annotate emboss_preg.xml @ 17:ce385837c160 draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss_5 commit 4812c313fd8762b11f7fd002436e3a93b4c67f00"

<tool id="EMBOSS: preg78" name="preg" version="@VERSION@+galaxy1">
  <description>Regular expression search of a protein sequence</description>
  <macros>
    <import>macros.xml</import>
  </macros>
  <expand macro="requirements" />
  <command>preg -sequence '$input1' -outfile '$out_file1' -pattern '$pattern' -auto</command>
  <inputs>
    <param name="input1" type="data" format="data" label="Sequence" />
    <param name="pattern" type="text" value="(ACD)" label="Regular expression pattern">
      <expand macro="regex_sanitizer"/>
    </param>
  </inputs>
  <outputs>
    <data name="out_file1" format="preg" />
  </outputs>
  <tests>
    <test>
      <param name="input1" ftype="fasta" value="2.pep"/>
      <param name="pattern" value="AS-?L"/>
      <output name="out_file1" value="preg.seqtable" lines_diff="8"/>
    </test>
  </tests>
  <help>
    You can view the original documentation here_.

    .. _here: http://galaxy-iuc.github.io/emboss-5.0-docs/preg.html
  </help>
  <expand macro="citations" />
</tool>