From dd7a7e074f660da5f4af0eddb1d5f2388720a263 Mon Sep 17 00:00:00 2001 From: Jim Procter Date: Tue, 17 Mar 2015 15:56:33 +0000 Subject: [PATCH] JAL-1617 fake xref database for when Uniprot xrefs aren't added --- src/jalview/datamodel/DBRefSource.java | 13 ++++++++----- 1 file changed, 8 insertions(+), 5 deletions(-) diff --git a/src/jalview/datamodel/DBRefSource.java b/src/jalview/datamodel/DBRefSource.java index b1824f7..6982594 100755 --- a/src/jalview/datamodel/DBRefSource.java +++ b/src/jalview/datamodel/DBRefSource.java @@ -38,12 +38,15 @@ public class DBRefSource /** * UNIPROT Entry Name */ - public static String UP_NAME = "UNIPROT_NAME"; + public static String UP_NAME = "UNIPROT_NAME".toUpperCase(); /** * Uniprot Knowledgebase/TrEMBL as served from EMBL protein products. */ - public static final String UNIPROTKB = "UniProtKB/TrEMBL"; + public static final String UNIPROTKB = "UniProtKB/TrEMBL".toUpperCase(); + + public static final String EMBLCDSProduct = "EMBLCDSProtein" + .toUpperCase(); /** * PDB Entry Code @@ -73,7 +76,7 @@ public class DBRefSource /** * GeneDB ID */ - public static final String GENEDB = "GeneDB"; + public static final String GENEDB = "GeneDB".toUpperCase(); /** * List of databases whose sequences might have coding regions annotated @@ -85,10 +88,10 @@ public class DBRefSource { EMBLCDS, GENEDB }; public static final String[] PROTEINDBS = - { UNIPROT, PDB, UNIPROTKB }; + { UNIPROT, PDB, UNIPROTKB, EMBLCDSProduct }; public static final String[] PROTEINSEQ = - { UNIPROT, UNIPROTKB }; + { UNIPROT, UNIPROTKB, EMBLCDSProduct }; public static final String[] PROTEINSTR = { PDB }; -- 1.7.10.2