Mercurial > repos > galaxyp > openms_semanticvalidator
comparison SemanticValidator.xml @ 0:f5dfeed76b4c draft
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit fb85d488133bb2b5f483b52b2db0ac66038fafb8
| author | galaxyp |
|---|---|
| date | Wed, 01 Mar 2017 12:45:53 -0500 |
| parents | |
| children | a2f42576d8d6 |
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| -1:000000000000 | 0:f5dfeed76b4c |
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| 1 <?xml version='1.0' encoding='UTF-8'?> | |
| 2 <!--This is a configuration file for the integration of a tools into Galaxy (https://galaxyproject.org/). This file was automatically generated using CTD2Galaxy.--> | |
| 3 <!--Proposed Tool Section: [Utilities]--> | |
| 4 <tool id="SemanticValidator" name="SemanticValidator" version="2.1.0"> | |
| 5 <description>SemanticValidator for semantically validating certain XML files.</description> | |
| 6 <macros> | |
| 7 <token name="@EXECUTABLE@">SemanticValidator</token> | |
| 8 <import>macros.xml</import> | |
| 9 </macros> | |
| 10 <expand macro="references"/> | |
| 11 <expand macro="stdio"/> | |
| 12 <expand macro="requirements"/> | |
| 13 <command>SemanticValidator | |
| 14 | |
| 15 #if $param_in: | |
| 16 -in $param_in | |
| 17 #end if | |
| 18 #if $param_mapping_file: | |
| 19 -mapping_file $param_mapping_file | |
| 20 #end if | |
| 21 -cv | |
| 22 #for token in $param_cv: | |
| 23 $token | |
| 24 #end for | |
| 25 #if $adv_opts.adv_opts_selector=='advanced': | |
| 26 #if $adv_opts.param_force: | |
| 27 -force | |
| 28 #end if | |
| 29 #end if | |
| 30 > $param_stdout | |
| 31 </command> | |
| 32 <inputs> | |
| 33 <param name="param_in" type="data" format="mzid,traml,mzml" optional="False" label="Input file (any xml file)" help="(-in) "/> | |
| 34 <param name="param_mapping_file" type="data" format="" 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) "/> | |
| 35 <param name="param_cv" type="data" format="" 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) "> | |
| 36 <sanitizer> | |
| 37 <valid initial="string.printable"> | |
| 38 <remove value="'"/> | |
| 39 <remove value="""/> | |
| 40 </valid> | |
| 41 </sanitizer> | |
| 42 </param> | |
| 43 <expand macro="advanced_options"> | |
| 44 <param name="param_force" display="radio" type="boolean" truevalue="-force" falsevalue="" checked="false" optional="True" label="Overwrite tool specific checks" help="(-force) "/> | |
| 45 </expand> | |
| 46 </inputs> | |
| 47 <outputs> | |
| 48 <data name="param_stdout" format="text" label="Output from stdout"/> | |
| 49 </outputs> | |
| 50 <help>SemanticValidator for semantically validating certain XML files. | |
| 51 | |
| 52 | |
| 53 For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/UTILS_SemanticValidator.html</help> | |
| 54 </tool> |