From 263b70c6c296776e942b7875023cafd293dee0b4 Mon Sep 17 00:00:00 2001
From: amwaterhouse <Andrew Waterhouse>
Date: Tue, 14 Dec 2004 11:16:47 +0000
Subject: [PATCH] Choosing sort again reverses the sort order

---
 src/jalview/analysis/AlignmentSorter.java |   24 +++++++++++++++++++++---
 1 file changed, 21 insertions(+), 3 deletions(-)

diff --git a/src/jalview/analysis/AlignmentSorter.java b/src/jalview/analysis/AlignmentSorter.java
index 3881266..64682c1 100755
--- a/src/jalview/analysis/AlignmentSorter.java
+++ b/src/jalview/analysis/AlignmentSorter.java
@@ -83,6 +83,7 @@ public class AlignmentSorter {
   }
 
   /**    */
+  static boolean sortIdAscending = true;
   public static void sortByID(AlignmentI align) {
     int nSeq = align.getHeight();
 
@@ -96,9 +97,15 @@ public class AlignmentSorter {
 
     QuickSort.sort(ids,seqs);
 
-    setReverseOrder(align,seqs);
+    if(sortIdAscending)
+      setReverseOrder(align,seqs);
+    else
+      setOrder(align, seqs);
+
+    sortIdAscending = !sortIdAscending;
   }
 
+  static boolean sortGroupAscending = true;
   public static void sortByGroup(AlignmentI align) {
     int    nSeq = align.getHeight();
     Vector groups = align.getGroups();
@@ -120,7 +127,12 @@ public class AlignmentSorter {
       }
     }
 
-    setOrder(align,seqs);
+    if(sortGroupAscending)
+      setOrder(align,seqs);
+    else
+      setReverseOrder( align, vectorToArray(seqs));
+
+    sortGroupAscending = ! sortGroupAscending;
   }
 
   private static SequenceI [] vectorToArray(Vector tmp) {
@@ -132,6 +144,7 @@ public class AlignmentSorter {
     return seqs;
   }
 
+  static boolean sortTreeAscending = true;
   public static void sortByTree(AlignmentI align, NJTree tree) {
     int    nSeq = align.getHeight();
 
@@ -146,7 +159,12 @@ public class AlignmentSorter {
       }
     }
 
-    setOrder(align,tmp);
+    if(sortTreeAscending)
+      setOrder(align,tmp);
+    else
+      setReverseOrder(align, vectorToArray(tmp));
+
+      sortTreeAscending = !sortTreeAscending;
   }
 
   private static void addStrays(AlignmentI align, Vector seqs) {
-- 
1.7.10.2