view emboss_primersearch.xml @ 13:d5c3794bd246 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss_5 commit ca9a6baaede679d619675e48d665748a91950115

<tool id="EMBOSS: primersearch81" name="primersearch" version="5.0.0.1">
  <description>Searches DNA sequences for matches with primer pairs</description>
  <macros>
    <import>macros.xml</import>
  </macros>
  <expand macro="requirements" />
  <command>primersearch -seqall '$input1' -infile '$input2' -outfile '$out_file1' -mismatchpercent $mismatchpercent -auto</command>
  <inputs>
    <param name="input1" type="data" format="fasta" label="Main sequences" />
    <param name="input2" type="data" format="data" label="Primer file" />
    <param name="mismatchpercent" type="integer" value="0" label="Allowed percent mismatch" />
  </inputs>
  <outputs>
    <data name="out_file1" format="primersearch" />
  </outputs>
  <tests>
    <test>
      <param name="input1" value="2.fasta"/>
      <param name="input2" value="emboss_primersearch.fasta"/>
      <param name="mismatchpercent" value="0"/>
      <output name="out_file1" file="emboss_primersearch_out.primersearch"/>
    </test>
  </tests>
  <help>
    You can view the original documentation here_.

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