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A B C D G H I L O P R S T 

A

AbstractRetrieveGolr - Class in org.bbop.golr.java
 
AbstractRetrieveGolr(String) - Constructor for class org.bbop.golr.java.AbstractRetrieveGolr
 
AbstractRetrieveGolr(String, int) - Constructor for class org.bbop.golr.java.AbstractRetrieveGolr
 
alternate_id - Variable in class org.bbop.golr.java.RetrieveGolrOntologyClass.GolrOntologyClassDocument
 
annotation_class - Variable in class org.bbop.golr.java.RetrieveGolrOntologyClass.GolrOntologyClassDocument
 
annotation_class_label - Variable in class org.bbop.golr.java.RetrieveGolrOntologyClass.GolrOntologyClassDocument
 

B

bioentity - Variable in class org.bbop.golr.java.RetrieveGolrBioentities.GolrBioentityDocument
 
bioentity_label - Variable in class org.bbop.golr.java.RetrieveGolrBioentities.GolrBioentityDocument
 
bioentity_name - Variable in class org.bbop.golr.java.RetrieveGolrBioentities.GolrBioentityDocument
 

C

consider - Variable in class org.bbop.golr.java.RetrieveGolrOntologyClass.GolrOntologyClassDocument
 
convert(List<RetrieveGolrAnnotations.GolrAnnotationDocument>) - Method in class org.bbop.golr.java.RetrieveGolrAnnotations
 
convert(List<RetrieveGolrAnnotations.GolrAnnotationDocument>, Map<String, Bioentity>, GafDocument) - Method in class org.bbop.golr.java.RetrieveGolrAnnotations
 

D

database_xref - Variable in class org.bbop.golr.java.RetrieveGolrOntologyClass.GolrOntologyClassDocument
 
defaultRandomWait() - Method in class org.bbop.golr.java.AbstractRetrieveGolr
 
definition_xref - Variable in class org.bbop.golr.java.RetrieveGolrOntologyClass.GolrOntologyClassDocument
 
description - Variable in class org.bbop.golr.java.RetrieveGolrOntologyClass.GolrOntologyClassDocument
 
document_category - Variable in class org.bbop.golr.java.RetrieveGolrBioentities.GolrBioentityDocument
 
document_category - Variable in class org.bbop.golr.java.RetrieveGolrOntologyClass.GolrOntologyClassDocument
 

G

getGolrAnnotations(List<String[]>) - Method in class org.bbop.golr.java.RetrieveGolrAnnotations
 
getGolrAnnotationsForGene(String) - Method in class org.bbop.golr.java.RetrieveGolrAnnotations
 
getGolrAnnotationsForGenes(List<String>) - Method in class org.bbop.golr.java.RetrieveGolrAnnotations
 
getGolrAnnotationsForGenes(List<String>, boolean) - Method in class org.bbop.golr.java.RetrieveGolrAnnotations
 
getGolrAnnotationsForSynonym(String, String) - Method in class org.bbop.golr.java.RetrieveGolrAnnotations
 
getGolrAnnotationsForSynonym(String, List<String>) - Method in class org.bbop.golr.java.RetrieveGolrAnnotations
 
getGolrAnnotationsForSynonym(String, List<String>, boolean) - Method in class org.bbop.golr.java.RetrieveGolrAnnotations
 
getGolrBioentites(String) - Method in class org.bbop.golr.java.RetrieveGolrBioentities
 
getGolrBioentities(List<String[]>) - Method in class org.bbop.golr.java.RetrieveGolrBioentities
 
getGolrOntologyCls(String) - Method in class org.bbop.golr.java.RetrieveGolrOntologyClass
 
getGolrOntologyCls(List<String[]>) - Method in class org.bbop.golr.java.RetrieveGolrOntologyClass
 
getJsonStringFromUri(URI) - Method in class org.bbop.golr.java.AbstractRetrieveGolr
 
getJsonStringFromUri(URI, int) - Method in class org.bbop.golr.java.AbstractRetrieveGolr
 
getRelevantFields() - Method in class org.bbop.golr.java.AbstractRetrieveGolr
 
getRelevantFields() - Method in class org.bbop.golr.java.RetrieveGolrAnnotations
 
getRelevantFields() - Method in class org.bbop.golr.java.RetrieveGolrBioentities
 
getRelevantFields() - Method in class org.bbop.golr.java.RetrieveGolrOntologyClass
 
GolrAnnotationDocument() - Constructor for class org.bbop.golr.java.RetrieveGolrAnnotations.GolrAnnotationDocument
 
GolrAnnotationExtension() - Constructor for class org.bbop.golr.java.RetrieveGolrAnnotations.GolrAnnotationExtension
 
GolrAnnotationExtensionEntry() - Constructor for class org.bbop.golr.java.RetrieveGolrAnnotations.GolrAnnotationExtension.GolrAnnotationExtensionEntry
 
GolrAnnotationExtensionRelation() - Constructor for class org.bbop.golr.java.RetrieveGolrAnnotations.GolrAnnotationExtension.GolrAnnotationExtensionEntry.GolrAnnotationExtensionRelation
 
GolrBioentityDocument() - Constructor for class org.bbop.golr.java.RetrieveGolrBioentities.GolrBioentityDocument
 
GolrOntologyClassDocument() - Constructor for class org.bbop.golr.java.RetrieveGolrOntologyClass.GolrOntologyClassDocument
 
GSON - Static variable in class org.bbop.golr.java.AbstractRetrieveGolr
 

H

handleAnnotationExtension(GeneAnnotation, RetrieveGolrAnnotations.GolrAnnotationDocument) - Method in class org.bbop.golr.java.RetrieveGolrAnnotations
 

I

id - Variable in class org.bbop.golr.java.RetrieveGolrBioentities.GolrBioentityDocument
 
is_obsolete - Variable in class org.bbop.golr.java.RetrieveGolrOntologyClass.GolrOntologyClassDocument
 
isa_partof_closure - Variable in class org.bbop.golr.java.RetrieveGolrOntologyClass.GolrOntologyClassDocument
 
isIndentJson() - Method in class org.bbop.golr.java.AbstractRetrieveGolr
 
isIndentJson() - Method in class org.bbop.golr.java.RetrieveGolrAnnotations
 
isIndentJson() - Method in class org.bbop.golr.java.RetrieveGolrBioentities
 
isIndentJson() - Method in class org.bbop.golr.java.RetrieveGolrOntologyClass
 

L

logRequest(URI) - Method in class org.bbop.golr.java.AbstractRetrieveGolr
 
logRequestError(URI, IOException) - Method in class org.bbop.golr.java.AbstractRetrieveGolr
 
logRetry(URI, IOException, int) - Method in class org.bbop.golr.java.AbstractRetrieveGolr
 

O

only_in_taxon - Variable in class org.bbop.golr.java.RetrieveGolrOntologyClass.GolrOntologyClassDocument
 
only_in_taxon_closure - Variable in class org.bbop.golr.java.RetrieveGolrOntologyClass.GolrOntologyClassDocument
 
org.bbop.golr.java - package org.bbop.golr.java
 

P

parseGolrResponse(String, Class<T>) - Method in class org.bbop.golr.java.AbstractRetrieveGolr
 

R

randomWait(int, int) - Method in class org.bbop.golr.java.AbstractRetrieveGolr
 
regulates_closure - Variable in class org.bbop.golr.java.RetrieveGolrOntologyClass.GolrOntologyClassDocument
 
replaced_by - Variable in class org.bbop.golr.java.RetrieveGolrOntologyClass.GolrOntologyClassDocument
 
RetrieveGolrAnnotations - Class in org.bbop.golr.java
 
RetrieveGolrAnnotations(String) - Constructor for class org.bbop.golr.java.RetrieveGolrAnnotations
 
RetrieveGolrAnnotations(String, int, boolean) - Constructor for class org.bbop.golr.java.RetrieveGolrAnnotations
 
RetrieveGolrAnnotations.GolrAnnotationDocument - Class in org.bbop.golr.java
 
RetrieveGolrAnnotations.GolrAnnotationExtension - Class in org.bbop.golr.java
 
RetrieveGolrAnnotations.GolrAnnotationExtension.GolrAnnotationExtensionEntry - Class in org.bbop.golr.java
 
RetrieveGolrAnnotations.GolrAnnotationExtension.GolrAnnotationExtensionEntry.GolrAnnotationExtensionRelation - Class in org.bbop.golr.java
 
RetrieveGolrBioentities - Class in org.bbop.golr.java
 
RetrieveGolrBioentities(String, int) - Constructor for class org.bbop.golr.java.RetrieveGolrBioentities
 
RetrieveGolrBioentities.GolrBioentityDocument - Class in org.bbop.golr.java
 
RetrieveGolrOntologyClass - Class in org.bbop.golr.java
 
RetrieveGolrOntologyClass(String, int) - Constructor for class org.bbop.golr.java.RetrieveGolrOntologyClass
 
RetrieveGolrOntologyClass.GolrOntologyClassDocument - Class in org.bbop.golr.java
 
retryRequest(URI, IOException, int) - Method in class org.bbop.golr.java.AbstractRetrieveGolr
 

S

source - Variable in class org.bbop.golr.java.RetrieveGolrBioentities.GolrBioentityDocument
 
source - Variable in class org.bbop.golr.java.RetrieveGolrOntologyClass.GolrOntologyClassDocument
 
subset - Variable in class org.bbop.golr.java.RetrieveGolrOntologyClass.GolrOntologyClassDocument
 
synonym - Variable in class org.bbop.golr.java.RetrieveGolrBioentities.GolrBioentityDocument
 
synonym - Variable in class org.bbop.golr.java.RetrieveGolrOntologyClass.GolrOntologyClassDocument
 

T

taxon - Variable in class org.bbop.golr.java.RetrieveGolrBioentities.GolrBioentityDocument
 
taxon_label - Variable in class org.bbop.golr.java.RetrieveGolrBioentities.GolrBioentityDocument
 
type - Variable in class org.bbop.golr.java.RetrieveGolrBioentities.GolrBioentityDocument
 
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