view vcffixup.xml @ 2:e88f38aa4040 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/vcflib/vcffixup commit c2af291b241e37e0a55adbc1fc72a9fa37d93582

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−<tool id="vcffixup" name="VCFfixup:" version="@WRAPPER_VERSION@+galaxy0">
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−  <description>Count the allele frequencies across alleles present in each record in the VCF file</description>
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−  <macros>
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−    <import>macros.xml</import>
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−  </macros>
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−  <expand macro="requirements"/>
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−  <expand macro="stdio" />
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−  <command>vcffixup "${input1}" > "${out_file1}"</command>
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−  <inputs>
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−    <param format="vcf" name="input1" type="data" label="Select VCF dataset"/>
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−  </inputs>
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−  <outputs>
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−    <data format="vcf" name="out_file1" />
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−  </outputs>
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−  <tests>
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−    <test>
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−      <param name="input1" value="vcflib.vcf"/>
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−      <output name="out_file1" file="vcffixup-test1.vcf"/>
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−    </test>
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−    </tests>
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−  <help>
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−
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−Uses genotypes from the selected VCF dataset to correct AC (alternate allele count), AF (alternate allele frequency), NS (number of called), in the VCF records.
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−
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−----
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−
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−Vcffixup @IS_PART_OF_VCFLIB@
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−</help>
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−  <expand macro="citations" />
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−</tool>