Mercurial > repos > rnateam > rnacommender

diff rnacommender.xml @ 4:a609d6dc8047 draft

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planemo upload for repository https://github.com/bgruening/galaxytools/tree/rna_commander/tools/rna_tools/rna_commender commit 7ad344d108076116e702e1c1e91cea73d8fcadc4
author rnateam
date Thu, 28 Jul 2016 05:55:25 -0400
parents ecf125a1ad73
children b3462a72ff76
line wrap: on
line diff
--- a/rnacommender.xml	Tue Jul 19 10:22:02 2016 -0400
+++ b/rnacommender.xml	Thu Jul 28 05:55:25 2016 -0400
@@ -1,20 +1,21 @@
 <tool id="rbc_rnacommender" name="RNAcommender" version="0.1.1">
-    <description>files into a collection</description>
+    <description>genome-wide recommendation of RNA-protein interactions</description>
     <requirements>
         <requirement type="package" version="3.5">sam</requirement>
         <requirement type="package" version="1.11.1">numpy</requirement>
+        <requirement type="package" version="0.17.1">scipy</requirement>
         <requirement type="package" version="0.18.1">pandas</requirement>
         <requirement type="package" version="3.2.2">pytables</requirement>
-        <requirement type="package" version="0.7.2">theano</requirement>
+        <requirement type="package" version="0.8.2">theano</requirement>
         <requirement type="package" version="2.10.0">requests</requirement>
     </requirements>
     <command detect_errors="aggressive">
     <![CDATA[
-        sh $__tool_directory__/init.sh &&
-        python $__tool_directory__/main.py "$infile"
+        sh $__tool_directory__/init.sh 2> hide.txt &&
+        THEANO_FLAGS=base_compiledir=./tmp python $__tool_directory__/main.py "$infile"
     ]]></command>
     <inputs>
-        <param name="infile" type="data" format="fasta" label="Fasta file to split"/>
+        <param name="infile" type="data" format="fasta" label="Fasta file containing (exactly) one RBP sequence"/>
     </inputs>
     <outputs>
         <data format="tabular" from_work_dir="output.txt" name="outfile" />