X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fws%2Fdbsources%2FEmblCdsSource.java;fp=src%2Fjalview%2Fws%2Fdbsources%2FEmblCdsSource.java;h=d02910cf24d52c29d25d4f9e2e2016137eeb9de3;hb=3efc24bc7b7855ff135fa96e35ab1004eaeb4f5e;hp=a73af61ce3772600b3bde4d87fb01459850b616a;hpb=dae56c38c3f14e96308540c30f35ca8f1d917edf;p=jalview.git

diff --git a/src/jalview/ws/dbsources/EmblCdsSource.java b/src/jalview/ws/dbsources/EmblCdsSource.java
index a73af61..d02910c 100644
--- a/src/jalview/ws/dbsources/EmblCdsSource.java
+++ b/src/jalview/ws/dbsources/EmblCdsSource.java
@@ -23,9 +23,7 @@ package jalview.ws.dbsources;
 import jalview.datamodel.AlignmentI;
 import jalview.datamodel.DBRefSource;
 
-import com.stevesoft.pat.Regex;
-
-public class EmblCdsSource extends EmblXmlSource
+public class EmblCdsSource extends EmblFlatfileSource // was EmblXmlSource
 {
 
   public EmblCdsSource()
@@ -34,31 +32,12 @@ public class EmblCdsSource extends EmblXmlSource
   }
 
   @Override
-  public String getAccessionSeparator()
-  {
-    return null;
-  }
-
-  @Override
-  public Regex getAccessionValidator()
-  {
-    return new Regex("^[A-Z]+[0-9]+");
-  }
-
-  @Override
   public String getDbSource()
   {
     return DBRefSource.EMBLCDS;
   }
 
   @Override
-  public String getDbVersion()
-  {
-    return "0"; // TODO : this is dynamically set for a returned record - not
-    // tied to proxy
-  }
-
-  @Override
   public AlignmentI getSequenceRecords(String queries) throws Exception
   {
     if (queries.indexOf(".") > -1)
@@ -68,15 +47,6 @@ public class EmblCdsSource extends EmblXmlSource
     return getEmblSequenceRecords(DBRefSource.EMBLCDS, queries);
   }
 
-  @Override
-  public boolean isValidReference(String accession)
-  {
-    // most embl CDS refs look like ..
-    // TODO: improve EMBLCDS regex
-    return (accession == null || accession.length() < 2) ? false
-            : getAccessionValidator().search(accession);
-  }
-
   /**
    * cDNA for LDHA_CHICK swissprot sequence
    */
@@ -92,10 +62,4 @@ public class EmblCdsSource extends EmblXmlSource
     return "EMBL (CDS)";
   }
 
-  @Override
-  public int getTier()
-  {
-    return 0;
-  }
-
 }