Mercurial > repos > yufei-luo > s_mart
comparison SMART/galaxy/GetFlanking.xml @ 18:94ab73e8a190
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| author | m-zytnicki |
|---|---|
| date | Mon, 29 Apr 2013 03:20:15 -0400 |
| parents | 440ceca58672 |
| children | 0ab839023fe4 |
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| 17:b0e8584489e6 | 18:94ab73e8a190 |
|---|---|
| 1 <tool id="GetFlanking" name="get flanking"> | 1 <tool id="GetFlanking" name="get flanking"> |
| 2 <description>Get the flanking regions of a set of reference.</description> | 2 <description>Get the flanking regions of a set of reference.</description> |
| 3 <requirements> | |
| 4 <requirement type="set_environment">PYTHONPATH</requirement> | |
| 5 </requirements> | |
| 3 <command interpreter="python"> | 6 <command interpreter="python"> |
| 4 ../Java/Python/GetFlanking.py -i $formatType.inputFileName1 | 7 ../Java/Python/GetFlanking.py -i $formatType.inputFileName1 |
| 5 #if $formatType.FormatInputFileName1 == 'bed': | 8 #if $formatType.FormatInputFileName1 == 'bed': |
| 6 -f bed | 9 -f bed |
| 7 #elif $formatType.FormatInputFileName1 == 'gff': | 10 #elif $formatType.FormatInputFileName1 == 'gff': |
| 167 | 170 |
| 168 </inputs> | 171 </inputs> |
| 169 | 172 |
| 170 | 173 |
| 171 <outputs> | 174 <outputs> |
| 172 <data format="gff3" name="outputFile" label="[GetFlanking] Output File"/> | 175 <data format="gff3" name="outputFile" label="[get flanking] output file"/> |
| 173 </outputs> | 176 </outputs> |
| 174 | 177 |
| 175 <help> | 178 <help> |
| 176 This tool prints the elements from the second set of genomic intervals which are closest to (in other words, are flanking) the elements from the first set. You can also play on different parameters: | 179 This tool prints the elements from the second set of genomic intervals which are closest to (in other words, are flanking) the elements from the first set. You can also play on different parameters: |
| 177 | 180 |