Mercurial > repos > mheinzl > variant_analyzer2

diff mut2read.xml @ 43:d21960b45a6b draft

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planemo upload for repository https://github.com/Single-Molecule-Genetics/VariantAnalyzerGalaxy/tree/master/tools/variant_analyzer commit ee4a8e6cf290e6c8a4d55f9cd2839d60ab3b11c8
author mheinzl
date Tue, 02 Mar 2021 15:32:41 +0000
parents 84a1a3f70407
children 3691922baa08
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line diff
--- a/mut2read.xml	Wed Feb 24 14:20:17 2021 +0000
+++ b/mut2read.xml	Tue Mar 02 15:32:41 2021 +0000
@@ -4,7 +4,12 @@
     <macros>
         <import>va_macros.xml</import>
     </macros>
-    <expand macro="requirements"/>
+	<requirements>
+        <requirement type="package" version="2.7">python</requirement>
+        <requirement type="package" version="1.4.0">matplotlib</requirement>
+        <requirement type="package" version="0.15">pysam</requirement>
+        <requirement type="package" version="0.11.6">cyvcf2</requirement>
+    </requirements>
     <command><![CDATA[
         ln -s '$file2' bam_input.bam &&
         ln -s '${file2.metadata.bam_index}' bam_input.bam.bai &&
@@ -27,10 +32,10 @@
     </outputs>
     <tests>
         <test>
-            <param name="file1" value="FreeBayes_test.vcf"/>
+            <param name="file1" value="FreeBayes_test.vcf" lines_diff="2"/>
             <param name="file2" value="DCS_test.bam"/>
             <param name="file3" value="Aligned_Families_test.tabular"/>
-            <output name="output_fastq" file="Interesting_Reads_test.fastq"/>
+            <output name="output_fastq" file="Interesting_Reads_test.fastq" lines_diff="136"/>
             <output name="output_json" file="tag_count_dict_test.json" lines_diff="2"/>
         </test>
     </tests>