']},{'id': '17', 'type': 'lambda_parameters', 'children': ['18']},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'x'},{'id': '19', 'type': 'attribute', 'children': ['20', '23']},{'id': '20', 'type': 'attribute', 'children': ['21', '22']},{'id': '21', 'type': 'identifier', 'children': [], 'value': 'x'},{'id': '22', 'type': 'identifier', 'children': [], 'value': 'template'},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'name'},{'id': '24', 'type': 'return_statement', 'children': ['25']},{'id': '25', 'type': 'identifier', 'children': [], 'value': 'self'} | def sort(self):
self.families.sort(key=lambda x: x.template.name)
return self |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '12']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'decluster'},{'id': '3', 'type': 'parameters', 'children': ['4', '5', '6', '9']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'identifier', 'children': [], 'value': 'trig_int'},{'id': '6', 'type': 'default_parameter', 'children': ['7', '8']},{'id': '7', 'type': 'identifier', 'children': [], 'value': 'timing'},{'id': '8', 'type': 'string', 'children': [], 'value': "'detect'"},{'id': '9', 'type': 'default_parameter', 'children': ['10', '11']},{'id': '10', 'type': 'identifier', 'children': [], 'value': 'metric'},{'id': '11', 'type': 'string', 'children': [], 'value': "'avg_cor'"},{'id': '12', 'type': 'block', 'children': ['13', '17', '32', '157', '172', '187', '210', '229', '233', '283', '299', '303', '354', '360']},{'id': '13', 'type': 'expression_statement', 'children': ['14']},{'id': '14', 'type': 'assignment', 'children': ['15', '16']},{'id': '15', 'type': 'identifier', 'children': [], 'value': 'all_detections'},{'id': '16', 'type': 'list', 'children': [], 'value': '[]'},{'id': '17', 'type': 'for_statement', 'children': ['18', '19', '22']},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'fam'},{'id': '19', 'type': 'attribute', 'children': ['20', '21']},{'id': '20', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '21', 'type': 'identifier', 'children': [], 'value': 'families'},{'id': '22', 'type': 'block', 'children': ['23']},{'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': 'all_detections'},{'id': '27', 'type': 'identifier', 'children': [], 'value': 'extend'},{'id': '28', 'type': 'argument_list', 'children': ['29']},{'id': '29', 'type': 'attribute', 'children': ['30', '31']},{'id': '30', 'type': 'identifier', 'children': [], 'value': 'fam'},{'id': '31', 'type': 'identifier', 'children': [], 'value': 'detections'},{'id': '32', 'type': 'if_statement', 'children': ['33', '36', '86', '150']},{'id': '33', 'type': 'comparison_operator', 'children': ['34', '35'], 'value': '=='},{'id': '34', 'type': 'identifier', 'children': [], 'value': 'timing'},{'id': '35', 'type': 'string', 'children': [], 'value': "'detect'"},{'id': '36', 'type': 'block', 'children': ['37']},{'id': '37', 'type': 'if_statement', 'children': ['38', '41', '60', '79']},{'id': '38', 'type': 'comparison_operator', 'children': ['39', '40'], 'value': '=='},{'id': '39', 'type': 'identifier', 'children': [], 'value': 'metric'},{'id': '40', 'type': 'string', 'children': [], 'value': "'avg_cor'"},{'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': 'detect_info'},{'id': '45', 'type': 'list_comprehension', 'children': ['46', '57']},{'id': '46', 'type': 'tuple', 'children': ['47', '50']},{'id': '47', 'type': 'attribute', 'children': ['48', '49']},{'id': '48', 'type': 'identifier', 'children': [], 'value': 'd'},{'id': '49', 'type': 'identifier', 'children': [], 'value': 'detect_time'},{'id': '50', 'type': 'binary_operator', 'children': ['51', '54'], 'value': '/'},{'id': '51', 'type': 'attribute', 'children': ['52', '53']},{'id': '52', 'type': 'identifier', 'children': [], 'value': 'd'},{'id': '53', 'type': 'identifier', 'children': [], 'value': 'detect_val'},{'id': '54', 'type': 'attribute', 'children': ['55', '56']},{'id': '55', 'type': 'identifier', 'children': [], 'value': 'd'},{'id': '56', 'type': 'identifier', 'children': [], 'value': 'no_chans'},{'id': '57', 'type': 'for_in_clause', 'children': ['58', '59']},{'id': '58', 'type': 'identifier', 'children': [], 'value': 'd'},{'id': '59', 'type': 'identifier', 'children': [], 'value': 'all_detections'},{'id': '60', 'type': 'elif_clause', 'children': ['61', '64']},{'id': '61', 'type': 'comparison_operator', 'children': ['62', '63'], 'value': '=='},{'id': '62', 'type': 'identifier', 'children': [], 'value': 'metric'},{'id': '63', 'type': 'string', 'children': [], 'value': "'cor_sum'"},{'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': 'detect_info'},{'id': '68', 'type': 'list_comprehension', 'children': ['69', '76']},{'id': '69', 'type': 'tuple', 'children': ['70', '73']},{'id': '70', 'type': 'attribute', 'children': ['71', '72']},{'id': '71', 'type': 'identifier', 'children': [], 'value': 'd'},{'id': '72', 'type': 'identifier', 'children': [], 'value': 'detect_time'},{'id': '73', 'type': 'attribute', 'children': ['74', '75']},{'id': '74', 'type': 'identifier', 'children': [], 'value': 'd'},{'id': '75', 'type': 'identifier', 'children': [], 'value': 'detect_val'},{'id': '76', 'type': 'for_in_clause', 'children': ['77', '78']},{'id': '77', 'type': 'identifier', 'children': [], 'value': 'd'},{'id': '78', 'type': 'identifier', 'children': [], 'value': 'all_detections'},{'id': '79', 'type': 'else_clause', 'children': ['80']},{'id': '80', 'type': 'block', 'children': ['81']},{'id': '81', 'type': 'raise_statement', 'children': ['82']},{'id': '82', 'type': 'call', 'children': ['83', '84']},{'id': '83', 'type': 'identifier', 'children': [], 'value': 'MatchFilterError'},{'id': '84', 'type': 'argument_list', 'children': ['85']},{'id': '85', 'type': 'string', 'children': [], 'value': "'metric is not cor_sum or avg_cor'"},{'id': '86', 'type': 'elif_clause', 'children': ['87', '90']},{'id': '87', 'type': 'comparison_operator', 'children': ['88', '89'], 'value': '=='},{'id': '88', 'type': 'identifier', 'children': [], 'value': 'timing'},{'id': '89', 'type': 'string', 'children': [], 'value': "'origin'"},{'id': '90', 'type': 'block', 'children': ['91']},{'id': '91', 'type': 'if_statement', 'children': ['92', '95', '119', '143']},{'id': '92', 'type': 'comparison_operator', 'children': ['93', '94'], 'value': '=='},{'id': '93', 'type': 'identifier', 'children': [], 'value': 'metric'},{'id': '94', 'type': 'string', 'children': [], 'value': "'avg_cor'"},{'id': '95', 'type': 'block', 'children': ['96']},{'id': '96', 'type': 'expression_statement', 'children': ['97']},{'id': '97', 'type': 'assignment', 'children': ['98', '99']},{'id': '98', 'type': 'identifier', 'children': [], 'value': 'detect_info'},{'id': '99', 'type': 'list_comprehension', 'children': ['100', '116']},{'id': '100', 'type': 'tuple', 'children': ['101', '109']},{'id': '101', 'type': 'attribute', 'children': ['102', '108']},{'id': '102', 'type': 'call', 'children': ['103', '104']},{'id': '103', 'type': 'identifier', 'children': [], 'value': '_get_origin'},{'id': '104', 'type': 'argument_list', 'children': ['105']},{'id': '105', 'type': 'attribute', 'children': ['106', '107']},{'id': '106', 'type': 'identifier', 'children': [], 'value': 'd'},{'id': '107', 'type': 'identifier', 'children': [], 'value': 'event'},{'id': '108', 'type': 'identifier', 'children': [], 'value': 'time'},{'id': '109', 'type': 'binary_operator', 'children': ['110', '113'], 'value': '/'},{'id': '110', 'type': 'attribute', 'children': ['111', '112']},{'id': '111', 'type': 'identifier', 'children': [], 'value': 'd'},{'id': '112', 'type': 'identifier', 'children': [], 'value': 'detect_val'},{'id': '113', 'type': 'attribute', 'children': ['114', '115']},{'id': '114', 'type': 'identifier', 'children': [], 'value': 'd'},{'id': '115', 'type': 'identifier', 'children': [], 'value': 'no_chans'},{'id': '116', 'type': 'for_in_clause', 'children': ['117', '118']},{'id': '117', 'type': 'identifier', 'children': [], 'value': 'd'},{'id': '118', 'type': 'identifier', 'children': [], 'value': 'all_detections'},{'id': '119', 'type': 'elif_clause', 'children': ['120', '123']},{'id': '120', 'type': 'comparison_operator', 'children': ['121', '122'], 'value': '=='},{'id': '121', 'type': 'identifier', 'children': [], 'value': 'metric'},{'id': '122', 'type': 'string', 'children': [], 'value': "'cor_sum'"},{'id': '123', 'type': 'block', 'children': ['124']},{'id': '124', 'type': 'expression_statement', 'children': ['125']},{'id': '125', 'type': 'assignment', 'children': ['126', '127']},{'id': '126', 'type': 'identifier', 'children': [], 'value': 'detect_info'},{'id': '127', 'type': 'list_comprehension', 'children': ['128', '140']},{'id': '128', 'type': 'tuple', 'children': ['129', '137']},{'id': '129', 'type': 'attribute', 'children': ['130', '136']},{'id': '130', 'type': 'call', 'children': ['131', '132']},{'id': '131', 'type': 'identifier', 'children': [], 'value': '_get_origin'},{'id': '132', 'type': 'argument_list', 'children': ['133']},{'id': '133', 'type': 'attribute', 'children': ['134', '135']},{'id': '134', 'type': 'identifier', 'children': [], 'value': 'd'},{'id': '135', 'type': 'identifier', 'children': [], 'value': 'event'},{'id': '136', 'type': 'identifier', 'children': [], 'value': 'time'},{'id': '137', 'type': 'attribute', 'children': ['138', '139']},{'id': '138', 'type': 'identifier', 'children': [], 'value': 'd'},{'id': '139', 'type': 'identifier', 'children': [], 'value': 'detect_val'},{'id': '140', 'type': 'for_in_clause', 'children': ['141', '142']},{'id': '141', 'type': 'identifier', 'children': [], 'value': 'd'},{'id': '142', 'type': 'identifier', 'children': [], 'value': 'all_detections'},{'id': '143', 'type': 'else_clause', 'children': ['144']},{'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': 'MatchFilterError'},{'id': '148', 'type': 'argument_list', 'children': ['149']},{'id': '149', 'type': 'string', 'children': [], 'value': "'metric is not cor_sum or avg_cor'"},{'id': '150', 'type': 'else_clause', 'children': ['151']},{'id': '151', 'type': 'block', 'children': ['152']},{'id': '152', 'type': 'raise_statement', 'children': ['153']},{'id': '153', 'type': 'call', 'children': ['154', '155']},{'id': '154', 'type': 'identifier', 'children': [], 'value': 'MatchFilterError'},{'id': '155', 'type': 'argument_list', 'children': ['156']},{'id': '156', 'type': 'string', 'children': [], 'value': "'timing is not detect or origin'"},{'id': '157', 'type': 'expression_statement', 'children': ['158']},{'id': '158', 'type': 'assignment', 'children': ['159', '160']},{'id': '159', 'type': 'identifier', 'children': [], 'value': 'min_det'},{'id': '160', 'type': 'subscript', 'children': ['161', '171']},{'id': '161', 'type': 'call', 'children': ['162', '163']},{'id': '162', 'type': 'identifier', 'children': [], 'value': 'sorted'},{'id': '163', 'type': 'argument_list', 'children': ['164']},{'id': '164', 'type': 'list_comprehension', 'children': ['165', '168']},{'id': '165', 'type': 'subscript', 'children': ['166', '167']},{'id': '166', 'type': 'identifier', 'children': [], 'value': 'd'},{'id': '167', 'type': 'integer', 'children': [], 'value': '0'},{'id': '168', 'type': 'for_in_clause', 'children': ['169', '170']},{'id': '169', 'type': 'identifier', 'children': [], 'value': 'd'},{'id': '170', 'type': 'identifier', 'children': [], 'value': 'detect_info'},{'id': '171', 'type': 'integer', 'children': [], 'value': '0'},{'id': '172', 'type': 'expression_statement', 'children': ['173']},{'id': '173', 'type': 'assignment', 'children': ['174', '175']},{'id': '174', 'type': 'identifier', 'children': [], 'value': 'detect_vals'},{'id': '175', 'type': 'call', 'children': ['176', '179']},{'id': '176', 'type': 'attribute', 'children': ['177', '178']},{'id': '177', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '178', 'type': 'identifier', 'children': [], 'value': 'array'},{'id': '179', 'type': 'argument_list', 'children': ['180']},{'id': '180', 'type': 'list_comprehension', 'children': ['181', '184']},{'id': '181', 'type': 'subscript', 'children': ['182', '183']},{'id': '182', 'type': 'identifier', 'children': [], 'value': 'd'},{'id': '183', 'type': 'integer', 'children': [], 'value': '1'},{'id': '184', 'type': 'for_in_clause', 'children': ['185', '186']},{'id': '185', 'type': 'identifier', 'children': [], 'value': 'd'},{'id': '186', 'type': 'identifier', 'children': [], 'value': 'detect_info'},{'id': '187', 'type': 'expression_statement', 'children': ['188']},{'id': '188', 'type': 'assignment', 'children': ['189', '190']},{'id': '189', 'type': 'identifier', 'children': [], 'value': 'detect_times'},{'id': '190', 'type': 'call', 'children': ['191', '194']},{'id': '191', 'type': 'attribute', 'children': ['192', '193']},{'id': '192', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '193', 'type': 'identifier', 'children': [], 'value': 'array'},{'id': '194', 'type': 'argument_list', 'children': ['195']},{'id': '195', 'type': 'list_comprehension', 'children': ['196', '207']},{'id': '196', 'type': 'call', 'children': ['197', '198']},{'id': '197', 'type': 'identifier', 'children': [], 'value': '_total_microsec'},{'id': '198', 'type': 'argument_list', 'children': ['199', '204']},{'id': '199', 'type': 'attribute', 'children': ['200', '203']},{'id': '200', 'type': 'subscript', 'children': ['201', '202']},{'id': '201', 'type': 'identifier', 'children': [], 'value': 'd'},{'id': '202', 'type': 'integer', 'children': [], 'value': '0'},{'id': '203', 'type': 'identifier', 'children': [], 'value': 'datetime'},{'id': '204', 'type': 'attribute', 'children': ['205', '206']},{'id': '205', 'type': 'identifier', 'children': [], 'value': 'min_det'},{'id': '206', 'type': 'identifier', 'children': [], 'value': 'datetime'},{'id': '207', 'type': 'for_in_clause', 'children': ['208', '209']},{'id': '208', 'type': 'identifier', 'children': [], 'value': 'd'},{'id': '209', 'type': 'identifier', 'children': [], 'value': 'detect_info'},{'id': '210', 'type': 'expression_statement', 'children': ['211']},{'id': '211', 'type': 'assignment', 'children': ['212', '213']},{'id': '212', 'type': 'identifier', 'children': [], 'value': 'peaks_out'},{'id': '213', 'type': 'call', 'children': ['214', '215']},{'id': '214', 'type': 'identifier', 'children': [], 'value': 'decluster'},{'id': '215', 'type': 'argument_list', 'children': ['216', '219', '222']},{'id': '216', 'type': 'keyword_argument', 'children': ['217', '218']},{'id': '217', 'type': 'identifier', 'children': [], 'value': 'peaks'},{'id': '218', 'type': 'identifier', 'children': [], 'value': 'detect_vals'},{'id': '219', 'type': 'keyword_argument', 'children': ['220', '221']},{'id': '220', 'type': 'identifier', 'children': [], 'value': 'index'},{'id': '221', 'type': 'identifier', 'children': [], 'value': 'detect_times'},{'id': '222', 'type': 'keyword_argument', 'children': ['223', '224']},{'id': '223', 'type': 'identifier', 'children': [], 'value': 'trig_int'},{'id': '224', 'type': 'binary_operator', 'children': ['225', '226'], 'value': '*'},{'id': '225', 'type': 'identifier', 'children': [], 'value': 'trig_int'},{'id': '226', 'type': 'binary_operator', 'children': ['227', '228'], 'value': '**'},{'id': '227', 'type': 'integer', 'children': [], 'value': '10'},{'id': '228', 'type': 'integer', 'children': [], 'value': '6'},{'id': '229', 'type': 'expression_statement', 'children': ['230']},{'id': '230', 'type': 'assignment', 'children': ['231', '232']},{'id': '231', 'type': 'identifier', 'children': [], 'value': 'declustered_detections'},{'id': '232', 'type': 'list', 'children': [], 'value': '[]'},{'id': '233', 'type': 'for_statement', 'children': ['234', '235', '236']},{'id': '234', 'type': 'identifier', 'children': [], 'value': 'ind'},{'id': '235', 'type': 'identifier', 'children': [], 'value': 'peaks_out'},{'id': '236', 'type': 'block', 'children': ['237', '253', '274']},{'id': '237', 'type': 'expression_statement', 'children': ['238']},{'id': '238', 'type': 'assignment', 'children': ['239', '240']},{'id': '239', 'type': 'identifier', 'children': [], 'value': 'matching_time_indeces'},{'id': '240', 'type': 'subscript', 'children': ['241', '252']},{'id': '241', 'type': 'call', 'children': ['242', '245']},{'id': '242', 'type': 'attribute', 'children': ['243', '244']},{'id': '243', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '244', 'type': 'identifier', 'children': [], 'value': 'where'},{'id': '245', 'type': 'argument_list', 'children': ['246']},{'id': '246', 'type': 'comparison_operator', 'children': ['247', '248'], 'value': '=='},{'id': '247', 'type': 'identifier', 'children': [], 'value': 'detect_times'},{'id': '248', 'type': 'subscript', 'children': ['249', '250']},{'id': '249', 'type': 'identifier', 'children': [], 'value': 'ind'},{'id': '250', 'type': 'unary_operator', 'children': ['251'], 'value': '-'},{'id': '251', 'type': 'integer', 'children': [], 'value': '1'},{'id': '252', 'type': 'integer', 'children': [], 'value': '0'},{'id': '253', 'type': 'expression_statement', 'children': ['254']},{'id': '254', 'type': 'assignment', 'children': ['255', '256']},{'id': '255', 'type': 'identifier', 'children': [], 'value': 'matches'},{'id': '256', 'type': 'subscript', 'children': ['257', '258']},{'id': '257', 'type': 'identifier', 'children': [], 'value': 'matching_time_indeces'},{'id': '258', 'type': 'subscript', 'children': ['259', '273']},{'id': '259', 'type': 'subscript', 'children': ['260', '272']},{'id': '260', 'type': 'call', 'children': ['261', '264']},{'id': '261', 'type': 'attribute', 'children': ['262', '263']},{'id': '262', 'type': 'identifier', 'children': [], 'value': 'np'},{'id': '263', 'type': 'identifier', 'children': [], 'value': 'where'},{'id': '264', 'type': 'argument_list', 'children': ['265']},{'id': '265', 'type': 'comparison_operator', 'children': ['266', '269'], 'value': '=='},{'id': '266', 'type': 'subscript', 'children': ['267', '268']},{'id': '267', 'type': 'identifier', 'children': [], 'value': 'detect_vals'},{'id': '268', 'type': 'identifier', 'children': [], 'value': 'matching_time_indeces'},{'id': '269', 'type': 'subscript', 'children': ['270', '271']},{'id': '270', 'type': 'identifier', 'children': [], 'value': 'ind'},{'id': '271', 'type': 'integer', 'children': [], 'value': '0'},{'id': '272', 'type': 'integer', 'children': [], 'value': '0'},{'id': '273', 'type': 'integer', 'children': [], 'value': '0'},{'id': '274', 'type': 'expression_statement', 'children': ['275']},{'id': '275', 'type': 'call', 'children': ['276', '279']},{'id': '276', 'type': 'attribute', 'children': ['277', '278']},{'id': '277', 'type': 'identifier', 'children': [], 'value': 'declustered_detections'},{'id': '278', 'type': 'identifier', 'children': [], 'value': 'append'},{'id': '279', 'type': 'argument_list', 'children': ['280']},{'id': '280', 'type': 'subscript', 'children': ['281', '282']},{'id': '281', 'type': 'identifier', 'children': [], 'value': 'all_detections'},{'id': '282', 'type': 'identifier', 'children': [], 'value': 'matches'},{'id': '283', 'type': 'expression_statement', 'children': ['284']},{'id': '284', 'type': 'assignment', 'children': ['285', '286']},{'id': '285', 'type': 'identifier', 'children': [], 'value': 'template_names'},{'id': '286', 'type': 'call', 'children': ['287', '288']},{'id': '287', 'type': 'identifier', 'children': [], 'value': 'list'},{'id': '288', 'type': 'argument_list', 'children': ['289']},{'id': '289', 'type': 'call', 'children': ['290', '291']},{'id': '290', 'type': 'identifier', 'children': [], 'value': 'set'},{'id': '291', 'type': 'argument_list', 'children': ['292']},{'id': '292', 'type': 'list_comprehension', 'children': ['293', '296']},{'id': '293', 'type': 'attribute', 'children': ['294', '295']},{'id': '294', 'type': 'identifier', 'children': [], 'value': 'd'},{'id': '295', 'type': 'identifier', 'children': [], 'value': 'template_name'},{'id': '296', 'type': 'for_in_clause', 'children': ['297', '298']},{'id': '297', 'type': 'identifier', 'children': [], 'value': 'd'},{'id': '298', 'type': 'identifier', 'children': [], 'value': 'declustered_detections'},{'id': '299', 'type': 'expression_statement', 'children': ['300']},{'id': '300', 'type': 'assignment', 'children': ['301', '302']},{'id': '301', 'type': 'identifier', 'children': [], 'value': 'new_families'},{'id': '302', 'type': 'list', 'children': [], 'value': '[]'},{'id': '303', 'type': 'for_statement', 'children': ['304', '305', '306']},{'id': '304', 'type': 'identifier', 'children': [], 'value': 'template_name'},{'id': '305', 'type': 'identifier', 'children': [], 'value': 'template_names'},{'id': '306', 'type': 'block', 'children': ['307', '329']},{'id': '307', 'type': 'expression_statement', 'children': ['308']},{'id': '308', 'type': 'assignment', 'children': ['309', '310']},{'id': '309', 'type': 'identifier', 'children': [], 'value': 'template'},{'id': '310', 'type': 'subscript', 'children': ['311', '328']},{'id': '311', 'type': 'list_comprehension', 'children': ['312', '315', '320']},{'id': '312', 'type': 'attribute', 'children': ['313', '314']},{'id': '313', 'type': 'identifier', 'children': [], 'value': 'fam'},{'id': '314', 'type': 'identifier', 'children': [], 'value': 'template'},{'id': '315', 'type': 'for_in_clause', 'children': ['316', '317']},{'id': '316', 'type': 'identifier', 'children': [], 'value': 'fam'},{'id': '317', 'type': 'attribute', 'children': ['318', '319']},{'id': '318', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '319', 'type': 'identifier', 'children': [], 'value': 'families'},{'id': '320', 'type': 'if_clause', 'children': ['321']},{'id': '321', 'type': 'comparison_operator', 'children': ['322', '327'], 'value': '=='},{'id': '322', 'type': 'attribute', 'children': ['323', '326']},{'id': '323', 'type': 'attribute', 'children': ['324', '325']},{'id': '324', 'type': 'identifier', 'children': [], 'value': 'fam'},{'id': '325', 'type': 'identifier', 'children': [], 'value': 'template'},{'id': '326', 'type': 'identifier', 'children': [], 'value': 'name'},{'id': '327', 'type': 'identifier', 'children': [], 'value': 'template_name'},{'id': '328', 'type': 'integer', 'children': [], 'value': '0'},{'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': 'new_families'},{'id': '333', 'type': 'identifier', 'children': [], 'value': 'append'},{'id': '334', 'type': 'argument_list', 'children': ['335']},{'id': '335', 'type': 'call', 'children': ['336', '337']},{'id': '336', 'type': 'identifier', 'children': [], 'value': 'Family'},{'id': '337', 'type': 'argument_list', 'children': ['338', '341']},{'id': '338', 'type': 'keyword_argument', 'children': ['339', '340']},{'id': '339', 'type': 'identifier', 'children': [], 'value': 'template'},{'id': '340', 'type': 'identifier', 'children': [], 'value': 'template'},{'id': '341', 'type': 'keyword_argument', 'children': ['342', '343']},{'id': '342', 'type': 'identifier', 'children': [], 'value': 'detections'},{'id': '343', 'type': 'list_comprehension', 'children': ['344', '345', '348']},{'id': '344', 'type': 'identifier', 'children': [], 'value': 'd'},{'id': '345', 'type': 'for_in_clause', 'children': ['346', '347']},{'id': '346', 'type': 'identifier', 'children': [], 'value': 'd'},{'id': '347', 'type': 'identifier', 'children': [], 'value': 'declustered_detections'},{'id': '348', 'type': 'if_clause', 'children': ['349']},{'id': '349', 'type': 'comparison_operator', 'children': ['350', '353'], 'value': '=='},{'id': '350', 'type': 'attribute', 'children': ['351', '352']},{'id': '351', 'type': 'identifier', 'children': [], 'value': 'd'},{'id': '352', 'type': 'identifier', 'children': [], 'value': 'template_name'},{'id': '353', 'type': 'identifier', 'children': [], 'value': 'template_name'},{'id': '354', 'type': 'expression_statement', 'children': ['355']},{'id': '355', 'type': 'assignment', 'children': ['356', '359']},{'id': '356', 'type': 'attribute', 'children': ['357', '358']},{'id': '357', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '358', 'type': 'identifier', 'children': [], 'value': 'families'},{'id': '359', 'type': 'identifier', 'children': [], 'value': 'new_families'},{'id': '360', 'type': 'return_statement', 'children': ['361']},{'id': '361', 'type': 'identifier', 'children': [], 'value': 'self'} | def decluster(self, trig_int, timing='detect', metric='avg_cor'):
all_detections = []
for fam in self.families:
all_detections.extend(fam.detections)
if timing == 'detect':
if metric == 'avg_cor':
detect_info = [(d.detect_time, d.detect_val / d.no_chans)
for d in all_detections]
elif metric == 'cor_sum':
detect_info = [(d.detect_time, d.detect_val)
for d in all_detections]
else:
raise MatchFilterError('metric is not cor_sum or avg_cor')
elif timing == 'origin':
if metric == 'avg_cor':
detect_info = [(_get_origin(d.event).time,
d.detect_val / d.no_chans)
for d in all_detections]
elif metric == 'cor_sum':
detect_info = [(_get_origin(d.event).time, d.detect_val)
for d in all_detections]
else:
raise MatchFilterError('metric is not cor_sum or avg_cor')
else:
raise MatchFilterError('timing is not detect or origin')
min_det = sorted([d[0] for d in detect_info])[0]
detect_vals = np.array([d[1] for d in detect_info])
detect_times = np.array([
_total_microsec(d[0].datetime, min_det.datetime)
for d in detect_info])
peaks_out = decluster(
peaks=detect_vals, index=detect_times, trig_int=trig_int * 10 ** 6)
declustered_detections = []
for ind in peaks_out:
matching_time_indeces = np.where(detect_times == ind[-1])[0]
matches = matching_time_indeces[
np.where(detect_vals[matching_time_indeces] == ind[0])[0][0]]
declustered_detections.append(all_detections[matches])
template_names = list(set([d.template_name
for d in declustered_detections]))
new_families = []
for template_name in template_names:
template = [fam.template for fam in self.families
if fam.template.name == template_name][0]
new_families.append(Family(
template=template,
detections=[d for d in declustered_detections
if d.template_name == template_name]))
self.families = new_families
return self |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'sort'},{'id': '3', 'type': 'parameters', 'children': ['4']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'block', 'children': ['6', '25']},{'id': '6', 'type': 'expression_statement', 'children': ['7']},{'id': '7', 'type': 'assignment', 'children': ['8', '11']},{'id': '8', 'type': 'attribute', 'children': ['9', '10']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '10', 'type': 'identifier', 'children': [], 'value': 'detections'},{'id': '11', 'type': 'call', 'children': ['12', '13']},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'sorted'},{'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': 'detections'},{'id': '17', 'type': 'keyword_argument', 'children': ['18', '19']},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '19', 'type': 'lambda', 'children': ['20', '22']},{'id': '20', 'type': 'lambda_parameters', 'children': ['21']},{'id': '21', 'type': 'identifier', 'children': [], 'value': 'd'},{'id': '22', 'type': 'attribute', 'children': ['23', '24']},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'd'},{'id': '24', 'type': 'identifier', 'children': [], 'value': 'detect_time'},{'id': '25', 'type': 'return_statement', 'children': ['26']},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'self'} | def sort(self):
self.detections = sorted(self.detections, key=lambda d: d.detect_time)
return self |
{'id': '0', 'type': 'module', 'children': ['1']},{'id': '1', 'type': 'function_definition', 'children': ['2', '3', '5']},{'id': '2', 'type': 'function_name', 'children': [], 'value': 'sort'},{'id': '3', 'type': 'parameters', 'children': ['4']},{'id': '4', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '5', 'type': 'block', 'children': ['6', '25']},{'id': '6', 'type': 'expression_statement', 'children': ['7']},{'id': '7', 'type': 'assignment', 'children': ['8', '11']},{'id': '8', 'type': 'attribute', 'children': ['9', '10']},{'id': '9', 'type': 'identifier', 'children': [], 'value': 'self'},{'id': '10', 'type': 'identifier', 'children': [], 'value': 'templates'},{'id': '11', 'type': 'call', 'children': ['12', '13']},{'id': '12', 'type': 'identifier', 'children': [], 'value': 'sorted'},{'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': 'templates'},{'id': '17', 'type': 'keyword_argument', 'children': ['18', '19']},{'id': '18', 'type': 'identifier', 'children': [], 'value': 'key'},{'id': '19', 'type': 'lambda', 'children': ['20', '22']},{'id': '20', 'type': 'lambda_parameters', 'children': ['21']},{'id': '21', 'type': 'identifier', 'children': [], 'value': 'x'},{'id': '22', 'type': 'attribute', 'children': ['23', '24']},{'id': '23', 'type': 'identifier', 'children': [], 'value': 'x'},{'id': '24', 'type': 'identifier', 'children': [], 'value': 'name'},{'id': '25', 'type': 'return_statement', 'children': ['26']},{'id': '26', 'type': 'identifier', 'children': [], 'value': 'self'} | def sort(self):
self.templates = sorted(self.templates, key=lambda x: x.name)
return self |
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