cytoscape.data.servers
Interface BioDataServerInterface

All Superinterfaces:

Remote

All Known Implementing Classes:

BioDataServerRmi

public interface BioDataServerInterface

extends Remote

Method Summary

void	addAnnotation(cytoscape.data.annotation.Annotation annotation)
void	addThesaurus(String species, cytoscape.data.synonyms.Thesaurus thesaurus)
void	clear()
String	describe()
String[][]	getAllAnnotations(cytoscape.data.annotation.AnnotationDescription description, String entity)
String[]	getAllCommonNames(String species, String commonName)
cytoscape.data.annotation.Annotation	getAnnotation(cytoscape.data.annotation.AnnotationDescription description)
cytoscape.data.annotation.Annotation	getAnnotation(String species, String curator, String type)
int	getAnnotationCount()
cytoscape.data.annotation.AnnotationDescription[]	getAnnotationDescriptions()
String	getCanonicalName(String species, String commonName)
int[]	getClassifications(cytoscape.data.annotation.AnnotationDescription description, String entity)
int[]	getClassifications(String species, String curator, String type, String entity)
String	getCommonName(String species, String canonicalName)

Method Detail

addAnnotation

public void addAnnotation(cytoscape.data.annotation.Annotation annotation)
                   throws Exception

Throws:

Exception

getAnnotationCount

public int getAnnotationCount()
                       throws Exception

Throws:

Exception

getAnnotationDescriptions

public cytoscape.data.annotation.AnnotationDescription[] getAnnotationDescriptions()
                                                                            throws Exception

Throws:

Exception

getAnnotation

public cytoscape.data.annotation.Annotation getAnnotation(String species,
                                                          String curator,
                                                          String type)
                                                   throws Exception

Throws:

Exception

getAnnotation

public cytoscape.data.annotation.Annotation getAnnotation(cytoscape.data.annotation.AnnotationDescription description)
                                                   throws Exception

Throws:

Exception

getClassifications

public int[] getClassifications(String species,
                                String curator,
                                String type,
                                String entity)
                         throws Exception

Throws:

Exception

getClassifications

public int[] getClassifications(cytoscape.data.annotation.AnnotationDescription description,
                                String entity)
                         throws Exception

Throws:

Exception

getAllAnnotations

public String[][] getAllAnnotations(cytoscape.data.annotation.AnnotationDescription description,
                                    String entity)
                             throws Exception

Throws:

Exception

clear

public void clear()
           throws Exception

Throws:

Exception

describe

public String describe()
                throws Exception

Throws:

Exception

addThesaurus

public void addThesaurus(String species,
                         cytoscape.data.synonyms.Thesaurus thesaurus)
                  throws Exception

Throws:

Exception

getCanonicalName

public String getCanonicalName(String species,
                               String commonName)
                        throws Exception

Throws:

Exception

getAllCommonNames

public String[] getAllCommonNames(String species,
                                  String commonName)
                           throws Exception

Throws:

Exception

getCommonName

public String getCommonName(String species,
                            String canonicalName)
                     throws Exception

Throws:

Exception