comparison shared_phylotypes.xml @ 0:e5c3175506b7 default tip

Initial tool configs for qiime, most need work.

0:e5c3175506b7

<tool id="shared_phylotypes" name="shared_phylotypes" version="1.2.0">
 <description>Compute shared OTUs between all pairs of samples</description>
 <requirements>
  <requirement type="binary">shared_phylotypes.py</requirement>
 </requirements>
 <command interpreter="python">
  qiime_wrapper.py
  --galaxy_tmpdir='$__new_file_path__'
  shared_phylotypes.py
  --otu_table_fp=$otu_table_fp
  --output_fp=$output_fp
  --reference_sample=$reference_sample
  $force_overwrite
 </command>
 <inputs>
  <param name="otu_table_fp" type="data" format="txt" label="otu_table_fp"
   help="path to the input OTU table or a directory containing (only) OTU tables [REQUIRED]"/>
  <param name="reference_sample" type="text"  label="reference_sample"
   help="Name of reference sample to which all pairs of samples should be compared [default: %default]"/>
  <param name="force_overwrite" type="boolean" truevalue="--force_overwrite" falsevalue="" checked="false" label="force_overwrite"
   help="Overwrite output_fp if already exists [default: ('NO', 'DEFAULT')]"/>
 </inputs>
 <outputs>
  <data format="txt" name="output_fp"/>
 </outputs>
 <tests>
 </tests>
 <help>
  
 </help>
</tool>