comparison extract_seqs_by_sample_id.xml @ 0:e5c3175506b7 default tip

Initial tool configs for qiime, most need work.

0:e5c3175506b7

<tool id="extract_seqs_by_sample_id" name="extract_seqs_by_sample_id" version="1.2.0">
 <description>Extract sequences based on the SampleID</description>
 <requirements>
  <requirement type="binary">extract_seqs_by_sample_id.py</requirement>
 </requirements>
 <command interpreter="python">
  qiime_wrapper.py
  --galaxy_tmpdir='$__new_file_path__'
  extract_seqs_by_sample_id.py
  --input_fasta_fp=$input_fasta_fp
  --sample_ids=$sample_ids
  --output_fasta_fp=$output_fasta_fp
  $negate
 </command>
 <inputs>
  <param name="input_fasta_fp" type="data" format="fasta" label="input_fasta_fp"
   help="path to the input fasta file [REQUIRED]"/>
  <param name="sample_ids" type="text"  label="sample_ids"
   help="comma-separated sample_ids to include in output fasta file(or exclude if -n=True) [REQUIRED]"/>
  <param name="negate" type="boolean" truevalue="--negate" falsevalue="" checked="false" label="negate"
   help="negate the sample ID list (i.e., output sample ids not passed via -s) [default: False]"/>
 </inputs>
 <outputs>
  <data format="txt" name="output_fasta_fp"/>
 </outputs>
 <tests>
 </tests>
 <help>
  
 </help>
</tool>