Package de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.kgml

Class Relation

java.lang.Object

de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.kgml.Relation

public class Relation
extends Object

Constructor Summary

Constructors

Constructor	Description
Relation(IdRef entry1, IdRef entry2, RelationType type, Collection<Subtype> subtypes)

Method Summary

Modifier and Type	Method	Description
void	addSubtypeName(SubtypeName stn)
void	addSubtypeRef(Entry e)
String	getCSVline()
Collection<NodeCombination>	getDesiredNodeCombinations(HashMap<Entry,Node> entry2graphNode, Collection<Entry> entries)
org.jdom2.Element	getKgmlRelationElement()
static Collection<Relation>	getRelationElementsFromGraph(Collection<Entry> entries, Graph graph, Collection<Gml2PathwayWarningInformation> warnings, Collection<Gml2PathwayErrorInformation> errors)
static Relation	getRelationFromKgmlRelationElement(org.jdom2.Element relationElement, Collection<Entry> entryElements, String clusterIdForHiddenCompounds)
Entry	getSourceEntry()
String	getSourceID()
ArrayList<IdRef>	getSubtypeRefs()
ArrayList<SubtypeName>	getSubtypes()
Entry	getTargetEntry()
String	getTargetID()
RelationType	getType()
static String	getTypeDescription(boolean html)
boolean	hasSubtypeName(SubtypeName stn)
boolean	isDirectedRelationDefinedBySubtypes()
static void	processEdgeRelationInformation(Edge e, ArrayList<Relation> relationsRequestingThisNodeCombination)
void	removeSubtypeName(SubtypeName stn)
void	removeSubtypeRef(Entry e)
void	removeSubtypes()
void	setSourceEntry(Entry e)
void	setTargetEntry(Entry e)
void	setType(RelationType type)
String	toString()
String	toStringWithKeggIDs()
String	toStringWithKeggNames()
String	toStringWithShortDesc(boolean showLabels)

Methods inherited from class java.lang.Object

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

Constructor Details

Relation

public Relation(IdRef entry1,
IdRef entry2,
RelationType type,
Collection<Subtype> subtypes)

Method Details

getTypeDescription

public static String getTypeDescription(boolean html)

getRelationFromKgmlRelationElement

public static Relation getRelationFromKgmlRelationElement(org.jdom2.Element relationElement,
Collection<Entry> entryElements,
String clusterIdForHiddenCompounds)

getKgmlRelationElement

public org.jdom2.Element getKgmlRelationElement()

getDesiredNodeCombinations

public Collection<NodeCombination> getDesiredNodeCombinations(HashMap<Entry,Node> entry2graphNode,
Collection<Entry> entries)

getType

public RelationType getType()

setType

public void setType(RelationType type)

processEdgeRelationInformation

public static void processEdgeRelationInformation(Edge e,
ArrayList<Relation> relationsRequestingThisNodeCombination)

isDirectedRelationDefinedBySubtypes

public boolean isDirectedRelationDefinedBySubtypes()

getSubtypes

public ArrayList<SubtypeName> getSubtypes()

addSubtypeName

public void addSubtypeName(SubtypeName stn)

removeSubtypeName

public void removeSubtypeName(SubtypeName stn)

hasSubtypeName

public boolean hasSubtypeName(SubtypeName stn)

getSubtypeRefs

public ArrayList<IdRef> getSubtypeRefs()

addSubtypeRef

public void addSubtypeRef(Entry e)

removeSubtypeRef

public void removeSubtypeRef(Entry e)

getRelationElementsFromGraph

public static Collection<Relation> getRelationElementsFromGraph(Collection<Entry> entries,
Graph graph,
Collection<Gml2PathwayWarningInformation> warnings,
Collection<Gml2PathwayErrorInformation> errors)

toString

public String toString()

Overrides:

toString in class Object

toStringWithKeggIDs

public String toStringWithKeggIDs()

toStringWithKeggNames

public String toStringWithKeggNames()

toStringWithShortDesc

public String toStringWithShortDesc(boolean showLabels)

getSourceID

public String getSourceID()

getTargetID

public String getTargetID()

getSourceEntry

public Entry getSourceEntry()

getTargetEntry

public Entry getTargetEntry()

setSourceEntry

public void setSourceEntry(Entry e)

setTargetEntry

public void setTargetEntry(Entry e)

getCSVline

public String getCSVline()

removeSubtypes

public void removeSubtypes()