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Cytoscape 2.6.2 (c) 2006,2007 ISB, MSKCC, UCSD
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cytoscape.data.servers
Interface BioDataServerInterface

All Superinterfaces:
Remote
All Known Implementing Classes:
BioDataServerRmi
public interface BioDataServerInterface
extends Remote

Method Summary
 void addAnnotation(Annotation annotation)
          DOCUMENT ME!
 void addThesaurus(String species, Thesaurus thesaurus)
          DOCUMENT ME!
 void clear()
          DOCUMENT ME!
 String describe()
          DOCUMENT ME!
 String[][] getAllAnnotations(AnnotationDescription description, String entity)
          DOCUMENT ME!
 String[] getAllCommonNames(String species, String commonName)
          DOCUMENT ME!
 Annotation getAnnotation(AnnotationDescription description)
          DOCUMENT ME!
 Annotation getAnnotation(String species, String curator, String type)
          DOCUMENT ME!
 int getAnnotationCount()
          DOCUMENT ME!
 AnnotationDescription[] getAnnotationDescriptions()
          DOCUMENT ME!
 String getCanonicalName(String species, String commonName)
          DOCUMENT ME!
 int[] getClassifications(AnnotationDescription description, String entity)
          DOCUMENT ME!
 int[] getClassifications(String species, String curator, String type, String entity)
          DOCUMENT ME!
 String getCommonName(String species, String canonicalName)
          DOCUMENT ME!
 

Method Detail

addAnnotation

void addAnnotation(Annotation annotation)
                   throws Exception
DOCUMENT ME!

Parameters:
annotation - DOCUMENT ME!
Throws:
Exception - DOCUMENT ME!

getAnnotationCount

int getAnnotationCount()
                       throws Exception
DOCUMENT ME!

Returns:
DOCUMENT ME!
Throws:
Exception - DOCUMENT ME!

getAnnotationDescriptions

AnnotationDescription[] getAnnotationDescriptions()
                                                  throws Exception
DOCUMENT ME!

Returns:
DOCUMENT ME!
Throws:
Exception - DOCUMENT ME!

getAnnotation

Annotation getAnnotation(String species,
                         String curator,
                         String type)
                         throws Exception
DOCUMENT ME!

Parameters:
species - DOCUMENT ME!
curator - DOCUMENT ME!
type - DOCUMENT ME!
Returns:
DOCUMENT ME!
Throws:
Exception - DOCUMENT ME!

getAnnotation

Annotation getAnnotation(AnnotationDescription description)
                         throws Exception
DOCUMENT ME!

Parameters:
description - DOCUMENT ME!
Returns:
DOCUMENT ME!
Throws:
Exception - DOCUMENT ME!

getClassifications

int[] getClassifications(String species,
                         String curator,
                         String type,
                         String entity)
                         throws Exception
DOCUMENT ME!

Parameters:
species - DOCUMENT ME!
curator - DOCUMENT ME!
type - DOCUMENT ME!
entity - DOCUMENT ME!
Returns:
DOCUMENT ME!
Throws:
Exception - DOCUMENT ME!

getClassifications

int[] getClassifications(AnnotationDescription description,
                         String entity)
                         throws Exception
DOCUMENT ME!

Parameters:
description - DOCUMENT ME!
entity - DOCUMENT ME!
Returns:
DOCUMENT ME!
Throws:
Exception - DOCUMENT ME!

getAllAnnotations

String[][] getAllAnnotations(AnnotationDescription description,
                             String entity)
                             throws Exception
DOCUMENT ME!

Parameters:
description - DOCUMENT ME!
entity - DOCUMENT ME!
Returns:
DOCUMENT ME!
Throws:
Exception - DOCUMENT ME!

clear

void clear()
           throws Exception
DOCUMENT ME!

Throws:
Exception - DOCUMENT ME!

describe

String describe()
                throws Exception
DOCUMENT ME!

Returns:
DOCUMENT ME!
Throws:
Exception - DOCUMENT ME!

addThesaurus

void addThesaurus(String species,
                  Thesaurus thesaurus)
                  throws Exception
DOCUMENT ME!

Parameters:
species - DOCUMENT ME!
thesaurus - DOCUMENT ME!
Throws:
Exception - DOCUMENT ME!

getCanonicalName

String getCanonicalName(String species,
                        String commonName)
                        throws Exception
DOCUMENT ME!

Parameters:
species - DOCUMENT ME!
commonName - DOCUMENT ME!
Returns:
DOCUMENT ME!
Throws:
Exception - DOCUMENT ME!

getAllCommonNames

String[] getAllCommonNames(String species,
                           String commonName)
                           throws Exception
DOCUMENT ME!

Parameters:
species - DOCUMENT ME!
commonName - DOCUMENT ME!
Returns:
DOCUMENT ME!
Throws:
Exception - DOCUMENT ME!

getCommonName

String getCommonName(String species,
                     String canonicalName)
                     throws Exception
DOCUMENT ME!

Parameters:
species - DOCUMENT ME!
canonicalName - DOCUMENT ME!
Returns:
DOCUMENT ME!
Throws:
Exception - DOCUMENT ME!
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