org.colomoto.biolqm.io.ginml

Class LogicalModel2GINML

java.lang.Object

org.colomoto.biolqm.io.ginml.AbstractGINMLWriter

org.colomoto.biolqm.io.ginml.LogicalModel2GINML

public class LogicalModel2GINML
extends AbstractGINMLWriter

Encoder to transform a LogicalModel into a GINML file.

Author:

Aurelien Naldi

Field Summary

Fields inherited from class org.colomoto.biolqm.io.ginml.AbstractGINMLWriter

DEFAULT_DTD

Constructor Summary

Constructors

Constructor and Description
LogicalModel2GINML(LogicalModel model)

Method Summary

Modifier and Type	Method and Description
List<String>	getNodes() get the names of the nodes to save in GINML.
void	writeEdges(XMLWriter out) Start writing the edges (interactions).
void	writeNodes(XMLWriter out) Start writing the nodes.

Methods inherited from class org.colomoto.biolqm.io.ginml.AbstractGINMLWriter

export, writeEdge, writeLogicalParameter, writeNodeDecl

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

LogicalModel2GINML

public LogicalModel2GINML(LogicalModel model)

Method Detail

getNodes

public List<String> getNodes()

Description copied from class: AbstractGINMLWriter

get the names of the nodes to save in GINML.

Specified by:

getNodes in class AbstractGINMLWriter

Returns:

the list of node IDs

writeNodes

public void writeNodes(XMLWriter out)
                throws IOException

Description copied from class: AbstractGINMLWriter

Start writing the nodes. This must be implemented by subclasses.

Specified by:

writeNodes in class AbstractGINMLWriter

Parameters:

out - an opened XML writer to save the result

Throws:

IOException - if writing fails

writeEdges

public void writeEdges(XMLWriter out)
                throws IOException

Description copied from class: AbstractGINMLWriter

Start writing the edges (interactions). This must be implemented by subclasses.

Specified by:

writeEdges in class AbstractGINMLWriter

Parameters:

out - an opened XML writer to save the result

Throws:

IOException - if writing fails