Mercurial > repos > fubar > snpeff_3_3_wrapper

changeset 3:27194ef332fb draft default tip

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Uploaded
author fubar
date Mon, 30 Sep 2013 01:13:52 -0400
parents e3fb8f296482
children
files snpeff33/snpEff.xml
diffstat 1 files changed, 2 insertions(+), 2 deletions(-) [+]
line wrap: on
line diff
--- a/snpeff33/snpEff.xml	Mon Sep 30 01:06:45 2013 -0400
+++ b/snpeff33/snpEff.xml	Mon Sep 30 01:13:52 2013 -0400
@@ -64,8 +64,8 @@
         <requirement type="package" version="3.3">snpEff</requirement>
     </requirements>
     <command>
-#if str( $intervals ) != 'None':     ### fix this for multiple dataset input
-  ln -s $intervals tempIntervals.bed &&
+#if str( $intervals ) != 'None':    
+  ln -s $intervals tempIntervals.bed &amp;&amp;
 #end if
 SNPEFF_DATA_DIR=`grep '^data_dir' \$JAVA_JAR_PATH/snpEff.config | sed 's/.*data_dir.*[=:]//'`;
 eval "if [ ! -e \$SNPEFF_DATA_DIR/$genomeVersion ] ;