X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=sidebyside;f=src%2Fjalview%2Fext%2Fensembl%2FEnsemblProtein.java;h=97796a5d418a01d6a457cd99a8fc909838e25b14;hb=6fb341da6a316869ba5fc87c146c30d1279f06fa;hp=29c7edab4df41728fb30098099dc719de15ccd48;hpb=ef9282b464dc189faf9ce40a4b7420a204266668;p=jalview.git

diff --git a/src/jalview/ext/ensembl/EnsemblProtein.java b/src/jalview/ext/ensembl/EnsemblProtein.java
index 29c7eda..97796a5 100644
--- a/src/jalview/ext/ensembl/EnsemblProtein.java
+++ b/src/jalview/ext/ensembl/EnsemblProtein.java
@@ -8,20 +8,43 @@ import java.util.List;
 
 import com.stevesoft.pat.Regex;
 
+/**
+ * A client to fetch protein translated sequence for an Ensembl identifier
+ * 
+ * @author gmcarstairs
+ *
+ */
 public class EnsemblProtein extends EnsemblSeqProxy
 {
-  // TODO modify to accept other species e.g. ENSMUSPnnn
+  /*
+   * accepts ENSP with 11 digits
+   * or ENSMUSP or similar for other species
+   * or CCDSnnnnn.nn with at least 3 digits
+   */
   private static final Regex ACCESSION_REGEX = new Regex(
-          "(ENSP|CCDS)[0-9.]{3,}$");
+          "(ENS([A-Z]{3}|)P[0-9]{11}$)" + "|" + "(CCDS[0-9.]{3,}$)");
 
   private static final List<String> CROSSREFS = Arrays.asList(new String[] {
       "PDB", "Uniprot/SPTREMBL", "Uniprot/SWISSPROT" });
 
+  /**
+   * Default constructor (to use rest.ensembl.org)
+   */
   public EnsemblProtein()
   {
     super();
   }
 
+  /**
+   * Constructor given the target domain to fetch data from
+   * 
+   * @param d
+   */
+  public EnsemblProtein(String d)
+  {
+    super(d);
+  }
+
   @Override
   public String getDbName()
   {