Mercurial > repos > yufei-luo > s_mart
comparison SMART/galaxy/SelectByTag.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="SelectByTag" name="select by tag"> | 1 <tool id="SelectByTag" name="select by tag"> |
| 2 <description>Keep the genomic coordinates such that a value of a given tag.</description> | 2 <description>Keep the genomic coordinates such that a value of a given tag.</description> |
| 3 <requirements> | |
| 4 <requirement type="set_environment">PYTHONPATH</requirement> | |
| 5 </requirements> | |
| 3 <command interpreter="python"> | 6 <command interpreter="python"> |
| 4 ../Java/Python/SelectByTag.py -i $formatType.inputFileName | 7 ../Java/Python/SelectByTag.py -i $formatType.inputFileName |
| 5 #elif $formatType.FormatInputFileName == 'gff': | 8 #elif $formatType.FormatInputFileName == 'gff': |
| 6 -f gff | 9 -f gff |
| 7 #elif $formatType.FormatInputFileName == 'gff2': | 10 #elif $formatType.FormatInputFileName == 'gff2': |
| 102 </when> | 105 </when> |
| 103 </conditional> | 106 </conditional> |
| 104 </inputs> | 107 </inputs> |
| 105 | 108 |
| 106 <outputs> | 109 <outputs> |
| 107 <data name="outputFileGff" format="gff3" label="[SelectByTag] Output File"/> | 110 <data name="outputFileGff" format="gff3" label="[select by tag] output file"/> |
| 108 </outputs> | 111 </outputs> |
| 109 | 112 |
| 110 <help> | 113 <help> |
| 111 The script reads a list of genomic coordinates and output all the features with specific tag values. If you want to know more about tags, please consult the GFF format page: http://www.sequenceontology.org/gff3.shtml | 114 The script reads a list of genomic coordinates and output all the features with specific tag values. If you want to know more about tags, please consult the GFF format page: http://www.sequenceontology.org/gff3.shtml |
| 112 | 115 |