Hi Aoen K, I just had the same issue and hopefully my answer comes not too late for you: I solved it by manually editing the ProphetModels.pl file (and depending on your workflow also ProtXMLViewer.pl and tpp_models.pl, basically wherever you see an error in your output). Afterwards all ran smoothly.
1. Open the file(s) in an editor like Notepad etc. (somehwere in C:/TPP/bin/ for you as I see from the error message) 2. Go to line 33 where you find the command: use FindBin::libs qw( subdir=perl ); 3. Either delete or outcomment (by adding a # in front of the line) this line 4. Save it & you should be good to go. The findBins module searches for paths specified in @INC. For some reasons this fails under Windows for TPP - at least in some cases (maybe depending on the directory you installed it in). Hope this helps! David Am Montag, 22. Mai 2017 23:08:40 UTC+2 schrieb Aeon K: > > Sorry if this problem had already been solved, but I can´t find nothing at > the spctools... > > I´m dealing with this problem at output files: > > - c:/TPP/data/interact.prot.xml (*file not found:* not created or > deleted?) > > And on the command section is this what´s happening: > > running: "C:/TPP/bin/PeptideProphetParser "interact.pep.xml" MINPROB=0.05 > PPM"using PPM mass difference > (X! Tandem (k-score)) > init with X! Tandem (k-score) trypsin > MS Instrument info: Manufacturer: Thermo Scientific, Model: LTQ Orbitrap > Velos, Ionization: nanoelectrospray, Analyzer: radial ejection linear ion > trap, Detector: electron multiplier > > INFO: Processing standard MixtureModel ... > PeptideProphet (TPP v5.0.0 Typhoon, Build 201610111222-7423 > (Windows_NT-x86_64)) AKeller@ISB > read in 0 1+, 2517 2+, 1606 3+, 307 4+, 45 5+, 0 6+, and 0 7+ spectra. > Initialising statistical models ... > negmean = 0.0533258 > negmean = 0.304483 > negmean = -0.455953 > negmean = 0.717048 > negmean = 0.996458 > negmean = -0.2 > negmean = -0.2 > Iterations: .........10.........20.........30WARNING: Mixture model quality > test failed for charge (5+). > model complete after 31 iterations > command completed in 1 sec > running: "C:/TPP/bin/ProphetModels.pl -i interact.pep.xml"Can't locate > FindBin/libs.pm in @INC (you may need to install the FindBin::libs module) > (@INC contains: C:/TPP/lib/perl C:/Perl64/site/lib C:/Perl64/lib .) at > C:/TPP/bin/ProphetModels.pl line 33. > BEGIN failed--compilation aborted at C:/TPP/bin/ProphetModels.pl line 33. > > command "perl C:/TPP/bin/ProphetModels.pl -i interact.pep.xml" failed: No > such file or directory > > command "C:/TPP/bin/ProphetModels.pl -i interact.pep.xml" exited with > non-zero exit code: 2 > QUIT - the job is incomplete > > > Some help please.... :) > > > -- 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 [email protected]. To post to this group, send email to [email protected]. Visit this group at https://groups.google.com/group/spctools-discuss. For more options, visit https://groups.google.com/d/optout.
