Mercurial > repos > mheinzl > variant_analyzer2
diff mut2read.xml @ 11:84a1a3f70407 draft
planemo upload for repository https://github.com/Single-Molecule-Genetics/VariantAnalyzerGalaxy/tree/master/tools/variant_analyzer commit ee4a8e6cf290e6c8a4d55f9cd2839d60ab3b11c8
| author | mheinzl |
|---|---|
| date | Mon, 15 Feb 2021 21:53:24 +0000 |
| parents | 11a2a34f8a2b |
| children | d21960b45a6b |
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--- a/mut2read.xml Thu Feb 04 09:01:43 2021 +0000 +++ b/mut2read.xml Mon Feb 15 21:53:24 2021 +0000 @@ -1,15 +1,10 @@ <?xml version="1.0" encoding="UTF-8"?> -<tool id="mut2read" name="DCS mutations to tags/reads:" version="2.0.0" profile="19.01"> +<tool id="mut2read" name="DCS mutations to tags/reads:" version="2.0.1" profile="19.01"> <description>Extracts all tags that carry a mutation in the duplex consensus sequence (DCS)</description> <macros> <import>va_macros.xml</import> </macros> - <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> + <expand macro="requirements"/> <command><![CDATA[ ln -s '$file2' bam_input.bam && ln -s '${file2.metadata.bam_index}' bam_input.bam.bai && @@ -32,10 +27,10 @@ </outputs> <tests> <test> - <param name="file1" value="FreeBayes_test.vcf" lines_diff="2"/> + <param name="file1" value="FreeBayes_test.vcf"/> <param name="file2" value="DCS_test.bam"/> <param name="file3" value="Aligned_Families_test.tabular"/> - <output name="output_fastq" file="Interesting_Reads_test.fastq" lines_diff="136"/> + <output name="output_fastq" file="Interesting_Reads_test.fastq"/> <output name="output_json" file="tag_count_dict_test.json" lines_diff="2"/> </test> </tests>