X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fws%2FSequenceFetcher.java;h=4c22f11093e80b8ff380264fd384fc5ca6a048d0;hb=4ea2f7c6e700c5137c62a09a93d0127f8d58158b;hp=4526b26ddde4f885ae64463d5d06895f4135d9df;hpb=81667097b92ba72f5eb4d824646b31e7ff5383a0;p=jalview.git

diff --git a/src/jalview/ws/SequenceFetcher.java b/src/jalview/ws/SequenceFetcher.java
index 4526b26d..4c22f11 100644
--- a/src/jalview/ws/SequenceFetcher.java
+++ b/src/jalview/ws/SequenceFetcher.java
@@ -21,13 +21,14 @@
 package jalview.ws;
 
 import jalview.ext.ensembl.EnsemblGene;
-import jalview.ext.ensembl.EnsemblGenomes;
+import jalview.ws.dbsources.EBIAlfaFold;
 import jalview.ws.dbsources.EmblCdsSource;
 import jalview.ws.dbsources.EmblSource;
 import jalview.ws.dbsources.Pdb;
 import jalview.ws.dbsources.PfamFull;
 import jalview.ws.dbsources.PfamSeed;
 import jalview.ws.dbsources.RfamSeed;
+import jalview.ws.dbsources.TDBeacons;
 import jalview.ws.dbsources.Uniprot;
 import jalview.ws.seqfetcher.ASequenceFetcher;
 import jalview.ws.seqfetcher.DbSourceProxy;
@@ -51,18 +52,24 @@ public class SequenceFetcher extends ASequenceFetcher
   public SequenceFetcher()
   {
     addDBRefSourceImpl(EnsemblGene.class);
-    addDBRefSourceImpl(EnsemblGenomes.class);
+    // addDBRefSourceImpl(EnsemblGenomes.class);
     addDBRefSourceImpl(EmblSource.class);
     addDBRefSourceImpl(EmblCdsSource.class);
     addDBRefSourceImpl(Uniprot.class);
+    // not a sequence source yet
+    // addDBRefSourceImpl(TDBeacons.class);
     addDBRefSourceImpl(Pdb.class);
     addDBRefSourceImpl(PfamFull.class);
     addDBRefSourceImpl(PfamSeed.class);
     addDBRefSourceImpl(RfamSeed.class);
+    // Technically not a database cross reference we fetch directly
+    // Useful for AlphaFold debugging
+    // addDBRefSourceImpl(EBIAlfaFold.class);
   }
 
   /**
-   * return an ordered list of database sources excluding alignment only databases
+   * return an ordered list of database sources excluding alignment only
+   * databases
    */
   public String[] getNonAlignmentSources()
   {
@@ -87,6 +94,7 @@ public class SequenceFetcher extends ASequenceFetcher
         src.add(srcs[i]);
       }
     }
+
     Collections.sort(src, String.CASE_INSENSITIVE_ORDER);
     return src.toArray(new String[src.size()]);
   }