I am running TPP5.0.0 on windows and doing Kojak searches. Search results open in the PepXMLViewer and present crosslinked peptides without issues. But when I run PeptideProphetParser (on the terminal, not using the GUI) it fails, despite clearly being aware that the data is Kojak derived. Has anyone else encountered this, or know of a solution to the problem? Output below:
adding XLSecondScoreFraction mixture distribution init XL model with Kojak Trypsin init with Kojak Trypsin init Loop model with Kojak Trypsin MS Instrument info: Manufacturer: UNKNOWN, Model: UNKNOWN, Ionization: UNKNOWN, Analyzer: UNKNOWN, Detector: UNKNOWN INFO: Processing xl MixtureModel ... PeptideProphet (TPP v5.0.0 Typhoon, Build 201610111222-7423 (Windows_NT-x86_64)) AKeller@ISB read in 0 1+, 0 2+, 0 3+, 0 4+, 0 5+, 0 6+, and 0 7+ spectra. read in no data -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To unsubscribe from this group and stop receiving emails from it, send an email to spctools-discuss+unsubscr...@googlegroups.com. To post to this group, send email to spctools-discuss@googlegroups.com. Visit this group at https://groups.google.com/group/spctools-discuss. For more options, visit https://groups.google.com/d/optout.
