Mercurial > repos > galaxyp > openms_seedlistgenerator
comparison SeedListGenerator.xml @ 0:75d6ffd2afb7 draft
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
| author | galaxyp |
|---|---|
| date | Wed, 15 May 2019 07:00:28 -0400 |
| parents | |
| children | 0006b15f2091 |
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| -1:000000000000 | 0:75d6ffd2afb7 |
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| 1 <?xml version='1.0' encoding='UTF-8'?> | |
| 2 <!--This is a configuration file for the integration of a tools into Galaxy (https://galaxyproject.org/). This file was automatically generated using CTDConverter.--> | |
| 3 <!--Proposed Tool Section: [Quantitation]--> | |
| 4 <tool id="SeedListGenerator" name="SeedListGenerator" version="2.3.0"> | |
| 5 <description>Generates seed lists for feature detection.</description> | |
| 6 <macros> | |
| 7 <token name="@EXECUTABLE@">SeedListGenerator</token> | |
| 8 <import>macros.xml</import> | |
| 9 </macros> | |
| 10 <expand macro="references"/> | |
| 11 <expand macro="stdio"/> | |
| 12 <expand macro="requirements"/> | |
| 13 <command detect_errors="aggressive"><![CDATA[SeedListGenerator | |
| 14 | |
| 15 #if $param_in: | |
| 16 -in $param_in | |
| 17 #end if | |
| 18 | |
| 19 #if $rep_param_out: | |
| 20 -out | |
| 21 #for token in $rep_param_out: | |
| 22 #if " " in str(token): | |
| 23 "$token.param_out" | |
| 24 #else | |
| 25 $token.param_out | |
| 26 #end if | |
| 27 #end for | |
| 28 #end if | |
| 29 #if $param_use_peptide_mass: | |
| 30 -use_peptide_mass | |
| 31 #end if | |
| 32 #if $adv_opts.adv_opts_selector=='advanced': | |
| 33 #if $adv_opts.param_force: | |
| 34 -force | |
| 35 #end if | |
| 36 #end if | |
| 37 ]]></command> | |
| 38 <inputs> | |
| 39 <param name="param_in" type="data" format="mzml,idxml,featurexml,consensusxml" optional="False" label="Input file (see below for details)" help="(-in) "/> | |
| 40 <param name="param_use_peptide_mass" display="radio" type="boolean" truevalue="-use_peptide_mass" falsevalue="" checked="false" optional="True" label="[idXML input only] Use the monoisotopic mass of the best peptide hit for the m/z position (default: use precursor m/z)" help="(-use_peptide_mass) "/> | |
| 41 <expand macro="advanced_options"> | |
| 42 <param name="param_force" display="radio" type="boolean" truevalue="-force" falsevalue="" checked="false" optional="True" label="Overwrite tool specific checks" help="(-force) "/> | |
| 43 </expand> | |
| 44 </inputs> | |
| 45 <outputs> | |
| 46 <data name="param_out" format="featurexml"/> | |
| 47 </outputs> | |
| 48 <help>Generates seed lists for feature detection. | |
| 49 | |
| 50 | |
| 51 For more information, visit https://abibuilder.informatik.uni-tuebingen.de/archive/openms/Documentation/release/2.3.0/html/TOPP_SeedListGenerator.html</help> | |
| 52 </tool> |