Mercurial > repos > galaxyp > openms_dtaextractor
view DTAExtractor.xml @ 12:d29cd605bb48 draft
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5-dirty
author | galaxyp |
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date | Fri, 17 May 2019 10:02:55 -0400 |
parents | fd0630ab8463 |
children | e31fe5424cbe |
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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 CTDConverter.--> <!--Proposed Tool Section: [File Handling]--> <tool id="DTAExtractor" name="DTAExtractor" version="2.3.0"> <description>Extracts spectra of an MS run file to several files in DTA format.</description> <macros> <token name="@EXECUTABLE@">DTAExtractor</token> <import>macros.xml</import> </macros> <expand macro="references"/> <expand macro="stdio"/> <expand macro="requirements"/> <command detect_errors="aggressive"><![CDATA[DTAExtractor #if $param_in: -in $param_in #end if #if $param_out: -out "$param_out" #end if #if $param_mz: -mz "$param_mz" #end if #if $param_rt: -rt "$param_rt" #end if #if $param_level: -level "$param_level" #end if #if $adv_opts.adv_opts_selector=='advanced': #if $adv_opts.param_force: -force #end if #end if > $param_stdout ]]></command> <inputs> <param name="param_in" type="data" format="mzml" optional="False" label="input file" help="(-in) "/> <param name="param_out" type="text" size="30" label="base name of DTA output files (RT, m/z and extension are appended)" help="(-out) "> <sanitizer> <valid initial="string.printable"> <remove value="'"/> <remove value="""/> </valid> </sanitizer> </param> <param name="param_mz" type="text" size="30" value=":" label="m/z range of precursor peaks to extract" help="(-mz) <br>This option is ignored for MS level 1"> <sanitizer> <valid initial="string.printable"> <remove value="'"/> <remove value="""/> </valid> </sanitizer> </param> <param name="param_rt" type="text" size="30" value=":" label="retention time range of spectra to extract" help="(-rt) "> <sanitizer> <valid initial="string.printable"> <remove value="'"/> <remove value="""/> </valid> </sanitizer> </param> <param name="param_level" type="text" size="30" value="1,2,3" label="MS levels to extract" help="(-level) "> <sanitizer> <valid initial="string.printable"> <remove value="'"/> <remove value="""/> </valid> </sanitizer> </param> <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_stdout" format="txt" label="Output from stdout"/> </outputs> <help>Extracts spectra of an MS run file to several files in DTA format. For more information, visit https://abibuilder.informatik.uni-tuebingen.de/archive/openms/Documentation/release/2.3.0/html/TOPP_DTAExtractor.html</help> </tool>