Hello!
I have a problem with running peptide/protein prophet. Below, you can find an error message. I havent got this problem previously. I have run so far many files, but now, there are some which dint want to be processed. The search with tandem is correct, I havnet got any messaage. Now, the interact.pep.xml is created, but is empty and interact.prot.xml is not created. Any idea what can be wrong? thanks! c:\Inetpub\tpp-bin\xinteract (TPP v4.6 OCCUPY rev 3, Build 201307241109 (MinGW)) running: "C:/Inetpub/tpp-bin/InteractParser "M5.interact.pep.xml" "M5.tandem.pep.xml" -I -L"6"" file 1: M5.tandem.pep.xml SUCCESS: CORRECTED data file c:/Inetpub/wwwroot/ISB/data/Membrane/M5.mzML in msms_run_summary tag ... Unknown file type. No file loaded. processed altogether 53699 results INFO: Results written to file: c:/Inetpub/wwwroot/ISB/data/Membrane/M5.interact.pep.xml command completed in 168 sec running: "C:/Inetpub/tpp-bin/DatabaseParser "M5.interact.pep.xml"" command completed in 0 sec running: "C:/Inetpub/tpp-bin/RefreshParser "M5.interact.pep.xml" "c:/Inetpub/wwwroot/ISB/data/dbase/BCaRun_301013/CONCAT_Uniprot_reviewed_human_301013.fasta"" - Searching the tree... - Linking duplicate entries... - Printing results... - Building Commentz-Walter keyword tree...command completed in 23 sec running: "C:/Inetpub/tpp-bin/PeptideProphetParser "M5.interact.pep.xml" MINPROB=0.05 ACCMASS DECOY=DECOY_" using Accurate Mass Bins Using Decoy Label "DECOY_". (X! Tandem (k-score)) adding Accurate Mass mixture distr init with X! Tandem (k-score) trypsin MS Instrument info: Manufacturer: Thermo Scientific, Model: UNKNOWN, Ionization: nanoelectrospray, Analyzer: orbitrap, Detector: inductive detector PeptideProphet (TPP v4.6 OCCUPY rev 3, Build 201307241109 (MinGW)) AKeller@ISB read in 0 1+, 33305 2+, 17324 3+, 2755 4+, 312 5+, 0 6+, and 0 7+ spectra. Initialising statistical models ... Found 26821 Decoys, and 26875 Non-Decoys Iterations: .........10.........20......... WARNING: Mixture model quality test failed for charge (2+). WARNING: Mixture model quality test failed for charge (3+). WARNING: Mixture model quality test failed for charge (4+). WARNING: Mixture model quality test failed for charge (5+). model complete after 30 iterations command completed in 105 sec running: "C:/Inetpub/tpp-bin/ProphetModels.pl -i M5.interact.pep.xml -d "DECOY_"" Analyzing M5.interact.pep.xml ... Reading Accurate Mass Model model +1 ... Reading Accurate Mass Model model +2 ... Reading Accurate Mass Model model +3 ... Reading Accurate Mass Model model +4 ... Reading Accurate Mass Model model +5 ... Reading Accurate Mass Model model +6 ... Reading Accurate Mass Model model +7 ... Parsing search results "c:/Inetpub/wwwroot/ISB/data/Membrane/M5 (X! Tandem (k-score))"... => Found 0 hits. (0 decoys, 0 excluded) => Total so far: 0 hits. (0 decoys, 0 excluded) The system cannot find the path specified. command completed in 1 sec running: "c:/Inetpub/wwwroot/../tpp-bin/PepXMLViewer.cgi -I c:/Inetpub/wwwroot/ISB/data/Membrane/M5.interact.pep.xml" command "c:/Inetpub/wwwroot/../tpp-bin/PepXMLViewer.cgi -I c:/Inetpub/wwwroot/ISB/data/Membrane/M5.interact.pep.xml" failed: Unknown error command "c:/Inetpub/wwwroot/../tpp-bin/PepXMLViewer.cgi -I c:/Inetpub/wwwroot/ISB/data/Membrane/M5.interact.pep.xml" exited with non-zero exit code: -1073741819 QUIT - the job is incomplete command "c:\Inetpub\tpp-bin\xinteract -NM5.interact.pep.xml -p0.05 -l6 -PREC -OApu -dDECOY_ M5.tandem.pep.xml" failed: Unknown error -- 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 http://groups.google.com/group/spctools-discuss. For more options, visit https://groups.google.com/groups/opt_out.
