Mercurial > repos > galaxyp > openms
diff SemanticValidator.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/SemanticValidator.xml Thu Apr 16 08:37:04 2015 -0400 @@ -0,0 +1,55 @@ +<?xml version='1.0' encoding='UTF-8'?> +<tool id="SemanticValidator" name="SemanticValidator" version="2.0.0"> + <description>SemanticValidator for semantically validating certain XML files.</description> + <macros> + <token name="@EXECUTABLE@">SemanticValidator</token> + <import>macros.xml</import> + </macros> + <expand macro="stdio"/> + <expand macro="requirements"/> + <command>SemanticValidator + +#if $param_in: + -in $param_in +#end if +#if $param_mapping_file: + -mapping_file $param_mapping_file +#end if +-cv + #for token in $param_cv: + $token + #end for +-threads \${GALAXY_SLOTS:-24} +#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="xml,traml,mzml" optional="False" label="Input file (any xml file)" help="(-in) "/> + <param name="param_mapping_file" type="data" format="xml" optional="False" label="Mapping file which is used to semantically validate the given XML file against this mapping file (see 'share/OpenMS/MAPPING' for templates)" help="(-mapping_file) "/> + <param name="param_cv" type="data" format="obo" multiple="true" optional="True" size="30" label="Controlled Vocabulary files containg the CV terms (if left empty, a set of default files are used)" help="(-cv) "> + <sanitizer> + <valid initial="string.printable"> + <remove value="'"/> + <remove value="""/> + </valid> + </sanitizer> + </param> + <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_stdout" format="text" label="Output from stdout"/> + </outputs> + <help>**What it does** + +SemanticValidator for semantically validating certain XML files. + + +For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/UTILS_SemanticValidator.html</help> + <expand macro="references"/> +</tool>