SpecLibCreator

creates with given data a .MSP format spectral library.

Information file should have the following information: peptide, retention time, measured weight, charge state. Extra information is allowed.

Experimental classes:

This Utility is not well tested and some features might not work as expected.

The command line parameters of this tool are:

SpecLibCreator -- Creates an MSP formatted spectral library.
Version: 2.3.0 Jan  9 2018, 17:46:23, Revision: 38ae115

Usage:
  SpecLibCreator <options>

Options (mandatory options marked with '*'):
  -info <file>*          Holds id, peptide, retention time etc. (valid formats: 'csv')
  -itemseperator <char>   Separator between items. e.g. , (default: ',')
  -itemenclosed <bool>   'true' or 'false' if true every item is enclosed e.g. '$peptide$,$run$... (default: 
                         'false' valid: 'true', 'false')
  -spec <file>*          Spectra (valid formats: 'mzData', 'mzXML')
  -out <file>*           Output MSP formatted spectra library (valid formats: 'msp')
                         
Common UTIL 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

+SpecLibCreatorCreates an MSP formatted spectral library.

version2.3.0 Version of the tool that generated this parameters file.

++1Instance '1' section for 'SpecLibCreator'

info Holds id, peptide, retention time etc.input file*.csv

itemseperator, Separator between items. e.g. ,

itemenclosedfalse 'true' or 'false' if true every item is enclosed e.g. '$peptide$,$run$...true,false

spec spectrainput file*.mzData,*.mzXML

out output MSP formatted spectra libraryoutput file*.msp

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