From: gmungoc <g.m.carstairs@dundee.ac.uk>
Date: Tue, 3 Feb 2015 16:51:16 +0000 (+0000)
Subject: JAL-845 column mapping speed-up
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=7d5dd096fc63d6a3eeab59e87453a098e3069f56;p=jalview.git

JAL-845 column mapping speed-up
---

diff --git a/src/jalview/util/MappingUtils.java b/src/jalview/util/MappingUtils.java
index 953bac1..0b931a2 100644
--- a/src/jalview/util/MappingUtils.java
+++ b/src/jalview/util/MappingUtils.java
@@ -447,7 +447,8 @@ public final class MappingUtils
           SequenceI mappedSeq = m.getSequence();
 
           /*
-           * Locate the aligned sequence whose dataset is mappedSeq.
+           * Locate the aligned sequence whose dataset is mappedSeq. TODO a
+           * datamodel that can do this efficiently.
            */
           for (SequenceI toSeq : mapTo.getAlignment().getSequences())
           {
@@ -459,6 +460,8 @@ public final class MappingUtils
               mappedToMax = Math.max(mappedToMax, mappedEndCol);
               // System.out.println(fromSeq.getName() + " mapped to cols "
               // + mappedStartCol + ":" + mappedEndCol);
+              break;
+              // TODO remove break if we ever want to map one to many sequences
             }
           }
         }