SemanticValidator for XML files which can be semantically validated.

This tool is able to semantically validate an XML file against a CV-mapping file. The CV-mapping file describes the validity of CV-terms for a given tag inside the XML. The CV-mapping file conforms to the CvMapping XML schema (found at /share/OpenMS/SCHEMAS/CvMapping.xsd or http://www.psidev.info/sites/default/files/CvMapping.xsd).

Example files that can be semantically validated using this tool are mzML, TraML, mzIdentML, mzData or any XML file.

The command line parameters of this tool are:

SemanticValidator -- SemanticValidator for semantically validating certain XML files.
Full documentation: http://www.openms.de/doxygen/nightly/html/TOPP_SemanticValidator.html
Version: 3.6.0-pre-nightly-2026-03-12 Mar 13 2026, 01:45:58, Revision: 88f2819
To cite OpenMS:
 + Pfeuffer, J., Bielow, C., Wein, S. et al.. OpenMS 3 enables reproducible analysis of large-scale mass spec
   trometry data. Nat Methods (2024). doi:10.1038/s41592-024-02197-7.

Usage:
  SemanticValidator <options>

Options (mandatory options marked with '*'):
  -in <file>*            Input file (any xml file) (valid formats: 'analysisXML', 'mzML', 'traML', 'mzid', 
                         'mzData', 'xml')
  -mapping_file <file>*  Mapping file which is used to semantically validate the given XML file against this 
                         mapping file (see 'share/OpenMS/MAPPING' for templates). (valid formats: 'xml')
  -cv <files>            Controlled Vocabulary files containg the CV terms (if left empty, a set of default 
                         files are used) (valid formats: 'obo')
                         
Common TOPP options:
  -ini <file>            Use the given TOPP INI file
  -threads <n>           Sets the number of threads allowed to be used by the TOPP tool (default: '1')
  -write_ini <file>      Writes the default configuration file
  --help                 Shows options
  --helphelp             Shows all options (including advanced)

INI file documentation of this tool:

Legend:

required parameter

advanced parameter

This section lists all parameters supported by the tool. Parameters are organized into hierarchical subsections that group related settings together. Subsections may contain further subsections or individual parameters.

Each parameter entry contains the following information:

Name The identifier used in configuration files and on the command line.
Default value The value used if the parameter is not explicitly specified.
Description A short explanation describing the purpose and behavior of the parameter.
Tags Additional metadata associated with the parameter.
Restrictions Allowed value ranges for numeric parameters or valid options for string parameters.

Parameter tags provide additional information about how a parameter is used. Some tags indicate whether a parameter is required or intended for advanced configuration, while others may be used internally by OpenMS or workflow tools.

Parameters highlighted as required must be specified for the tool to run successfully. Parameters marked as advanced allow fine-tuning of algorithm behavior and are typically not needed for standard workflows.

+SemanticValidatorSemanticValidator for semantically validating certain XML files.

version3.6.0-pre-nightly-2026-03-12 Version of the tool that generated this parameters file.

++1Instance '1' section for 'SemanticValidator'

in Input file (any xml file)input file*.analysisXML, *.mzML, *.traML, *.mzid, *.mzData, *.xml

mapping_file Mapping file which is used to semantically validate the given XML file against this mapping file (see 'share/OpenMS/MAPPING' for templates).input file*.xml

cv[] Controlled Vocabulary files containg the CV terms (if left empty, a set of default files are used)input file*.obo

log Name of log file (created only when specified)

debug0 Sets the debug level

threads1 Sets the number of threads allowed to be used by the TOPP tool

no_progressfalse Disables progress logging to command linetrue, false

forcefalse Overrides tool-specific checkstrue, false

testfalse Enables the test mode (needed for internal use only)true, false