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Update for dataset files_path - use model from BB pull request 532
author Jim Johnson <jj@umn.edu>
date Thu, 04 Feb 2016 06:50:26 -0600
parents 30a8343fb0e7
children
files rsem_calculate_expression.xml rsem_prepare_reference.xml
diffstat 2 files changed, 3 insertions(+), 3 deletions(-) [+]
line wrap: on
line diff
--- a/rsem_calculate_expression.xml	Mon Oct 13 15:32:39 2014 -0500
+++ b/rsem_calculate_expression.xml	Thu Feb 04 06:50:26 2016 -0600
@@ -94,7 +94,7 @@
     #end if
     ## RSEM reference
     #if $reference.refSrc == 'history':
-      ${reference.rsem_ref.dataset.extra_files_path}/${reference.rsem_ref.metadata.reference_name}
+      ${reference.rsem_ref.extra_files_path}/${reference.rsem_ref.metadata.reference_name}
     #elif $reference.refSrc == 'cached':
       ${reference.index.fields.path}
     #end if
--- a/rsem_prepare_reference.xml	Mon Oct 13 15:32:39 2014 -0500
+++ b/rsem_prepare_reference.xml	Thu Feb 04 06:50:26 2016 -0600
@@ -6,8 +6,8 @@
   </requirements>
   <command>
     echo $reference_name " " | tee $reference_file &amp;&amp;
-    mkdir $reference_file.dataset.extra_files_path &amp;&amp; 
-    cd $reference_file.dataset.extra_files_path &amp;&amp; 
+    mkdir $reference_file.files_path &amp;&amp; 
+    cd $reference_file.files_path &amp;&amp; 
     rsem-prepare-reference 
     #if $polya.polya_use == 'add':
       #if $polya.polya_length: