comparison discosnp_pp.xml @ 6:b3b0ce84e711 draft default tip

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit 747394d19e88a569a5154615e366ea0401c820dd

5:fd98c5af5a6c

<tool id="discosnp_pp" name="DiscoSnp++" version="@DISCOSNP_VERSION@+galaxy0" profile="@PROFILE@">
    <description>is an efficient tool for detecting SNPs without a reference genome.</description>
    <macros>
        <import>macros.xml</import>
    </macros>
    <expand macro="discosnp_requirements" />
    <command detect_errors="exit_code"><![CDATA[
        #if str($input_type_options.input_type) == "single":

              <param argument="-R" type="boolean" truevalue="-R" falsevalue="" checked="false" label="Use the reference genome also in the variant calling, not only for mapping results" />
          </when>
      </conditional>
  </inputs>
  <outputs>
      <data name="vcf" from_work_dir="*_coherent.vcf" format="vcf" label="VCF with ${tool.name} on $on_string"/>
      <data name="fasta" from_work_dir="*_coherent.fa" format="fasta" label="Multifasta with ${tool.name} on $on_string"/>
  </outputs>
  <tests>
      <test>
          <conditional name="input_type_options">
              <param name="input_type" value="single"/>

6:b3b0ce84e711

<tool id="discosnp_pp" name="DiscoSnp++" version="@TOOL_VERSION@+galaxy1" profile="@PROFILE@">
    <description>is an efficient tool for detecting SNPs without a reference genome.</description>
    <macros>
        <token name="@TOOL_VERSION@">2.5.4</token>
        <import>macros.xml</import>
    </macros>
    <expand macro="discosnp_requirements" />
    <command detect_errors="exit_code"><![CDATA[
        #if str($input_type_options.input_type) == "single":

              <param argument="-R" type="boolean" truevalue="-R" falsevalue="" checked="false" label="Use the reference genome also in the variant calling, not only for mapping results" />
          </when>
      </conditional>
  </inputs>
  <outputs>
      <data name="vcf" from_work_dir="*_coherent.vcf" format="vcf" label="${tool.name} on ${on_string}: VCF"/>
      <data name="fasta" from_work_dir="*_coherent.fa" format="fasta" label="${tool.name} on ${on_string}: FASTA"/>
  </outputs>
  <tests>
      <test>
          <conditional name="input_type_options">
              <param name="input_type" value="single"/>