Mercurial > repos > matthias > stacks2_refmap

changeset 1:a8d93e132d3b draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit 8b047549e9e8791a5ca9424b1ef391e8980aba79-dirty
author matthias
date Thu, 29 Nov 2018 12:16:18 -0500
parents bd0bf17caa4d
children 39ebc7633942
files stacks_refmap.xml
diffstat 1 files changed, 4 insertions(+), 2 deletions(-) [+]
line wrap: on
line diff
--- a/stacks_refmap.xml	Thu Nov 29 11:38:05 2018 -0500
+++ b/stacks_refmap.xml	Thu Nov 29 12:16:18 2018 -0500
@@ -20,6 +20,8 @@
 -T \${GALAXY_SLOTS:-1}
 --var-alpha $model_options.var_alpha
 --gt-alpha $model_options.gt_alpha
+
+&& mv stacks_outputs/ref_map.log $output_log
     ]]></command>
 
     <inputs>
@@ -52,7 +54,7 @@
             </param>
             <param name="popmap" ftype="tabular" value="denovo_map/popmap_cstacks.tsv" />
             <param name="add_log" value="yes" />
-            <output ftype="txt" name="output_log"><assert_contents><has_text text="Populations is done." /></assert_contents></output>
+            <output ftype="txt" name="output_log"><assert_contents><has_text text="ref_map.pl is done." /></assert_contents></output>
             <!-- TODO test for outputs -->
         </test>
         <test>
@@ -68,7 +70,7 @@
                 <has_text text="--gt-alpha 0.1" />
             </assert_command>
             <param name="add_log" value="yes" />
-            <output ftype="txt" name="output_log"><assert_contents><has_text text="Populations is done." /></assert_contents></output>
+            <output ftype="txt" name="output_log"><assert_contents><has_text text="ref_map.pl is done." /></assert_contents></output>
         </test>
     </tests>