Mercurial > repos > mvdbeek > bam_readtagger

changeset 42:5b8781514bc1 draft

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planemo upload for repository https://github.com/bardin-lab/readtagger/tree/master/galaxy commit 63220935ba51b0b5480da88017d58616bf671337-dirty
author mvdbeek
date Thu, 24 May 2018 11:51:27 -0400
parents 4fdf606153df
children 6f9b1b81b593
files filter_insertions.xml
diffstat 1 files changed, 5 insertions(+), 3 deletions(-) [+]
line wrap: on
line diff
--- a/filter_insertions.xml	Thu May 24 11:05:38 2018 -0400
+++ b/filter_insertions.xml	Thu May 24 11:51:27 2018 -0400
@@ -7,12 +7,14 @@
     <command detect_errors="aggressive"><![CDATA[
         ln -fs $putative_insertions putative_insertions.gff &&
         ln -fs $all_insertions all_insertions.gff &&
-        ln -fs $all_controls all_controls_path.gff &&
+        #for i, p in enumerate($all_controls)
+            ln -fs '$p' all_controls_${i}.gff &&
+        #end for
         confirm_insertions
         --putative_insertions_path putative_insertions.gff
         --all_treatments_path all_insertions.gff
-        #for p in $all_controls
-            --all_controls_paths '$p'
+        #for i, p in enumerate($all_controls)
+            --all_controls_paths all_controls_${i}.gff
         #end for
         --output_path '$output'
         $output_discard