Mercurial > repos > galaxyp > openms_seedlistgenerator
diff SeedListGenerator.xml @ 0:75d6ffd2afb7 draft
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
author | galaxyp |
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date | Wed, 15 May 2019 07:00:28 -0400 |
parents | |
children | 0006b15f2091 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/SeedListGenerator.xml Wed May 15 07:00:28 2019 -0400 @@ -0,0 +1,52 @@ +<?xml version='1.0' encoding='UTF-8'?> +<!--This is a configuration file for the integration of a tools into Galaxy (https://galaxyproject.org/). This file was automatically generated using CTDConverter.--> +<!--Proposed Tool Section: [Quantitation]--> +<tool id="SeedListGenerator" name="SeedListGenerator" version="2.3.0"> + <description>Generates seed lists for feature detection.</description> + <macros> + <token name="@EXECUTABLE@">SeedListGenerator</token> + <import>macros.xml</import> + </macros> + <expand macro="references"/> + <expand macro="stdio"/> + <expand macro="requirements"/> + <command detect_errors="aggressive"><![CDATA[SeedListGenerator + +#if $param_in: + -in $param_in +#end if + +#if $rep_param_out: +-out + #for token in $rep_param_out: + #if " " in str(token): + "$token.param_out" + #else + $token.param_out + #end if + #end for +#end if +#if $param_use_peptide_mass: + -use_peptide_mass +#end if +#if $adv_opts.adv_opts_selector=='advanced': + #if $adv_opts.param_force: + -force +#end if +#end if +]]></command> + <inputs> + <param name="param_in" type="data" format="mzml,idxml,featurexml,consensusxml" optional="False" label="Input file (see below for details)" help="(-in) "/> + <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) "/> + <expand macro="advanced_options"> + <param name="param_force" display="radio" type="boolean" truevalue="-force" falsevalue="" checked="false" optional="True" label="Overwrite tool specific checks" help="(-force) "/> + </expand> + </inputs> + <outputs> + <data name="param_out" format="featurexml"/> + </outputs> + <help>Generates seed lists for feature detection. + + +For more information, visit https://abibuilder.informatik.uni-tuebingen.de/archive/openms/Documentation/release/2.3.0/html/TOPP_SeedListGenerator.html</help> +</tool>