From: amwaterhouse <Andrew Waterhouse>
Date: Tue, 1 Nov 2005 17:09:15 +0000 (+0000)
Subject: Inform user about visual alignment, not dataset updates
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=ef3edac65042574096614e44a9a9f51946ffd7ff;p=jalview.git

Inform user about visual alignment, not dataset updates
---

diff --git a/src/jalview/io/SequenceFeatureFetcher.java b/src/jalview/io/SequenceFeatureFetcher.java
index f3f144c..44ce60b 100755
--- a/src/jalview/io/SequenceFeatureFetcher.java
+++ b/src/jalview/io/SequenceFeatureFetcher.java
@@ -236,14 +236,6 @@ public class SequenceFeatureFetcher implements Runnable
       sequence.setStart(absStart);
       sequence.setEnd(absEnd);
 
-      if ( (absStart != sequence.getStart()) || (absEnd != sequence.getEnd()))
-      {
-        sbuffer.append("Updated: " + sequence.getName() + " " +
-                       sequence.getStart() + "/" + sequence.getEnd() +
-                       "  to  " + absStart + "/" + absEnd + "\n");
-      }
-
-
 
       int n = 0;
       SequenceI seq2;
@@ -260,15 +252,19 @@ public class SequenceFeatureFetcher implements Runnable
           absStart = sequence.getSequence().indexOf(nonGapped);
           absEnd = absStart + nonGapped.toString().length() - 1;
 
-          sbuffer.append("Updated: VISUAL " + seq2.getName() + " " +
-                         seq2.getStart() + "/" + seq2.getEnd() +
-                         "  to  " + (absStart + sequence.getStart()) + "/" +
-
-                         (absEnd + sequence.getStart()) + "\n");
-
-          seq2.setStart(absStart + sequence.getStart());
-          seq2.setEnd(absEnd + sequence.getStart());
+          // This is the Viewd alignment sequences
+          // No need to tell the user of the dataset updates
+          if ( (seq2.getStart() != absStart+sequence.getStart())
+             || (seq2.getEnd() != absEnd+sequence.getStart()))
+          {
+            sbuffer.append("Updated: " + seq2.getName() + " " +
+                           seq2.getStart() + "/" + seq2.getEnd() +
+                           "  to  " + (absStart + sequence.getStart()) + "/" +
+                           (absEnd + sequence.getStart()) + "\n");
 
+            seq2.setStart(absStart + sequence.getStart());
+            seq2.setEnd(absEnd + sequence.getStart());
+          }
         }
 
         n++;