Mercurial > repos > petr-novak > re_utils

diff RM_custom_search.xml @ 14:62fefa284036 draft

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author petr-novak
date Fri, 07 Feb 2020 06:06:47 -0500
parents f12eb3896842
children 58807b35777a
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line diff
--- a/RM_custom_search.xml	Fri Feb 07 02:25:47 2020 -0500
+++ b/RM_custom_search.xml	Fri Feb 07 06:06:47 2020 -0500
@@ -1,15 +1,17 @@
-<tool id="RMsearch" name="RepeatMasker custom search" version="1.0.3">
+<tool id="RMsearch2" name="RepeatMasker custom search2" version="1.0.3">
 
   <description>Scan clustering results using RepeatMasker against custom database of repeats</description>
   <requirements>
     <requirement type="package" version="4.0.7">repeatmasker</requirement> 
-    <requirement type="package">r-r2html</requirement>
-    <requirement type="package">r-getopt</requirement>
-    <requirement type="package">bioconductor-biostrings</requirement>
+    <requirement type="package" version="3.6">python</requirement> 
+    <requirement type="package" version="2.3.2">r-r2html</requirement>
+    <requirement type="package" version="2.54.0">bioconductor-biostrings</requirement>
   </requirements>
 
-  <command interpreter="python3">
-    RM_custom_search.py -i $input_zip -d $RMdatabase -g $__root_dir__ -r $output_html
+  <command>
+
+    python3 ${__tool_directory__}/RM_custom_search.py -i $input_zip -d $RMdatabase -g $__root_dir__ -r $output_html;
+
   </command>
 
   <inputs>