From: amwaterhouse <Andrew Waterhouse>
Date: Fri, 4 May 2007 13:55:59 +0000 (+0000)
Subject: remove system.out
X-Git-Tag: Release_2_3~57
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=25c188b06c08f654687b66314aa0da00106488a0;p=jalview.git

remove system.out
---

diff --git a/src/jalview/gui/AppJmol.java b/src/jalview/gui/AppJmol.java
index 4a091b2..38490af 100644
--- a/src/jalview/gui/AppJmol.java
+++ b/src/jalview/gui/AppJmol.java
@@ -655,11 +655,7 @@ public synchronized void addSequence(SequenceI [] seq)
     {
       for (int m = 0; m < mapping.length; m++)
       {
-        System.out.println(mapping[m].getSequence().getName()+" "+sequence[s].getName()+" "
-        +((mapping[m].getSequence() == sequence[s])
-          +" "+(ap.av.alignment.findIndex(sequence[s]))));
-
-                           if (mapping[m].getSequence() == sequence[s]
+        if (mapping[m].getSequence() == sequence[s]
             && ap.av.alignment.findIndex(sequence[s])>-1)
         {
           for (int r = 0; r < sequence[s].getLength(); r++)
diff --git a/src/jalview/structure/StructureSelectionManager.java b/src/jalview/structure/StructureSelectionManager.java
index 5af3d8e..48f46ed 100644
--- a/src/jalview/structure/StructureSelectionManager.java
+++ b/src/jalview/structure/StructureSelectionManager.java
@@ -248,7 +248,6 @@ public class StructureSelectionManager
 
         for (int j = 0; j < mappings.length; j++)
         {
-
           if (mappings[j].pdbfile.equals(pdbfile) &&
               mappings[j].pdbchain.equals(chain))
           {
@@ -256,8 +255,6 @@ public class StructureSelectionManager
                                  mappings[j].getSeqPos(pdbResNum));
           }
         }
-
-        sl.highlightSequence(null, pdbResNum);
       }
     }
   }