Mercurial > repos > iracooke > mascot
comparison mascot_to_pepxml.xml @ 2:579b1f9146b4
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| author | iracooke |
|---|---|
| date | Mon, 04 Mar 2013 16:28:18 -0500 |
| parents | |
| children | d9564913a944 |
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| 1:cd2955b6646f | 2:579b1f9146b4 |
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| 1 <tool id="mascot_to_pepxml_1" name="Mascot to pepXML" version="1.0.0"> | |
| 2 <requirements> | |
| 3 <requirement type="package" version="1.1.9">galaxy_protk</requirement> | |
| 4 <requirement type="package" version="4.6.1">trans_proteomic_pipeline</requirement> | |
| 5 </requirements> | |
| 6 | |
| 7 <description>Converts a mascot results file to pepXML</description> | |
| 8 | |
| 9 <command>rvm 1.9.3@protk-1.1.9 do mascot_to_pepxml.rb $input_file -o $output -d $database</command> | |
| 10 <inputs> | |
| 11 | |
| 12 <param name="input_file" type="data" format="mascotdat" multiple="false" label="Input File" help="Mascot results file"/> | |
| 13 <param name="database" type="select" format="text" > | |
| 14 <label>Database</label> | |
| 15 <options from_file="pepxml_databases.loc"> | |
| 16 <column name="name" index="0" /> | |
| 17 <column name="value" index="2" /> | |
| 18 </options> | |
| 19 </param> | |
| 20 | |
| 21 | |
| 22 </inputs> | |
| 23 <outputs> | |
| 24 <data format="raw_pepxml" metadata_source="input_file" name="output" label="${input_file.display_name}.pepXML" /> | |
| 25 </outputs> | |
| 26 | |
| 27 <help> | |
| 28 Convert mascot results from mascotdat to pepXML | |
| 29 </help> | |
| 30 | |
| 31 </tool> |