OpenMS  2.4.0
MzTabExporter

This application converts several OpenMS XML formats (featureXML, consensusXML, and idXML) to mzTab.

pot. predecessor tools $ \longrightarrow $ MzTabExporter $ \longrightarrow $ potential successor tools
Any tool producing one of the input formats External tools (MS Excel, OpenOffice, Notepad)

See the mzTab specification for details on the format.

Experimental classes:
This algorithm and underlying format is work in progress and might change.
Note
Currently mzIdentML (mzid) is not directly supported as an input/output format of this tool. Convert mzid files to/from idXML using IDFileConverter if necessary.

The command line parameters of this tool are:

MzTabExporter -- Exports various XML formats to an mzTab file.
Version: 2.4.0 Oct 29 2018, 15:52:19, Revision: 9690d06
To cite OpenMS:
  Rost HL, Sachsenberg T, Aiche S, Bielow C et al.. OpenMS: a flexible open-source software platform for mass spectrometry data analysis. Nat Meth. 2016; 13, 9: 741-748. doi:10.1038/nmeth.3959.

Usage:
  MzTabExporter <options>

Options (mandatory options marked with '*'):
  -in <file>         Input files used to generate the mzTab file. (valid formats: 'featureXML', 'consensusXML
                     ', 'idXML', 'mzid')
  -out <file>*       Output file (mzTab) (valid formats: 'mzTab')
                     
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
+MzTabExporterExports various XML formats to an mzTab file.
version2.4.0 Version of the tool that generated this parameters file.
++1Instance '1' section for 'MzTabExporter'
in Input files used to generate the mzTab file.input file*.featureXML,*.consensusXML,*.idXML,*.mzid
out Output file (mzTab)output file*.mzTab
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 Overwrite tool specific checks.true,false
testfalse Enables the test mode (needed for internal use only)true,false