input peak file [mzML,featureXML]input file containing reference m/z values (either as textfile with one m/z per line and no header or as idXML file) [csv,idXML,opt.]output file [mzML,featureXML]output transformation file (only for global calibration) [trafoXML]The text sent to standard out during the execution of InternalCalibration.The text sent to standard error during the execution of InternalCalibration. (If it appears in gray, it's the output of a previously failing run which is preserved for your trouble shooting.)