Mercurial > repos > xuebing > sharplab_seq_motif
comparison mytools/bedsort.xml @ 0:39217fa39ff2
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| author | xuebing |
|---|---|
| date | Tue, 13 Mar 2012 23:34:52 -0400 |
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| -1:000000000000 | 0:39217fa39ff2 |
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| 1 <tool id="bedsort" name="sort"> | |
| 2 <description>a interval file by chr and start</description> | |
| 3 <command> head -n $skip $input > $output | |
| 4 && tail -n+`expr $skip + 1` $input | sort -k1,1 -k2,2g >> $output | |
| 5 </command> | |
| 6 <inputs> | |
| 7 <param name="input" type="data" format="bed" label="Input interval file"/> | |
| 8 <param name="skip" type="integer" value="0" label="top lines to skip" help="output directly, not sorted"/> | |
| 9 </inputs> | |
| 10 <outputs> | |
| 11 <data format="bed" name="output" /> | |
| 12 </outputs> | |
| 13 <help> | |
| 14 | |
| 15 **Description** | |
| 16 | |
| 17 Unix command used:: | |
| 18 | |
| 19 head -n $skip $input > $output | |
| 20 tail -n+`expr $skip + 1` $input | sort -k1,1 -k2,2g >> $output | |
| 21 | |
| 22 </help> | |
| 23 </tool> |