Index

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L

l - Variable in class org.pathvisio.libgpml.debug.TestDebug

l - Variable in class org.pathvisio.libgpml.model.Test

l - Variable in class org.pathvisio.libgpml.model.TestGraph

Label - Class in org.pathvisio.libgpml.model

This class stores all information relevant to a Label pathway element.

Label(String) - Constructor for class org.pathvisio.libgpml.model.Label

Instantiates a Label pathway element given all required parameters.

LABEL - org.pathvisio.libgpml.model.type.ObjectType

A pathway element to attach simple labels to the pathway.

labels - Variable in class org.pathvisio.libgpml.model.PathwayModel

last - Variable in class org.pathvisio.libgpml.debug.StopWatch

lastIndexOf(Object) - Method in class org.pathvisio.libgpml.debug.DebugList

LEFT - org.pathvisio.libgpml.model.type.HAlignType

LEGEND_CENTER_X - Static variable in class org.pathvisio.libgpml.model.GPML2013aFormatAbstract

LEGEND_CENTER_Y - Static variable in class org.pathvisio.libgpml.model.GPML2013aFormatAbstract

len() - Method in class org.pathvisio.libgpml.util.LinAlg.Point

license - Variable in class org.pathvisio.libgpml.model.Pathway

LICENSE - org.pathvisio.libgpml.prop.StaticProperty

LIGANDHEIGHT - Static variable in class org.pathvisio.libgpml.model.shape.ArrowShapeRegistry

LIGANDWIDTH - Static variable in class org.pathvisio.libgpml.model.shape.ArrowShapeRegistry

LinAlg - Class in org.pathvisio.libgpml.util

Helper class for rotation calculations.

LinAlg() - Constructor for class org.pathvisio.libgpml.util.LinAlg

LinAlg.Point - Class in org.pathvisio.libgpml.util

Point, pair of doubles.

lineColor - Variable in class org.pathvisio.libgpml.model.LineElement

LINECOLOR - org.pathvisio.libgpml.prop.StaticProperty

LINECOLOR_DEFAULT - Static variable in class org.pathvisio.libgpml.model.GPML2021FormatAbstract

LineElement - Class in org.pathvisio.libgpml.model

This abstract class stores information for a Line pathway element, e.g.

LineElement() - Constructor for class org.pathvisio.libgpml.model.LineElement

Instantiates a line pathway element.

LineElement.Anchor - Class in org.pathvisio.libgpml.model

This class stores information for an Anchor pathway element.

LineElement.GenericPoint - Class in org.pathvisio.libgpml.model

Abstract class of generic point, extended by LineElement.LinePoint and LineElement.Anchor.

LineElement.LinePoint - Class in org.pathvisio.libgpml.model

This class stores information for a Point pathway element.

LinePoint(double, double) - Constructor for class org.pathvisio.libgpml.model.LineElement.LinePoint

Instantiates a Point pathway element, with no reference to another pathway element.

LINEPOINT - org.pathvisio.libgpml.model.type.ObjectType

A point on a line pathway element.

linePoints - Variable in class org.pathvisio.libgpml.model.LineElement

lineStyle - Variable in class org.pathvisio.libgpml.model.LineElement

LINESTYLE - org.pathvisio.libgpml.prop.StaticProperty

LINESTYLE_DEFAULT - Static variable in class org.pathvisio.libgpml.model.GPML2021FormatAbstract

LineStyleType - Class in org.pathvisio.libgpml.model.type

This class contains extensible enum for lineStyle or borderStyle property.

LineStyleType(String) - Constructor for class org.pathvisio.libgpml.model.type.LineStyleType

The constructor is private.

LINESTYLETYPE - org.pathvisio.libgpml.prop.StaticPropertyType

lineWidth - Variable in class org.pathvisio.libgpml.model.LineElement

LINEWIDTH - org.pathvisio.libgpml.prop.StaticProperty

LINEWIDTH_DEFAULT - Static variable in class org.pathvisio.libgpml.model.GPML2021FormatAbstract

LINKABLETO - org.pathvisio.libgpml.prop.StaticPropertyType

linkAlias(Group, DataNode) - Method in class org.pathvisio.libgpml.model.PathwayModel

Adds mapping of aliasRef to data node alias in the aliasRefToAliases hash map.

linkTo(GraphLink.LinkableTo) - Method in class org.pathvisio.libgpml.model.LineElement.LinePoint

Links this line point to the given object.

linkTo(GraphLink.LinkableTo, double, double) - Method in interface org.pathvisio.libgpml.model.GraphLink.LinkableFrom

Links this linkableFrom (e.g.

linkTo(GraphLink.LinkableTo, double, double) - Method in class org.pathvisio.libgpml.model.LineElement.LinePoint

Links this line point to the given object.

listeners - Variable in class org.pathvisio.libgpml.model.PathwayModel

listeners - Variable in class org.pathvisio.libgpml.model.PathwayObject

listIterator() - Method in class org.pathvisio.libgpml.debug.DebugList

listIterator(int) - Method in class org.pathvisio.libgpml.debug.DebugList

log - Static variable in class org.pathvisio.libgpml.debug.Logger

Global application logger

Logger - Class in org.pathvisio.libgpml.debug

Logs output to a stream, with the option to filter for types of messages

Logger() - Constructor for class org.pathvisio.libgpml.debug.Logger

logTimer - Variable in class org.pathvisio.libgpml.debug.Logger

look() - Method in class org.pathvisio.libgpml.debug.StopWatch

LRDIAM - Static variable in class org.pathvisio.libgpml.model.shape.ArrowShapeRegistry

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