From: amwaterhouse <Andrew Waterhouse>
Date: Mon, 31 Oct 2005 15:51:11 +0000 (+0000)
Subject: Find by displayid not used
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=398c4b5cdf953a9a3f62fa74fbc94d935bce94d7;p=jalview.git

Find by displayid not used
---

diff --git a/src/jalview/datamodel/Alignment.java b/src/jalview/datamodel/Alignment.java
index 309fdae..d945ec6 100755
--- a/src/jalview/datamodel/Alignment.java
+++ b/src/jalview/datamodel/Alignment.java
@@ -471,25 +471,6 @@ public class Alignment implements AlignmentI
         return null;
     }
 
-    /**    */
-    public SequenceI findbyDisplayId(String name)
-    {
-        int i = 0;
-
-        while (i < sequences.size())
-        {
-            SequenceI s = getSequenceAt(i);
-
-            if (s.getDisplayId().equals(name))
-            {
-                return s;
-            }
-
-            i++;
-        }
-
-        return null;
-    }
 
     /**    */
     public int findIndex(SequenceI s)
@@ -731,6 +712,8 @@ public class Alignment implements AlignmentI
                                  ),
                                  getSequenceAt(i).getStart(),
                                  getSequenceAt(i).getEnd());
+
+          getSequenceAt(i).setDatasetSequence(seqs[i]);
         }
 
         dataset = new Alignment(seqs);
diff --git a/src/jalview/datamodel/AlignmentI.java b/src/jalview/datamodel/AlignmentI.java
index 9ee51e9..be3093c 100755
--- a/src/jalview/datamodel/AlignmentI.java
+++ b/src/jalview/datamodel/AlignmentI.java
@@ -125,14 +125,6 @@ public interface AlignmentI
      */
     public SequenceI findName(String name);
 
-    /**
-     * Finds sequence in alignment using full displayId as query.
-     *
-     * @param name displayId, ie <em>NAME/25-100</em>
-     *
-     * @return Sequence matching query, if found. If not found returns null.
-     */
-    public SequenceI findbyDisplayId(String name);
 
     /**
      * Finds index of a given sequence in the alignment.