Mercurial > repos > iracooke > xtandem
comparison tandem_to_pepxml.xml @ 15:0faaab4f192a draft
planemo upload for repository https://github.com/iracooke/protk-galaxytools/tree/master/xtandem commit 24e0fef2496984648a8a5cd5bff4d6b9b634a302-dirty
author | iracooke |
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date | Tue, 20 Oct 2015 20:47:05 -0400 |
parents | 9d6e0ad4d600 |
children | 29e2df3edf11 |
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14:9d6e0ad4d600 | 15:0faaab4f192a |
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1 <tool id="tandem_to_pepxml_1" name="Tandem to pepXML" version="1.1.0"> | 1 <tool id="tandem_to_pepxml_1" name="Tandem to pepXML" version="1.1.1"> |
2 <requirements> | 2 <description>Converts a tandem result file to pepXML</description> |
3 <container type="docker">iracooke/protk-1.4.1</container> | 3 <requirements> |
4 <requirement type="package" version="1.4">protk</requirement> | 4 <container type="docker">iracooke/protk-1.4.3</container> |
5 <requirement type="package" version="4.8.0">trans_proteomic_pipeline</requirement> | 5 <requirement type="package" version="1.4.3">protk</requirement> |
6 <requirement type="package" version="4.8.0">trans_proteomic_pipeline</requirement> | |
6 </requirements> | 7 </requirements> |
8 <command> | |
9 tandem_to_pepxml.rb $input_file -o $output | |
10 </command> | |
7 | 11 |
8 <description>Converts a tandem result file to pepXML</description> | 12 <inputs> |
13 <param name="input_file" type="data" format="tandem" multiple="false" label="Input File" help="X!Tandem results file"/> | |
14 </inputs> | |
9 | 15 |
10 <command> | 16 <outputs> |
11 tandem_to_pepxml.rb $input_file -o $output | 17 <data format="raw_pepxml" metadata_source="input_file" name="output" label="${input_file.display_name}.pepXML" /> |
12 </command> | 18 </outputs> |
13 | 19 <tests> |
14 <inputs> | 20 <!-- Just test that the tool runs and produces vaguely correct output --> |
15 <param name="input_file" type="data" format="tandem" multiple="false" label="Input File" help="X!Tandem results file"/> | 21 <test> |
16 </inputs> | 22 <param name="input_file" value="tandem_to_pepxml_test.tandem" format="tandem"/> |
17 | 23 <output name="output" format="raw_pepxml"> |
18 <outputs> | 24 <assert_contents> |
19 <data format="raw_pepxml" metadata_source="input_file" name="output" label="${input_file.display_name}.pepXML" /> | 25 <has_text text="SQVFQLESTFDV" /> |
20 </outputs> | 26 </assert_contents> |
21 | 27 </output> |
22 <help> | 28 </test> |
23 Convert X!Tandem results to pepXML | 29 </tests> |
24 </help> | 30 <help> |
25 | 31 Convert X!Tandem results to pepXML |
26 <tests> | 32 </help> |
27 <!-- Just test that the tool runs and produces vaguely correct output --> | |
28 <test> | |
29 <param name="input_file" value="tandem_to_pepxml_test.tandem" format="tandem"/> | |
30 <output name="output" format="raw_pepxml"> | |
31 <assert_contents> | |
32 <has_text text="SQVFQLESTFDV" /> | |
33 </assert_contents> | |
34 </output> | |
35 </test> | |
36 </tests> | |
37 | |
38 </tool> | 33 </tool> |