From: Jim Procter <jprocter@issues.jalview.org>
Date: Sun, 7 Jun 2015 18:06:27 +0000 (+0100)
Subject: JAL-429 remove pointless code from phylip parser
X-Git-Tag: Release_2_10_0~296^2~146
X-Git-Url: http://source.jalview.org/gitweb/?p=jalview.git;a=commitdiff_plain;h=refs%2Fheads%2Ffeatures%2FJAL-653_rebased_gffalignments

JAL-429 remove pointless code from phylip parser
---

diff --git a/src/jalview/io/PhylipFile.java b/src/jalview/io/PhylipFile.java
index ce65eea..d7f6dbc 100644
--- a/src/jalview/io/PhylipFile.java
+++ b/src/jalview/io/PhylipFile.java
@@ -3,7 +3,6 @@
  */
 package jalview.io;
 
-import jalview.datamodel.Alignment;
 import jalview.datamodel.Sequence;
 import jalview.datamodel.SequenceI;
 
@@ -171,13 +170,6 @@ public class PhylipFile extends AlignFile
         seqs.add(sequenceElements[i]);
       }
 
-      // create an alignment based on the sequences
-      Alignment a = new Alignment(sequenceElements);
-      // add annotations - although comments say addAnnotations
-      // is used by AppletFormatAdapter, it doesn't say other
-      // classes should/can not use it
-      addAnnotations(a);
-
     } catch (IOException e)
     {
       System.err.println("Exception parsing PHYLIP file " + e);