Mercurial > repos > galaxyp > openms_openswathdiaprescoring
view OpenSwathDIAPreScoring.xml @ 4:cc8e8639fc76 draft
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit 8a95bc868914fb41c7452907f73a9273b03286ab
author | galaxyp |
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date | Thu, 11 Jan 2018 18:17:41 -0500 |
parents | 932066012f7b |
children | 105d284f033c |
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<?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 CTD2Galaxy.--> <!--Proposed Tool Section: [Targeted Experiments]--> <tool id="OpenSwathDIAPreScoring" name="OpenSwathDIAPreScoring" version="2.2.0"> <description>Scoring spectra using the DIA scores.</description> <macros> <token name="@EXECUTABLE@">OpenSwathDIAPreScoring</token> <import>macros.xml</import> </macros> <expand macro="references"/> <expand macro="stdio"/> <expand macro="requirements"/> <command>OpenSwathDIAPreScoring #if $param_tr: -tr $param_tr #end if #if $param_out: -out $param_out #end if -swath_files #for token in $param_swath_files: $token #end for #if $param_min_upper_edge_dist: -min_upper_edge_dist $param_min_upper_edge_dist #end if #if $adv_opts.adv_opts_selector=='advanced': #if $adv_opts.param_force: -force #end if #end if </command> <inputs> <param name="param_tr" type="data" format="traml" optional="False" label="transition file" help="(-tr) "/> <param name="param_swath_files" type="data" format="mzml" multiple="true" optional="True" size="30" label="Swath files that were used to extract the transitions" help="(-swath_files) If present, SWATH specific scoring will be applied"> <sanitizer> <valid initial="string.printable"> <remove value="'"/> <remove value="""/> </valid> </sanitizer> </param> <param name="param_min_upper_edge_dist" type="float" value="0.0" label="Minimal distance to the edge to still consider a precursor, in Thomson (only in SWATH)" help="(-min_upper_edge_dist) "/> <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="tabular"/> </outputs> <help>Scoring spectra using the DIA scores. For more information, visit http://ftp.imp.fu-berlin.de/pub/OpenMS/release-documentation/html/UTILS_OpenSwathDIAPreScoring.html</help> </tool>