Mercurial > repos > bgruening > bismark

diff bismark_bowtie2_wrapper.xml @ 23:4084128e7cca draft

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planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/bismark commit 18df9e67efd4adafcde4eb9b62cd815e4afe9733-dirty
author bgruening
date Wed, 02 Sep 2015 15:55:46 -0400
parents 047eb877b6f0
children
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--- a/bismark_bowtie2_wrapper.xml	Sun Jun 28 07:23:35 2015 -0400
+++ b/bismark_bowtie2_wrapper.xml	Wed Sep 02 15:55:46 2015 -0400
@@ -121,6 +121,8 @@
                 --output-report-file $report_file
             #end if
 
+            $params.non_directional
+
         #end if
 
         ##
@@ -221,6 +223,9 @@
                 <param name="bismark_stdout" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Write the bismark output and summary information to an extra file" />
                 <param name="isReportOutput" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Offer all report files concatenated in one file" />
 
+                <param name="non_directional" type="boolean" truevalue="--non_directional" falsevalue="" checked="false" label="Non strand-specific sequence library"
+                    help="The sequencing library was constructed in a non strand-specific manner, alignments to all four bisulfite strands will be reported." />
+
                 <!--end output options -->
             </when>  <!-- full -->
       </conditional>  <!-- params -->