Mercurial > repos > iuc > omark
comparison omark.xml @ 2:9607b69326e1 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/omark/ commit 344924b5d73a8cb6f70069694072b69f92f71dda
| author | iuc |
|---|---|
| date | Tue, 12 Mar 2024 08:33:56 +0000 |
| parents | 2eebe7f521f3 |
| children | 6f570ba54b41 |
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| 1:2eebe7f521f3 | 2:9607b69326e1 |
|---|---|
| 15 | 15 |
| 16 omark | 16 omark |
| 17 -f 'output_omamer' | 17 -f 'output_omamer' |
| 18 -d '$database.fields.path' | 18 -d '$database.fields.path' |
| 19 $omark_mode | 19 $omark_mode |
| 20 -i '$input_iso' | 20 |
| 21 -t '$t' | 21 #if $input_iso: |
| 22 -r '$r' | 22 -i '$input_iso' |
| 23 #end if | |
| 24 | |
| 25 #if $t: | |
| 26 -t '$t' | |
| 27 #end if | |
| 28 | |
| 29 #if $r: | |
| 30 -r '$r' | |
| 31 #end if | |
| 32 | |
| 23 -o omark_galaxy | 33 -o omark_galaxy |
| 24 | |
| 25 ]]></command> | 34 ]]></command> |
| 26 | 35 |
| 27 <inputs> | 36 <inputs> |
| 28 <param name="input" type="data" format="fasta" label="Protein sequences"/> | 37 <param name="input" type="data" format="fasta" label="Protein sequences"/> |
| 29 <param name="input_iso" type="data" format="txt" optional="true" label="Input isoform file" help="A semi-colon separated file, listing all isoforms of each genes, with one gene per line."/> | 38 <param name="input_iso" type="data" format="txt" optional="true" label="Input isoform file" help="A semi-colon separated file, listing all isoforms of each genes, with one gene per line."/> |
| 47 </valid> | 56 </valid> |
| 48 </sanitizer> | 57 </sanitizer> |
| 49 <validator type="regex">[0-9a-zA-Z_]+</validator> | 58 <validator type="regex">[0-9a-zA-Z_]+</validator> |
| 50 </param> | 59 </param> |
| 51 | 60 |
| 52 <param name="outputs" type="select" optional="true" multiple="true" label="Which outputs should be generated"> | 61 <param name="outputs" type="select" multiple="true" label="Which outputs should be generated"> |
| 53 <option value="detail_sum" selected="true">Detailed summary</option> | 62 <option value="detail_sum" selected="true">Detailed summary</option> |
| 54 <option value="hog">HOG identifiers</option> | 63 <option value="hog">HOG identifiers</option> |
| 55 <option value="pdf">PDF Graphic representation </option> | 64 <option value="pdf">PDF Graphic representation </option> |
| 56 <option value="png">PNG Graphic representation </option> | 65 <option value="png">PNG Graphic representation </option> |
| 57 <option value="sum">Comparative proteome analysis</option> | 66 <option value="sum">Comparative proteome analysis</option> |