From: martinahansen <martinahansen@74ccb610-7750-0410-82ae-013aeee3265d>
Date: Tue, 21 Dec 2010 11:19:52 +0000 (+0000)
Subject: fixed bug in bwa_seq
X-Git-Url: https://git.donarmstrong.com/?a=commitdiff_plain;h=3d28ffd108f50aefc5967df8938eed4ced2f97bb;p=biopieces.git

fixed bug in bwa_seq

git-svn-id: http://biopieces.googlecode.com/svn/trunk@1196 74ccb610-7750-0410-82ae-013aeee3265d
---

diff --git a/bp_bin/bwa_seq b/bp_bin/bwa_seq
index ed46c20..a9cbe18 100755
--- a/bp_bin/bwa_seq
+++ b/bp_bin/bwa_seq
@@ -57,7 +57,7 @@ $in  = Maasha::Biopieces::read_stream( $options->{ "stream_in" } );
 $out = Maasha::Biopieces::write_stream( $options->{ "stream_out" } );
 
 if ( defined $options->{ 'genome' } ) {
-    $index = "$ENV{ 'BP_DATA' }/genomes/$options->{ 'genome' }/bowtie/$options->{ 'genome' }";
+    $index = "$ENV{ 'BP_DATA' }/genomes/$options->{ 'genome' }/bwa/$options->{ 'genome' }";
 } elsif (defined $options->{ 'index_name' } ) {
     $index = $options->{ 'index_name' };
 }