Class BiopaxLevel2Parser

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Nested Classes

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BiopaxLevel2Handler
Class to handle content in Biopax Level2 XML files

BiopaxLevel2XMLParser
Class for parsing individual XML files obeying BIOPAX Level 2 standards

Instance Methods

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__init__(self)
Starts the bianaParser Object

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parse_database(self)
Method to be overwritten by specific parsers

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Inherited from bianaParser.BianaParser: add_to_log, close, get_log_string, initialize_input_file_descriptor, parseArguments, print_help, start

Inherited from bianaParser.BianaParser (private): _indent, _splitsize

Inherited from object: __delattr__, __getattribute__, __hash__, __new__, __reduce__, __reduce_ex__, __repr__, __setattr__, __str__

Class Variables

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name = 'biopax_level_2'

description = 'This file implements a program that fills up ta...

external_entity_definition = ''

external_entity_relations = ''

Properties

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Inherited from object: __class__

Method Details

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init(self)
(Constructor)

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Starts the bianaParser Object

Overrides: object.__init__: (inherited documentation)

parse_database(self)

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Method to be overwritten by specific parsers

The method must include the calls to control lock and unlock database procedures

Overrides: bianaParser.BianaParser.parse_database

Class Variable Details

[hide private]

description

Value:

'This file implements a program that fills up tables in database biana
 with information of a BIOPAX Level 2 formatted database'

Class BiopaxLevel2Parser

__init__(self) (Constructor)

parse_database(self)

description

init(self)
(Constructor)