From 4f3aa2d5b87614be76e66ab42f525b439378b850 Mon Sep 17 00:00:00 2001
From: jprocter <Jim Procter>
Date: Wed, 12 Nov 2008 11:09:01 +0000
Subject: [PATCH] avoid exception if search returns valid object but does not
 match any sequences

---
 src/jalview/analysis/Finder.java |    4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/src/jalview/analysis/Finder.java b/src/jalview/analysis/Finder.java
index 756897c..9f813b5 100644
--- a/src/jalview/analysis/Finder.java
+++ b/src/jalview/analysis/Finder.java
@@ -111,7 +111,7 @@ public class Finder
     {
       seq = (Sequence) alignment.getSequenceAt(seqIndex);
 
-      if ((selection != null)
+      if ((selection != null && selection.getSize()>0)
               && !selection.getSequences(null).contains(seq))
       {
         seqIndex++;
@@ -157,7 +157,7 @@ public class Finder
         {
           resIndex = regex.matchedFrom();
 
-          if ((selection != null)
+          if ((selection != null && selection.getSize()>0)
                   && ((resIndex + Integer.parseInt(spaces.elementAt(
                           resIndex).toString())) < selection.getStartRes()))
           {
-- 
1.7.10.2