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changeset 2:2d6a90609943

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Fix wrapper bugs: (a) do not try update check and (b) allow spaces in labels.
author jeremy goecks <jeremy.goecks@emory.edu>
date Tue, 22 Oct 2013 11:03:02 -0400
parents 60a52f8460a1
children beab768feb92
files cuffdiff_wrapper.xml
diffstat 1 files changed, 2 insertions(+), 1 deletions(-) [+]
line wrap: on
line diff
--- a/cuffdiff_wrapper.xml	Wed Oct 09 12:49:03 2013 -0400
+++ b/cuffdiff_wrapper.xml	Tue Oct 22 11:03:02 2013 -0400
@@ -7,6 +7,7 @@
     <version_command>cuffdiff 2>&amp;1 | head -n 1</version_command>
     <command>
         cuffdiff
+            --no-update-check
             --FDR=$fdr
             --num-threads="4"
             --min-alignment-count=$min_alignment_count
@@ -36,7 +37,7 @@
                 #end if
             #end if
 
-            #set labels = ','.join( [ str( $condition.name ) for $condition in $conditions ] )
+            #set labels = '\'' + '\',\''.join( [ str( $condition.name ) for $condition in $conditions ] ) + '\''
             --labels $labels
 
             ## Inputs.