comparison mothur/tools/mothur/phylotype.xml @ 1:fcc0778f6987

Migrated tool version 1.16.0 from old tool shed archive to new tool shed repository

0:3202a38e44d9

<tool id="mothur_phylotype" name="Phylotype" version="1.15.0">
 <description>Assign sequences to OTUs based on taxonomy</description>
 <command interpreter="python">
  mothur_wrapper.py 
  --cmd='phylotype'
  --result='^mothur.\S+\.logfile$:'$logfile,'^\S+\.[fna]n\.sabund$:'$sabund,'^\S+\.[fna]n\.rabund$:'$rabund,'^\S+\.[fna]n\.list$:'$otulist

   <option value="7">7</option>
   <option value="8">8</option>
   <option value="9">9</option>
   <option value="10">10</option>
  </param>
  <param name="cutoff" type="integer" value="-1" label="cutoff - Truncate the taxomony at depth (Ignored if &lt; 0)"/>
 </inputs>
 <outputs>
  <data format="html" name="logfile" label="${tool.name} on ${on_string}: logfile" />
  <data format="rabund" name="rabund" label="${tool.name} on ${on_string}: rabund (Rank)"/>
  <data format="sabund" name="sabund" label="${tool.name} on ${on_string}: sabund (Species)"/>

1:fcc0778f6987

<tool id="mothur_phylotype" name="Phylotype" version="1.16.0">
 <description>Assign sequences to OTUs based on taxonomy</description>
 <command interpreter="python">
  mothur_wrapper.py 
  --cmd='phylotype'
  --result='^mothur.\S+\.logfile$:'$logfile,'^\S+\.[fna]n\.sabund$:'$sabund,'^\S+\.[fna]n\.rabund$:'$rabund,'^\S+\.[fna]n\.list$:'$otulist

   <option value="7">7</option>
   <option value="8">8</option>
   <option value="9">9</option>
   <option value="10">10</option>
  </param>
  <param name="cutoff" type="integer" value="-1" label="cutoff - Truncate the taxonomy at depth (Ignored if &lt; 0)"/>
 </inputs>
 <outputs>
  <data format="html" name="logfile" label="${tool.name} on ${on_string}: logfile" />
  <data format="rabund" name="rabund" label="${tool.name} on ${on_string}: rabund (Rank)"/>
  <data format="sabund" name="sabund" label="${tool.name} on ${on_string}: sabund (Species)"/>