Mercurial > repos > galaxyp > spectrast
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planemo upload for repository https://github.com/galaxyproteomics/protk-galaxytools/tree/master/spectrast commit 34735d62618a252173e3c90436f240659484727a
author | galaxyp |
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date | Thu, 29 Mar 2018 09:51:50 -0400 |
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<tool id="spectrast_filter_1" name="SpectraST Filter" version="5.0.0"> <description>Filter and Manipulate Spectral Libraries</description> <requirements> <!-- <container type="docker">iracooke/protk-1.4.3</container> --> <requirement type="package" version="1.4.4a">protk</requirement> <requirement type="package" version="5.0.0">tpp</requirement> </requirements> <stdio> <exit_code range="1:" level="fatal" description="Job Failed" /> </stdio> <command> <![CDATA[ spectrast_filter.rb --merge $merge #for $splib_file in $splib_files: ${splib_file.extra_files_path}/library.splib #end for --replicates $replicates -o library && mkdir -p ${output.files_path} && cp library.splib library.spidx library.pepidx ${output.files_path}/ && echo "Spectral Library Primary File" > $output ]]> </command> <inputs> <param name="splib_files" multiple="true" type="data" format="splib" label="Spectral Libraries to operate on" help=""/> <param name="merge" type="select" format="text"> <label>Merge Method</label> <option value="U">Union</option> <option value="S">Subtraction</option> <option value="H">Subtraction of homologs</option> <option value="A">Appending</option> </param> <param name="replicates" type="select" format="text"> <label>How to deal with replicate spectra</label> <option value="None">Keep All</option> <option value="C">Consensus</option> <option value="B">Best replicate</option> </param> </inputs> <outputs> <data format="splib" name="output"/> </outputs> <help> <![CDATA[ **What it does** Filter and Manipulate Spectral Libraries ]]> </help> </tool>