fr.curie.BiNoM.pathways.test
Class testEwingNetwork

java.lang.Object
  fr.curie.BiNoM.pathways.test.testEwingNetwork

public class testEwingNetwork
extends java.lang.Object

Field Summary

static BioPAX	biopax
static java.lang.String	ChemType
static java.lang.String	Comments
static java.lang.String	Confidence
static java.lang.String	Delay
static java.util.HashMap	families
static java.util.Vector	molecules
static java.util.HashMap	nameEntity
static java.util.HashMap	nameFeatures
static java.util.HashMap	nameParticipant
static java.util.HashMap	nameReactions
static java.util.HashMap	phenotypes
static java.lang.String	pub1
static java.lang.String	pub2
static java.util.HashMap	publications
static java.lang.String	Tissue
static java.util.Vector	tissueTypes

Constructor Summary

testEwingNetwork()

Method Summary

static void	addComplex(java.lang.String name)
static void	addElementaryReaction(java.lang.String id, java.lang.String link)
static void	addFamily(java.lang.String name)
static void	addMolecule(java.lang.String name)
static void	addPathwayInfluence(java.lang.String id, java.lang.String link)
static void	addPhenotype(java.lang.String name)
static void	addPublication(biochemicalReaction r, java.lang.String pub)
static void	addReaction(java.lang.String id, java.lang.String link)
static void	extractReactionParts(java.lang.String link, java.lang.StringBuffer pleft, java.lang.StringBuffer pright, java.lang.StringBuffer activation)
static void	findAllMembers(java.lang.String sname, java.util.Vector members)
static void	main(java.lang.String[] args)

Methods inherited from class java.lang.Object

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

Field Detail

biopax

public static BioPAX biopax

nameEntity

public static java.util.HashMap nameEntity

nameParticipant

public static java.util.HashMap nameParticipant

nameFeatures

public static java.util.HashMap nameFeatures

nameReactions

public static java.util.HashMap nameReactions

families

public static java.util.HashMap families

phenotypes

public static java.util.HashMap phenotypes

molecules

public static java.util.Vector molecules

tissueTypes

public static java.util.Vector tissueTypes

publications

public static java.util.HashMap publications

pub1

public static java.lang.String pub1

pub2

public static java.lang.String pub2

ChemType

public static java.lang.String ChemType

Delay

public static java.lang.String Delay

Confidence

public static java.lang.String Confidence

Comments

public static java.lang.String Comments

Tissue

public static java.lang.String Tissue

Constructor Detail

testEwingNetwork

public testEwingNetwork()

Method Detail

main

public static void main(java.lang.String[] args)

addMolecule

public static void addMolecule(java.lang.String name)
                        throws java.lang.Exception

Throws:

java.lang.Exception

addComplex

public static void addComplex(java.lang.String name)
                       throws java.lang.Exception

Throws:

java.lang.Exception

addReaction

public static void addReaction(java.lang.String id,
                               java.lang.String link)
                        throws java.lang.Exception

Throws:

java.lang.Exception

addPathwayInfluence

public static void addPathwayInfluence(java.lang.String id,
                                       java.lang.String link)
                                throws java.lang.Exception

Throws:

java.lang.Exception

extractReactionParts

public static void extractReactionParts(java.lang.String link,
                                        java.lang.StringBuffer pleft,
                                        java.lang.StringBuffer pright,
                                        java.lang.StringBuffer activation)

addElementaryReaction

public static void addElementaryReaction(java.lang.String id,
                                         java.lang.String link)
                                  throws java.lang.Exception

Throws:

java.lang.Exception

addPublication

public static void addPublication(biochemicalReaction r,
                                  java.lang.String pub)
                           throws java.lang.Exception

Throws:

java.lang.Exception

addPhenotype

public static void addPhenotype(java.lang.String name)
                         throws java.lang.Exception

Throws:

java.lang.Exception

addFamily

public static void addFamily(java.lang.String name)
                      throws java.lang.Exception

Throws:

java.lang.Exception

findAllMembers

public static void findAllMembers(java.lang.String sname,
                                  java.util.Vector members)
                           throws java.lang.Exception

Throws:

java.lang.Exception