A C G I L M N O P R S U V W

A

addChangedMath(ChangedMath) - Method in class org.sbml.jsbml.ext.req.ReqSBasePlugin

Adds a new ChangedMath to the listOfChangedMaths.

C

changedBy - Static variable in class org.sbml.jsbml.ext.req.ReqConstants

ChangedMath - Class in org.sbml.jsbml.ext.req

Declares which package has modified the value or the mathematical meaning of an SBase and in which way.

ChangedMath() - Constructor for class org.sbml.jsbml.ext.req.ChangedMath

Creates an ChangedMath instance

ChangedMath(String) - Constructor for class org.sbml.jsbml.ext.req.ChangedMath

Creates a ChangedMath instance with an id.

ChangedMath(int, int) - Constructor for class org.sbml.jsbml.ext.req.ChangedMath

Creates a ChangedMath instance with a level and version.

ChangedMath(String, int, int) - Constructor for class org.sbml.jsbml.ext.req.ChangedMath

Creates a ChangedMath instance with an id, level, and version.

ChangedMath(String, String, int, int) - Constructor for class org.sbml.jsbml.ext.req.ChangedMath

Creates a ChangedMath instance with an id, name, level, and version.

ChangedMath(ChangedMath) - Constructor for class org.sbml.jsbml.ext.req.ChangedMath

Clone constructor

changedMath - Static variable in class org.sbml.jsbml.ext.req.ReqConstants

clone() - Method in class org.sbml.jsbml.ext.req.ChangedMath

clones this class

clone() - Method in class org.sbml.jsbml.ext.req.ReqSBasePlugin

clones this class

createChangedMath() - Method in class org.sbml.jsbml.ext.req.ReqSBasePlugin

Creates a new ChangedMath element and adds it to the ListOfMathChangeds list

createChangedMath(String) - Method in class org.sbml.jsbml.ext.req.ReqSBasePlugin

Creates a new ChangedMath element and adds it to the ListOfMathChangeds list

createPluginFor(SBase) - Method in class org.sbml.jsbml.xml.parsers.ReqParser

createPluginFor(ASTNode) - Method in class org.sbml.jsbml.xml.parsers.ReqParser

G

getAllowsChildren() - Method in class org.sbml.jsbml.ext.req.ReqSBasePlugin

getChangedBy() - Method in class org.sbml.jsbml.ext.req.ChangedMath

Returns the value of changedBy

getChildAt(int) - Method in class org.sbml.jsbml.ext.req.ReqSBasePlugin

getChildCount() - Method in class org.sbml.jsbml.ext.req.ReqSBasePlugin

getListOfChangedMaths() - Method in class org.sbml.jsbml.ext.req.ReqSBasePlugin

Returns the listOfChangedMaths.

getListOfSBMLElementsToWrite(Object) - Method in class org.sbml.jsbml.xml.parsers.ReqParser

getNamespaceFor(int, int, int) - Method in class org.sbml.jsbml.xml.parsers.ReqParser

getNamespaces() - Method in class org.sbml.jsbml.xml.parsers.ReqParser

getNamespaceURI(int, int, int) - Static method in class org.sbml.jsbml.ext.req.ReqConstants

Gets the namespace for this package that correspond to the given SBML level, version and the package version.

getNamespaceURI() - Method in class org.sbml.jsbml.xml.parsers.ReqParser

getPackageName() - Method in class org.sbml.jsbml.ext.req.ReqSBasePlugin

getPackageName() - Method in class org.sbml.jsbml.xml.parsers.ReqParser

getPackageNamespaces() - Method in class org.sbml.jsbml.xml.parsers.ReqParser

getPrefix() - Method in class org.sbml.jsbml.ext.req.ReqSBasePlugin

getShortLabel() - Method in class org.sbml.jsbml.xml.parsers.ReqParser

getURI() - Method in class org.sbml.jsbml.ext.req.ReqSBasePlugin

getViableWithoutChange() - Method in class org.sbml.jsbml.ext.req.ChangedMath

Returns the value of viableWithoutChange

I

initDefaults() - Method in class org.sbml.jsbml.ext.req.ChangedMath

Initializes the default values using the namespace.

initDefaults() - Method in class org.sbml.jsbml.ext.req.ReqSBasePlugin

Initializes the default values using the namespace.

isIdMandatory() - Method in class org.sbml.jsbml.ext.req.ChangedMath

isRequired() - Method in class org.sbml.jsbml.xml.parsers.ReqParser

isSetChangedBy() - Method in class org.sbml.jsbml.ext.req.ChangedMath

Returns whether changedBy is set

isSetListOfChangedMaths() - Method in class org.sbml.jsbml.ext.req.ReqSBasePlugin

Returns true, if listOfChangedMaths contains at least one element.

isSetViableWithoutChange() - Method in class org.sbml.jsbml.ext.req.ChangedMath

Returns whether viableWithoutChange is set

isViableWithoutChange() - Method in class org.sbml.jsbml.ext.req.ChangedMath

Returns the value of viableWithoutChange

L

listOfChangedMaths - Static variable in class org.sbml.jsbml.ext.req.ReqConstants

M

MIN_SBML_LEVEL - Static variable in class org.sbml.jsbml.ext.req.ReqConstants

MIN_SBML_VERSION - Static variable in class org.sbml.jsbml.ext.req.ReqConstants

N

namespaces - Static variable in class org.sbml.jsbml.ext.req.ReqConstants

namespaceURI - Static variable in class org.sbml.jsbml.ext.req.ReqConstants

The latest namespace URI of this parser, this value can change between releases.

namespaceURI_L3V1V1 - Static variable in class org.sbml.jsbml.ext.req.ReqConstants

The namespace URI of this parser for SBML level 3, version 1 and package version 1.

O

org.sbml.jsbml.ext.req - package org.sbml.jsbml.ext.req

org.sbml.jsbml.xml.parsers - package org.sbml.jsbml.xml.parsers

P

processStartElement(String, String, String, boolean, boolean, Object) - Method in class org.sbml.jsbml.xml.parsers.ReqParser

R

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.req.ChangedMath

readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.req.ReqSBasePlugin

removeChangedMath(ChangedMath) - Method in class org.sbml.jsbml.ext.req.ReqSBasePlugin

Removes an element from the listOfChangedMaths.

removeChangedMath(int) - Method in class org.sbml.jsbml.ext.req.ReqSBasePlugin

Removes an element from the listOfChangedMaths at the given index.

removeChangedMath(String) - Method in class org.sbml.jsbml.ext.req.ReqSBasePlugin

Removes an element from the listOfChangedMaths with the given id.

ReqConstants - Class in org.sbml.jsbml.ext.req

Contains some constants related to the req package.

ReqConstants() - Constructor for class org.sbml.jsbml.ext.req.ReqConstants

ReqParser - Class in org.sbml.jsbml.xml.parsers

A ReqParser is used to parse the req extension package elements and attributes.

ReqParser() - Constructor for class org.sbml.jsbml.xml.parsers.ReqParser

ReqSBasePlugin - Class in org.sbml.jsbml.ext.req

Represents the extended SBase as define in the req package.

ReqSBasePlugin() - Constructor for class org.sbml.jsbml.ext.req.ReqSBasePlugin

Creates an ReqSBasePlugin instance

ReqSBasePlugin(SBase) - Constructor for class org.sbml.jsbml.ext.req.ReqSBasePlugin

Creates a ReqSBasePlugin instance associated with the given SBase.

ReqSBasePlugin(ReqSBasePlugin) - Constructor for class org.sbml.jsbml.ext.req.ReqSBasePlugin

Clone constructor

S

setChangedBy(String) - Method in class org.sbml.jsbml.ext.req.ChangedMath

Sets the value of changedBy

setListOfChangedMaths(ListOf<ChangedMath>) - Method in class org.sbml.jsbml.ext.req.ReqSBasePlugin

Sets the given ListOf<ChangedMath>.

setViableWithoutChange(boolean) - Method in class org.sbml.jsbml.ext.req.ChangedMath

Sets the value of viableWithoutChange

shortLabel - Static variable in class org.sbml.jsbml.ext.req.ReqConstants

U

unsetChangedBy() - Method in class org.sbml.jsbml.ext.req.ChangedMath

Unsets the variable changedBy

unsetListOfChangedMaths() - Method in class org.sbml.jsbml.ext.req.ReqSBasePlugin

Removes all of the elements from this list of ChangedMaths.

unsetViableWithoutChange() - Method in class org.sbml.jsbml.ext.req.ChangedMath

Unsets the variable viableWithoutChange

V

viableWithoutChange - Static variable in class org.sbml.jsbml.ext.req.ReqConstants

W

writeElement(SBMLObjectForXML, Object) - Method in class org.sbml.jsbml.xml.parsers.ReqParser

writeXMLAttributes() - Method in class org.sbml.jsbml.ext.req.ChangedMath

A C G I L M N O P R S U V W