Mercurial > repos > wolma > mimodd
comparison bamsort.xml @ 21:c46406466625 draft
Uploaded
| author | wolma |
|---|---|
| date | Sat, 11 Jun 2016 19:10:44 -0400 |
| parents | 93db2f9bca12 |
| children | 5db0545b9004 |
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| 20:aba6d9b1c1f1 | 21:c46406466625 |
|---|---|
| 2 <description>Sort a BAM file by coordinates (or names) of the mapped reads</description> | 2 <description>Sort a BAM file by coordinates (or names) of the mapped reads</description> |
| 3 <macros> | 3 <macros> |
| 4 <import>toolshed_macros.xml</import> | 4 <import>toolshed_macros.xml</import> |
| 5 </macros> | 5 </macros> |
| 6 <expand macro="requirements"/> | 6 <expand macro="requirements"/> |
| 7 <version_command>mimodd version -q</version_command> | 7 <version_command>python3 -m MiModD version -q</version_command> |
| 8 <command> | 8 <command> |
| 9 mimodd sort "$input.ifile" -o "$output" --iformat $input.iformat --oformat $oformat $by_name | 9 python3 -m MiModD sort "$input.ifile" -o "$output" --iformat $input.iformat --oformat $oformat $by_name |
| 10 </command> | 10 </command> |
| 11 | 11 |
| 12 <inputs> | 12 <inputs> |
| 13 <conditional name="input"> | 13 <conditional name="input"> |
| 14 <param name="iformat" type="select" label = "Input data format"> | 14 <param name="iformat" type="select" label = "Input data format"> |