comparison mothur/tools/mothur/chop.seqs.xml @ 27:49058b1f8d3f

Update to mothur version 1.27 and add tool_dependencies.xml to automatically install mothur

26:5c77423823cb

  --fasta=$fasta
  --numbases=$numbases
  --keep=$keep
  $countgaps
  $short
 </command>
 <inputs>
  <param name="fasta" type="data" format="fasta,align" label="fasta - Sequences to be chopped"/>
  <param name="numbases" type="integer" value="10" label="numbases - Number of bases to keep"/>
  <param name="keep" type="select" label="keep - Part of the sequence to keep">

 <outputs>
  <data format="html" name="logfile" label="${tool.name} on ${on_string}: logfile" />
  <data format_source="fasta" name="out_fasta" label="${tool.name} on ${on_string}: chop.fasta" />
 </outputs>
 <requirements>
  <requirement type="binary">mothur</requirement>
 </requirements>
 <tests>
 </tests>
 <help>
**Mothur Overview**

27:49058b1f8d3f

  --fasta=$fasta
  --numbases=$numbases
  --keep=$keep
  $countgaps
  $short
  --processors=8
 </command>
 <inputs>
  <param name="fasta" type="data" format="fasta,align" label="fasta - Sequences to be chopped"/>
  <param name="numbases" type="integer" value="10" label="numbases - Number of bases to keep"/>
  <param name="keep" type="select" label="keep - Part of the sequence to keep">

 <outputs>
  <data format="html" name="logfile" label="${tool.name} on ${on_string}: logfile" />
  <data format_source="fasta" name="out_fasta" label="${tool.name} on ${on_string}: chop.fasta" />
 </outputs>
 <requirements>
  <requirement type="package" version="1.27">mothur</requirement>
 </requirements>
 <tests>
 </tests>
 <help>
**Mothur Overview**