Mercurial > repos > biomonika > linkyx
comparison LINKYX_mpileup_wrapper.xml @ 1:4c5de3a2c54e
toolshed2
| author | biomonika <biomonika@psu.edu> |
|---|---|
| date | Sun, 07 Sep 2014 23:12:26 -0400 |
| parents | 05c27700e5ca |
| children | 0d8315be76b7 |
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| 0:05c27700e5ca | 1:4c5de3a2c54e |
|---|---|
| 1 <tool id="LINKYX_mpileup" name="LINKYX_mpileup"> | 1 <tool id="LINKYX_mpileup" name="LINKYX_mpileup"> |
| 2 <description>Run mpileup with LINKYX-specific parameters</description> | 2 <description>Run mpileup with LINKYX-specific parameters</description> |
| 3 <requirements> | |
| 4 <requirement type="set_environment">LINKYX_PATH</requirement> | |
| 5 <requirement type="set_environment">SAMTOOLS</requirement> | |
| 6 <requirement type="package" version="0.1.19">samtools</requirement> | |
| 7 </requirements> | |
| 3 <command interpreter="bash">LINKYX_mpileup_wrapper.sh $output $input1 $input2</command> | 8 <command interpreter="bash">LINKYX_mpileup_wrapper.sh $output $input1 $input2</command> |
| 4 <inputs> | 9 <inputs> |
| 5 <param format="bam" name="input1" type="data" label="Alignment file"/> | 10 <param format="bam" name="input1" type="data" label="Alignment file"/> |
| 6 <param format="fasta" name="input2" type="data" label="Reference file"/> | 11 <param format="fasta" name="input2" type="data" label="Reference file"/> |
| 7 </inputs> | 12 </inputs> |