JAL-1705 additional tests, validation regexp tweaks, javadoc

[jalview.git] / src / jalview / ext / ensembl / EnsemblCdna.java

diff --git a/src/jalview/ext/ensembl/EnsemblCdna.java b/src/jalview/ext/ensembl/EnsemblCdna.java
index 373286f..d4d1c08 100644 (file)
--- a/src/jalview/ext/ensembl/EnsemblCdna.java
+++ b/src/jalview/ext/ensembl/EnsemblCdna.java
@@ -10,8 +10,11 @@ import com.stevesoft.pat.Regex;
 
 public class EnsemblCdna extends EnsemblSeqProxy
 {
+  // TODO modify to accept other species e.g. ENSMUSPnnn
+  private static final Regex ACCESSION_REGEX = new Regex("((ENST|ENSG|CCDS)[0-9.]{3,})");
+  
   /*
-   * fetch exon features on genomic sequence (to identify the cdnaregions)
+   * fetch exon features on genomic sequence (to identify the cdna regions)
    * and cds and variation features (to retain)
    */
   private static final EnsemblFeatureType[] FEATURES_TO_FETCH = {
@@ -38,7 +41,7 @@ public class EnsemblCdna extends EnsemblSeqProxy
   @Override
   public Regex getAccessionValidator()
   {
-    return new Regex("((ENST|ENSG|CCDS)[0-9.]{3,})");
+    return ACCESSION_REGEX;
   }
 
   @Override