comparison find_in_reference.xml @ 3:2429b413d90a draft default tip

"planemo upload for repository https://github.com/jj-umn/galaxytools/tree/master/find_in_reference commit 074e95e1b598ec41f0e18a2798b00cf65e9b399e-dirty"

2:c4fd2ea4f988

<?xml version="1.0"?>
<tool id="find_in_reference" name="find in reference" version="0.0.3">
  <description>filter peptides that are present in proteins</description>
  <command interpreter="python">find_in_reference.py  --input "$input" 
  --reference "$reference" 
  #if $column.set == 'yes':
    --input_column $column.input_column

      <output name="novel" file="novel_peptides.tabular"/>
    </test>
    <test>
      <param name="input" value="human_proteins.tabular" ftype="tabular" dbkey="hg19"/>
      <param name="reference" value="human_peptides.tabular" ftype="tabular" dbkey="hg19"/>
      <param name="reverse_find" value="True"/>
      <param name="outputs" value="found"/>
      <output name="found" file="found_proteins.tabular"/>
    </test>
  </tests>

3:2429b413d90a

<?xml version="1.0"?>
<tool id="find_in_reference" name="find in reference" version="0.1.0">
  <description>filter peptides that are present in proteins</description>
  <command interpreter="python">find_in_reference.py  --input "$input" 
  --reference "$reference" 
  #if $column.set == 'yes':
    --input_column $column.input_column

      <output name="novel" file="novel_peptides.tabular"/>
    </test>
    <test>
      <param name="input" value="human_proteins.tabular" ftype="tabular" dbkey="hg19"/>
      <param name="reference" value="human_peptides.tabular" ftype="tabular" dbkey="hg19"/>
      <conditional name="column">
          <param name="set" value="yes"/>
          <param name="input_column" value="2"/>
          <param name="reference_column" value="2"/>
      </conditional>
      <param name="reverse_find" value="True"/>
      <param name="outputs" value="found"/>
      <output name="found" file="found_proteins.tabular"/>
    </test>
  </tests>