Uses of Class
org.ginsim.common.xml.XMLWriter

Packages that use XMLWriter

Package	Description
org.ginsim.common.xml	This package contains helpers to write and parse XML files.
org.ginsim.core.annotation	Manage annotations: bibliography, Database entries and links.
org.ginsim.core.graph.backend	Implementation of the graph backend.
org.ginsim.core.graph.dynamicgraph	State Transition Graphs, representing dynamical behaviours.
org.ginsim.core.graph.hierarchicaltransitiongraph
org.ginsim.core.graph.reducedgraph	Loop-free graphs where each node represents a strongly connected component of the original graph.
org.ginsim.core.graph.regulatorygraph	The regulatory graph is the main graph, it represents the model.
org.ginsim.core.graph.regulatorygraph.logicalfunction	Logical functions associated to nodes of the regulatory graph define their dynamical behaviour.
org.ginsim.core.graph.regulatorygraph.namedstates	Define states of a regulatory graph, which can be named and used as starting point for simulations.
org.ginsim.core.graph.regulatorygraph.perturbation	Perturbations to modify some parts of a model before analysis.
org.ginsim.core.graph.view	Define the layout and appearance of graph elements.
org.ginsim.core.graph.view.style	Styles define visual properties for graph elements.
org.ginsim.core.io.parser	Some tools to build parsers and writers for xml and text formats
org.ginsim.service.tool.avatar.params
org.ginsim.service.tool.modelreduction
org.ginsim.service.tool.reg2dyn
org.ginsim.service.tool.reg2dyn.priorityclass
org.ginsim.service.tool.reg2dyn.updater

Uses of XMLWriter in org.ginsim.common.xml

Subclasses of XMLWriter in org.ginsim.common.xml

Modifier and Type	Class and Description
class	SVGWriter XMLWriter extension with some SVG-specific methods.

Methods in org.ginsim.common.xml with parameters of type XMLWriter

Modifier and Type	Method and Description
void	XMLize.toXML(XMLWriter out) write the XML representation of this object to a file

Uses of XMLWriter in org.ginsim.core.annotation

Methods in org.ginsim.core.annotation with parameters of type XMLWriter

Modifier and Type	Method and Description
void	Annotation.toXML(XMLWriter out)
void	BiblioList.toXML(XMLWriter out)

Uses of XMLWriter in org.ginsim.core.graph.backend

Methods in org.ginsim.core.graph.backend with parameters of type XMLWriter

Modifier and Type	Method and Description
void	EdgeAttributeReaderImpl.writeGINML(XMLWriter writer)
void	NodeAttributeReaderImpl.writeGINML(XMLWriter writer)

Uses of XMLWriter in org.ginsim.core.graph.dynamicgraph

Methods in org.ginsim.core.graph.dynamicgraph with parameters of type XMLWriter

Modifier and Type	Method and Description
protected void	DynamicGINMLWriter.hook_edgeAttribute(XMLWriter out, DynamicEdge edge)
protected void	DynamicGINMLWriter.hook_graphAttribute(XMLWriter out)
protected void	DynamicGINMLWriter.hook_nodeAttribute(XMLWriter out, DynamicNode node)

Uses of XMLWriter in org.ginsim.core.graph.hierarchicaltransitiongraph

Methods in org.ginsim.core.graph.hierarchicaltransitiongraph with parameters of type XMLWriter

Modifier and Type	Method and Description
void	HierarchicalGINMLWriter.hook_edgeAttribute(XMLWriter out, DecisionOnEdge edge)
void	HierarchicalGINMLWriter.hook_graphAttribute(XMLWriter out)
void	HierarchicalGINMLWriter.hook_nodeAttribute(XMLWriter out, HierarchicalNode node)

Uses of XMLWriter in org.ginsim.core.graph.reducedgraph

Methods in org.ginsim.core.graph.reducedgraph with parameters of type XMLWriter

Modifier and Type	Method and Description
void	ReducedGINMLWriter.hook_edgeAttribute(XMLWriter out, Edge<NodeReducedData> edge)
void	ReducedGINMLWriter.hook_nodeAttribute(XMLWriter out, NodeReducedData node)

Uses of XMLWriter in org.ginsim.core.graph.regulatorygraph

Methods in org.ginsim.core.graph.regulatorygraph with parameters of type XMLWriter

Modifier and Type	Method and Description
protected void	RegulatoryGINMLWriter.hook_edgeAttribute(XMLWriter out, RegulatoryMultiEdge edge)
protected void	RegulatoryGINMLWriter.hook_graphAttribute(XMLWriter out)
protected void	RegulatoryGINMLWriter.hook_nodeAttribute(XMLWriter out, RegulatoryNode node)
void	RegulatoryNode.saveInteractionsModel(XMLWriter out)
void	RegulatoryMultiEdge.toXML(XMLWriter out)
void	RegulatoryNode.toXML(XMLWriter out)

Uses of XMLWriter in org.ginsim.core.graph.regulatorygraph.logicalfunction

Methods in org.ginsim.core.graph.regulatorygraph.logicalfunction with parameters of type XMLWriter

Modifier and Type	Method and Description
void	LogicalParameter.toXML(XMLWriter out)

Uses of XMLWriter in org.ginsim.core.graph.regulatorygraph.namedstates

Methods in org.ginsim.core.graph.regulatorygraph.namedstates with parameters of type XMLWriter

Modifier and Type	Method and Description
void	NamedStateList.toXML(XMLWriter out, String tag)

Uses of XMLWriter in org.ginsim.core.graph.regulatorygraph.perturbation

Methods in org.ginsim.core.graph.regulatorygraph.perturbation with parameters of type XMLWriter

Modifier and Type	Method and Description
void	PerturbationRegulator.toXML(XMLWriter out)
void	PerturbationFixed.toXML(XMLWriter out)
void	PerturbationRange.toXML(XMLWriter out)
void	Perturbation.toXML(XMLWriter out) Save the perturbation definition to XML (to save in zginml)
void	ListOfPerturbations.toXML(XMLWriter out)
void	PerturbationMultiple.toXML(XMLWriter out)

Uses of XMLWriter in org.ginsim.core.graph.view

Methods in org.ginsim.core.graph.view with parameters of type XMLWriter

Modifier and Type	Method and Description
void	AttributesReader.writeGINML(XMLWriter writer) Save the visual settings in GINML.

Uses of XMLWriter in org.ginsim.core.graph.view.style

Methods in org.ginsim.core.graph.view.style with parameters of type XMLWriter

Modifier and Type	Method and Description
void	StyleManager.styles2ginml(XMLWriter writer) Save all styles to GINML

Uses of XMLWriter in org.ginsim.core.io.parser

Methods in org.ginsim.core.io.parser with parameters of type XMLWriter

Modifier and Type	Method and Description
protected void	GINMLWriter.addAttributeTag(XMLWriter out, String name, boolean value)
protected void	GINMLWriter.addAttributeTag(XMLWriter out, String name, int value)
protected void	GINMLWriter.addAttributeTag(XMLWriter out, String name, Object value)
protected void	GINMLWriter.addAttributeTag(XMLWriter out, String name, String value)
protected void	GINMLWriter.hook_edgeAttribute(XMLWriter out, E edge)
protected void	GINMLWriter.hook_graphAttribute(XMLWriter out)
protected void	GINMLWriter.hook_nodeAttribute(XMLWriter out, V node)
protected void	GINMLWriter.saveEdges(XMLWriter out, Collection<E> edges)
protected void	GINMLWriter.saveNodes(XMLWriter out, Collection<V> nodes)

Uses of XMLWriter in org.ginsim.service.tool.avatar.params

Methods in org.ginsim.service.tool.avatar.params with parameters of type XMLWriter

Modifier and Type	Method and Description
void	AvatarParameters.toXML(XMLWriter out)

Uses of XMLWriter in org.ginsim.service.tool.modelreduction

Methods in org.ginsim.service.tool.modelreduction with parameters of type XMLWriter

Modifier and Type	Method and Description
void	ReductionConfig.toXML(XMLWriter out)

Uses of XMLWriter in org.ginsim.service.tool.reg2dyn

Methods in org.ginsim.service.tool.reg2dyn with parameters of type XMLWriter

Modifier and Type	Method and Description
void	SimulationParameters.toXML(XMLWriter out)

Uses of XMLWriter in org.ginsim.service.tool.reg2dyn.priorityclass

Methods in org.ginsim.service.tool.reg2dyn.priorityclass with parameters of type XMLWriter

Modifier and Type	Method and Description
void	PrioritySetDefinition.toXML(XMLWriter out)

Uses of XMLWriter in org.ginsim.service.tool.reg2dyn.updater

Methods in org.ginsim.service.tool.reg2dyn.updater with parameters of type XMLWriter

Modifier and Type	Method and Description
void	UpdaterDefinitionSynchronous.toXML(XMLWriter out)
void	UpdaterDefinitionComplete.toXML(XMLWriter out)
void	UpdaterDefinitionSequential.toXML(XMLWriter out)
void	UpdaterDefinitionAsynchronous.toXML(XMLWriter out)