org.ginsim.core.graph.regulatorygraph

Class RegulatoryParser

java.lang.Object

org.xml.sax.helpers.DefaultHandler

org.ginsim.common.xml.XMLHelper

org.ginsim.core.io.parser.GsXMLHelper

org.ginsim.core.graph.regulatorygraph.RegulatoryParser

All Implemented Interfaces:

ContentHandler, DTDHandler, EntityResolver, ErrorHandler

public final class RegulatoryParser
extends GsXMLHelper

Load a regulatory graph from GINML.

Author:

Aurelien Naldi.

Field Summary

Fields inherited from class org.ginsim.common.xml.XMLHelper

BOTH, curval, ENDONLY, m_call, NOCALL, s_dtd, s_filename, STARTONLY, xr

Constructor Summary

Constructors

Constructor and Description
RegulatoryParser()
RegulatoryParser(Set set, Attributes attributes, String s_dtd)

Method Summary

Modifier and Type	Method and Description
void	addExpression(byte val, RegulatoryNode vertex, String exp)
void	addParam(byte val, RegulatoryNode vertex, String par)
void	endElement(String uri, String localName, String qName)
Graph	getGraph()
void	parse(File file, Set set, Graph<?,?> graph) create a new regulatory graph from a file.
void	startElement(String uri, String localName, String qName, Attributes attributes)

Methods inherited from class org.ginsim.common.xml.XMLHelper

addCall, addCall, addCall, addCall, addCall, addEntity, characters, endElement, error, getAttributeValueWithDefault, getWarnings, resolveEntity, startElement, startParsing, startParsing, startParsing, startParsing, warning

Methods inherited from class org.xml.sax.helpers.DefaultHandler

endDocument, endPrefixMapping, fatalError, ignorableWhitespace, notationDecl, processingInstruction, setDocumentLocator, skippedEntity, startDocument, startPrefixMapping, unparsedEntityDecl

Methods inherited from class java.lang.Object

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

Constructor Detail

RegulatoryParser

public RegulatoryParser()

RegulatoryParser

public RegulatoryParser(Set set,
                        Attributes attributes,
                        String s_dtd)
                 throws GsException

Parameters:

set -

attributes -

s_dtd -

Throws:

SAXException

GsException

Method Detail

parse

public void parse(File file,
                  Set set,
                  Graph<?,?> graph)
           throws GsException

create a new regulatory graph from a file.

Parameters:

file - the file to read.

set -

graph - the graph to fill with this data.

Throws:

GsException

endElement

public void endElement(String uri,
                       String localName,
                       String qName)
                throws SAXException

Specified by:

endElement in interface ContentHandler

Overrides:

endElement in class XMLHelper

Throws:

SAXException

startElement

public void startElement(String uri,
                         String localName,
                         String qName,
                         Attributes attributes)
                  throws SAXException

Specified by:

startElement in interface ContentHandler

Overrides:

startElement in class XMLHelper

Throws:

SAXException

addExpression

public void addExpression(byte val,
                          RegulatoryNode vertex,
                          String exp)

addParam

public void addParam(byte val,
                     RegulatoryNode vertex,
                     String par)
              throws Exception

Throws:

Exception

getGraph

public Graph getGraph()

Specified by:

getGraph in class GsXMLHelper