Package psidev.psi.mi.jami.tab.io.parser

Class ModelledInteractionLineParser

java.lang.Object

psidev.psi.mi.jami.tab.io.parser.MitabLineParser<T,P,F>

psidev.psi.mi.jami.tab.io.parser.AbstractInteractionLineParser<T,ModelledParticipant,ModelledFeature>

psidev.psi.mi.jami.tab.io.parser.AbstractModelledInteractionLineParser<ModelledInteraction>

psidev.psi.mi.jami.tab.io.parser.ModelledInteractionLineParser

All Implemented Interfaces:

MitabLineParserConstants

public class ModelledInteractionLineParser
extends AbstractModelledInteractionLineParser<ModelledInteraction>

An extension of MitabLineParser which parses only ModelledInteraction

Since:

20/06/13

Version:

$Id$

Author:

Marine Dumousseau (marine@ebi.ac.uk)

Field Summary

Fields inherited from class psidev.psi.mi.jami.tab.io.parser.MitabLineParser

jj_nt, token, token_source

Fields inherited from interface psidev.psi.mi.jami.tab.io.parser.MitabLineParserConstants

CLOSE_PAREN, COLON, COLUMN_SEPARATOR, COMMENT, DASH, DEFAULT, EOF, FIELD_SEPARATOR, LINE_SEPARATOR, OPEN_PAREN, QUOTED_STRING, RANGE_SEPARATOR, tokenImage, UNRESERVED_STRING

Constructor Summary

Constructors

Constructor	Description
ModelledInteractionLineParser(InputStream stream)	Constructor for ModelledInteractionLineParser.
ModelledInteractionLineParser(InputStream stream, String encoding)	Constructor for ModelledInteractionLineParser.
ModelledInteractionLineParser(Reader stream)	Constructor for ModelledInteractionLineParser.
ModelledInteractionLineParser(MitabLineParserTokenManager tm)	Constructor for ModelledInteractionLineParser.

Method Summary

Modifier and Type	Method	Description
protected ModelledInteraction	createInteraction()	createInteraction.

Methods inherited from class psidev.psi.mi.jami.tab.io.parser.AbstractInteractionLineParser

createAliasFromAltId, createChecksumFromAlias, createChecksumFromAltId, createChecksumFromId, createInteractorFrom, fillInteractorWithAliases, fillInteractorWithAlternativeIdentifiers, findInteractorShortNameAndFullNameFrom, getInteractorFactory, getParserListener, hasFinished, initialiseExpansionMethod, initialiseInteractionIdentifiers, initialiseOrganism, processInteractorPool, processTextFor, ReInit, ReInit, ReInit, ReInit, setInteractorFactory, setParserListener

Methods inherited from class psidev.psi.mi.jami.tab.io.parser.MitabLineParser

alias, aliases, annotation, annotations, author, checksum, checksums, complexExpansion, confidence, confidences, cvTerm, cvTerms, date, dates, disable_tracing, enable_tracing, expansion, feature, features, firstAuthors, generateParseException, getNextToken, getToken, id, ids, MitabLine, negative, organism, parameter, parameters, range, safeFreeText, safePosition, safeStoichiometry, safeString, source, sourceDbs, stoichiometry, stoichiometryList, taxId

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

ModelledInteractionLineParser

public ModelledInteractionLineParser(InputStream stream)

Constructor for ModelledInteractionLineParser.

Parameters:

stream - a InputStream object.

ModelledInteractionLineParser

public ModelledInteractionLineParser(InputStream stream,
                                     String encoding)

Constructor for ModelledInteractionLineParser.

Parameters:

stream - a InputStream object.

encoding - a String object.

ModelledInteractionLineParser

public ModelledInteractionLineParser(Reader stream)

Constructor for ModelledInteractionLineParser.

Parameters:

stream - a Reader object.

ModelledInteractionLineParser

public ModelledInteractionLineParser(MitabLineParserTokenManager tm)

Constructor for ModelledInteractionLineParser.

Parameters:

tm - a MitabLineParserTokenManager object.

Method Detail

createInteraction

protected ModelledInteraction createInteraction()

createInteraction.

Specified by:

createInteraction in class AbstractInteractionLineParser<ModelledInteraction,ModelledParticipant,ModelledFeature>

Returns:

a T object.