Mercurial > repos > galaxyp > openms
diff SpecLibCreator.xml @ 0:3070d71e0e5c draft
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author | bgruening |
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date | Thu, 16 Apr 2015 08:37:04 -0400 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/SpecLibCreator.xml Thu Apr 16 08:37:04 2015 -0400 @@ -0,0 +1,60 @@ +<?xml version='1.0' encoding='UTF-8'?> +<tool id="SpecLibCreator" name="SpecLibCreator" version="2.0.0"> + <description>Creates an MSP formatted spectral library.</description> + <macros> + <token name="@EXECUTABLE@">SpecLibCreator</token> + <import>macros.xml</import> + </macros> + <expand macro="stdio"/> + <expand macro="requirements"/> + <command>SpecLibCreator + +#if $param_info: + -info $param_info +#end if +#if $param_itemseperator: + -itemseperator "$param_itemseperator" +#end if +#if $param_itemenclosed: + -itemenclosed +#end if +#if $param_spec: + -spec $param_spec +#end if +#if $param_out: + -out $param_out +#end if +-threads \${GALAXY_SLOTS:-24} +#if $adv_opts.adv_opts_selector=='advanced': + #if $adv_opts.param_force: + -force +#end if +#end if +</command> + <inputs> + <param name="param_info" type="data" format="tabular" optional="False" label="Holds id, peptide, retention time etc" help="(-info) "/> + <param name="param_itemseperator" type="text" size="30" value="," label=" Seperator between items. e.g. ," help="(-itemseperator) "> + <sanitizer> + <valid initial="string.printable"> + <remove value="'"/> + <remove value="""/> + </valid> + </sanitizer> + </param> + <param name="param_itemenclosed" type="boolean" truevalue="-itemenclosed" falsevalue="" checked="false" optional="True" label="'true' or 'false' if true every item is enclosed" help="(-itemenclosed) e.g. '$peptide$,$run$"/> + <param name="param_spec" type="data" format="mzxml" optional="False" label="spectra" help="(-spec) "/> + <expand macro="advanced_options"> + <param name="param_force" type="boolean" truevalue="-force" falsevalue="" checked="false" optional="True" label="Overwrite tool specific checks" help="(-force) "/> + </expand> + </inputs> + <outputs> + <data name="param_out" format="msp"/> + </outputs> + <help>**What it does** + +Creates an MSP formatted spectral library. + + +For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/UTILS_SpecLibCreator.html</help> + <expand macro="references"/> +</tool>