- L3LayoutParser - Class in org.sbml.jsbml.xml.parsers
-
This class is used to parse the layout extension package elements and
attributes.
- L3LayoutParser() - Constructor for class org.sbml.jsbml.xml.parsers.L3LayoutParser
-
- label - Static variable in class org.sbml.jsbml.ext.fbc.FBCConstants
-
- label(String) - Method in class org.sbml.jsbml.math.compiler.LaTeXCompiler
-
- label(String) - Method in class org.sbml.jsbml.util.compilers.LaTeXCompiler
-
- lambda(List<ASTNode>) - Method in class org.sbml.jsbml.ext.arrays.compiler.ArraysCompiler
-
- lambda(List<ASTNode>) - Method in class org.sbml.jsbml.ext.arrays.compiler.StaticallyComputableCompiler
-
- lambda(List<ASTNode>) - Method in class org.sbml.jsbml.ext.arrays.compiler.VectorCompiler
-
- lambda(List<ASTNode2>) - Method in interface org.sbml.jsbml.math.compiler.ASTNode2Compiler
-
- lambda(List<ASTNode2>) - Method in class org.sbml.jsbml.math.compiler.FindUnitsCompiler
-
- lambda(List<ASTNode2>) - Method in class org.sbml.jsbml.math.compiler.FormulaCompiler
-
- lambda(List<ASTNode2>) - Method in class org.sbml.jsbml.math.compiler.LaTeXCompiler
-
- lambda(List<ASTNode2>) - Method in class org.sbml.jsbml.math.compiler.UnitsCompiler
-
- lambda(List<ASTNode>) - Method in interface org.sbml.jsbml.util.compilers.ASTNodeCompiler
-
- lambda(List<ASTNode>) - Method in class org.sbml.jsbml.util.compilers.FindUnitsCompiler
-
- lambda(List<ASTNode>) - Method in class org.sbml.jsbml.util.compilers.FormulaCompiler
-
- lambda(List<ASTNode>) - Method in class org.sbml.jsbml.util.compilers.LaTeXCompiler
-
- lambda(List<ASTNode>) - Method in class org.sbml.jsbml.util.compilers.MathMLCompiler
-
Deprecated.
- lambda(List<ASTNode>) - Method in class org.sbml.jsbml.util.compilers.UnitsCompiler
-
- lastIndexOf(Object) - Method in class org.sbml.jsbml.ListOf
-
- LaTeXCompiler - Class in org.sbml.jsbml.math.compiler
-
Converts
ASTNode2Value objects into a LaTeX
String to be
included into scientific writings or to be displayed in a GUI.
- LaTeXCompiler() - Constructor for class org.sbml.jsbml.math.compiler.LaTeXCompiler
-
- LaTeXCompiler(boolean) - Constructor for class org.sbml.jsbml.math.compiler.LaTeXCompiler
-
- LaTeXCompiler - Class in org.sbml.jsbml.util.compilers
-
Converts
ASTNodeValue objects into a LaTeX
String to be
included into scientific writings or to be displayed in a GUI.
- LaTeXCompiler() - Constructor for class org.sbml.jsbml.util.compilers.LaTeXCompiler
-
- LaTeXCompiler(boolean) - Constructor for class org.sbml.jsbml.util.compilers.LaTeXCompiler
-
- Layout - Class in org.sbml.jsbml.ext.layout
-
The
Layout class stores layout information for some or all elements of the
Model as well as additional objects that need not be connected to the
Model.
- Layout() - Constructor for class org.sbml.jsbml.ext.layout.Layout
-
- Layout(int, int) - Constructor for class org.sbml.jsbml.ext.layout.Layout
-
- Layout(Layout) - Constructor for class org.sbml.jsbml.ext.layout.Layout
-
- Layout(String, int, int) - Constructor for class org.sbml.jsbml.ext.layout.Layout
-
- layout - Static variable in class org.sbml.jsbml.ext.layout.LayoutConstants
-
- LayoutConstants - Class in org.sbml.jsbml.ext.layout
-
Contains some constants related to the layout package.
- LayoutConstants() - Constructor for class org.sbml.jsbml.ext.layout.LayoutConstants
-
- LayoutModelPlugin - Class in org.sbml.jsbml.ext.layout
-
The
Layout package extends the
Model class with the
addition of one child element: the listOfLayouts.
- LayoutModelPlugin(LayoutModelPlugin) - Constructor for class org.sbml.jsbml.ext.layout.LayoutModelPlugin
-
- LayoutModelPlugin(Model) - Constructor for class org.sbml.jsbml.ext.layout.LayoutModelPlugin
-
- LayoutParser - Class in org.sbml.jsbml.xml.parsers
-
Parses the SBML level 2 layout extension package elements and
attributes.
- LayoutParser() - Constructor for class org.sbml.jsbml.xml.parsers.LayoutParser
-
- leadingZeros(int, int) - Static method in class org.sbml.jsbml.util.StringTools
-
This method creates a
String representation of the given number and
inserts as many zero characters as the prefix of this
String as
needed
to result in a
String of the given length.
- LEFT_BRACES - Static variable in interface org.sbml.jsbml.math.parser.FormulaParserASTNode2Constants
-
RegularExpression Id.
- LEFT_BRACES - Static variable in interface org.sbml.jsbml.math.parser.FormulaParserConstants
-
RegularExpression Id.
- LEFT_BRACES - Static variable in interface org.sbml.jsbml.math.parser.FormulaParserLL3ASTNode2Constants
-
RegularExpression Id.
- LEFT_BRACES - Static variable in interface org.sbml.jsbml.math.parser.FormulaParserLL3Constants
-
RegularExpression Id.
- LEFT_BRACES - Static variable in interface org.sbml.jsbml.text.parser.CobraFormulaParserConstants
-
RegularExpression Id.
- LEFT_BRACES - Static variable in interface org.sbml.jsbml.text.parser.FormulaParserASTNode2Constants
-
RegularExpression Id.
- LEFT_BRACES - Static variable in interface org.sbml.jsbml.text.parser.FormulaParserConstants
-
RegularExpression Id.
- LEFT_BRACES - Static variable in interface org.sbml.jsbml.text.parser.FormulaParserLL3ASTNode2Constants
-
RegularExpression Id.
- LEFT_BRACES - Static variable in interface org.sbml.jsbml.text.parser.FormulaParserLL3Constants
-
RegularExpression Id.
- LEFT_BRACKET - Static variable in interface org.sbml.jsbml.math.parser.FormulaParserASTNode2Constants
-
RegularExpression Id.
- LEFT_BRACKET - Static variable in interface org.sbml.jsbml.math.parser.FormulaParserConstants
-
RegularExpression Id.
- LEFT_BRACKET - Static variable in interface org.sbml.jsbml.math.parser.FormulaParserLL3ASTNode2Constants
-
RegularExpression Id.
- LEFT_BRACKET - Static variable in interface org.sbml.jsbml.math.parser.FormulaParserLL3Constants
-
RegularExpression Id.
- LEFT_BRACKET - Static variable in interface org.sbml.jsbml.text.parser.CobraFormulaParserConstants
-
RegularExpression Id.
- LEFT_BRACKET - Static variable in interface org.sbml.jsbml.text.parser.FormulaParserASTNode2Constants
-
RegularExpression Id.
- LEFT_BRACKET - Static variable in interface org.sbml.jsbml.text.parser.FormulaParserConstants
-
RegularExpression Id.
- LEFT_BRACKET - Static variable in interface org.sbml.jsbml.text.parser.FormulaParserLL3ASTNode2Constants
-
RegularExpression Id.
- LEFT_BRACKET - Static variable in interface org.sbml.jsbml.text.parser.FormulaParserLL3Constants
-
RegularExpression Id.
- leftBrace - Static variable in class org.sbml.jsbml.math.compiler.LaTeXCompiler
-
Left parenthesis.
- leftBrace - Static variable in class org.sbml.jsbml.util.compilers.LaTeXCompiler
-
Left parenthesis.
- leftChild - Static variable in class org.sbml.jsbml.ext.fbc.FBCConstants
-
Introduced to FBC in version 2: The left child of a logical association rule.
- leftQuotationMark - Static variable in class org.sbml.jsbml.math.compiler.LaTeXCompiler
-
An opening quotation mark.
- leftQuotationMark - Static variable in class org.sbml.jsbml.util.compilers.LaTeXCompiler
-
An opening quotation mark.
- LENGTH - Static variable in class org.sbml.jsbml.UnitDefinition
-
Identifier of the (for SBML Level 2) predefined
UnitDefinition
length.
- length(int, int) - Static method in class org.sbml.jsbml.UnitDefinition
-
Predefined unit for length.
- lengthUnits - Static variable in class org.sbml.jsbml.util.TreeNodeChangeEvent
-
- leq(ASTNode, ASTNode) - Static method in class org.sbml.jsbml.ASTNode
-
Creates an
ASTNode representing less or equal for
the two given left and right child.
- leq(ASTNode, ASTNode) - Method in class org.sbml.jsbml.ext.arrays.compiler.ArraysCompiler
-
- leq(ASTNode, ASTNode) - Method in class org.sbml.jsbml.ext.arrays.compiler.StaticallyComputableCompiler
-
- leq(ASTNode, ASTNode) - Method in class org.sbml.jsbml.ext.arrays.compiler.VectorCompiler
-
- leq(ASTNode2, ASTNode2) - Static method in class org.sbml.jsbml.math.ASTFactory
-
- leq(ASTNode2, ASTNode2) - Method in interface org.sbml.jsbml.math.compiler.ASTNode2Compiler
-
Less equal.
- leq(ASTNode2, ASTNode2) - Method in class org.sbml.jsbml.math.compiler.FindUnitsCompiler
-
- leq(ASTNode2, ASTNode2) - Method in class org.sbml.jsbml.math.compiler.FormulaCompiler
-
- leq(ASTNode2, ASTNode2) - Method in class org.sbml.jsbml.math.compiler.LaTeXCompiler
-
- leq(ASTNode2, ASTNode2) - Method in class org.sbml.jsbml.math.compiler.LibSBMLFormulaCompiler
-
- leq(ASTNode2, ASTNode2) - Method in class org.sbml.jsbml.math.compiler.UnitsCompiler
-
- leq(ASTNode, ASTNode) - Method in interface org.sbml.jsbml.util.compilers.ASTNodeCompiler
-
Less equal.
- leq(ASTNode, ASTNode) - Method in class org.sbml.jsbml.util.compilers.FindUnitsCompiler
-
- leq(ASTNode, ASTNode) - Method in class org.sbml.jsbml.util.compilers.FormulaCompiler
-
- leq(ASTNode, ASTNode) - Method in class org.sbml.jsbml.util.compilers.FormulaCompilerLibSBML
-
- leq(ASTNode, ASTNode) - Method in class org.sbml.jsbml.util.compilers.LaTeXCompiler
-
- leq(ASTNode, ASTNode) - Method in class org.sbml.jsbml.util.compilers.LibSBMLFormulaCompiler
-
- leq(ASTNode, ASTNode) - Method in class org.sbml.jsbml.util.compilers.MathMLCompiler
-
Deprecated.
- leq(ASTNode, ASTNode) - Method in class org.sbml.jsbml.util.compilers.UnitsCompiler
-
- LETTER - Static variable in interface org.sbml.jsbml.math.parser.FormulaParserASTNode2Constants
-
RegularExpression Id.
- LETTER - Static variable in interface org.sbml.jsbml.math.parser.FormulaParserConstants
-
RegularExpression Id.
- LETTER - Static variable in interface org.sbml.jsbml.math.parser.FormulaParserLL3ASTNode2Constants
-
RegularExpression Id.
- LETTER - Static variable in interface org.sbml.jsbml.math.parser.FormulaParserLL3Constants
-
RegularExpression Id.
- LETTER - Static variable in interface org.sbml.jsbml.text.parser.CobraFormulaParserConstants
-
RegularExpression Id.
- LETTER - Static variable in interface org.sbml.jsbml.text.parser.FormulaParserASTNode2Constants
-
RegularExpression Id.
- LETTER - Static variable in interface org.sbml.jsbml.text.parser.FormulaParserConstants
-
RegularExpression Id.
- LETTER - Static variable in interface org.sbml.jsbml.text.parser.FormulaParserLL3ASTNode2Constants
-
RegularExpression Id.
- LETTER - Static variable in interface org.sbml.jsbml.text.parser.FormulaParserLL3Constants
-
RegularExpression Id.
- level - Static variable in class org.sbml.jsbml.util.TreeNodeChangeEvent
-
- LEVEL_MISMATCH - Static variable in class org.sbml.jsbml.JSBML
-
- LEVEL_MISMATCH_MSG - Static variable in exception org.sbml.jsbml.LevelVersionError
-
Message to display in cases that two objects do not have identical level
attributes.
- levelMismatchMessage(SBase, SBase) - Static method in exception org.sbml.jsbml.LevelVersionError
-
Creates an error message if the level fields of both elements are not
identical, or an empty
String otherwise.
- LevelVersionError - Exception in org.sbml.jsbml
-
An
SBMLError that indicates that associated instances of
SBase cannot be combined within the same model due to their
differently set Level or Version attribute.
- LevelVersionError(SBase) - Constructor for exception org.sbml.jsbml.LevelVersionError
-
- LevelVersionError(int, int) - Constructor for exception org.sbml.jsbml.LevelVersionError
-
- LevelVersionError(String, int, int) - Constructor for exception org.sbml.jsbml.LevelVersionError
-
- LevelVersionError(SBase, SBase) - Constructor for exception org.sbml.jsbml.LevelVersionError
-
- LevelVersionError(SBasePlugin, SBase) - Constructor for exception org.sbml.jsbml.LevelVersionError
-
- lexStateNames - Static variable in class org.sbml.jsbml.math.parser.FormulaParserASTNode2TokenManager
-
Lexer state names.
- lexStateNames - Static variable in class org.sbml.jsbml.math.parser.FormulaParserLL3ASTNode2TokenManager
-
Lexer state names.
- lexStateNames - Static variable in class org.sbml.jsbml.math.parser.FormulaParserLL3TokenManager
-
Lexer state names.
- lexStateNames - Static variable in class org.sbml.jsbml.math.parser.FormulaParserTokenManager
-
Lexer state names.
- lexStateNames - Static variable in class org.sbml.jsbml.text.parser.CobraFormulaParserTokenManager
-
Lexer state names.
- lexStateNames - Static variable in class org.sbml.jsbml.text.parser.FormulaParserASTNode2TokenManager
-
Lexer state names.
- lexStateNames - Static variable in class org.sbml.jsbml.text.parser.FormulaParserLL3ASTNode2TokenManager
-
Lexer state names.
- lexStateNames - Static variable in class org.sbml.jsbml.text.parser.FormulaParserLL3TokenManager
-
Lexer state names.
- lexStateNames - Static variable in class org.sbml.jsbml.text.parser.FormulaParserTokenManager
-
Lexer state names.
- LibSBMLFormulaCompiler - Class in org.sbml.jsbml.math.compiler
-
- LibSBMLFormulaCompiler() - Constructor for class org.sbml.jsbml.math.compiler.LibSBMLFormulaCompiler
-
- LibSBMLFormulaCompiler - Class in org.sbml.jsbml.util.compilers
-
This class creates C-like infix formula
Strings that represent the
content of
ASTNodes and try to reproduce the output generated by the LibSBML historical parser (compatible with SBML L1 infix).
- LibSBMLFormulaCompiler() - Constructor for class org.sbml.jsbml.util.compilers.LibSBMLFormulaCompiler
-
- LinearGradient - Class in org.sbml.jsbml.ext.render
-
- LinearGradient() - Constructor for class org.sbml.jsbml.ext.render.LinearGradient
-
Creates an LinearGradient instance
- LinearGradient(LinearGradient) - Constructor for class org.sbml.jsbml.ext.render.LinearGradient
-
Clone constructor
- lineBreak - Static variable in class org.sbml.jsbml.math.compiler.LaTeXCompiler
-
This is a LaTeX line break.
- lineBreak - Static variable in class org.sbml.jsbml.util.compilers.LaTeXCompiler
-
This is a LaTeX line break.
- LineEnding - Class in org.sbml.jsbml.ext.render
-
- LineEnding() - Constructor for class org.sbml.jsbml.ext.render.LineEnding
-
Creates an LineEnding instance
- LineEnding(LineEnding) - Constructor for class org.sbml.jsbml.ext.render.LineEnding
-
Clone constructor
- lineEnding - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- LineSegment - Class in org.sbml.jsbml.ext.layout
-
The
LineSegment class consists of the mandatory attribute xsi:type and two child
elements of type
Point.
- LineSegment() - Constructor for class org.sbml.jsbml.ext.layout.LineSegment
-
- LineSegment(int, int) - Constructor for class org.sbml.jsbml.ext.layout.LineSegment
-
- LineSegment(LineSegment) - Constructor for class org.sbml.jsbml.ext.layout.LineSegment
-
- LineSegment(CurveSegment) - Constructor for class org.sbml.jsbml.ext.layout.LineSegment
-
- listIterator() - Method in class org.sbml.jsbml.ListOf
-
- listIterator(int) - Method in class org.sbml.jsbml.ListOf
-
- ListOf<T extends SBase> - Class in org.sbml.jsbml
-
- ListOf() - Constructor for class org.sbml.jsbml.ListOf
-
Creates a ListOf instance.
- ListOf(int, int) - Constructor for class org.sbml.jsbml.ListOf
-
Creates a
ListOf instance from a level and version.
- ListOf(ListOf<? extends SBase>) - Constructor for class org.sbml.jsbml.ListOf
-
creates a ListOf instance from a given ListOf.
- ListOf.Type - Enum in org.sbml.jsbml
-
This enum lists all the possible names of the listXXX components.
- listOfAdditionalGraphicalObjects - Static variable in class org.sbml.jsbml.ext.layout.LayoutConstants
-
- listOfAdjacentDomains - Static variable in class org.sbml.jsbml.ext.spatial.SpatialConstants
-
- listOfAnalyticVolumes - Static variable in class org.sbml.jsbml.ext.spatial.SpatialConstants
-
- listOfBonds - Static variable in class org.sbml.jsbml.ext.multi.MultiConstants
-
- listOfChangedMaths - Static variable in class org.sbml.jsbml.ext.req.ReqConstants
-
- listOfColorDefinitions - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- listOfCompartmentGlyphs - Static variable in class org.sbml.jsbml.ext.layout.LayoutConstants
-
- listOfCompartmentReferences - Static variable in class org.sbml.jsbml.ext.multi.MultiConstants
-
- listOfContainedSpeciesTypes - Static variable in class org.sbml.jsbml.ext.multi.MultiConstants
-
- listOfCoordinateComponents - Static variable in class org.sbml.jsbml.ext.spatial.SpatialConstants
-
- listOfCSGNodes - Static variable in class org.sbml.jsbml.ext.spatial.SpatialConstants
-
- listOfCSGObjects - Static variable in class org.sbml.jsbml.ext.spatial.SpatialConstants
-
- listOfCurveSegments - Static variable in class org.sbml.jsbml.ext.layout.LayoutConstants
-
- listOfDeletions - Static variable in class org.sbml.jsbml.ext.comp.CompConstants
-
- listOfDimensions - Static variable in class org.sbml.jsbml.ext.arrays.ArraysConstants
-
- listOfDistribInputs - Static variable in class org.sbml.jsbml.ext.distrib.DistribConstants
-
- listOfDomains - Static variable in class org.sbml.jsbml.ext.spatial.SpatialConstants
-
- listOfDomainTypes - Static variable in class org.sbml.jsbml.ext.spatial.SpatialConstants
-
- listOfDynElements - Static variable in class org.sbml.jsbml.ext.dyn.DynConstants
-
- listOfElements - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- listOfExternalModelDefinitions - Static variable in class org.sbml.jsbml.ext.comp.CompConstants
-
- listOfFluxes - Static variable in class org.sbml.jsbml.ext.fbc.FBCConstants
-
- listOfFluxObjectives - Static variable in class org.sbml.jsbml.ext.fbc.FBCConstants
-
- listOfGeneProducts - Static variable in class org.sbml.jsbml.ext.fbc.FBCConstants
-
- listOfGeneralGlyphs - Static variable in class org.sbml.jsbml.ext.layout.LayoutConstants
-
- listOfGeometryDefinitions - Static variable in class org.sbml.jsbml.ext.spatial.SpatialConstants
-
- listOfGlobalRenderInformation - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- listOfGradientDefinitions - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- listOfGradientStops - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- listOfIndices - Static variable in class org.sbml.jsbml.ext.arrays.ArraysConstants
-
- listOfInSpeciesTypeBonds - Static variable in class org.sbml.jsbml.ext.multi.MultiConstants
-
- listOfInteriorPoints - Static variable in class org.sbml.jsbml.ext.spatial.SpatialConstants
-
- listOfLayouts - Static variable in class org.sbml.jsbml.ext.layout.LayoutConstants
-
- listOfLineEndings - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- listOfLocalRenderInformation - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- listOfLocalStyles - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- ListOfMemberConstraint - Class in org.sbml.jsbml.ext.groups
-
Deprecated.
This class was removed from the specifications as of version 0.7
(2015-11-24) as no software wanted to implement support for it.
It might be added back in a future version of the specifications
if somebody want to implement it.
- ListOfMemberConstraint() - Constructor for class org.sbml.jsbml.ext.groups.ListOfMemberConstraint
-
Deprecated.
- ListOfMemberConstraint(int, int) - Constructor for class org.sbml.jsbml.ext.groups.ListOfMemberConstraint
-
Deprecated.
- ListOfMemberConstraint(ListOfMemberConstraint) - Constructor for class org.sbml.jsbml.ext.groups.ListOfMemberConstraint
-
Deprecated.
- listOfModelDefinitions - Static variable in class org.sbml.jsbml.ext.comp.CompConstants
-
- listOfObjectives - Static variable in class org.sbml.jsbml.ext.fbc.FBCConstants
-
- ListOfObjectives - Class in org.sbml.jsbml.ext.fbc
-
- ListOfObjectives() - Constructor for class org.sbml.jsbml.ext.fbc.ListOfObjectives
-
- ListOfObjectives(int, int) - Constructor for class org.sbml.jsbml.ext.fbc.ListOfObjectives
-
- ListOfObjectives(ListOfObjectives) - Constructor for class org.sbml.jsbml.ext.fbc.ListOfObjectives
-
- ListOfObjectives(ListOf<Objective>) - Constructor for class org.sbml.jsbml.ext.fbc.ListOfObjectives
-
- listOfOutwardBindingSites - Static variable in class org.sbml.jsbml.ext.multi.MultiConstants
-
- listOfParametricObjects - Static variable in class org.sbml.jsbml.ext.spatial.SpatialConstants
-
- listOfPorts - Static variable in class org.sbml.jsbml.ext.comp.CompConstants
-
- listOfPossibleSpeciesFeatureValues - Static variable in class org.sbml.jsbml.ext.multi.MultiConstants
-
- listOfPossibleValues - Static variable in class org.sbml.jsbml.ext.multi.MultiConstants
-
- listOfReactionGlyphs - Static variable in class org.sbml.jsbml.ext.layout.LayoutConstants
-
- listOfReferenceGlyphs - Static variable in class org.sbml.jsbml.ext.layout.LayoutConstants
-
- listOfReplacedElements - Static variable in class org.sbml.jsbml.ext.comp.CompConstants
-
- listOfSampledFields - Static variable in class org.sbml.jsbml.ext.spatial.SpatialConstants
-
- listOfSampledVolumes - Static variable in class org.sbml.jsbml.ext.spatial.SpatialConstants
-
- listOfSelectors - Static variable in class org.sbml.jsbml.ext.multi.MultiConstants
-
- listOfSpatialComponents - Static variable in class org.sbml.jsbml.ext.dyn.DynConstants
-
- listOfSpatialPoints - Static variable in class org.sbml.jsbml.ext.spatial.SpatialConstants
-
- listOfSpeciesFeatureChanges - Static variable in class org.sbml.jsbml.ext.multi.MultiConstants
-
- listOfSpeciesFeatures - Static variable in class org.sbml.jsbml.ext.multi.MultiConstants
-
- listOfSpeciesFeatureTypes - Static variable in class org.sbml.jsbml.ext.multi.MultiConstants
-
- listOfSpeciesFeatureValues - Static variable in class org.sbml.jsbml.ext.multi.MultiConstants
-
- listOfSpeciesGlyphs - Static variable in class org.sbml.jsbml.ext.layout.LayoutConstants
-
- listOfSpeciesReferenceGlyphs - Static variable in class org.sbml.jsbml.ext.layout.LayoutConstants
-
- listOfSpeciesTypeComponentIndexes - Static variable in class org.sbml.jsbml.ext.multi.MultiConstants
-
- listOfSpeciesTypeComponentMapInProducts - Static variable in class org.sbml.jsbml.ext.multi.MultiConstants
-
- listOfSpeciesTypeInstances - Static variable in class org.sbml.jsbml.ext.multi.MultiConstants
-
- listOfSpeciesTypes - Static variable in class org.sbml.jsbml.ext.multi.MultiConstants
-
- listOfSpeciesTypeStates - Static variable in class org.sbml.jsbml.ext.multi.MultiConstants
-
- listOfStateFeatureInstances - Static variable in class org.sbml.jsbml.ext.multi.MultiConstants
-
- listOfStateFeatures - Static variable in class org.sbml.jsbml.ext.multi.MultiConstants
-
- listOfStateFeatureValues - Static variable in class org.sbml.jsbml.ext.multi.MultiConstants
-
- listOfStyles - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- listOfSubGlyphs - Static variable in class org.sbml.jsbml.ext.layout.LayoutConstants
-
- listOfSubmodels - Static variable in class org.sbml.jsbml.ext.comp.CompConstants
-
- listOfTextGlyphs - Static variable in class org.sbml.jsbml.ext.layout.LayoutConstants
-
- listOfUnboundBindingSites - Static variable in class org.sbml.jsbml.ext.multi.MultiConstants
-
- listOfUnits - Static variable in class org.sbml.jsbml.util.TreeNodeChangeEvent
-
- ListOfWithName<T extends SBase> - Class in org.sbml.jsbml.util
-
- ListOfWithName(String) - Constructor for class org.sbml.jsbml.util.ListOfWithName
-
- ListOfWithName(int, int, String) - Constructor for class org.sbml.jsbml.util.ListOfWithName
-
- ListOfWithName(ListOfWithName<? extends SBase>) - Constructor for class org.sbml.jsbml.util.ListOfWithName
-
- ln(ASTNode) - Method in class org.sbml.jsbml.ext.arrays.compiler.ArraysCompiler
-
- ln(ASTNode) - Method in class org.sbml.jsbml.ext.arrays.compiler.StaticallyComputableCompiler
-
- ln(ASTNode) - Method in class org.sbml.jsbml.ext.arrays.compiler.VectorCompiler
-
- ln(ASTNode2) - Method in interface org.sbml.jsbml.math.compiler.ASTNode2Compiler
-
Natural logarithm.
- ln(ASTNode2) - Method in class org.sbml.jsbml.math.compiler.FindUnitsCompiler
-
- ln(ASTNode2) - Method in class org.sbml.jsbml.math.compiler.FormulaCompiler
-
- ln(ASTNode2) - Method in class org.sbml.jsbml.math.compiler.LaTeXCompiler
-
- ln(ASTNode2) - Method in class org.sbml.jsbml.math.compiler.LibSBMLFormulaCompiler
-
- ln(ASTNode2) - Method in class org.sbml.jsbml.math.compiler.UnitsCompiler
-
- ln(ASTNode) - Method in interface org.sbml.jsbml.util.compilers.ASTNodeCompiler
-
Natural logarithm.
- ln(ASTNode) - Method in class org.sbml.jsbml.util.compilers.FindUnitsCompiler
-
- ln(ASTNode) - Method in class org.sbml.jsbml.util.compilers.FormulaCompiler
-
- ln(ASTNode) - Method in class org.sbml.jsbml.util.compilers.LaTeXCompiler
-
- ln(ASTNode) - Method in class org.sbml.jsbml.util.compilers.LibSBMLFormulaCompiler
-
- ln(ASTNode) - Method in class org.sbml.jsbml.util.compilers.MathMLCompiler
-
Deprecated.
- ln(ASTNode) - Method in class org.sbml.jsbml.util.compilers.UnitsCompiler
-
- ln(double) - Static method in class org.sbml.jsbml.util.Maths
-
This method computes the ln of n
- loadClasses(String, Map<String, Class<? extends T>>) - Static method in class org.sbml.jsbml.JSBML
-
Loads
Properties from a configuration file with the given path
assuming that all values represent class names.
- LocalParameter - Class in org.sbml.jsbml
-
A local parameter can only be used to specify a constant within a
KineticLaw.
- LocalParameter() - Constructor for class org.sbml.jsbml.LocalParameter
-
- LocalParameter(int, int) - Constructor for class org.sbml.jsbml.LocalParameter
-
- LocalParameter(LocalParameter) - Constructor for class org.sbml.jsbml.LocalParameter
-
- LocalParameter(Parameter) - Constructor for class org.sbml.jsbml.LocalParameter
-
Creates a new local parameter that will have the same properties than the
given global parameter.
- LocalParameter(String) - Constructor for class org.sbml.jsbml.LocalParameter
-
- LocalParameter(String, int, int) - Constructor for class org.sbml.jsbml.LocalParameter
-
- LocalParameter(String, String, int, int) - Constructor for class org.sbml.jsbml.LocalParameter
-
- LocalRenderInformation - Class in org.sbml.jsbml.ext.render
-
- LocalRenderInformation() - Constructor for class org.sbml.jsbml.ext.render.LocalRenderInformation
-
Creates an LocalRenderInformation instance
- LocalRenderInformation(String) - Constructor for class org.sbml.jsbml.ext.render.LocalRenderInformation
-
Creates a LocalRenderInformation instance with an id.
- LocalRenderInformation(int, int) - Constructor for class org.sbml.jsbml.ext.render.LocalRenderInformation
-
Creates a LocalRenderInformation instance with a level and version.
- LocalRenderInformation(String, int, int) - Constructor for class org.sbml.jsbml.ext.render.LocalRenderInformation
-
Creates a LocalRenderInformation instance with an id, level, and version.
- LocalRenderInformation(String, String, int, int) - Constructor for class org.sbml.jsbml.ext.render.LocalRenderInformation
-
Creates a LocalRenderInformation instance with an id, name, level, and version.
- LocalRenderInformation(LocalRenderInformation) - Constructor for class org.sbml.jsbml.ext.render.LocalRenderInformation
-
Clone constructor
- localRenderInformation - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- LocalStyle - Class in org.sbml.jsbml.ext.render
-
- LocalStyle(RenderGroup) - Constructor for class org.sbml.jsbml.ext.render.LocalStyle
-
Creates a LocalStyle instance with a group
- LocalStyle(int, int, RenderGroup) - Constructor for class org.sbml.jsbml.ext.render.LocalStyle
-
Creates a LocalStyle instance with a level and version.
- LocalStyle(String, int, int, RenderGroup) - Constructor for class org.sbml.jsbml.ext.render.LocalStyle
-
Creates a LocalStyle instance with an id, name, level, and version.
- log(ASTNode) - Static method in class org.sbml.jsbml.ASTNode
-
Creates an
ASTNode representing a logarithm to base 10 of the given value.
- log(ASTNode, ASTNode) - Static method in class org.sbml.jsbml.ASTNode
-
Creates an
ASTNode that represents the logarithm function with
the given base and value.
- log(ASTNode) - Method in class org.sbml.jsbml.ext.arrays.compiler.ArraysCompiler
-
- log(ASTNode, ASTNode) - Method in class org.sbml.jsbml.ext.arrays.compiler.ArraysCompiler
-
- log(ASTNode) - Method in class org.sbml.jsbml.ext.arrays.compiler.StaticallyComputableCompiler
-
- log(ASTNode, ASTNode) - Method in class org.sbml.jsbml.ext.arrays.compiler.StaticallyComputableCompiler
-
- log(ASTNode) - Method in class org.sbml.jsbml.ext.arrays.compiler.VectorCompiler
-
- log(ASTNode, ASTNode) - Method in class org.sbml.jsbml.ext.arrays.compiler.VectorCompiler
-
- log(ASTNode2) - Static method in class org.sbml.jsbml.math.ASTFactory
-
Creates an
ASTLogarithmNode representing a logarithm to base 10 of the given value.
- log(ASTNode2, ASTNode2) - Static method in class org.sbml.jsbml.math.ASTFactory
-
Creates an
ASTLogarithmNode that represents the logarithm function with
the given base and value.
- log(ASTNode2) - Method in interface org.sbml.jsbml.math.compiler.ASTNode2Compiler
-
Logarithm of the given value to base 10.
- log(ASTNode2, ASTNode2) - Method in interface org.sbml.jsbml.math.compiler.ASTNode2Compiler
-
Logarithm of the given value to the given base.
- log(ASTNode2) - Method in class org.sbml.jsbml.math.compiler.FindUnitsCompiler
-
- log(ASTNode2, ASTNode2) - Method in class org.sbml.jsbml.math.compiler.FindUnitsCompiler
-
- log(ASTNode2) - Method in class org.sbml.jsbml.math.compiler.FormulaCompiler
-
- log(ASTNode2, ASTNode2) - Method in class org.sbml.jsbml.math.compiler.FormulaCompiler
-
- log(ASTNode2) - Method in class org.sbml.jsbml.math.compiler.LaTeXCompiler
-
- log(ASTNode2, ASTNode2) - Method in class org.sbml.jsbml.math.compiler.LaTeXCompiler
-
- log(ASTNode2) - Method in class org.sbml.jsbml.math.compiler.LibSBMLFormulaCompiler
-
- log(ASTNode2, ASTNode2) - Method in class org.sbml.jsbml.math.compiler.LibSBMLFormulaCompiler
-
- log(ASTNode2) - Method in class org.sbml.jsbml.math.compiler.UnitsCompiler
-
- log(ASTNode2, ASTNode2) - Method in class org.sbml.jsbml.math.compiler.UnitsCompiler
-
- LOG - Static variable in interface org.sbml.jsbml.math.parser.FormulaParserASTNode2Constants
-
RegularExpression Id.
- LOG - Static variable in interface org.sbml.jsbml.math.parser.FormulaParserConstants
-
RegularExpression Id.
- LOG - Static variable in interface org.sbml.jsbml.math.parser.FormulaParserLL3ASTNode2Constants
-
RegularExpression Id.
- LOG - Static variable in interface org.sbml.jsbml.math.parser.FormulaParserLL3Constants
-
RegularExpression Id.
- LOG - Static variable in interface org.sbml.jsbml.text.parser.CobraFormulaParserConstants
-
RegularExpression Id.
- LOG - Static variable in interface org.sbml.jsbml.text.parser.FormulaParserASTNode2Constants
-
RegularExpression Id.
- LOG - Static variable in interface org.sbml.jsbml.text.parser.FormulaParserConstants
-
RegularExpression Id.
- LOG - Static variable in interface org.sbml.jsbml.text.parser.FormulaParserLL3ASTNode2Constants
-
RegularExpression Id.
- LOG - Static variable in interface org.sbml.jsbml.text.parser.FormulaParserLL3Constants
-
RegularExpression Id.
- log(ASTNode) - Method in interface org.sbml.jsbml.util.compilers.ASTNodeCompiler
-
Logarithm of the given value to base 10.
- log(ASTNode, ASTNode) - Method in interface org.sbml.jsbml.util.compilers.ASTNodeCompiler
-
Logarithm of the given value to the given base.
- log(ASTNode) - Method in class org.sbml.jsbml.util.compilers.FindUnitsCompiler
-
- log(ASTNode, ASTNode) - Method in class org.sbml.jsbml.util.compilers.FindUnitsCompiler
-
- log(ASTNode) - Method in class org.sbml.jsbml.util.compilers.FormulaCompiler
-
- log(ASTNode, ASTNode) - Method in class org.sbml.jsbml.util.compilers.FormulaCompiler
-
- log(ASTNode) - Method in class org.sbml.jsbml.util.compilers.LaTeXCompiler
-
- log(ASTNode, ASTNode) - Method in class org.sbml.jsbml.util.compilers.LaTeXCompiler
-
- log(ASTNode) - Method in class org.sbml.jsbml.util.compilers.LibSBMLFormulaCompiler
-
- log(ASTNode, ASTNode) - Method in class org.sbml.jsbml.util.compilers.LibSBMLFormulaCompiler
-
- log(ASTNode) - Method in class org.sbml.jsbml.util.compilers.MathMLCompiler
-
Deprecated.
- log(ASTNode, ASTNode) - Method in class org.sbml.jsbml.util.compilers.MathMLCompiler
-
Deprecated.
- log(ASTNode) - Method in class org.sbml.jsbml.util.compilers.UnitsCompiler
-
- log(ASTNode, ASTNode) - Method in class org.sbml.jsbml.util.compilers.UnitsCompiler
-
- log(double) - Static method in class org.sbml.jsbml.util.Maths
-
This method computes the log of n to the base 10
- log(double, double) - Static method in class org.sbml.jsbml.util.Maths
-
This method computes the logarithm of a number x to a giving base b.
- log(Priority, String) - Method in class org.sbml.jsbml.xml.stax.XMLLogger
-
- LogicalOperator - Class in org.sbml.jsbml.ext.fbc
-
- LogicalOperator() - Constructor for class org.sbml.jsbml.ext.fbc.LogicalOperator
-
- LogicalOperator(int, int) - Constructor for class org.sbml.jsbml.ext.fbc.LogicalOperator
-
- LogicalOperator(LogicalOperator) - Constructor for class org.sbml.jsbml.ext.fbc.LogicalOperator
-
- longtableHead(String, String, String) - Method in class org.sbml.jsbml.math.compiler.LaTeXCompiler
-
Creates a head for a longtable in LaTeX.
- longtableHead(String, String, String) - Method in class org.sbml.jsbml.util.compilers.LaTeXCompiler
-
Creates a head for a longtable in LaTeX.
- lowerFluxBound - Static variable in class org.sbml.jsbml.ext.fbc.FBCConstants
-
Introduced to FBC in version 2.
- lt(ASTNode, ASTNode) - Static method in class org.sbml.jsbml.ASTNode
-
Creates an
ASTNode that performs a less than comparison between
two
ASTNodes.
- lt(String, ASTNode) - Static method in class org.sbml.jsbml.ASTNode
-
Creates an
ASTNode that performs a less than comparison between a
variable and another
ASTNode.
- lt(ASTNode, ASTNode) - Method in class org.sbml.jsbml.ext.arrays.compiler.ArraysCompiler
-
- lt(ASTNode, ASTNode) - Method in class org.sbml.jsbml.ext.arrays.compiler.StaticallyComputableCompiler
-
- lt(ASTNode, ASTNode) - Method in class org.sbml.jsbml.ext.arrays.compiler.VectorCompiler
-
- lt(ASTNode2, ASTNode2) - Static method in class org.sbml.jsbml.math.ASTFactory
-
- lt(String, ASTNode2) - Static method in class org.sbml.jsbml.math.ASTFactory
-
- lt(ASTNode2, ASTNode2) - Method in interface org.sbml.jsbml.math.compiler.ASTNode2Compiler
-
Less than.
- lt(ASTNode2, ASTNode2) - Method in class org.sbml.jsbml.math.compiler.FindUnitsCompiler
-
- lt(ASTNode2, ASTNode2) - Method in class org.sbml.jsbml.math.compiler.FormulaCompiler
-
- lt(ASTNode2, ASTNode2) - Method in class org.sbml.jsbml.math.compiler.LaTeXCompiler
-
- lt(ASTNode2, ASTNode2) - Method in class org.sbml.jsbml.math.compiler.LibSBMLFormulaCompiler
-
- lt(ASTNode2, ASTNode2) - Method in class org.sbml.jsbml.math.compiler.UnitsCompiler
-
- lt(ASTNode, ASTNode) - Method in interface org.sbml.jsbml.util.compilers.ASTNodeCompiler
-
Less than.
- lt(ASTNode, ASTNode) - Method in class org.sbml.jsbml.util.compilers.FindUnitsCompiler
-
- lt(ASTNode, ASTNode) - Method in class org.sbml.jsbml.util.compilers.FormulaCompiler
-
- lt(ASTNode, ASTNode) - Method in class org.sbml.jsbml.util.compilers.FormulaCompilerLibSBML
-
- lt(ASTNode, ASTNode) - Method in class org.sbml.jsbml.util.compilers.LaTeXCompiler
-
- lt(ASTNode, ASTNode) - Method in class org.sbml.jsbml.util.compilers.LibSBMLFormulaCompiler
-
- lt(ASTNode, ASTNode) - Method in class org.sbml.jsbml.util.compilers.MathMLCompiler
-
Deprecated.
- lt(ASTNode, ASTNode) - Method in class org.sbml.jsbml.util.compilers.UnitsCompiler
-
