annotate make_library_id_lists.xml @ 0:e5c3175506b7 default tip

Initial tool configs for qiime, most need work.

<tool id="make_library_id_lists" name="make_library_id_lists" version="1.2.0">
 <description>Make library id lists</description>
 <requirements>
  <requirement type="binary">make_library_id_lists.py</requirement>
 </requirements>
 <command interpreter="python">
  qiime_wrapper.py
  --galaxy_tmpdir='$__new_file_path__'
  make_library_id_lists.py
  --input_fasta=$input_fasta
  --screened_rep_seqs=$screened_rep_seqs
  --otus=$otus
  --outdir=$outdir
  --field=$field
  $debug
 </command>
 <inputs>
  <param name="input_fasta" type="data" format="fasta" label="input_fasta"
   help="The path to a FASTA file containing input sequences [REQUIRED]"/>
  <param name="screened_rep_seqs" type="text"  label="screened_rep_seqs"
   help="The path to a FASTA file containing screened representative seqs[DEFAULT: %default]"/>
  <param name="otus" type="text"  label="otus"
   help="The path to an OTU file mapping OTUs onto rep seqs[DEFAULT: %default]"/>
  <param name="outdir" type="text" value="." label="outdir"
   help=" The base directory to save results (one file per library)."/>
  <param name="field" type="integer" value="1" label="field"
   help="Index of space-delimited field to read id from [DEFAULT: 1]"/>
  <param name="debug" type="boolean" truevalue="--debug" falsevalue="" checked="false" label="debug"
   help="Show debug output."/>
 </inputs>
 <outputs>
  
 </outputs>
 <tests>
 </tests>
 <help>
  
 </help>
</tool>