Mercurial > repos > jjohnson > metaphlan
comparison metaphlan.xml @ 3:51288d868a5c draft
tool_dependencies.xml
| author | Jim Johnson <jj@umn.edu> |
|---|---|
| date | Wed, 10 Oct 2012 08:33:33 -0500 |
| parents | 868624c77941 |
| children | 3468e70d3ed0 |
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| 2:d90db1d506c4 | 3:51288d868a5c |
|---|---|
| 1 <tool id="metaphlan" name="MetaPhlAn" version="1.7.0"> | 1 <tool id="metaphlan" name="MetaPhlAn" version="1.7.0"> |
| 2 <requirements> | 2 <requirements> |
| 3 <requirement type="set_environment">METAPHLAN_BASE</requirement> | |
| 4 <requirement type="package" version="1.7.0">metaphlan</requirement> | 3 <requirement type="package" version="1.7.0">metaphlan</requirement> |
| 5 <requirement type="package">bowtie2</requirement> | 4 <requirement type="package">bowtie2</requirement> |
| 6 </requirements> | 5 </requirements> |
| 7 <description>Metagenomic Phylogenetic Analysis</description> | 6 <description>Metagenomic Phylogenetic Analysis</description> |
| 8 <command> | 7 <command> |
| 9 metaphlan.py | 8 metaphlan.py |
| 10 $input | 9 $input |
| 11 --bowtie2db ${METAPHLAN_BASE}/bowtie2db/mpa | 10 --bowtie2db \${METAPHLAN_PATH}/bowtie2db/mpa |
| 12 --no_map | 11 --no_map |
| 13 -o $output | 12 -o $output |
| 14 --bt2_ps $PresetsForBowtie2 | 13 --bt2_ps $PresetsForBowtie2 |
| 15 </command> | 14 </command> |
| 16 | 15 |