- calculateAverageCurvePosition(SpeciesReferenceRole, List<SpeciesReferenceGlyph>) - Method in class org.sbml.jsbml.ext.render.director.SimpleLayoutAlgorithm
-
This method calculates the average position of a curve at the direction of the reaction glyph,
if the role of a species reference glyph is PRODUCT, the start point of the curve is at the
reaction glyph, else the start point is at the species and the end point at the reaction glyph.
- calculateAverageSpeciesPosition(SpeciesReferenceRole, List<SpeciesReferenceGlyph>) - Method in class org.sbml.jsbml.ext.render.director.SimpleLayoutAlgorithm
-
method calculates the average position of the species glyphs belonging to
the given list of species reference glyphs, the role of the species
reference glyph must be of the given type
- calculateCenter(GraphicalObject) - Method in class org.sbml.jsbml.ext.render.director.SimpleLayoutAlgorithm
-
- calculateCenter(GraphicalObject, int, int) - Static method in class org.sbml.jsbml.ext.render.director.SimpleLayoutAlgorithm
-
- calculateOldSpeciesGlyphDockingPosition(Point, SimpleLayoutAlgorithm.RelativePosition, SpeciesGlyph) - Method in class org.sbml.jsbml.ext.render.director.SimpleLayoutAlgorithm
-
Deprecated.
- calculateReactionGlyphDockingPoint(ReactionGlyph, double, SpeciesReferenceGlyph) - Method in class org.sbml.jsbml.ext.render.director.SimpleLayoutAlgorithm
-
c
- calculateReactionGlyphRotationAngle(ReactionGlyph) - Method in interface org.sbml.jsbml.ext.render.director.LayoutAlgorithm
-
method to calculate the rotation angle of the lines from the reaction box,
in degrees
- calculateReactionGlyphRotationAngle(ReactionGlyph) - Method in class org.sbml.jsbml.ext.render.director.SimpleLayoutAlgorithm
-
- calculateRotationAngle(Point, Point) - Static method in class org.sbml.jsbml.ext.render.director.SimpleLayoutAlgorithm
-
Calculate the rotation angle for a line determined by two
Points.
- calculateSpeciesGlyphDockingPosition(Point, ReactionGlyph, SpeciesReferenceRole, SpeciesGlyph) - Method in class org.sbml.jsbml.ext.render.director.SimpleLayoutAlgorithm
-
- canDecodeStringToArrayDouble(String) - Static method in class org.sbml.jsbml.ext.render.XMLTools
-
Checks whether given value is a valid doubleArray (i.e. a
comma-and-space-separated list of doubles)
- canDecodeStringToArrayUnsignedInt(String) - Static method in class org.sbml.jsbml.ext.render.XMLTools
-
- Catalysis<T> - Interface in org.sbml.jsbml.ext.render.director
-
interface all the different graphical representations for catalysis arcs have
to implement
- center(BoundingBox) - Static method in class org.sbml.jsbml.ext.render.director.Geometry
-
Calculates the center of the given bounding box and returns a point representing that center.
- clone() - Method in class org.sbml.jsbml.ext.render.ColorDefinition
-
- clone() - Method in class org.sbml.jsbml.ext.render.DefaultValues
-
- clone() - Method in class org.sbml.jsbml.ext.render.Ellipse
-
- clone() - Method in class org.sbml.jsbml.ext.render.GlobalRenderInformation
-
- clone() - Method in class org.sbml.jsbml.ext.render.GradientBase
-
- clone() - Method in class org.sbml.jsbml.ext.render.GradientStop
-
- clone() - Method in class org.sbml.jsbml.ext.render.GraphicalPrimitive1D
-
- clone() - Method in class org.sbml.jsbml.ext.render.GraphicalPrimitive2D
-
- clone() - Method in class org.sbml.jsbml.ext.render.Image
-
- clone() - Method in class org.sbml.jsbml.ext.render.LinearGradient
-
- clone() - Method in class org.sbml.jsbml.ext.render.LineEnding
-
- clone() - Method in class org.sbml.jsbml.ext.render.ListOfGlobalRenderInformation
-
clones this class
- clone() - Method in class org.sbml.jsbml.ext.render.ListOfLocalRenderInformation
-
clones this class
- clone() - Method in class org.sbml.jsbml.ext.render.LocalRenderInformation
-
- clone() - Method in class org.sbml.jsbml.ext.render.LocalStyle
-
- clone() - Method in class org.sbml.jsbml.ext.render.Polygon
-
- clone() - Method in class org.sbml.jsbml.ext.render.RadialGradient
-
- clone() - Method in class org.sbml.jsbml.ext.render.Rectangle
-
- clone() - Method in class org.sbml.jsbml.ext.render.RelAbsVector
-
- clone() - Method in class org.sbml.jsbml.ext.render.RenderCubicBezier
-
- clone() - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
- clone() - Method in class org.sbml.jsbml.ext.render.RenderGraphicalObjectPlugin
-
- clone() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
- clone() - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- clone() - Method in class org.sbml.jsbml.ext.render.RenderLayoutPlugin
-
- clone() - Method in class org.sbml.jsbml.ext.render.RenderListOfLayoutsPlugin
-
- clone() - Method in class org.sbml.jsbml.ext.render.RenderPoint
-
- clone() - Method in class org.sbml.jsbml.ext.render.Style
-
- clone() - Method in class org.sbml.jsbml.ext.render.Text
-
- clone() - Method in class org.sbml.jsbml.ext.render.Transformation
-
- clone() - Method in class org.sbml.jsbml.ext.render.Transformation2D
-
- ColorDefinition - Class in org.sbml.jsbml.ext.render
-
- ColorDefinition() - Constructor for class org.sbml.jsbml.ext.render.ColorDefinition
-
Creates an ColorDefinition instance
- ColorDefinition(int, int) - Constructor for class org.sbml.jsbml.ext.render.ColorDefinition
-
Creates a ColorDefinition instance with a level and version.
- ColorDefinition(String) - Constructor for class org.sbml.jsbml.ext.render.ColorDefinition
-
Creates a ColorDefinition instance with an id.
- ColorDefinition(String, int, int) - Constructor for class org.sbml.jsbml.ext.render.ColorDefinition
-
Creates a ColorDefinition instance with an id, level, and version.
- ColorDefinition(String, Color) - Constructor for class org.sbml.jsbml.ext.render.ColorDefinition
-
Creates a ColorDefinition instance with an id.
- ColorDefinition(String, String, int, int) - Constructor for class org.sbml.jsbml.ext.render.ColorDefinition
-
Creates a ColorDefinition instance with an id, name, level, and version.
- ColorDefinition(ColorDefinition) - Constructor for class org.sbml.jsbml.ext.render.ColorDefinition
-
Clone constructor
- ColorDefinitionConstraints - Class in org.sbml.jsbml.validator.offline.constraints
-
- ColorDefinitionConstraints() - Constructor for class org.sbml.jsbml.validator.offline.constraints.ColorDefinitionConstraints
-
- colorDefiniton - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- Compartment<T> - Class in org.sbml.jsbml.ext.render.director
-
- Compartment() - Constructor for class org.sbml.jsbml.ext.render.director.Compartment
-
- COMPARTMENT_LINK - Static variable in class org.sbml.jsbml.ext.render.director.LayoutDirector
-
- COMPARTMENTGLYPH - org.sbml.jsbml.ext.render.Style.Type
-
- completeGlyphs() - Method in interface org.sbml.jsbml.ext.render.director.LayoutAlgorithm
-
Return the input set of unlayouted glyphs with completed layout
information.
- Consumption<T> - Interface in org.sbml.jsbml.ext.render.director
-
interface all the different graphical representations for consumption arcs
have to implement
- correctDimensions(GraphicalObject) - Method in class org.sbml.jsbml.ext.render.director.SimpleLayoutAlgorithm
-
- correctRotationAngle(double) - Method in class org.sbml.jsbml.ext.render.director.SimpleLayoutAlgorithm
-
Normalize a given rotation angle, i.e., express the angle in the range from
0° to 90° (excluding 90°).
- create() - Method in class org.sbml.jsbml.ext.render.director.GlyphCreator
-
compartment, species, reactions, textglyph
TODO
do not create one glyph per species, instead create exactly one glyph
for each species that acts as a main substrate and product and create
multiple glyphs for all species that act as side-substrates or
side products
this produces a far more useful graph
- createArc(SpeciesReferenceGlyph, ReactionGlyph) - Method in class org.sbml.jsbml.ext.render.director.AbstractLayoutBuilder
-
- createAssociationNode() - Method in interface org.sbml.jsbml.ext.render.director.LayoutFactory
-
- createBoundingBox() - Method in class org.sbml.jsbml.ext.render.LineEnding
-
- createBoundingBoxWithLevelAndVersion() - Method in class org.sbml.jsbml.ext.render.director.SimpleLayoutAlgorithm
-
Creates a
BoundingBox with the level and version of this layout.
- createCatalysis() - Method in interface org.sbml.jsbml.ext.render.director.LayoutFactory
-
- createCompartment() - Method in interface org.sbml.jsbml.ext.render.director.LayoutFactory
-
- createCompartmentGlyphDimension(CompartmentGlyph) - Method in interface org.sbml.jsbml.ext.render.director.LayoutAlgorithm
-
- createCompartmentGlyphPosition(CompartmentGlyph) - Method in interface org.sbml.jsbml.ext.render.director.LayoutAlgorithm
-
Deprecated.
- createConsumption() - Method in interface org.sbml.jsbml.ext.render.director.LayoutFactory
-
- createCubicBezier() - Method in class org.sbml.jsbml.ext.render.Polygon
-
- createCubicBezier() - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
- createCurve() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Creates a new
RenderCurve element, adds it to the ListOfElements list and returns it.
- createCurve(ReactionGlyph, SpeciesReferenceGlyph) - Method in interface org.sbml.jsbml.ext.render.director.LayoutAlgorithm
-
- createDissociationNode() - Method in interface org.sbml.jsbml.ext.render.director.LayoutFactory
-
- createElement() - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
- createEllipse() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Creates a new
Ellipse element, adds it to the ListOfElements list and returns it.
- createGlobalRenderInformation() - Method in class org.sbml.jsbml.ext.render.RenderListOfLayoutsPlugin
-
create a new GlobalRenderInformation element and adds it to the ListOfGlobalRenderInformation list
- createGlobalRenderInformation(String) - Method in class org.sbml.jsbml.ext.render.RenderListOfLayoutsPlugin
-
create a new GlobalRenderInformation element and adds it to the ListOfGlobalRenderInformation list
- createGlyphBoundingBox(GraphicalObject, SpeciesReferenceGlyph) - Method in interface org.sbml.jsbml.ext.render.director.LayoutAlgorithm
-
- createGradientStop(RelAbsVector, String) - Method in class org.sbml.jsbml.ext.render.GradientBase
-
create a new GradientStop element and adds it to the ListOfGradientStops list
- createImage() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Creates a new
Image element, adds it to the ListOfElements list and returns it.
- createInhibition() - Method in interface org.sbml.jsbml.ext.render.director.LayoutFactory
-
- createLayoutDimension() - Method in interface org.sbml.jsbml.ext.render.director.LayoutAlgorithm
-
method to create a
Dimensions for the layout if it was missing in
the layout model
- createLineSegment() - Method in class org.sbml.jsbml.ext.render.Polygon
-
- createLineSegment() - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
- createLocalRenderInformation() - Method in class org.sbml.jsbml.ext.render.RenderLayoutPlugin
-
Creates a new LocalRenderInformation element and adds it to the ListOfLocalRenderInformation list
- createLocalRenderInformation(String) - Method in class org.sbml.jsbml.ext.render.RenderLayoutPlugin
-
Creates a new LocalRenderInformation element and adds it to the ListOfLocalRenderInformation list
- createMacromolecule() - Method in interface org.sbml.jsbml.ext.render.director.LayoutFactory
-
- createModulation() - Method in interface org.sbml.jsbml.ext.render.director.LayoutFactory
-
- createNecessaryStimulation() - Method in interface org.sbml.jsbml.ext.render.director.LayoutFactory
-
- createNucleicAcidFeature() - Method in interface org.sbml.jsbml.ext.render.director.LayoutFactory
-
- createOmittedProcessNode() - Method in interface org.sbml.jsbml.ext.render.director.LayoutFactory
-
- createPerturbingAgent() - Method in interface org.sbml.jsbml.ext.render.director.LayoutFactory
-
- createPluginFor(ASTNode) - Method in class org.sbml.jsbml.xml.parsers.RenderParser
-
- createPluginFor(SBase) - Method in class org.sbml.jsbml.xml.parsers.RenderParser
-
- createPolygon() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Creates a new
Polygon element, adds it to the ListOfElements list and returns it.
- createProcessNode() - Method in interface org.sbml.jsbml.ext.render.director.LayoutFactory
-
- createProduction() - Method in interface org.sbml.jsbml.ext.render.director.LayoutFactory
-
- createReactionGlyphDimension(ReactionGlyph) - Method in interface org.sbml.jsbml.ext.render.director.LayoutAlgorithm
-
- createReactionGlyphDimension(ReactionGlyph) - Method in class org.sbml.jsbml.ext.render.director.SimpleLayoutAlgorithm
-
- createReactionGlyphPosition(ReactionGlyph) - Method in class org.sbml.jsbml.ext.render.director.SimpleLayoutAlgorithm
-
- createReactionGlyphPositionNew(ReactionGlyph) - Method in class org.sbml.jsbml.ext.render.director.SimpleLayoutAlgorithm
-
- createRectangle() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Creates a new
Rectangle element, adds it to the ListOfElements list and returns it.
- createRenderCubicBezier() - Method in class org.sbml.jsbml.ext.render.Polygon
-
- createRenderCubicBezier() - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
- createRenderGroup() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Creates a new
RenderGroup element, adds it to the ListOfElements list and returns it.
- createRenderPoint() - Method in class org.sbml.jsbml.ext.render.Polygon
-
Creates a new
RenderPoint instance and adds it to the
ListOfElements list
- createRenderPoint() - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
Creates a new
RenderPoint instance and adds it to the ListOfElements list
- createReversibleConsumption() - Method in interface org.sbml.jsbml.ext.render.director.LayoutFactory
-
- createSimpleChemical() - Method in interface org.sbml.jsbml.ext.render.director.LayoutFactory
-
- createSourceSink() - Method in interface org.sbml.jsbml.ext.render.director.LayoutFactory
-
- createSpeciesGlyphDimension() - Method in interface org.sbml.jsbml.ext.render.director.LayoutAlgorithm
-
- createSpeciesReferenceGlyphDimension(ReactionGlyph, SpeciesReferenceGlyph) - Method in interface org.sbml.jsbml.ext.render.director.LayoutAlgorithm
-
- createSpeciesReferenceGlyphPosition(ReactionGlyph, SpeciesReferenceGlyph) - Method in class org.sbml.jsbml.ext.render.director.SimpleLayoutAlgorithm
-
- createStimulation() - Method in interface org.sbml.jsbml.ext.render.director.LayoutFactory
-
- createText() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Creates a new
Text element, adds it to the ListOfElements list and returns it.
- createTextGlyphDimension(TextGlyph) - Method in interface org.sbml.jsbml.ext.render.director.LayoutAlgorithm
-
- createUncertainProcessNode() - Method in interface org.sbml.jsbml.ext.render.director.LayoutFactory
-
- createUnspecifiedNode() - Method in interface org.sbml.jsbml.ext.render.director.LayoutFactory
-
- cx - Variable in class org.sbml.jsbml.ext.render.Ellipse
-
- cx - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- cy - Variable in class org.sbml.jsbml.ext.render.Ellipse
-
- cy - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- cz - Variable in class org.sbml.jsbml.ext.render.Ellipse
-
- cz - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- GENERALGLYPH - org.sbml.jsbml.ext.render.Style.Type
-
- Geometry - Class in org.sbml.jsbml.ext.render.director
-
- Geometry() - Constructor for class org.sbml.jsbml.ext.render.director.Geometry
-
- getAbsoluteValue() - Method in class org.sbml.jsbml.ext.render.RelAbsVector
-
- getAddWhiskers() - Method in class org.sbml.jsbml.ext.render.director.LayoutDirector
-
Returns the value of addWhiskers
- getAlgorithm() - Method in class org.sbml.jsbml.ext.render.director.LayoutDirector
-
- getAllowsChildren() - Method in class org.sbml.jsbml.ext.render.AbstractRenderPlugin
-
- getAllowsChildren() - Method in class org.sbml.jsbml.ext.render.GradientBase
-
- getAllowsChildren() - Method in class org.sbml.jsbml.ext.render.GradientStop
-
- getAllowsChildren() - Method in class org.sbml.jsbml.ext.render.Image
-
- getAllowsChildren() - Method in class org.sbml.jsbml.ext.render.LineEnding
-
- getAllowsChildren() - Method in class org.sbml.jsbml.ext.render.ListOfRenderInformation
-
- getAllowsChildren() - Method in class org.sbml.jsbml.ext.render.Polygon
-
- getAllowsChildren() - Method in class org.sbml.jsbml.ext.render.Rectangle
-
- getAllowsChildren() - Method in class org.sbml.jsbml.ext.render.RelAbsVector
-
- getAllowsChildren() - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
- getAllowsChildren() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
- getAllowsChildren() - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- getAllowsChildren() - Method in class org.sbml.jsbml.ext.render.RenderLayoutPlugin
-
- getAllowsChildren() - Method in class org.sbml.jsbml.ext.render.RenderListOfLayoutsPlugin
-
- getAllowsChildren() - Method in class org.sbml.jsbml.ext.render.Style
-
- getBackgroundColor() - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- getBoundingBox() - Method in class org.sbml.jsbml.ext.render.LineEnding
-
- getBuilder() - Method in class org.sbml.jsbml.ext.render.director.LayoutDirector
-
- getChildAt(int) - Method in class org.sbml.jsbml.ext.render.AbstractRenderPlugin
-
- getChildAt(int) - Method in class org.sbml.jsbml.ext.render.GlobalRenderInformation
-
- getChildAt(int) - Method in class org.sbml.jsbml.ext.render.GradientBase
-
- getChildAt(int) - Method in class org.sbml.jsbml.ext.render.GradientStop
-
- getChildAt(int) - Method in class org.sbml.jsbml.ext.render.Image
-
- getChildAt(int) - Method in class org.sbml.jsbml.ext.render.LineEnding
-
- getChildAt(int) - Method in class org.sbml.jsbml.ext.render.ListOfRenderInformation
-
- getChildAt(int) - Method in class org.sbml.jsbml.ext.render.LocalRenderInformation
-
- getChildAt(int) - Method in class org.sbml.jsbml.ext.render.Polygon
-
The listOfElements and listOfCurveSegments will take the indices 0 and 1,
or 0 (if only one is set).
- getChildAt(int) - Method in class org.sbml.jsbml.ext.render.Rectangle
-
- getChildAt(int) - Method in class org.sbml.jsbml.ext.render.RelAbsVector
-
- getChildAt(int) - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
- getChildAt(int) - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
- getChildAt(int) - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- getChildAt(int) - Method in class org.sbml.jsbml.ext.render.RenderLayoutPlugin
-
- getChildAt(int) - Method in class org.sbml.jsbml.ext.render.RenderListOfLayoutsPlugin
-
- getChildAt(int) - Method in class org.sbml.jsbml.ext.render.Style
-
- getChildCount() - Method in class org.sbml.jsbml.ext.render.AbstractRenderPlugin
-
- getChildCount() - Method in class org.sbml.jsbml.ext.render.GlobalRenderInformation
-
- getChildCount() - Method in class org.sbml.jsbml.ext.render.GradientBase
-
- getChildCount() - Method in class org.sbml.jsbml.ext.render.GradientStop
-
- getChildCount() - Method in class org.sbml.jsbml.ext.render.Image
-
- getChildCount() - Method in class org.sbml.jsbml.ext.render.LineEnding
-
- getChildCount() - Method in class org.sbml.jsbml.ext.render.ListOfRenderInformation
-
- getChildCount() - Method in class org.sbml.jsbml.ext.render.LocalRenderInformation
-
- getChildCount() - Method in class org.sbml.jsbml.ext.render.Polygon
-
- getChildCount() - Method in class org.sbml.jsbml.ext.render.Rectangle
-
- getChildCount() - Method in class org.sbml.jsbml.ext.render.RelAbsVector
-
- getChildCount() - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
- getChildCount() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
- getChildCount() - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- getChildCount() - Method in class org.sbml.jsbml.ext.render.RenderLayoutPlugin
-
- getChildCount() - Method in class org.sbml.jsbml.ext.render.RenderListOfLayoutsPlugin
-
- getChildCount() - Method in class org.sbml.jsbml.ext.render.Style
-
- getColorDefinition(String) - Method in class org.sbml.jsbml.ext.render.LocalRenderInformation
-
- getColorDefinitionCount() - Method in class org.sbml.jsbml.ext.render.LocalRenderInformation
-
- getCoordinate() - Method in class org.sbml.jsbml.ext.render.RelAbsVector
-
Produces a string of the format "a" or "r%" or "a+r%" or "a-r%" as
specified in the render-documentation.
- getCurveSegment(int) - Method in class org.sbml.jsbml.ext.render.Polygon
-
- getCurveSegment(int) - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
- getCurveSegmentCount() - Method in class org.sbml.jsbml.ext.render.Polygon
-
- getCurveSegmentCount() - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
- getCx() - Method in class org.sbml.jsbml.ext.render.Ellipse
-
- getCx() - Method in class org.sbml.jsbml.ext.render.RadialGradient
-
- getCy() - Method in class org.sbml.jsbml.ext.render.Ellipse
-
- getCy() - Method in class org.sbml.jsbml.ext.render.RadialGradient
-
- getCz() - Method in class org.sbml.jsbml.ext.render.Ellipse
-
- getCz() - Method in class org.sbml.jsbml.ext.render.RadialGradient
-
- getDefaultValue(String) - Method in class org.sbml.jsbml.ext.render.DefaultValues
-
- getDefaultValues() - Method in class org.sbml.jsbml.ext.render.DefaultValues
-
- getDefaultValues() - Method in class org.sbml.jsbml.ext.render.ListOfRenderInformation
-
- getElement(int) - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Gets an element from the listOfElements at the given index.
- getElement(String) - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Gets an element from the listOfElements, with the given id.
- getElementCount() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
- getElementName() - Method in class org.sbml.jsbml.ext.render.GradientStop
-
- getElementName() - Method in class org.sbml.jsbml.ext.render.LocalRenderInformation
-
- getElementName() - Method in class org.sbml.jsbml.ext.render.LocalStyle
-
- getElementName() - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
- getElementName() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
- getElementName() - Method in class org.sbml.jsbml.ext.render.RenderPoint
-
- getEndHead() - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
Returns the value of endHead
- getEndHead() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
- getFill() - Method in class org.sbml.jsbml.ext.render.GraphicalPrimitive2D
-
- getFillRule() - Method in class org.sbml.jsbml.ext.render.GraphicalPrimitive2D
-
- getFontFamily() - Method in interface org.sbml.jsbml.ext.render.FontRenderStyle
-
- getFontFamily() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
- getFontFamily() - Method in class org.sbml.jsbml.ext.render.Text
-
- getFontSize() - Method in interface org.sbml.jsbml.ext.render.FontRenderStyle
-
- getFontSize() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
- getFontSize() - Method in class org.sbml.jsbml.ext.render.Text
-
- getFontStyleItalic() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Returns the value of fontStyleItalic
- getFontWeightBold() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Returns the value of fontWeightBold
- getFx() - Method in class org.sbml.jsbml.ext.render.RadialGradient
-
- getFy() - Method in class org.sbml.jsbml.ext.render.RadialGradient
-
- getFz() - Method in class org.sbml.jsbml.ext.render.RadialGradient
-
- getGroup() - Method in class org.sbml.jsbml.ext.render.LineEnding
-
- getGroup() - Method in class org.sbml.jsbml.ext.render.Style
-
- getHeight() - Method in class org.sbml.jsbml.ext.render.Image
-
- getHeight() - Method in class org.sbml.jsbml.ext.render.Rectangle
-
- getHref() - Method in class org.sbml.jsbml.ext.render.Image
-
- getIDList() - Method in class org.sbml.jsbml.ext.render.LocalStyle
-
- getLayout() - Method in interface org.sbml.jsbml.ext.render.director.LayoutAlgorithm
-
- getLayout() - Method in class org.sbml.jsbml.ext.render.director.SimpleLayoutAlgorithm
-
- getLayoutIndex() - Method in class org.sbml.jsbml.ext.render.director.LayoutDirector
-
- getLineWidth() - Method in class org.sbml.jsbml.ext.render.director.AbstractSBGNnode
-
- getLineWidth() - Method in interface org.sbml.jsbml.ext.render.director.SBGNNode
-
- getListOfColorDefinitions() - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- getListOfCurveSegments() - Method in class org.sbml.jsbml.ext.render.Polygon
-
- getListOfCurveSegments() - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
- getListOfElements() - Method in class org.sbml.jsbml.ext.render.Polygon
-
- getListOfElements() - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
- getListOfElements() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Returns the listOfElements.
- getListOfGlobalRenderInformation() - Method in class org.sbml.jsbml.ext.render.RenderListOfLayoutsPlugin
-
- getListOfGradientDefinitions() - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- getListOfGradientStops() - Method in class org.sbml.jsbml.ext.render.GradientBase
-
- getListOfLineEndings() - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- getListOfLocalRenderInformation() - Method in class org.sbml.jsbml.ext.render.RenderLayoutPlugin
-
- getListOfLocalStyles() - Method in class org.sbml.jsbml.ext.render.LocalRenderInformation
-
- getListOfStyles() - Method in class org.sbml.jsbml.ext.render.GlobalRenderInformation
-
- getLocalRenderInformation(int) - Method in class org.sbml.jsbml.ext.render.RenderLayoutPlugin
-
- getLocalStyleCount() - Method in class org.sbml.jsbml.ext.render.LocalRenderInformation
-
- getNamespaceFor(int, int, int) - Method in class org.sbml.jsbml.xml.parsers.RenderParser
-
- getNamespaces() - Method in class org.sbml.jsbml.xml.parsers.RenderParser
-
- getNamespaceURI() - Method in class org.sbml.jsbml.xml.parsers.RenderParser
-
- getNamespaceURI(int, int) - Static method in class org.sbml.jsbml.ext.render.RenderConstants
-
Returns the namespace URI corresponding to the given level and version.
- getNumCurveSegments() - Method in class org.sbml.jsbml.ext.render.Polygon
-
- getNumCurveSegments() - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
- getNumElements() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
- getObjectRole() - Method in class org.sbml.jsbml.ext.render.RenderGraphicalObjectPlugin
-
- getOffset() - Method in class org.sbml.jsbml.ext.render.GradientStop
-
- getPackageName() - Method in class org.sbml.jsbml.ext.render.AbstractRenderPlugin
-
- getPackageName() - Method in class org.sbml.jsbml.xml.parsers.RenderParser
-
- getPackageNamespaces() - Method in class org.sbml.jsbml.xml.parsers.RenderParser
-
- getPointOfContactToProduct() - Method in class org.sbml.jsbml.ext.render.director.AbstractSBGNProcessNode
-
- getPointOfContactToProduct() - Method in interface org.sbml.jsbml.ext.render.director.SBGNProcessNode
-
- getPointOfContactToSubstrate() - Method in class org.sbml.jsbml.ext.render.director.AbstractSBGNProcessNode
-
- getPointOfContactToSubstrate() - Method in interface org.sbml.jsbml.ext.render.director.SBGNProcessNode
-
- getPrefix() - Method in class org.sbml.jsbml.ext.render.AbstractRenderPlugin
-
- getProduct() - Method in interface org.sbml.jsbml.ext.render.director.LayoutBuilder
-
- getProduct() - Method in class org.sbml.jsbml.ext.render.director.LayoutDirector
-
Return the product of the building process.
- getProgramName() - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- getProgramVersion() - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- getR() - Method in class org.sbml.jsbml.ext.render.RadialGradient
-
- getRatio() - Method in class org.sbml.jsbml.ext.render.Ellipse
-
- getRatio() - Method in class org.sbml.jsbml.ext.render.Rectangle
-
- getReferenceRenderInformation() - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- getRelativePosition(Point, Point) - Static method in class org.sbml.jsbml.ext.render.director.SimpleLayoutAlgorithm
-
method calculates the relative position of the second bounding box with
respect to the first bounding box
ABOVE: middle of the second bounding box is directly above the middle of the first bounding box
BELOW: middle of the second bounding box is directly below the middle of the first bounding box
LEFT: middle of the second bounding box is directly left of the middle of the first bounding box
RIGHT: middle of the second bounding box is directly right of the middle of the first bounding box
- getRelativeValue() - Method in class org.sbml.jsbml.ext.render.RelAbsVector
-
- getRenderFillColor(SpeciesGlyph) - Static method in class org.sbml.jsbml.ext.render.director.RenderProcessor
-
- getRenderInformation() - Method in class org.sbml.jsbml.ext.render.AbstractRenderPlugin
-
- getRoleList() - Method in class org.sbml.jsbml.ext.render.Style
-
- getRx() - Method in class org.sbml.jsbml.ext.render.Ellipse
-
- getRx() - Method in class org.sbml.jsbml.ext.render.Rectangle
-
- getRy() - Method in class org.sbml.jsbml.ext.render.Ellipse
-
- getRy() - Method in class org.sbml.jsbml.ext.render.Rectangle
-
- getSBGNArc(int) - Method in class org.sbml.jsbml.ext.render.director.AbstractLayoutBuilder
-
Creates the correct
SBGNArc according to the given SBO term.
- getSBGNArc(SpeciesReferenceRole) - Method in class org.sbml.jsbml.ext.render.director.AbstractLayoutBuilder
-
- getSBGNNode(int) - Method in class org.sbml.jsbml.ext.render.director.AbstractLayoutBuilder
-
Create the correct
SBGNNode according to the given SBO term.
- getSBGNReactionNode(int) - Method in class org.sbml.jsbml.ext.render.director.AbstractLayoutBuilder
-
Create the correct process node according to the SBO term of the
reaction.
- getShortLabel() - Method in class org.sbml.jsbml.xml.parsers.RenderParser
-
- getSpreadMethod() - Method in class org.sbml.jsbml.ext.render.GradientBase
-
- getStartHead() - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
Returns the value of startHead
- getStartHead() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
- getStopColor() - Method in class org.sbml.jsbml.ext.render.GradientStop
-
- getStroke() - Method in class org.sbml.jsbml.ext.render.GraphicalPrimitive1D
-
- getStrokeDash(int) - Method in class org.sbml.jsbml.ext.render.GraphicalPrimitive1D
-
- getStrokeDashArray() - Method in class org.sbml.jsbml.ext.render.GraphicalPrimitive1D
-
- getStrokeWidth() - Method in class org.sbml.jsbml.ext.render.GraphicalPrimitive1D
-
- getText() - Method in class org.sbml.jsbml.ext.render.Text
-
- getTextAnchor() - Method in interface org.sbml.jsbml.ext.render.FontRenderStyle
-
- getTextAnchor() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
- getTextAnchor() - Method in class org.sbml.jsbml.ext.render.Text
-
- getTransform() - Method in class org.sbml.jsbml.ext.render.Transformation
-
- getTransform() - Method in class org.sbml.jsbml.ext.render.Transformation2D
-
- getType() - Method in class org.sbml.jsbml.ext.render.RenderCurveSegment
-
Returns the type.
- getTypeList() - Method in class org.sbml.jsbml.ext.render.Style
-
- getURI() - Method in class org.sbml.jsbml.ext.render.AbstractRenderPlugin
-
- getValidationFunction(int, ValidationContext) - Method in class org.sbml.jsbml.validator.offline.constraints.ColorDefinitionConstraints
-
- getValidationFunction(int, ValidationContext) - Method in class org.sbml.jsbml.validator.offline.constraints.DefaultValuesConstraints
-
- getValidationFunction(int, ValidationContext) - Method in class org.sbml.jsbml.validator.offline.constraints.EllipseConstraints
-
- getValidationFunction(int, ValidationContext) - Method in class org.sbml.jsbml.validator.offline.constraints.GlobalRenderInformationConstraints
-
- getValidationFunction(int, ValidationContext) - Method in class org.sbml.jsbml.validator.offline.constraints.GradientBaseConstraints
-
- getValidationFunction(int, ValidationContext) - Method in class org.sbml.jsbml.validator.offline.constraints.GradientStopConstraints
-
- getValidationFunction(int, ValidationContext) - Method in class org.sbml.jsbml.validator.offline.constraints.GraphicalPrimitive1DConstraints
-
- getValidationFunction(int, ValidationContext) - Method in class org.sbml.jsbml.validator.offline.constraints.GraphicalPrimitive2DConstraints
-
- getValidationFunction(int, ValidationContext) - Method in class org.sbml.jsbml.validator.offline.constraints.ImageConstraints
-
- getValidationFunction(int, ValidationContext) - Method in class org.sbml.jsbml.validator.offline.constraints.LinearGradientConstraints
-
- getValidationFunction(int, ValidationContext) - Method in class org.sbml.jsbml.validator.offline.constraints.LineEndingConstraints
-
- getValidationFunction(int, ValidationContext) - Method in class org.sbml.jsbml.validator.offline.constraints.LocalRenderInformationConstraints
-
- getValidationFunction(int, ValidationContext) - Method in class org.sbml.jsbml.validator.offline.constraints.LocalStyleConstraints
-
- getValidationFunction(int, ValidationContext) - Method in class org.sbml.jsbml.validator.offline.constraints.PolygonConstraints
-
- getValidationFunction(int, ValidationContext) - Method in class org.sbml.jsbml.validator.offline.constraints.RadialGradientConstraints
-
- getValidationFunction(int, ValidationContext) - Method in class org.sbml.jsbml.validator.offline.constraints.RectangleConstraints
-
- getValidationFunction(int, ValidationContext) - Method in class org.sbml.jsbml.validator.offline.constraints.RenderCubicBezierConstraints
-
- getValidationFunction(int, ValidationContext) - Method in class org.sbml.jsbml.validator.offline.constraints.RenderCurveConstraints
-
- getValidationFunction(int, ValidationContext) - Method in class org.sbml.jsbml.validator.offline.constraints.RenderGraphicalObjectPluginConstraints
-
- getValidationFunction(int, ValidationContext) - Method in class org.sbml.jsbml.validator.offline.constraints.RenderGroupConstraints
-
- getValidationFunction(int, ValidationContext) - Method in class org.sbml.jsbml.validator.offline.constraints.RenderInformationBaseConstraints
-
- getValidationFunction(int, ValidationContext) - Method in class org.sbml.jsbml.validator.offline.constraints.RenderLayoutPluginConstraints
-
- getValidationFunction(int, ValidationContext) - Method in class org.sbml.jsbml.validator.offline.constraints.RenderListOfLayoutsPluginConstraints
-
- getValidationFunction(int, ValidationContext) - Method in class org.sbml.jsbml.validator.offline.constraints.RenderPointConstraints
-
- getValidationFunction(int, ValidationContext) - Method in class org.sbml.jsbml.validator.offline.constraints.StyleConstraints
-
- getValidationFunction(int, ValidationContext) - Method in class org.sbml.jsbml.validator.offline.constraints.TextConstraints
-
- getValidationFunction(int, ValidationContext) - Method in class org.sbml.jsbml.validator.offline.constraints.Transformation2DConstraints
-
- getValidationFunction(int, ValidationContext) - Method in class org.sbml.jsbml.validator.offline.constraints.TransformationConstraints
-
- getValue() - Method in class org.sbml.jsbml.ext.render.ColorDefinition
-
- getVersionMajor() - Method in class org.sbml.jsbml.ext.render.ListOfRenderInformation
-
Returns the value of versionMajor
- getVersionMinor() - Method in class org.sbml.jsbml.ext.render.ListOfRenderInformation
-
Returns the value of versionMinor
- getVTextAnchor() - Method in interface org.sbml.jsbml.ext.render.FontRenderStyle
-
- getVTextAnchor() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
- getVTextAnchor() - Method in class org.sbml.jsbml.ext.render.Text
-
- getWidth() - Method in class org.sbml.jsbml.ext.render.Image
-
- getWidth() - Method in class org.sbml.jsbml.ext.render.Rectangle
-
- getX() - Method in class org.sbml.jsbml.ext.render.Image
-
- getX() - Method in interface org.sbml.jsbml.ext.render.Point3D
-
- getX() - Method in class org.sbml.jsbml.ext.render.Rectangle
-
- getX() - Method in class org.sbml.jsbml.ext.render.RenderPoint
-
- getX() - Method in class org.sbml.jsbml.ext.render.Text
-
- getX1() - Method in class org.sbml.jsbml.ext.render.LinearGradient
-
- getX1() - Method in class org.sbml.jsbml.ext.render.RenderCubicBezier
-
- getX2() - Method in class org.sbml.jsbml.ext.render.LinearGradient
-
- getX2() - Method in class org.sbml.jsbml.ext.render.RenderCubicBezier
-
- getXmlString() - Method in enum org.sbml.jsbml.ext.render.RenderCurveSegment.Type
-
Returns the String that will be written to XML.
- getY() - Method in class org.sbml.jsbml.ext.render.Image
-
- getY() - Method in interface org.sbml.jsbml.ext.render.Point3D
-
- getY() - Method in class org.sbml.jsbml.ext.render.Rectangle
-
- getY() - Method in class org.sbml.jsbml.ext.render.RenderPoint
-
- getY() - Method in class org.sbml.jsbml.ext.render.Text
-
- getY1() - Method in class org.sbml.jsbml.ext.render.LinearGradient
-
- getY1() - Method in class org.sbml.jsbml.ext.render.RenderCubicBezier
-
- getY2() - Method in class org.sbml.jsbml.ext.render.LinearGradient
-
- getY2() - Method in class org.sbml.jsbml.ext.render.RenderCubicBezier
-
- getZ() - Method in class org.sbml.jsbml.ext.render.Image
-
- getZ() - Method in interface org.sbml.jsbml.ext.render.Point3D
-
- getZ() - Method in class org.sbml.jsbml.ext.render.Rectangle
-
- getZ() - Method in class org.sbml.jsbml.ext.render.RenderPoint
-
- getZ() - Method in class org.sbml.jsbml.ext.render.Text
-
- getZ1() - Method in class org.sbml.jsbml.ext.render.LinearGradient
-
- getZ1() - Method in class org.sbml.jsbml.ext.render.RenderCubicBezier
-
- getZ2() - Method in class org.sbml.jsbml.ext.render.LinearGradient
-
- getZ2() - Method in class org.sbml.jsbml.ext.render.RenderCubicBezier
-
- globalRenderInformation - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- GlobalRenderInformation - Class in org.sbml.jsbml.ext.render
-
- GlobalRenderInformation() - Constructor for class org.sbml.jsbml.ext.render.GlobalRenderInformation
-
Creates an GlobalRenderInformation instance
- GlobalRenderInformation(int, int) - Constructor for class org.sbml.jsbml.ext.render.GlobalRenderInformation
-
Creates a GlobalRenderInformation instance with a level and version.
- GlobalRenderInformation(String) - Constructor for class org.sbml.jsbml.ext.render.GlobalRenderInformation
-
- GlobalRenderInformation(String, int, int) - Constructor for class org.sbml.jsbml.ext.render.GlobalRenderInformation
-
- GlobalRenderInformation(String, String, int, int) - Constructor for class org.sbml.jsbml.ext.render.GlobalRenderInformation
-
- GlobalRenderInformation(GlobalRenderInformation) - Constructor for class org.sbml.jsbml.ext.render.GlobalRenderInformation
-
Clone constructor
- GlobalRenderInformationConstraints - Class in org.sbml.jsbml.validator.offline.constraints
-
- GlobalRenderInformationConstraints() - Constructor for class org.sbml.jsbml.validator.offline.constraints.GlobalRenderInformationConstraints
-
- GlyphCreator - Class in org.sbml.jsbml.ext.render.director
-
This class creates a SBML layout for a model without layout information.
- GlyphCreator(Model) - Constructor for class org.sbml.jsbml.ext.render.director.GlyphCreator
-
- glyphHasDimensions(GraphicalObject) - Static method in class org.sbml.jsbml.ext.render.director.LayoutDirector
-
Check if a glyph has dimensions.
- glyphHasPosition(GraphicalObject) - Static method in class org.sbml.jsbml.ext.render.director.LayoutDirector
-
Check if a glyph has a position.
- glyphIsLayouted(GraphicalObject) - Static method in class org.sbml.jsbml.ext.render.director.LayoutDirector
-
Check if a glyph as complete layout information (i.e. if it as both
dimensions and position).
- gradientBase - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- GradientBase - Class in org.sbml.jsbml.ext.render
-
- GradientBase() - Constructor for class org.sbml.jsbml.ext.render.GradientBase
-
Creates an GradientBase instance
- GradientBase(String, GradientStop) - Constructor for class org.sbml.jsbml.ext.render.GradientBase
-
Creates a GradientBase instance with an id.
- GradientBase(String, GradientStop, int, int) - Constructor for class org.sbml.jsbml.ext.render.GradientBase
-
Creates a GradientBase instance with an id, name, level, and version.
- GradientBase(GradientBase) - Constructor for class org.sbml.jsbml.ext.render.GradientBase
-
Clone constructor
- GradientBase.Spread - Enum in org.sbml.jsbml.ext.render
-
The type GradientSpreadMethod is being used by GradientBase elements to decide how gradients propagate over
the whole element they are applied to.
- GradientBaseConstraints - Class in org.sbml.jsbml.validator.offline.constraints
-
- GradientBaseConstraints() - Constructor for class org.sbml.jsbml.validator.offline.constraints.GradientBaseConstraints
-
- gradientStop - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- GradientStop - Class in org.sbml.jsbml.ext.render
-
- GradientStop() - Constructor for class org.sbml.jsbml.ext.render.GradientStop
-
- GradientStop(double, String) - Constructor for class org.sbml.jsbml.ext.render.GradientStop
-
Convenience-constructor: As by the specification, the offset ought to be purely relative-valued
(i.e.e.g. 25d for 25%), the absolute part of the RelAbsVector is to be ignored anyways.
- GradientStop(GradientStop) - Constructor for class org.sbml.jsbml.ext.render.GradientStop
-
Clone constructor
- GradientStop(RelAbsVector, String) - Constructor for class org.sbml.jsbml.ext.render.GradientStop
-
Creates a GradientStop instance with an offset and a color.
- GradientStop(RelAbsVector, String, int, int) - Constructor for class org.sbml.jsbml.ext.render.GradientStop
-
Creates a GradientStop instance with an offset, color, level, and version.
- GradientStopConstraints - Class in org.sbml.jsbml.validator.offline.constraints
-
- GradientStopConstraints() - Constructor for class org.sbml.jsbml.validator.offline.constraints.GradientStopConstraints
-
- GRAPHICALOBJECT - org.sbml.jsbml.ext.render.Style.Type
-
- GraphicalPrimitive1D - Class in org.sbml.jsbml.ext.render
-
- GraphicalPrimitive1D() - Constructor for class org.sbml.jsbml.ext.render.GraphicalPrimitive1D
-
Creates an GraphicalPrimitive1D instance
- GraphicalPrimitive1D(int, int) - Constructor for class org.sbml.jsbml.ext.render.GraphicalPrimitive1D
-
Creates an GraphicalPrimitive1D instance
- GraphicalPrimitive1D(GraphicalPrimitive1D) - Constructor for class org.sbml.jsbml.ext.render.GraphicalPrimitive1D
-
Clone constructor
- GraphicalPrimitive1DConstraints - Class in org.sbml.jsbml.validator.offline.constraints
-
- GraphicalPrimitive1DConstraints() - Constructor for class org.sbml.jsbml.validator.offline.constraints.GraphicalPrimitive1DConstraints
-
- GraphicalPrimitive2D - Class in org.sbml.jsbml.ext.render
-
- GraphicalPrimitive2D() - Constructor for class org.sbml.jsbml.ext.render.GraphicalPrimitive2D
-
- GraphicalPrimitive2D(int, int) - Constructor for class org.sbml.jsbml.ext.render.GraphicalPrimitive2D
-
- GraphicalPrimitive2D(GraphicalPrimitive2D) - Constructor for class org.sbml.jsbml.ext.render.GraphicalPrimitive2D
-
Clone constructor
- GraphicalPrimitive2D.FillRule - Enum in org.sbml.jsbml.ext.render
-
The type FillRule enumeration describes how a surface created by connecting points on a Polygon are to be filled when rendered.
- GraphicalPrimitive2DConstraints - Class in org.sbml.jsbml.validator.offline.constraints
-
- GraphicalPrimitive2DConstraints() - Constructor for class org.sbml.jsbml.validator.offline.constraints.GraphicalPrimitive2DConstraints
-
- group - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- group - Variable in class org.sbml.jsbml.ext.render.Style
-
- id - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- idList - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- image - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- Image - Class in org.sbml.jsbml.ext.render
-
- Image() - Constructor for class org.sbml.jsbml.ext.render.Image
-
Creates an Image instance
- Image(String) - Constructor for class org.sbml.jsbml.ext.render.Image
-
Creates a Image instance with an id.
- Image(Image) - Constructor for class org.sbml.jsbml.ext.render.Image
-
Clone constructor
- ImageConstraints - Class in org.sbml.jsbml.validator.offline.constraints
-
- ImageConstraints() - Constructor for class org.sbml.jsbml.validator.offline.constraints.ImageConstraints
-
- Inhibition<T> - Interface in org.sbml.jsbml.ext.render.director
-
interface all the different graphical representations for inhibition arcs
have to implement
- initDefaults() - Method in class org.sbml.jsbml.ext.render.AbstractRenderPlugin
-
Initializes the default values using the namespace.
- initDefaults() - Method in class org.sbml.jsbml.ext.render.ColorDefinition
-
Initializes the default values using the namespace.
- initDefaults() - Method in class org.sbml.jsbml.ext.render.DefaultValues
-
Initializes the default values using the namespace.
- initDefaults() - Method in class org.sbml.jsbml.ext.render.GlobalRenderInformation
-
- initDefaults() - Method in class org.sbml.jsbml.ext.render.GradientBase
-
Initializes the default values using the namespace.
- initDefaults() - Method in class org.sbml.jsbml.ext.render.GradientStop
-
Initializes the default values using the namespace.
- initDefaults() - Method in class org.sbml.jsbml.ext.render.GraphicalPrimitive1D
-
- initDefaults() - Method in class org.sbml.jsbml.ext.render.GraphicalPrimitive2D
-
- initDefaults() - Method in class org.sbml.jsbml.ext.render.Image
-
- initDefaults() - Method in class org.sbml.jsbml.ext.render.LinearGradient
-
- initDefaults() - Method in class org.sbml.jsbml.ext.render.LineEnding
-
- initDefaults() - Method in class org.sbml.jsbml.ext.render.ListOfGlobalRenderInformation
-
Initializes the default values using the namespace.
- initDefaults() - Method in class org.sbml.jsbml.ext.render.ListOfLocalRenderInformation
-
Initializes the default values using the namespace.
- initDefaults() - Method in class org.sbml.jsbml.ext.render.ListOfRenderInformation
-
Initializes the default values using the namespace.
- initDefaults() - Method in class org.sbml.jsbml.ext.render.LocalRenderInformation
-
- initDefaults() - Method in class org.sbml.jsbml.ext.render.Polygon
-
- initDefaults() - Method in class org.sbml.jsbml.ext.render.RadialGradient
-
- initDefaults() - Method in class org.sbml.jsbml.ext.render.Rectangle
-
- initDefaults() - Method in class org.sbml.jsbml.ext.render.RenderCubicBezier
-
- initDefaults() - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
- initDefaults() - Method in class org.sbml.jsbml.ext.render.RenderGraphicalObjectPlugin
-
- initDefaults() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
- initDefaults() - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
Initializes the default values using the namespace.
- initDefaults() - Method in class org.sbml.jsbml.ext.render.RenderLayoutPlugin
-
- initDefaults() - Method in class org.sbml.jsbml.ext.render.RenderListOfLayoutsPlugin
-
- initDefaults() - Method in class org.sbml.jsbml.ext.render.RenderPoint
-
Initializes the default values using the namespace.
- initDefaults() - Method in class org.sbml.jsbml.ext.render.Style
-
Initializes the default values using the namespace.
- initDefaults() - Method in class org.sbml.jsbml.ext.render.Text
-
Initializes the default values using the namespace.
- initDefaults() - Method in class org.sbml.jsbml.ext.render.Transformation
-
Initializes the default values using the namespace.
- initDefaults() - Method in class org.sbml.jsbml.ext.render.Transformation2D
-
- isAbsolutePosition(String) - Static method in class org.sbml.jsbml.ext.render.XMLTools
-
- isEnableRotationMapping() - Method in class org.sbml.jsbml.ext.render.LineEnding
-
- isFontStyleItalic() - Method in interface org.sbml.jsbml.ext.render.FontRenderStyle
-
- isFontStyleItalic() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Returns the value of fontStyleItalic
- isFontStyleItalic() - Method in class org.sbml.jsbml.ext.render.Text
-
- isFontWeightBold() - Method in interface org.sbml.jsbml.ext.render.FontRenderStyle
-
- isFontWeightBold() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Returns the value of fontWeightBold
- isFontWeightBold() - Method in class org.sbml.jsbml.ext.render.Text
-
- isIdMandatory() - Method in class org.sbml.jsbml.ext.render.ColorDefinition
-
- isIdMandatory() - Method in class org.sbml.jsbml.ext.render.GradientBase
-
- isIdMandatory() - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- isIdMandatory() - Method in class org.sbml.jsbml.ext.render.Style
-
- isListOfColorDefinitionsEmpty() - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- isListOfCurveSegmentsEmpty() - Method in class org.sbml.jsbml.ext.render.Polygon
-
- isListOfCurveSegmentsEmpty() - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
- isListOfElementsEmpty() - Method in class org.sbml.jsbml.ext.render.Polygon
-
- isListOfElementsEmpty() - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
- isListOfElementsEmpty() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
- isListOfGlobalRenderInformationEmpty() - Method in class org.sbml.jsbml.ext.render.RenderListOfLayoutsPlugin
-
- isListOfGradientDefinitionsEmpty() - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- isListOfGradientStopsEmpty() - Method in class org.sbml.jsbml.ext.render.GradientBase
-
- isListOfLineEndingsEmpty() - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- isListOfLocalRenderInformationEmpty() - Method in class org.sbml.jsbml.ext.render.RenderLayoutPlugin
-
- isListOfLocalStylesEmpty() - Method in class org.sbml.jsbml.ext.render.LocalRenderInformation
-
- isListOfStylesEmpty() - Method in class org.sbml.jsbml.ext.render.GlobalRenderInformation
-
- isModifier(SpeciesReferenceGlyph) - Static method in class org.sbml.jsbml.ext.render.director.LayoutDirector
-
Check if a species reference glyph can be interpreted as an activator,
inhibitor, or generic modifier.
- isProduct(SpeciesReferenceGlyph) - Static method in class org.sbml.jsbml.ext.render.director.LayoutDirector
-
Check if a species reference glyph is a product.
- isProductReady() - Method in class org.sbml.jsbml.ext.render.director.AbstractLayoutBuilder
-
- isProductReady() - Method in interface org.sbml.jsbml.ext.render.director.LayoutBuilder
-
method to check if the builder has produced a complete product
- isRenderCubicBezier() - Method in class org.sbml.jsbml.ext.render.RenderCurveSegment
-
- isRenderPoint() - Method in class org.sbml.jsbml.ext.render.RenderCurveSegment
-
- isRequired() - Method in class org.sbml.jsbml.xml.parsers.RenderParser
-
- isSetAbsoluteValue() - Method in class org.sbml.jsbml.ext.render.RelAbsVector
-
- isSetAddWhiskers() - Method in class org.sbml.jsbml.ext.render.director.LayoutDirector
-
Returns whether addWhiskers is set
- isSetBackgroundColor() - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- isSetBoundingBox() - Method in class org.sbml.jsbml.ext.render.LineEnding
-
- isSetCloneMarker() - Method in class org.sbml.jsbml.ext.render.director.AbstractSBGNNodeWithCloneMarker
-
- isSetCloneMarker() - Method in interface org.sbml.jsbml.ext.render.director.SBGNNodeWithCloneMarker
-
- isSetCx() - Method in class org.sbml.jsbml.ext.render.Ellipse
-
- isSetCx() - Method in class org.sbml.jsbml.ext.render.RadialGradient
-
- isSetCy() - Method in class org.sbml.jsbml.ext.render.Ellipse
-
- isSetCy() - Method in class org.sbml.jsbml.ext.render.RadialGradient
-
- isSetCz() - Method in class org.sbml.jsbml.ext.render.Ellipse
-
- isSetCz() - Method in class org.sbml.jsbml.ext.render.RadialGradient
-
- isSetDefaultValues() - Method in class org.sbml.jsbml.ext.render.ListOfRenderInformation
-
- isSetEnableRotationMapping() - Method in class org.sbml.jsbml.ext.render.LineEnding
-
- isSetEndHead() - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
Returns true if endHead is set.
- isSetEndHead() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
- isSetFill() - Method in class org.sbml.jsbml.ext.render.GraphicalPrimitive2D
-
- isSetFillRule() - Method in class org.sbml.jsbml.ext.render.GraphicalPrimitive2D
-
- isSetFontFamily() - Method in interface org.sbml.jsbml.ext.render.FontRenderStyle
-
- isSetFontFamily() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
- isSetFontFamily() - Method in class org.sbml.jsbml.ext.render.Text
-
- isSetFontSize() - Method in interface org.sbml.jsbml.ext.render.FontRenderStyle
-
- isSetFontSize() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
- isSetFontSize() - Method in class org.sbml.jsbml.ext.render.Text
-
- isSetFontStyleItalic() - Method in interface org.sbml.jsbml.ext.render.FontRenderStyle
-
- isSetFontStyleItalic() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Returns whether fontStyleItalic is set
- isSetFontStyleItalic() - Method in class org.sbml.jsbml.ext.render.Text
-
- isSetFontWeightBold() - Method in interface org.sbml.jsbml.ext.render.FontRenderStyle
-
- isSetFontWeightBold() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
- isSetFontWeightBold() - Method in class org.sbml.jsbml.ext.render.Text
-
- isSetFx() - Method in class org.sbml.jsbml.ext.render.RadialGradient
-
- isSetFy() - Method in class org.sbml.jsbml.ext.render.RadialGradient
-
- isSetFz() - Method in class org.sbml.jsbml.ext.render.RadialGradient
-
- isSetGroup() - Method in class org.sbml.jsbml.ext.render.LineEnding
-
- isSetGroup() - Method in class org.sbml.jsbml.ext.render.Style
-
- isSetHeight() - Method in class org.sbml.jsbml.ext.render.Image
-
- isSetHeight() - Method in class org.sbml.jsbml.ext.render.Rectangle
-
- isSetHref() - Method in class org.sbml.jsbml.ext.render.Image
-
- isSetIDList() - Method in class org.sbml.jsbml.ext.render.LocalStyle
-
- isSetLayout() - Method in interface org.sbml.jsbml.ext.render.director.LayoutAlgorithm
-
- isSetLayout() - Method in class org.sbml.jsbml.ext.render.director.SimpleLayoutAlgorithm
-
- isSetListOfColorDefinitions() - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- isSetListOfCurveSegments() - Method in class org.sbml.jsbml.ext.render.Polygon
-
- isSetListOfCurveSegments() - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
- isSetListOfElements() - Method in class org.sbml.jsbml.ext.render.Polygon
-
- isSetListOfElements() - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
- isSetListOfElements() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Returns true, if listOfElements contains at least one element.
- isSetListOfGlobalRenderInformation() - Method in class org.sbml.jsbml.ext.render.RenderListOfLayoutsPlugin
-
- isSetListOfGradientDefinitions() - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- isSetListOfGradientStops() - Method in class org.sbml.jsbml.ext.render.GradientBase
-
- isSetListOfLineEndings() - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- isSetListOfLocalRenderInformation() - Method in class org.sbml.jsbml.ext.render.RenderLayoutPlugin
-
- isSetListOfLocalStyles() - Method in class org.sbml.jsbml.ext.render.LocalRenderInformation
-
- isSetListOfStyles() - Method in class org.sbml.jsbml.ext.render.GlobalRenderInformation
-
- isSetObjectRole() - Method in class org.sbml.jsbml.ext.render.RenderGraphicalObjectPlugin
-
- isSetOffset() - Method in class org.sbml.jsbml.ext.render.GradientStop
-
- isSetProgramName() - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- isSetProgramVersion() - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- isSetR() - Method in class org.sbml.jsbml.ext.render.RadialGradient
-
- isSetRatio() - Method in class org.sbml.jsbml.ext.render.Ellipse
-
- isSetRatio() - Method in class org.sbml.jsbml.ext.render.Rectangle
-
- isSetReferenceRenderInformation() - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- isSetRelativeValue() - Method in class org.sbml.jsbml.ext.render.RelAbsVector
-
- isSetRenderInformation() - Method in class org.sbml.jsbml.ext.render.AbstractRenderPlugin
-
- isSetRoleList() - Method in class org.sbml.jsbml.ext.render.Style
-
- isSetRx() - Method in class org.sbml.jsbml.ext.render.Ellipse
-
- isSetRx() - Method in class org.sbml.jsbml.ext.render.Rectangle
-
- isSetRy() - Method in class org.sbml.jsbml.ext.render.Ellipse
-
- isSetRy() - Method in class org.sbml.jsbml.ext.render.Rectangle
-
- isSetSpreadMethod() - Method in class org.sbml.jsbml.ext.render.GradientBase
-
- isSetStartHead() - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
Returns true if startHead is set
- isSetStartHead() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
- isSetStopColor() - Method in class org.sbml.jsbml.ext.render.GradientStop
-
- isSetStroke() - Method in class org.sbml.jsbml.ext.render.GraphicalPrimitive1D
-
- isSetStrokeDashArray() - Method in class org.sbml.jsbml.ext.render.GraphicalPrimitive1D
-
- isSetStrokeWidth() - Method in class org.sbml.jsbml.ext.render.GraphicalPrimitive1D
-
- isSetText() - Method in class org.sbml.jsbml.ext.render.Text
-
Checks whether the text-field has been set.
- isSetTextAnchor() - Method in interface org.sbml.jsbml.ext.render.FontRenderStyle
-
- isSetTextAnchor() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
- isSetTextAnchor() - Method in class org.sbml.jsbml.ext.render.Text
-
- isSetTransform() - Method in class org.sbml.jsbml.ext.render.Transformation
-
- isSetType() - Method in class org.sbml.jsbml.ext.render.RenderCurveSegment
-
Returns true if the type is set.
- isSetTypeList() - Method in class org.sbml.jsbml.ext.render.Style
-
- isSetValue() - Method in class org.sbml.jsbml.ext.render.ColorDefinition
-
- isSetVersionMajor() - Method in class org.sbml.jsbml.ext.render.ListOfRenderInformation
-
Returns true if versionMajor is set.
- isSetVersionMinor() - Method in class org.sbml.jsbml.ext.render.ListOfRenderInformation
-
Returns true if versionMinor is set.
- isSetVTextAnchor() - Method in interface org.sbml.jsbml.ext.render.FontRenderStyle
-
- isSetVTextAnchor() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
- isSetVTextAnchor() - Method in class org.sbml.jsbml.ext.render.Text
-
- isSetWidth() - Method in class org.sbml.jsbml.ext.render.Image
-
- isSetWidth() - Method in class org.sbml.jsbml.ext.render.Rectangle
-
- isSetX() - Method in class org.sbml.jsbml.ext.render.Image
-
- isSetX() - Method in interface org.sbml.jsbml.ext.render.Point3D
-
- isSetX() - Method in class org.sbml.jsbml.ext.render.Rectangle
-
- isSetX() - Method in class org.sbml.jsbml.ext.render.RenderPoint
-
- isSetX() - Method in class org.sbml.jsbml.ext.render.Text
-
- isSetX1() - Method in class org.sbml.jsbml.ext.render.LinearGradient
-
- isSetX1() - Method in class org.sbml.jsbml.ext.render.RenderCubicBezier
-
- isSetX2() - Method in class org.sbml.jsbml.ext.render.LinearGradient
-
- isSetX2() - Method in class org.sbml.jsbml.ext.render.RenderCubicBezier
-
- isSetY() - Method in class org.sbml.jsbml.ext.render.Image
-
- isSetY() - Method in interface org.sbml.jsbml.ext.render.Point3D
-
- isSetY() - Method in class org.sbml.jsbml.ext.render.Rectangle
-
- isSetY() - Method in class org.sbml.jsbml.ext.render.RenderPoint
-
- isSetY() - Method in class org.sbml.jsbml.ext.render.Text
-
- isSetY1() - Method in class org.sbml.jsbml.ext.render.LinearGradient
-
- isSetY1() - Method in class org.sbml.jsbml.ext.render.RenderCubicBezier
-
- isSetY2() - Method in class org.sbml.jsbml.ext.render.LinearGradient
-
- isSetY2() - Method in class org.sbml.jsbml.ext.render.RenderCubicBezier
-
- isSetZ() - Method in class org.sbml.jsbml.ext.render.Image
-
- isSetZ() - Method in interface org.sbml.jsbml.ext.render.Point3D
-
- isSetZ() - Method in class org.sbml.jsbml.ext.render.Rectangle
-
- isSetZ() - Method in class org.sbml.jsbml.ext.render.RenderPoint
-
- isSetZ() - Method in class org.sbml.jsbml.ext.render.Text
-
- isSetZ1() - Method in class org.sbml.jsbml.ext.render.LinearGradient
-
- isSetZ1() - Method in class org.sbml.jsbml.ext.render.RenderCubicBezier
-
- isSetZ2() - Method in class org.sbml.jsbml.ext.render.LinearGradient
-
- isSetZ2() - Method in class org.sbml.jsbml.ext.render.RenderCubicBezier
-
- isSubstrate(SpeciesReferenceGlyph) - Static method in class org.sbml.jsbml.ext.render.director.LayoutDirector
-
Check if a species reference glyph is a substrate.
- layout - Variable in class org.sbml.jsbml.ext.render.director.SimpleLayoutAlgorithm
-
The
Layout object of the SBML
Model.
- LAYOUT_LINK - Static variable in class org.sbml.jsbml.ext.render.director.GlyphCreator
-
- LAYOUT_LINK - Static variable in class org.sbml.jsbml.ext.render.director.LayoutDirector
-
Constant for use as the key for layout links.
- LayoutAlgorithm - Interface in org.sbml.jsbml.ext.render.director
-
Interface for defining an algorithm to create bounding boxes, dimensions and
points missing in the layout.
- LayoutBuilder<P> - Interface in org.sbml.jsbml.ext.render.director
-
LayoutBuilder provides methods to build graphical representations for
all glyph types.
- LayoutDirector<P> - Class in org.sbml.jsbml.ext.render.director
-
LayoutDirector produces a graphical representation of a layout of an
SBMLDocument.
- LayoutDirector(File, LayoutBuilder<P>, LayoutAlgorithm) - Constructor for class org.sbml.jsbml.ext.render.director.LayoutDirector
-
- LayoutDirector(Layout, LayoutBuilder<P>, LayoutAlgorithm) - Constructor for class org.sbml.jsbml.ext.render.director.LayoutDirector
-
- LayoutDirector(SBMLDocument, LayoutBuilder<P>, LayoutAlgorithm) - Constructor for class org.sbml.jsbml.ext.render.director.LayoutDirector
-
- LayoutDirector(SBMLDocument, LayoutBuilder<P>, LayoutAlgorithm, int) - Constructor for class org.sbml.jsbml.ext.render.director.LayoutDirector
-
- LayoutFactory<NodeT,ArcT> - Interface in org.sbml.jsbml.ext.render.director
-
Interface that defines methods to create and return the different types of
nodes and arcs.
- LEFT - org.sbml.jsbml.ext.render.director.SimpleLayoutAlgorithm.RelativePosition
-
- level - Variable in class org.sbml.jsbml.ext.render.director.SimpleLayoutAlgorithm
-
SBML level
- linearGradient - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- 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
- linearGradient_x1 - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
For DefaultValues
- linearGradient_x2 - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
For DefaultValues
- linearGradient_y1 - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
For DefaultValues
- linearGradient_y2 - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
For DefaultValues
- linearGradient_z1 - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
For DefaultValues
- linearGradient_z2 - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
For DefaultValues
- LinearGradientConstraints - Class in org.sbml.jsbml.validator.offline.constraints
-
- LinearGradientConstraints() - Constructor for class org.sbml.jsbml.validator.offline.constraints.LinearGradientConstraints
-
- lineEnding - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- 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
- LineEndingConstraints - Class in org.sbml.jsbml.validator.offline.constraints
-
- LineEndingConstraints() - Constructor for class org.sbml.jsbml.validator.offline.constraints.LineEndingConstraints
-
- linkObjectRoleToStyle(Map<String, LocalStyle>, GraphicalObject) - Static method in class org.sbml.jsbml.ext.render.director.RenderProcessor
-
- list_of_elements - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- listOfColorDefinitions - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- listOfColorDefinitions - Variable in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- listOfCurveSegments - Variable in class org.sbml.jsbml.ext.render.RenderCurve
-
- listOfElements - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- listOfElements - Variable in class org.sbml.jsbml.ext.render.RenderCurve
-
- listOfGlobalRenderInformation - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- ListOfGlobalRenderInformation - Class in org.sbml.jsbml.ext.render
-
- ListOfGlobalRenderInformation() - Constructor for class org.sbml.jsbml.ext.render.ListOfGlobalRenderInformation
-
- ListOfGlobalRenderInformation(int, int) - Constructor for class org.sbml.jsbml.ext.render.ListOfGlobalRenderInformation
-
- ListOfGlobalRenderInformation(ListOfGlobalRenderInformation) - Constructor for class org.sbml.jsbml.ext.render.ListOfGlobalRenderInformation
-
Clone constructor
- listOfGradientDefinitions - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- listOfGradientDefinitions - Variable in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- listOfGradientStops - Variable in class org.sbml.jsbml.ext.render.GradientBase
-
- listOfGradientStops - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- listOfLineEndings - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- listOfLineEndings - Variable in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- listOfLocalRenderInformation - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- ListOfLocalRenderInformation - Class in org.sbml.jsbml.ext.render
-
- ListOfLocalRenderInformation() - Constructor for class org.sbml.jsbml.ext.render.ListOfLocalRenderInformation
-
- ListOfLocalRenderInformation(int, int) - Constructor for class org.sbml.jsbml.ext.render.ListOfLocalRenderInformation
-
- ListOfLocalRenderInformation(ListOfLocalRenderInformation) - Constructor for class org.sbml.jsbml.ext.render.ListOfLocalRenderInformation
-
Clone constructor
- listOfLocalStyles - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- ListOfRenderInformation<T extends RenderInformationBase> - Class in org.sbml.jsbml.ext.render
-
- ListOfRenderInformation() - Constructor for class org.sbml.jsbml.ext.render.ListOfRenderInformation
-
- ListOfRenderInformation(int, int) - Constructor for class org.sbml.jsbml.ext.render.ListOfRenderInformation
-
- ListOfRenderInformation(ListOfRenderInformation<?>) - Constructor for class org.sbml.jsbml.ext.render.ListOfRenderInformation
-
Clone constructor
- listOfStyles - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- localRenderInformation - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- LocalRenderInformation - Class in org.sbml.jsbml.ext.render
-
- LocalRenderInformation() - Constructor for class org.sbml.jsbml.ext.render.LocalRenderInformation
-
Creates an LocalRenderInformation instance
- LocalRenderInformation(int, int) - Constructor for class org.sbml.jsbml.ext.render.LocalRenderInformation
-
Creates a LocalRenderInformation instance with a level and version.
- LocalRenderInformation(String) - Constructor for class org.sbml.jsbml.ext.render.LocalRenderInformation
-
Creates a LocalRenderInformation instance with an id.
- 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
- LocalRenderInformationConstraints - Class in org.sbml.jsbml.validator.offline.constraints
-
- LocalRenderInformationConstraints() - Constructor for class org.sbml.jsbml.validator.offline.constraints.LocalRenderInformationConstraints
-
- localStyle - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- LocalStyle - Class in org.sbml.jsbml.ext.render
-
- LocalStyle() - Constructor for class org.sbml.jsbml.ext.render.LocalStyle
-
- 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.
- LocalStyle(LocalStyle) - Constructor for class org.sbml.jsbml.ext.render.LocalStyle
-
Creates a new
LocalStyle instance, cloned from the given object.
- LocalStyle(RenderGroup) - Constructor for class org.sbml.jsbml.ext.render.LocalStyle
-
Creates a LocalStyle instance with a group
- LocalStyleConstraints - Class in org.sbml.jsbml.validator.offline.constraints
-
- LocalStyleConstraints() - Constructor for class org.sbml.jsbml.validator.offline.constraints.LocalStyleConstraints
-
- r - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- radialGradient - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- RadialGradient - Class in org.sbml.jsbml.ext.render
-
- RadialGradient() - Constructor for class org.sbml.jsbml.ext.render.RadialGradient
-
Creates an RadialGradient instance
- RadialGradient(RadialGradient) - Constructor for class org.sbml.jsbml.ext.render.RadialGradient
-
Clone constructor
- radialGradient_cx - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
For DefaultValues
- radialGradient_cy - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
For DefaultValues
- radialGradient_cz - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
For DefaultValues
- radialGradient_fx - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
For DefaultValues
- radialGradient_fy - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
For DefaultValues
- radialGradient_fz - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
For DefaultValues
- radialGradient_r - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
For DefaultValues
- RadialGradientConstraints - Class in org.sbml.jsbml.validator.offline.constraints
-
- RadialGradientConstraints() - Constructor for class org.sbml.jsbml.validator.offline.constraints.RadialGradientConstraints
-
- ratio - Variable in class org.sbml.jsbml.ext.render.Ellipse
-
Optional: Ratio of width to height
- ratio - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
The rx/ry-ratio of an ellipse
- REACTIONGLYPH - org.sbml.jsbml.ext.render.Style.Type
-
- readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.AbstractRenderPlugin
-
- readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.ColorDefinition
-
- readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.DefaultValues
-
- readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.Ellipse
-
- readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.GlobalRenderInformation
-
- readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.GradientBase
-
- readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.GradientStop
-
- readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.GraphicalPrimitive1D
-
- readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.GraphicalPrimitive2D
-
- readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.Image
-
- readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.LinearGradient
-
- readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.LineEnding
-
- readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.ListOfRenderInformation
-
- readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.LocalRenderInformation
-
- readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.LocalStyle
-
- readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.RadialGradient
-
- readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.Rectangle
-
- readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.RenderCubicBezier
-
- readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
- readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.RenderCurveSegment
-
- readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.RenderGraphicalObjectPlugin
-
- readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
- readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.RenderPoint
-
- readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.Style
-
- readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.Text
-
- readAttribute(String, String, String) - Method in class org.sbml.jsbml.ext.render.Transformation
-
- rectangle - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- Rectangle - Class in org.sbml.jsbml.ext.render
-
- Rectangle() - Constructor for class org.sbml.jsbml.ext.render.Rectangle
-
- Rectangle(Rectangle) - Constructor for class org.sbml.jsbml.ext.render.Rectangle
-
Clone constructor
- RectangleConstraints - Class in org.sbml.jsbml.validator.offline.constraints
-
- RectangleConstraints() - Constructor for class org.sbml.jsbml.validator.offline.constraints.RectangleConstraints
-
- referenceRenderInformation - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- referenceRenderInformation - Variable in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- REFLECT - org.sbml.jsbml.ext.render.GradientBase.Spread
-
the gradient continues from end to start and then from start to end again and again.
- RelAbsVector - Class in org.sbml.jsbml.ext.render
-
Implements the RelAbsVector-datatype defined in the render-specification:
A RelAbsVector encodes a single number as a combination of an absolute and a
relative part: "a + r%", where the relative part is with respect to some
surrounding space (like a boundingBox).
This implementation deviates from the one in libSBML in that the support for
,Coordinate' get/set/isSet is reduced
- RelAbsVector() - Constructor for class org.sbml.jsbml.ext.render.RelAbsVector
-
- RelAbsVector(double) - Constructor for class org.sbml.jsbml.ext.render.RelAbsVector
-
Set only the absolute, but not the relative part, to an initial value
- RelAbsVector(double, double) - Constructor for class org.sbml.jsbml.ext.render.RelAbsVector
-
Set both the relative and absolute parts to initial values
- RelAbsVector(String) - Constructor for class org.sbml.jsbml.ext.render.RelAbsVector
-
Set from a XML-String in the format "a" or "r%" or "a+r%" or "a-r%", as
described in the render-specification
- RelAbsVector(RelAbsVector) - Constructor for class org.sbml.jsbml.ext.render.RelAbsVector
-
Copy-constructor
- relativeValue - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
Refers to the relative part of a RelAbsVector
- removeColorDefinition(int) - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- removeColorDefinition(String) - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- removeColorDefinition(ColorDefinition) - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- removeCurveSegment(int) - Method in class org.sbml.jsbml.ext.render.Polygon
-
- removeCurveSegment(int) - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
- removeCurveSegment(CurveSegment) - Method in class org.sbml.jsbml.ext.render.Polygon
-
- removeCurveSegment(CurveSegment) - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
- removeElement(int) - Method in class org.sbml.jsbml.ext.render.Polygon
-
- removeElement(int) - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
- removeElement(int) - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Removes an element from the listOfElements at the given index.
- removeElement(String) - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Removes an element from the listOfElements.
- removeElement(RenderPoint) - Method in class org.sbml.jsbml.ext.render.Polygon
-
- removeElement(RenderPoint) - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
- removeElement(Transformation2D) - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Removes an element from the listOfElements.
- removeGlobalRenderInformation(int) - Method in class org.sbml.jsbml.ext.render.RenderListOfLayoutsPlugin
-
- removeGlobalRenderInformation(String) - Method in class org.sbml.jsbml.ext.render.RenderListOfLayoutsPlugin
-
- removeGlobalRenderInformation(GlobalRenderInformation) - Method in class org.sbml.jsbml.ext.render.RenderListOfLayoutsPlugin
-
- removeGradientBase(int) - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- removeGradientBase(GradientBase) - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- removeGradientStop(int) - Method in class org.sbml.jsbml.ext.render.GradientBase
-
- removeGradientStop(GradientStop) - Method in class org.sbml.jsbml.ext.render.GradientBase
-
- removeLineEnding(int) - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- removeLineEnding(LineEnding) - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- removeLocalRenderInformation(int) - Method in class org.sbml.jsbml.ext.render.RenderLayoutPlugin
-
- removeLocalRenderInformation(String) - Method in class org.sbml.jsbml.ext.render.RenderLayoutPlugin
-
- removeLocalRenderInformation(LocalRenderInformation) - Method in class org.sbml.jsbml.ext.render.RenderLayoutPlugin
-
- removeLocalStyle(int) - Method in class org.sbml.jsbml.ext.render.LocalRenderInformation
-
- removeLocalStyle(LocalStyle) - Method in class org.sbml.jsbml.ext.render.LocalRenderInformation
-
- removeStyle(int) - Method in class org.sbml.jsbml.ext.render.GlobalRenderInformation
-
- removeStyle(Style) - Method in class org.sbml.jsbml.ext.render.GlobalRenderInformation
-
- RENDER_CUBIC_BEZIER - org.sbml.jsbml.ext.render.RenderCurveSegment.Type
-
- RENDER_LINK - Static variable in class org.sbml.jsbml.ext.render.director.RenderProcessor
-
- RENDER_POINT - org.sbml.jsbml.ext.render.RenderCurveSegment.Type
-
- RenderConstants - Class in org.sbml.jsbml.ext.render
-
Contains some constants related to the render package.
- RenderConstants() - Constructor for class org.sbml.jsbml.ext.render.RenderConstants
-
- renderCubicBezier - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- RenderCubicBezier - Class in org.sbml.jsbml.ext.render
-
- RenderCubicBezier() - Constructor for class org.sbml.jsbml.ext.render.RenderCubicBezier
-
Creates an RenderCubicBezier instance
- RenderCubicBezier(RenderCubicBezier) - Constructor for class org.sbml.jsbml.ext.render.RenderCubicBezier
-
Clone constructor
- RenderCubicBezierConstraints - Class in org.sbml.jsbml.validator.offline.constraints
-
- RenderCubicBezierConstraints() - Constructor for class org.sbml.jsbml.validator.offline.constraints.RenderCubicBezierConstraints
-
- renderCurve - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- RenderCurve - Class in org.sbml.jsbml.ext.render
-
Implements the curve concept from the SBML render extension.
- RenderCurve() - Constructor for class org.sbml.jsbml.ext.render.RenderCurve
-
Creates an Curve instance
- RenderCurve(RenderCurve) - Constructor for class org.sbml.jsbml.ext.render.RenderCurve
-
Clone constructor
- RenderCurveConstraints - Class in org.sbml.jsbml.validator.offline.constraints
-
- RenderCurveConstraints() - Constructor for class org.sbml.jsbml.validator.offline.constraints.RenderCurveConstraints
-
- RenderCurveSegment - Class in org.sbml.jsbml.ext.render
-
- RenderCurveSegment() - Constructor for class org.sbml.jsbml.ext.render.RenderCurveSegment
-
- RenderCurveSegment(int, int) - Constructor for class org.sbml.jsbml.ext.render.RenderCurveSegment
-
- RenderCurveSegment(RenderCurveSegment) - Constructor for class org.sbml.jsbml.ext.render.RenderCurveSegment
-
- RenderCurveSegment.Type - Enum in org.sbml.jsbml.ext.render
-
- RenderGraphicalObjectPlugin - Class in org.sbml.jsbml.ext.render
-
- RenderGraphicalObjectPlugin(GraphicalObject) - Constructor for class org.sbml.jsbml.ext.render.RenderGraphicalObjectPlugin
-
- RenderGraphicalObjectPlugin(RenderGraphicalObjectPlugin) - Constructor for class org.sbml.jsbml.ext.render.RenderGraphicalObjectPlugin
-
Clone constructor
- RenderGraphicalObjectPluginConstraints - Class in org.sbml.jsbml.validator.offline.constraints
-
- RenderGraphicalObjectPluginConstraints() - Constructor for class org.sbml.jsbml.validator.offline.constraints.RenderGraphicalObjectPluginConstraints
-
- RenderGroup - Class in org.sbml.jsbml.ext.render
-
The
RenderGroup class from the SBML render extension is used to group graphical primitives together
to create composite representations from simple primitives.
- RenderGroup() - Constructor for class org.sbml.jsbml.ext.render.RenderGroup
-
Creates an Group instance
- RenderGroup(int, int) - Constructor for class org.sbml.jsbml.ext.render.RenderGroup
-
Creates a Group instance with a level and version.
- RenderGroup(String) - Constructor for class org.sbml.jsbml.ext.render.RenderGroup
-
Creates a Group instance with an id.
- RenderGroup(String, int, int) - Constructor for class org.sbml.jsbml.ext.render.RenderGroup
-
Creates a Group instance with an id, level, and version.
- RenderGroup(String, String, int, int) - Constructor for class org.sbml.jsbml.ext.render.RenderGroup
-
Creates a Group instance with an id, name, level, and version.
- RenderGroup(RenderGroup) - Constructor for class org.sbml.jsbml.ext.render.RenderGroup
-
Clone constructor
- RenderGroupConstraints - Class in org.sbml.jsbml.validator.offline.constraints
-
- RenderGroupConstraints() - Constructor for class org.sbml.jsbml.validator.offline.constraints.RenderGroupConstraints
-
- renderInformation - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- RenderInformationBase - Class in org.sbml.jsbml.ext.render
-
- RenderInformationBase() - Constructor for class org.sbml.jsbml.ext.render.RenderInformationBase
-
Creates an RenderInformationBase instance
- RenderInformationBase(int, int) - Constructor for class org.sbml.jsbml.ext.render.RenderInformationBase
-
Creates a RenderInformationBase instance with a level and version.
- RenderInformationBase(String) - Constructor for class org.sbml.jsbml.ext.render.RenderInformationBase
-
Creates a RenderInformationBase instance with an id.
- RenderInformationBase(String, int, int) - Constructor for class org.sbml.jsbml.ext.render.RenderInformationBase
-
Creates a RenderInformationBase instance with an id, level, and version.
- RenderInformationBase(String, String, int, int) - Constructor for class org.sbml.jsbml.ext.render.RenderInformationBase
-
Creates a RenderInformationBase instance with an id, name, level, and version.
- RenderInformationBase(RenderInformationBase) - Constructor for class org.sbml.jsbml.ext.render.RenderInformationBase
-
Clone constructor
- RenderInformationBaseConstraints - Class in org.sbml.jsbml.validator.offline.constraints
-
- RenderInformationBaseConstraints() - Constructor for class org.sbml.jsbml.validator.offline.constraints.RenderInformationBaseConstraints
-
- RenderLayoutPlugin - Class in org.sbml.jsbml.ext.render
-
- RenderLayoutPlugin(Layout) - Constructor for class org.sbml.jsbml.ext.render.RenderLayoutPlugin
-
Creates a RenderLayoutPlugin instance
- RenderLayoutPlugin(RenderLayoutPlugin) - Constructor for class org.sbml.jsbml.ext.render.RenderLayoutPlugin
-
Clone constructor
- RenderLayoutPluginConstraints - Class in org.sbml.jsbml.validator.offline.constraints
-
- RenderLayoutPluginConstraints() - Constructor for class org.sbml.jsbml.validator.offline.constraints.RenderLayoutPluginConstraints
-
- RenderListOfLayoutsPlugin - Class in org.sbml.jsbml.ext.render
-
- RenderListOfLayoutsPlugin(RenderListOfLayoutsPlugin) - Constructor for class org.sbml.jsbml.ext.render.RenderListOfLayoutsPlugin
-
Clone constructor
- RenderListOfLayoutsPlugin(ListOf<Layout>) - Constructor for class org.sbml.jsbml.ext.render.RenderListOfLayoutsPlugin
-
Creates an RenderModelPlugin instance
- RenderListOfLayoutsPluginConstraints - Class in org.sbml.jsbml.validator.offline.constraints
-
- RenderListOfLayoutsPluginConstraints() - Constructor for class org.sbml.jsbml.validator.offline.constraints.RenderListOfLayoutsPluginConstraints
-
- RenderParser - Class in org.sbml.jsbml.xml.parsers
-
- RenderParser() - Constructor for class org.sbml.jsbml.xml.parsers.RenderParser
-
- renderPoint - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- RenderPoint - Class in org.sbml.jsbml.ext.render
-
- RenderPoint() - Constructor for class org.sbml.jsbml.ext.render.RenderPoint
-
- RenderPoint(RenderPoint) - Constructor for class org.sbml.jsbml.ext.render.RenderPoint
-
Clone constructor
- RenderPointConstraints - Class in org.sbml.jsbml.validator.offline.constraints
-
- RenderPointConstraints() - Constructor for class org.sbml.jsbml.validator.offline.constraints.RenderPointConstraints
-
- RenderProcessor - Class in org.sbml.jsbml.ext.render.director
-
A currently very preliminary class with inaccurate interpretation of rendering
information.
- RenderProcessor() - Constructor for class org.sbml.jsbml.ext.render.director.RenderProcessor
-
- REPEAT - org.sbml.jsbml.ext.render.GradientBase.Spread
-
the gradient pattern is repeated from start to end over and over again.
- ReversibleConsumption<T> - Interface in org.sbml.jsbml.ext.render.director
-
Interface for all reversible consumption processes.
- RIGHT - org.sbml.jsbml.ext.render.director.SimpleLayoutAlgorithm.RelativePosition
-
- roleList - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- roleList - Variable in class org.sbml.jsbml.ext.render.Style
-
- run() - Method in class org.sbml.jsbml.ext.render.director.LayoutDirector
-
- rx - Variable in class org.sbml.jsbml.ext.render.Ellipse
-
- rx - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- ry - Variable in class org.sbml.jsbml.ext.render.Ellipse
-
- ry - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- SANS_SERIF - org.sbml.jsbml.ext.render.FontFamily
-
- SBGNArc<T> - Interface in org.sbml.jsbml.ext.render.director
-
interface for the different types of connecting arcs
consumption
reversible consumption
production
catalysis
inhibition
- SBGNNode<T> - Interface in org.sbml.jsbml.ext.render.director
-
interface for the different types of entity pool nodes
unspecified entity
simple chemical
macromolecule
source/sink
- SBGNNodeWithCloneMarker<T> - Interface in org.sbml.jsbml.ext.render.director
-
- SBGNProcessNode<T> - Interface in org.sbml.jsbml.ext.render.director
-
Interface for all SBGN specified process nodes.
- SERIF - org.sbml.jsbml.ext.render.FontFamily
-
- setAbsoluteValue(double) - Method in class org.sbml.jsbml.ext.render.RelAbsVector
-
Sets absolute part to new value and fires appropriate event
- setAddWhiskers(Boolean) - Method in class org.sbml.jsbml.ext.render.director.LayoutDirector
-
Sets the value of addWhiskers
- setAlgorithm(LayoutAlgorithm) - Method in class org.sbml.jsbml.ext.render.director.LayoutDirector
-
- setBackgroundColor(Color) - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
Set the value of backgroundColor
- setBoundingBox(BoundingBox) - Method in class org.sbml.jsbml.ext.render.LineEnding
-
Set the value of boundingBox
- setBuilder(LayoutBuilder<P>) - Method in class org.sbml.jsbml.ext.render.director.LayoutDirector
-
- setCloneMarker(boolean) - Method in class org.sbml.jsbml.ext.render.director.AbstractSBGNNodeWithCloneMarker
-
- setCloneMarker(boolean) - Method in interface org.sbml.jsbml.ext.render.director.SBGNNodeWithCloneMarker
-
Method to set the boolean clone marker value if the clone marker should be
drawn.
- setCoordinate(String) - Method in class org.sbml.jsbml.ext.render.RelAbsVector
-
Sets the relative and absolute value based on a String-encoding (like "1",
"30%" or "50-20%"; as defined in the render-specification)
If the String does not represent a valid value, relative and absolute value
are set to NaN
- setCx(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.Ellipse
-
Set the value of cx
- setCx(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.RadialGradient
-
Set the value of cx
- setCy(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.Ellipse
-
Set the value of cy
- setCy(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.RadialGradient
-
Set the value of cy
- setCz(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.Ellipse
-
Set the value of cz
- setCz(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.RadialGradient
-
Set the value of cz
- setDefaultValue(String, String) - Method in class org.sbml.jsbml.ext.render.DefaultValues
-
- setDefaultValues(DefaultValues) - Method in class org.sbml.jsbml.ext.render.ListOfRenderInformation
-
Sets the value of defaultValues
- setEnableRotationMapping(Boolean) - Method in class org.sbml.jsbml.ext.render.LineEnding
-
Sets the value of enableRotationMapping
- setEndHead(String) - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
Sets the value of endHead
- setEndHead(String) - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Set the value of endHead
- setFill(String) - Method in class org.sbml.jsbml.ext.render.GraphicalPrimitive2D
-
Set the value of fill
- setFillRule(GraphicalPrimitive2D.FillRule) - Method in class org.sbml.jsbml.ext.render.GraphicalPrimitive2D
-
Set the value of fillRule
- setFontFamily(String) - Method in interface org.sbml.jsbml.ext.render.FontRenderStyle
-
Set the value of fontFamily
- setFontFamily(String) - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Set the value of fontFamily
- setFontFamily(String) - Method in class org.sbml.jsbml.ext.render.Text
-
- setFontFamily(FontFamily) - Method in interface org.sbml.jsbml.ext.render.FontRenderStyle
-
Set the value of fontFamily by using a
FontFamily type.
- setFontFamily(FontFamily) - Method in class org.sbml.jsbml.ext.render.Text
-
- setFontSize(Short) - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Set the value of fontSize
- setFontSize(RelAbsVector) - Method in interface org.sbml.jsbml.ext.render.FontRenderStyle
-
Set the value of fontSize
- setFontSize(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.Text
-
- setFontStyleItalic(boolean) - Method in interface org.sbml.jsbml.ext.render.FontRenderStyle
-
Set the value of fontStyleItalic
- setFontStyleItalic(boolean) - Method in class org.sbml.jsbml.ext.render.Text
-
- setFontStyleItalic(Boolean) - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Set the value of fontStyleItalic
- setFontWeightBold(boolean) - Method in interface org.sbml.jsbml.ext.render.FontRenderStyle
-
Set the value of fontWeightBold
- setFontWeightBold(boolean) - Method in class org.sbml.jsbml.ext.render.Text
-
- setFontWeightBold(Boolean) - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Set the value of fontWeightBold
- setFx(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.RadialGradient
-
Set the value of fx
- setFy(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.RadialGradient
-
Set the value of fy
- setFz(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.RadialGradient
-
Set the value of fz
- setGroup(RenderGroup) - Method in class org.sbml.jsbml.ext.render.LineEnding
-
Sets the value of group
- setGroup(RenderGroup) - Method in class org.sbml.jsbml.ext.render.Style
-
Set the value of group
- setHeight(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.Image
-
Set the value of height
- setHeight(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.Rectangle
-
Set the value of height
- setHref(String) - Method in class org.sbml.jsbml.ext.render.Image
-
Set the value of href
- setIDList(List<String>) - Method in class org.sbml.jsbml.ext.render.LocalStyle
-
Set the value of idList
- setLayout(Layout) - Method in interface org.sbml.jsbml.ext.render.director.LayoutAlgorithm
-
- setLayout(Layout) - Method in class org.sbml.jsbml.ext.render.director.SimpleLayoutAlgorithm
-
- setLayoutIndex(int) - Method in class org.sbml.jsbml.ext.render.director.LayoutDirector
-
- setLineWidth(double) - Method in class org.sbml.jsbml.ext.render.director.AbstractSBGNnode
-
- setLineWidth(double) - Method in interface org.sbml.jsbml.ext.render.director.SBGNNode
-
- setListOfColorDefinitions(ListOf<ColorDefinition>) - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- setListOfCurveSegments(ListOf<CurveSegment>) - Method in class org.sbml.jsbml.ext.render.Polygon
-
Sets the given ListOf<CurveSegment>.
- setListOfCurveSegments(ListOf<CurveSegment>) - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
Sets the given ListOf<CurveSegment>.
- setListOfElements(ListOf<RenderPoint>) - Method in class org.sbml.jsbml.ext.render.Polygon
-
Set the value of listOfElements
- setListOfElements(ListOf<RenderPoint>) - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
- setListOfElements(ListOf<Transformation2D>) - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Sets the given ListOf<Transformation2D>.
- setListOfGlobalRenderInformation(ListOfGlobalRenderInformation) - Method in class org.sbml.jsbml.ext.render.RenderListOfLayoutsPlugin
-
- setListOfGradientDefinitions(ListOf<GradientBase>) - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- setListOfGradientStops(ListOf<GradientStop>) - Method in class org.sbml.jsbml.ext.render.GradientBase
-
- setListOfLineEndings(ListOf<LineEnding>) - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- setListOfLocalRenderInformation(ListOfLocalRenderInformation) - Method in class org.sbml.jsbml.ext.render.RenderLayoutPlugin
-
- setListOfLocalStyles(ListOf<LocalStyle>) - Method in class org.sbml.jsbml.ext.render.LocalRenderInformation
-
- setListOfStyles(ListOf<Style>) - Method in class org.sbml.jsbml.ext.render.GlobalRenderInformation
-
- setObjectRole(String) - Method in class org.sbml.jsbml.ext.render.RenderGraphicalObjectPlugin
-
Sets the value of objectRole
- setOffset(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.GradientStop
-
Set the value of offset
- setOfLayoutedGlyphs - Variable in class org.sbml.jsbml.ext.render.director.SimpleLayoutAlgorithm
-
Set to hold all layouted glyphs
- setOfUnlayoutedGlyphs - Variable in class org.sbml.jsbml.ext.render.director.SimpleLayoutAlgorithm
-
Set to hold all unlayouted glyphs
- setPointOfContactToProduct(Point) - Method in class org.sbml.jsbml.ext.render.director.AbstractSBGNProcessNode
-
- setPointOfContactToProduct(Point) - Method in interface org.sbml.jsbml.ext.render.director.SBGNProcessNode
-
- setPointOfContactToSubstrate(Point) - Method in class org.sbml.jsbml.ext.render.director.AbstractSBGNProcessNode
-
- setPointOfContactToSubstrate(Point) - Method in interface org.sbml.jsbml.ext.render.director.SBGNProcessNode
-
- setProgramName(String) - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
Set the value of programmName
- setProgramVersion(String) - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
Set the value of programVersion
- setR(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.RadialGradient
-
Set the value of r
- setRatio(double) - Method in class org.sbml.jsbml.ext.render.Rectangle
-
- setRatio(Double) - Method in class org.sbml.jsbml.ext.render.Ellipse
-
Sets the ratio-attribute to given value and fires appropriate change-events
- setReferenceRenderInformation(String) - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
Set the value of referenceRenderInformation
- setRelativeValue(double) - Method in class org.sbml.jsbml.ext.render.RelAbsVector
-
Sets relative part to new value and fires appropriate event
- setRenderInformation(GlobalRenderInformation) - Method in class org.sbml.jsbml.ext.render.AbstractRenderPlugin
-
- setRoleList(List<String>) - Method in class org.sbml.jsbml.ext.render.Style
-
Set the value of roleList
- setRx(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.Ellipse
-
Set the value of rx
- setRx(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.Rectangle
-
- setRy(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.Ellipse
-
Set the value of ry
- setRy(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.Rectangle
-
- setSpreadMethod(GradientBase.Spread) - Method in class org.sbml.jsbml.ext.render.GradientBase
-
Set the value of spreadMethod
- setStartHead(String) - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
Sets the value of startHead.
- setStartHead(String) - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Set the value of startHead
- setStopColor(String) - Method in class org.sbml.jsbml.ext.render.GradientStop
-
Set the value of stopColor
- setStroke(String) - Method in class org.sbml.jsbml.ext.render.GraphicalPrimitive1D
-
Set the value of stroke
- setStrokeDashArray(Short[]) - Method in class org.sbml.jsbml.ext.render.GraphicalPrimitive1D
-
- setStrokeDashArray(List<Short>) - Method in class org.sbml.jsbml.ext.render.GraphicalPrimitive1D
-
Set the value of strokeDashArray
- setStrokeWidth(double) - Method in class org.sbml.jsbml.ext.render.GraphicalPrimitive1D
-
Set the value of strokeWidth
- setText(String) - Method in class org.sbml.jsbml.ext.render.Text
-
Set the value of the
Text.text field (and fire appropriate property-change event)
- setTextAnchor(HTextAnchor) - Method in interface org.sbml.jsbml.ext.render.FontRenderStyle
-
Set the value of textAnchor
- setTextAnchor(HTextAnchor) - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Set the value of textAnchor
- setTextAnchor(HTextAnchor) - Method in class org.sbml.jsbml.ext.render.Text
-
- setTransform(Double[]) - Method in class org.sbml.jsbml.ext.render.Transformation
-
Set the value of transform
- setTypeList(List<Style.Type>) - Method in class org.sbml.jsbml.ext.render.Style
-
Set the value of typeList
- setValue(Color) - Method in class org.sbml.jsbml.ext.render.ColorDefinition
-
Set the value of value
- setVersionMajor(int) - Method in class org.sbml.jsbml.ext.render.ListOfRenderInformation
-
- setVersionMajor(short) - Method in class org.sbml.jsbml.ext.render.ListOfRenderInformation
-
Sets the value of versionMajor
- setVersionMinor(int) - Method in class org.sbml.jsbml.ext.render.ListOfRenderInformation
-
- setVersionMinor(short) - Method in class org.sbml.jsbml.ext.render.ListOfRenderInformation
-
Sets the value of versionMinor
- setVTextAnchor(VTextAnchor) - Method in interface org.sbml.jsbml.ext.render.FontRenderStyle
-
Set the value of VTextAnchor
- setVTextAnchor(VTextAnchor) - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Set the value of vTextAnchor
- setVTextAnchor(VTextAnchor) - Method in class org.sbml.jsbml.ext.render.Text
-
- setWidth(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.Image
-
Set the value of width
- setWidth(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.Rectangle
-
Set the value of width
- setX(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.Image
-
Set the value of x
- setX(RelAbsVector) - Method in interface org.sbml.jsbml.ext.render.Point3D
-
Set the value of x
- setX(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.Rectangle
-
- setX(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.RenderPoint
-
- setX(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.Text
-
- setX1(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.LinearGradient
-
Set the value of x1
- setX1(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.RenderCubicBezier
-
Set the value of x1
- setX2(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.LinearGradient
-
Set the value of x2
- setX2(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.RenderCubicBezier
-
Set the value of x2
- setY(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.Image
-
Set the value of y
- setY(RelAbsVector) - Method in interface org.sbml.jsbml.ext.render.Point3D
-
Set the value of y
- setY(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.Rectangle
-
- setY(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.RenderPoint
-
- setY(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.Text
-
- setY1(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.LinearGradient
-
Set the value of y1
- setY1(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.RenderCubicBezier
-
Set the value of y1
- setY2(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.LinearGradient
-
Set the value of y2
- setY2(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.RenderCubicBezier
-
Set the value of y2
- setZ(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.Image
-
Set the value of z
- setZ(RelAbsVector) - Method in interface org.sbml.jsbml.ext.render.Point3D
-
Set the value of z
- setZ(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.Rectangle
-
- setZ(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.RenderPoint
-
- setZ(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.Text
-
- setZ1(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.LinearGradient
-
Set the value of z1
- setZ1(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.RenderCubicBezier
-
Set the value of z1
- setZ2(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.LinearGradient
-
Set the value of z2
- setZ2(RelAbsVector) - Method in class org.sbml.jsbml.ext.render.RenderCubicBezier
-
Set the value of z2
- shortLabel - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- SimpleChemical<T> - Class in org.sbml.jsbml.ext.render.director
-
Abstract class that all the different graphical representations for simple
chemical nodes have to extend.
- SimpleChemical() - Constructor for class org.sbml.jsbml.ext.render.director.SimpleChemical
-
- SimpleLayoutAlgorithm - Class in org.sbml.jsbml.ext.render.director
-
- SimpleLayoutAlgorithm() - Constructor for class org.sbml.jsbml.ext.render.director.SimpleLayoutAlgorithm
-
- SimpleLayoutAlgorithm.RelativePosition - Enum in org.sbml.jsbml.ext.render.director
-
Enumeration types (enums) for relative positions.
- SourceSink<T> - Class in org.sbml.jsbml.ext.render.director
-
Abstract class that all the different graphical representations for the empty
set sign have to implement
- SourceSink() - Constructor for class org.sbml.jsbml.ext.render.director.SourceSink
-
- SPECIAL_ROTATION_NEEDED - Static variable in class org.sbml.jsbml.ext.render.director.LayoutDirector
-
- SPECIES_RELATIVE_DOCKING_POINT - Static variable in class org.sbml.jsbml.ext.render.director.LayoutDirector
-
- SPECIESGLYPH - org.sbml.jsbml.ext.render.Style.Type
-
- SPECIESREFERENCEGLYPH - org.sbml.jsbml.ext.render.Style.Type
-
- spreadMethod - Variable in class org.sbml.jsbml.ext.render.GradientBase
-
- spreadMethod - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- START - org.sbml.jsbml.ext.render.HTextAnchor
-
- startHead - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- startHead - Variable in class org.sbml.jsbml.ext.render.RenderCurve
-
- Stimulation<T> - Interface in org.sbml.jsbml.ext.render.director
-
Interface for the SBGN specified stimulation arc.
- stop - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- stopColor - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- stroke - Variable in class org.sbml.jsbml.ext.render.GraphicalPrimitive1D
-
Specify the stroke-color: Either directly a Color-string, or the id of a
ColorDefinition
- stroke - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- strokeDashArray - Variable in class org.sbml.jsbml.ext.render.GraphicalPrimitive1D
-
- strokeDashArray - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- strokeWidth - Variable in class org.sbml.jsbml.ext.render.GraphicalPrimitive1D
-
- strokeWidth - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- style - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- Style - Class in org.sbml.jsbml.ext.render
-
- Style() - Constructor for class org.sbml.jsbml.ext.render.Style
-
Creates a Style instance with a group
- Style(int, int, RenderGroup) - Constructor for class org.sbml.jsbml.ext.render.Style
-
Creates a Style instance with a level and version.
- Style(String, int, int, RenderGroup) - Constructor for class org.sbml.jsbml.ext.render.Style
-
Creates a Style instance with an id, name, level, and version.
- Style(RenderGroup) - Constructor for class org.sbml.jsbml.ext.render.Style
-
Creates a Style instance with a group
- Style(Style) - Constructor for class org.sbml.jsbml.ext.render.Style
-
Clone constructor
- Style.Type - Enum in org.sbml.jsbml.ext.render
-
- StyleConstraints - Class in org.sbml.jsbml.validator.offline.constraints
-
Defines validation rules (as
ValidationFunction instances) for the
Style class.
Note: Since global styles are not explicitly implemented
in JSBML, this class combines the constraints placed on both Style and
GlobalStyle (which is not a problem, since GlobalStyle does not add any
meaningfully new constraints)
- StyleConstraints() - Constructor for class org.sbml.jsbml.validator.offline.constraints.StyleConstraints
-
- UncertainProcessNode<T> - Interface in org.sbml.jsbml.ext.render.director
-
- UNDEFINED - org.sbml.jsbml.ext.render.director.SimpleLayoutAlgorithm.RelativePosition
-
- unsetAbsoluteValue() - Method in class org.sbml.jsbml.ext.render.RelAbsVector
-
Tries to unset the absolute value
- unsetAddWhiskers() - Method in class org.sbml.jsbml.ext.render.director.LayoutDirector
-
Unsets the variable addWhiskers
- unsetBackgroundColor() - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
Unsets the variable backgroundColor
- unsetBoundingBox() - Method in class org.sbml.jsbml.ext.render.LineEnding
-
Unsets the variable boundingBox
- unsetCx() - Method in class org.sbml.jsbml.ext.render.Ellipse
-
Unsets the variable cx
- unsetCx() - Method in class org.sbml.jsbml.ext.render.RadialGradient
-
Unsets the variable cx
- unsetCy() - Method in class org.sbml.jsbml.ext.render.Ellipse
-
Unsets the variable cy
- unsetCy() - Method in class org.sbml.jsbml.ext.render.RadialGradient
-
Unsets the variable cy
- unsetCz() - Method in class org.sbml.jsbml.ext.render.Ellipse
-
Unsets the variable cz
- unsetCz() - Method in class org.sbml.jsbml.ext.render.RadialGradient
-
Unsets the variable cz
- unsetDefaultValues() - Method in class org.sbml.jsbml.ext.render.ListOfRenderInformation
-
Unsets the variable defaultValues.
- unsetEnableRotationMapping() - Method in class org.sbml.jsbml.ext.render.LineEnding
-
- unsetEndHead() - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
Unsets the variable endHead
- unsetEndHead() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Unsets the variable endHead
- unsetFill() - Method in class org.sbml.jsbml.ext.render.GraphicalPrimitive2D
-
Unsets the variable fill
- unsetFillRule() - Method in class org.sbml.jsbml.ext.render.GraphicalPrimitive2D
-
Unsets the variable fillRule
- unsetFontFamily() - Method in interface org.sbml.jsbml.ext.render.FontRenderStyle
-
Unsets the variable fontFamily
- unsetFontFamily() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Unsets the variable fontFamily
- unsetFontFamily() - Method in class org.sbml.jsbml.ext.render.Text
-
- unsetFontSize() - Method in interface org.sbml.jsbml.ext.render.FontRenderStyle
-
Unsets the variable fontSize
- unsetFontSize() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Unsets the variable fontSize
- unsetFontSize() - Method in class org.sbml.jsbml.ext.render.Text
-
- unsetFontStyleItalic() - Method in interface org.sbml.jsbml.ext.render.FontRenderStyle
-
Unsets the variable fontStyleItalic
- unsetFontStyleItalic() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Unsets the variable fontStyleItalic
- unsetFontStyleItalic() - Method in class org.sbml.jsbml.ext.render.Text
-
- unsetFontWeightBold() - Method in interface org.sbml.jsbml.ext.render.FontRenderStyle
-
Unsets the variable fontWeightBold
- unsetFontWeightBold() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Unsets the variable fontWeightBold
- unsetFontWeightBold() - Method in class org.sbml.jsbml.ext.render.Text
-
- unsetFx() - Method in class org.sbml.jsbml.ext.render.RadialGradient
-
Unsets the variable fx
- unsetFy() - Method in class org.sbml.jsbml.ext.render.RadialGradient
-
Unsets the variable fy
- unsetFz() - Method in class org.sbml.jsbml.ext.render.RadialGradient
-
Unsets the variable fz
- unsetGroup() - Method in class org.sbml.jsbml.ext.render.LineEnding
-
Unsets the variable group
- unsetGroup() - Method in class org.sbml.jsbml.ext.render.Style
-
Unsets the variable group
- unsetHeight() - Method in class org.sbml.jsbml.ext.render.Image
-
Unsets the variable height
- unsetHeight() - Method in class org.sbml.jsbml.ext.render.Rectangle
-
Unsets the variable height
- unsetHref() - Method in class org.sbml.jsbml.ext.render.Image
-
Unsets the variable href
- unsetIDList() - Method in class org.sbml.jsbml.ext.render.LocalStyle
-
Unsets the variable idList
- unsetListOfColorDefinitions() - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- unsetListOfCurveSegments() - Method in class org.sbml.jsbml.ext.render.Polygon
-
- unsetListOfCurveSegments() - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
- unsetListOfElements() - Method in class org.sbml.jsbml.ext.render.Polygon
-
Unsets the variable listOfElements
- unsetListOfElements() - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
- unsetListOfElements() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Returns true, if listOfElements contain at least one element,
otherwise false.
- unsetListOfGlobalRenderInformation() - Method in class org.sbml.jsbml.ext.render.RenderListOfLayoutsPlugin
-
- unsetListOfGradientDefinitions() - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- unsetListOfGradientStops() - Method in class org.sbml.jsbml.ext.render.GradientBase
-
- unsetListOfLineEndings() - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
- unsetListOfLocalRenderInformation() - Method in class org.sbml.jsbml.ext.render.RenderLayoutPlugin
-
- unsetListOfLocalStyles() - Method in class org.sbml.jsbml.ext.render.LocalRenderInformation
-
- unsetListOfStyles() - Method in class org.sbml.jsbml.ext.render.GlobalRenderInformation
-
- unsetObjectRole() - Method in class org.sbml.jsbml.ext.render.RenderGraphicalObjectPlugin
-
Unsets the variable objectRole.
- unsetOffset() - Method in class org.sbml.jsbml.ext.render.GradientStop
-
Unsets the variable offset
- unsetProgramName() - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
Unsets the variable programmName
- unsetProgramVersion() - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
Unsets the variable programVersion
- unsetR() - Method in class org.sbml.jsbml.ext.render.RadialGradient
-
Unsets the variable r
- unsetRatio() - Method in class org.sbml.jsbml.ext.render.Ellipse
-
Unsets the ratio-attribute (if set)
- unsetRatio() - Method in class org.sbml.jsbml.ext.render.Rectangle
-
- unsetReferenceRenderInformation() - Method in class org.sbml.jsbml.ext.render.RenderInformationBase
-
Unsets the variable referenceRenderInformation
- unsetRelativeValue() - Method in class org.sbml.jsbml.ext.render.RelAbsVector
-
Tries to unset the relative value
- unsetRenderInformation() - Method in class org.sbml.jsbml.ext.render.AbstractRenderPlugin
-
- unsetRoleList() - Method in class org.sbml.jsbml.ext.render.Style
-
Unsets the variable roleList
- unsetRx() - Method in class org.sbml.jsbml.ext.render.Ellipse
-
Unsets the variable rx
- unsetRx() - Method in class org.sbml.jsbml.ext.render.Rectangle
-
- unsetRy() - Method in class org.sbml.jsbml.ext.render.Ellipse
-
Unsets the variable ry
- unsetRy() - Method in class org.sbml.jsbml.ext.render.Rectangle
-
- unsetSpreadMethod() - Method in class org.sbml.jsbml.ext.render.GradientBase
-
Unsets the variable spreadMethod
- unsetStartHead() - Method in class org.sbml.jsbml.ext.render.RenderCurve
-
Unsets the variable startHead
- unsetStartHead() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Unsets the variable startHead
- unsetStopColor() - Method in class org.sbml.jsbml.ext.render.GradientStop
-
Unsets the variable stopColor
- unsetStroke() - Method in class org.sbml.jsbml.ext.render.GraphicalPrimitive1D
-
Unsets the variable stroke
- unsetStrokeDashArray() - Method in class org.sbml.jsbml.ext.render.GraphicalPrimitive1D
-
Unsets the variable strokeDashArray
- unsetStrokeWidth() - Method in class org.sbml.jsbml.ext.render.GraphicalPrimitive1D
-
Unsets the variable strokeWidth
- unsetText() - Method in class org.sbml.jsbml.ext.render.Text
-
Unsets the
Text.text and fires appropriate change event
- unsetTextAnchor() - Method in interface org.sbml.jsbml.ext.render.FontRenderStyle
-
Unsets the variable textAnchor
- unsetTextAnchor() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Unsets the variable textAnchor
- unsetTextAnchor() - Method in class org.sbml.jsbml.ext.render.Text
-
- unsetTransform() - Method in class org.sbml.jsbml.ext.render.Transformation2D
-
Unsets the variable transform
- unsetTypeList() - Method in class org.sbml.jsbml.ext.render.Style
-
Unsets the variable typeList
- unsetValue() - Method in class org.sbml.jsbml.ext.render.ColorDefinition
-
Unsets the variable value
- unsetVersionMajor() - Method in class org.sbml.jsbml.ext.render.ListOfRenderInformation
-
Unsets the variable versionMajor
- unsetVersionMinor() - Method in class org.sbml.jsbml.ext.render.ListOfRenderInformation
-
Unsets the variable versionMinor
- unsetVTextAnchor() - Method in interface org.sbml.jsbml.ext.render.FontRenderStyle
-
Unsets the variable VTextAnchor
- unsetVTextAnchor() - Method in class org.sbml.jsbml.ext.render.RenderGroup
-
Unsets the variable vTextAnchor
- unsetVTextAnchor() - Method in class org.sbml.jsbml.ext.render.Text
-
- unsetWidth() - Method in class org.sbml.jsbml.ext.render.Image
-
Unsets the variable width
- unsetWidth() - Method in class org.sbml.jsbml.ext.render.Rectangle
-
Unsets the variable width
- unsetX() - Method in class org.sbml.jsbml.ext.render.Image
-
Unsets the variable x
- unsetX() - Method in interface org.sbml.jsbml.ext.render.Point3D
-
Unsets the variable x
- unsetX() - Method in class org.sbml.jsbml.ext.render.Rectangle
-
Unsets the variable x
- unsetX() - Method in class org.sbml.jsbml.ext.render.RenderPoint
-
- unsetX() - Method in class org.sbml.jsbml.ext.render.Text
-
- unsetX1() - Method in class org.sbml.jsbml.ext.render.LinearGradient
-
Unsets the variable x1
- unsetX1() - Method in class org.sbml.jsbml.ext.render.RenderCubicBezier
-
Unsets the variable x1
- unsetX2() - Method in class org.sbml.jsbml.ext.render.LinearGradient
-
Unsets the variable x2
- unsetX2() - Method in class org.sbml.jsbml.ext.render.RenderCubicBezier
-
Unsets the variable x2
- unsetY() - Method in class org.sbml.jsbml.ext.render.Image
-
Unsets the variable y
- unsetY() - Method in interface org.sbml.jsbml.ext.render.Point3D
-
Unsets the variable y
- unsetY() - Method in class org.sbml.jsbml.ext.render.Rectangle
-
Unsets the variable y
- unsetY() - Method in class org.sbml.jsbml.ext.render.RenderPoint
-
- unsetY() - Method in class org.sbml.jsbml.ext.render.Text
-
- unsetY1() - Method in class org.sbml.jsbml.ext.render.LinearGradient
-
Unsets the variable y1
- unsetY1() - Method in class org.sbml.jsbml.ext.render.RenderCubicBezier
-
Unsets the variable y1
- unsetY2() - Method in class org.sbml.jsbml.ext.render.LinearGradient
-
Unsets the variable y2
- unsetY2() - Method in class org.sbml.jsbml.ext.render.RenderCubicBezier
-
Unsets the variable y2
- unsetZ() - Method in class org.sbml.jsbml.ext.render.Image
-
Unsets the variable z
- unsetZ() - Method in interface org.sbml.jsbml.ext.render.Point3D
-
Unsets the variable z
- unsetZ() - Method in class org.sbml.jsbml.ext.render.Rectangle
-
Unsets the variable z
- unsetZ() - Method in class org.sbml.jsbml.ext.render.RenderPoint
-
- unsetZ() - Method in class org.sbml.jsbml.ext.render.Text
-
- unsetZ1() - Method in class org.sbml.jsbml.ext.render.LinearGradient
-
Unsets the variable z1
- unsetZ1() - Method in class org.sbml.jsbml.ext.render.RenderCubicBezier
-
Unsets the variable z1
- unsetZ2() - Method in class org.sbml.jsbml.ext.render.LinearGradient
-
Unsets the variable z2
- unsetZ2() - Method in class org.sbml.jsbml.ext.render.RenderCubicBezier
-
Unsets the variable z2
- UnspecifiedNode<T> - Class in org.sbml.jsbml.ext.render.director
-
Abstract class that all the different graphical representations for
unspecified entity pool nodes have to implement
- UnspecifiedNode() - Constructor for class org.sbml.jsbml.ext.render.director.UnspecifiedNode
-
- value - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- valueOf(String) - Static method in enum org.sbml.jsbml.ext.render.director.SimpleLayoutAlgorithm.RelativePosition
-
Returns the enum constant of this type with the specified name.
- valueOf(String) - Static method in enum org.sbml.jsbml.ext.render.FontFamily
-
Returns the enum constant of this type with the specified name.
- valueOf(String) - Static method in enum org.sbml.jsbml.ext.render.GradientBase.Spread
-
Returns the enum constant of this type with the specified name.
- valueOf(String) - Static method in enum org.sbml.jsbml.ext.render.GraphicalPrimitive2D.FillRule
-
Returns the enum constant of this type with the specified name.
- valueOf(String) - Static method in enum org.sbml.jsbml.ext.render.HTextAnchor
-
Returns the enum constant of this type with the specified name.
- valueOf(String) - Static method in enum org.sbml.jsbml.ext.render.RenderCurveSegment.Type
-
Returns the enum constant of this type with the specified name.
- valueOf(String) - Static method in enum org.sbml.jsbml.ext.render.Style.Type
-
Returns the enum constant of this type with the specified name.
- valueOf(String) - Static method in enum org.sbml.jsbml.ext.render.VTextAnchor
-
Returns the enum constant of this type with the specified name.
- values() - Static method in enum org.sbml.jsbml.ext.render.director.SimpleLayoutAlgorithm.RelativePosition
-
Returns an array containing the constants of this enum type, in
the order they are declared.
- values() - Static method in enum org.sbml.jsbml.ext.render.FontFamily
-
Returns an array containing the constants of this enum type, in
the order they are declared.
- values() - Static method in enum org.sbml.jsbml.ext.render.GradientBase.Spread
-
Returns an array containing the constants of this enum type, in
the order they are declared.
- values() - Static method in enum org.sbml.jsbml.ext.render.GraphicalPrimitive2D.FillRule
-
Returns an array containing the constants of this enum type, in
the order they are declared.
- values() - Static method in enum org.sbml.jsbml.ext.render.HTextAnchor
-
Returns an array containing the constants of this enum type, in
the order they are declared.
- values() - Static method in enum org.sbml.jsbml.ext.render.RenderCurveSegment.Type
-
Returns an array containing the constants of this enum type, in
the order they are declared.
- values() - Static method in enum org.sbml.jsbml.ext.render.Style.Type
-
Returns an array containing the constants of this enum type, in
the order they are declared.
- values() - Static method in enum org.sbml.jsbml.ext.render.VTextAnchor
-
Returns an array containing the constants of this enum type, in
the order they are declared.
- version - Variable in class org.sbml.jsbml.ext.render.director.SimpleLayoutAlgorithm
-
SBML version
- versionMajor - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- versionMinor - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- vTextAnchor - Static variable in class org.sbml.jsbml.ext.render.RenderConstants
-
- VTextAnchor - Enum in org.sbml.jsbml.ext.render
-
The VTextAnchor enumeration allows models to specify how text elements are to be
vertically aligned within their
BoundingBox.