Extracts scans of an mzML file to several files in DTA format.

pot. predecessor tools	→ DTAExtractor →	pot. successor tools
any signal-/preprocessing tool	→ DTAExtractor →	-

The retention time, the m/z ratio (for MS level > 1) and the file extension are appended to the output file name. You can limit the exported spectra by m/z range, retention time range or MS level.

The command line parameters of this tool are:

stty: 'standard input': Inappropriate ioctl for device

DTAExtractor -- Extracts spectra of an MS run file to several files in DTA format.
Full documentation: http://www.openms.de/doxygen/nightly/html/TOPP_DTAExtractor.html
Version: 3.4.0-pre-nightly-2024-12-16 Dec 17 2024, 02:41:12, Revision: 96ad74c
To cite OpenMS:
 + Pfeuffer, J., Bielow, C., Wein, S. et al.. OpenMS 3 enables reproducible analysis of large-scale mass spectrometry data. Nat Methods (2024). doi:10.1038/s41592-024-02197-7.

Usage:
  DTAExtractor <options>

Options (mandatory options marked with '*'):
  -in <file>*        Input file  (valid formats: 'mzML')
  -out <file>*       Base name of DTA output files (RT, m/z and extension are appended)
  -mz [min]:[max]    M/z range of precursor peaks to extract.
                     This option is ignored for MS level 1 (default: ':')
  -rt [min]:[max]    Retention time range of spectra to extract (default: ':')
  -level i[,j]...    MS levels to extract (default: '1,2,3')
                     
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

+DTAExtractorExtracts spectra of an MS run file to several files in DTA format.

version3.4.0-pre-nightly-2024-12-16 Version of the tool that generated this parameters file.

++1Instance '1' section for 'DTAExtractor'

in input file input file*.mzML

out base name of DTA output files (RT, m/z and extension are appended)

mz: m/z range of precursor peaks to extract.
This option is ignored for MS level 1

rt: retention time range of spectra to extract

level1,2,3 MS levels to extract

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