Module ImportFrom alias alias alias alias Import alias identifier Import alias Import alias Import alias TryExcept body ImportFrom alias ImportFrom alias handlers ExceptHandler body ImportFrom alias ImportFrom alias Assign NameStore Call AttributeLoad Call AttributeLoad Call NameLoad Str attr attr Str FunctionDef arguments args NameParam NameParam defaults body Assign NameStore Call AttributeLoad NameLoad attr keyword Call NameLoad NameLoad Expr Call AttributeLoad NameLoad attr keyword NameLoad Assign NameStore ListComp AttributeLoad NameLoad attr comprehension NameStore Call AttributeLoad AttributeLoad NameLoad attr attr Expr Call NameLoad NameLoad NameLoad decorator_list FunctionDef arguments args defaults body Expr Call NameLoad ListLoad ListLoad Str Str Str Str Str Str Expr Call NameLoad ListLoad Str Str ListLoad Str Str Str Expr Call NameLoad ListLoad Str Str ListLoad Str Str Str Expr Call NameLoad ListLoad Str Str ListLoad Str Str Expr Call NameLoad ListLoad Str Str Str Str ListLoad decorator_list FunctionDef arguments args NameParam NameParam defaults body Assign NameStore Call AttributeLoad NameLoad attr keyword Call NameLoad NameLoad Expr Call AttributeLoad NameLoad attr keyword NameLoad Assign NameStore ListComp AttributeLoad NameLoad attr comprehension NameStore Call AttributeLoad AttributeLoad NameLoad attr attr Expr Call NameLoad NameLoad NameLoad decorator_list FunctionDef arguments args defaults body Expr Call NameLoad ListLoad ListLoad Str Str Str Str Str Str Expr Call NameLoad ListLoad Num Num ListLoad Str Str Str Str Expr Call NameLoad ListLoad Num Num ListLoad Str Str Str Str Expr Call NameLoad ListLoad Num Num ListLoad Str Str Str Str Expr Call NameLoad ListLoad Num Num Num Num Num Num ListLoad decorator_list
N/A nose.tools ok_ eq_ raises assert_list_equal N/A simtk.openmm.app app N/A pdbfixer N/A tempfile N/A time N/A N/A urllib.request urlopen io StringIO N/A N/A N/A urllib2 urlopen cStringIO StringIO N/A file_content N/A N/A N/A N/A N/A urlopen http://www.rcsb.org/pdb/files/4JSV.pdb read decode utf-8 remove_chain_ids_and_verify N/A N/A chain_ids_to_remove expected_chain_ids_remaining N/A N/A N/A fixer N/A N/A pdbfixer PDBFixer pdbfile N/A StringIO file_content N/A N/A N/A fixer removeChains chainIds chain_ids_to_remove N/A chain_ids_remaining N/A N/A c id N/A c N/A N/A N/A fixer topology chains N/A N/A assert_list_equal chain_ids_remaining expected_chain_ids_remaining N/A test_removechain_ids N/A N/A N/A N/A N/A N/A remove_chain_ids_and_verify N/A N/A B D A C B A N/A N/A remove_chain_ids_and_verify N/A B D N/A A C A N/A N/A remove_chain_ids_and_verify N/A A C N/A B D B N/A N/A remove_chain_ids_and_verify N/A B A N/A D C N/A N/A remove_chain_ids_and_verify N/A B D A C N/A N/A remove_chain_indices_and_verify N/A N/A chain_indices_to_remove expected_chain_ids_remaining N/A N/A N/A fixer N/A N/A pdbfixer PDBFixer pdbfile N/A StringIO file_content N/A N/A N/A fixer removeChains chainIndices chain_indices_to_remove N/A chain_ids_remaining N/A N/A c id N/A c N/A N/A N/A fixer topology chains N/A N/A assert_list_equal chain_ids_remaining expected_chain_ids_remaining N/A test_removechain_indices N/A N/A N/A N/A N/A N/A remove_chain_indices_and_verify N/A N/A B D A C B A N/A N/A remove_chain_indices_and_verify N/A 0 1 N/A A C B A N/A N/A remove_chain_indices_and_verify N/A 2 3 N/A B D B A N/A N/A remove_chain_indices_and_verify N/A 0 2 N/A D C B A N/A N/A remove_chain_indices_and_verify N/A 0 1 2 3 4 5 N/A N/A