Mercurial > repos > iracooke > tpp_prophets
comparison pepxml_to_table.xml @ 16:1b86e378de37 draft
Fix tabular outputs. Export XML_ONLY variable
| author | iracooke |
|---|---|
| date | Mon, 26 Oct 2015 20:40:34 -0400 |
| parents | 0746a2ae9e04 |
| children |
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| 15:0746a2ae9e04 | 16:1b86e378de37 |
|---|---|
| 9 <inputs> | 9 <inputs> |
| 10 <param name="input_file" type="data" format="pepxml,raw_pepxml,peptideprophet_pepxml,interprophet_pepxml" multiple="false" label="Input File" help="A pepXML file"/> | 10 <param name="input_file" type="data" format="pepxml,raw_pepxml,peptideprophet_pepxml,interprophet_pepxml" multiple="false" label="Input File" help="A pepXML file"/> |
| 11 <param name="invert_probs" type="boolean" label="Print inverted probabilities (ie 1-p instead of p)" truevalue="--invert-probabilities" falsevalue=""/> | 11 <param name="invert_probs" type="boolean" label="Print inverted probabilities (ie 1-p instead of p)" truevalue="--invert-probabilities" falsevalue=""/> |
| 12 </inputs> | 12 </inputs> |
| 13 <outputs> | 13 <outputs> |
| 14 <data format="csv" name="output" metadata_source="input_file" label="${input_file.display_name}.csv" /> | 14 <data format="tabular" name="output" metadata_source="input_file" label="${input_file.display_name}.tsv" /> |
| 15 </outputs> | 15 </outputs> |
| 16 <tests> | 16 <tests> |
| 17 <!-- Just test that the tool runs and produces vaguely correct output --> | 17 <!-- Just test that the tool runs and produces vaguely correct output --> |
| 18 <test> | 18 <test> |
| 19 <param name="input_file" value="mr176-BSA100fmole_BA3_01_8168.d_tandem.pep.xml" format="raw_pepxml"/> | 19 <param name="input_file" value="mr176-BSA100fmole_BA3_01_8168.d_tandem.pep.xml" format="raw_pepxml"/> |