jigcell.sbml2
Class SBase

java.lang.Object
  jigcell.sbml2.XMLElement
      jigcell.sbml2.SBase

Direct Known Subclasses:

EventAssignment, KineticLaw, Rule, SBaseId, SBMLLevel2Document, SimpleObjectReference, SimpleSpeciesReference, StoichiometryMath, Unit

public class SBase
extends XMLElement

Contains the notes, annotations, and metadata for an SBML element.

This code is licensed under the DARPA BioCOMP Open Source License. See LICENSE for more details.

Author:

Nicholas Allen

Field Summary

private Annotations	annotations
private java.lang.String	metaid
private Notes	notes
private java.lang.String	rdf

Constructor Summary

protected

SBase()

Method Summary

Annotations	getAnnotations()
java.lang.String	getMetaid()
Notes	getNotes()
java.lang.String	getRDF()
boolean	isValid(Model model)
protected void	parse(org.xml.sax.Attributes attributes)
protected XMLPrinter	print(XMLPrinter parent, java.lang.String name)
(package private) static SBaseId	searchListForId(java.util.List elements, java.lang.String id)
(package private) static SBaseId	searchListForName(java.util.List elements, java.lang.String name)
void	setMetaid(java.lang.String metaid)
void	setRDF(java.lang.String rdf)
void	setRDF(java.lang.String rdf, java.lang.String metaid)

Methods inherited from class jigcell.sbml2.XMLElement

print, toString

Methods inherited from class java.lang.Object

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

Field Detail

annotations

private final Annotations annotations

notes

private final Notes notes

metaid

private java.lang.String metaid

rdf

private java.lang.String rdf

Constructor Detail

SBase

protected SBase()

Method Detail

searchListForId

static final SBaseId searchListForId(java.util.List elements,
                                     java.lang.String id)

searchListForName

static final SBaseId searchListForName(java.util.List elements,
                                       java.lang.String name)

getAnnotations

public final Annotations getAnnotations()

getMetaid

public final java.lang.String getMetaid()

getNotes

public final Notes getNotes()

getRDF

public final java.lang.String getRDF()

isValid

public boolean isValid(Model model)

setMetaid

public final void setMetaid(java.lang.String metaid)

setRDF

public final void setRDF(java.lang.String rdf)

setRDF

public final void setRDF(java.lang.String rdf,
                         java.lang.String metaid)

parse

protected void parse(org.xml.sax.Attributes attributes)

Overrides:

parse in class XMLElement

print

protected XMLPrinter print(XMLPrinter parent,
                           java.lang.String name)

Overrides:

print in class XMLElement