The error seems to be coming from ProtProphModels.pl: Illegal division by zero at /usr/local/apps/tpp/bin/ProtProphModels.pl line 231.
But it seems that ProteinProphet finished; do those results look ok? --Luis On Tue, Sep 22, 2009 at 9:57 AM, Andreas Quandt <[email protected]>wrote: > dear list, > > > i tried to process several files with spectrast but get this error code which > unfortunately tells me nothing :-( > > hopefully one of you can help me out here ... > > > cheers, > andreas > > p.s. the output of the xinteract run looked as follow: > > > /usr/local/apps/tpp/bin/xinteract (TPP v4.3 JETSTREAM rev 1, Build > 200909181208 (linux)) > > running: "/usr/local/apps/tpp/bin/InteractParser > '/IMSB/results/workflow/158/spectrast_xinteract/Xinteract.pep.xml' > '/IMSB/results/workflow/158/init/O08-10100_c.pep.xml' > '/IMSB/results/workflow/158/init/O08-10105_c.pep.xml' > '/IMSB/results/workflow/158/init/O08-10114_c.pep.xml' > '/IMSB/results/workflow/158/init/O08-10107_c.pep.xml' > '/IMSB/results/workflow/158/init/O08-10093_c.pep.xml' > '/IMSB/results/workflow/158/init/O08-10094_c.pep.xml' > '/IMSB/results/workflow/158/init/O08-10102_c.pep.xml' > '/IMSB/results/workflow/158/init/O08-10096_c.pep.xml' > '/IMSB/results/workflow/158/init/O08-10104_c.pep.xml' > '/IMSB/results/workflow/158/init/O08-10095_c.pep.xml' > '/IMSB/results/workflow/158/init/O08-10111_c.pep.xml' > '/IMSB/results/workflow/158/init/O08-10098_c.pep.xml' > '/IMSB/results/workflow/158/init/O08-10116_c.pep.xml' > '/IMSB/results/workflow/158/init/O08-10099_c.pep.xml' > '/IMSB/results/workflow/158/init/O08-10103_c.pep.xml' > '/IMSB/results/workflow/158/init/O08-10106_c.pep.xml' > '/IMSB/results/workflow/158/init/O08-10112_c.pep.xml' > '/IMSB/results/workflow/158/init/O08-10097_c.pep.xml' > '/IMSB/results/workflow/158/init/O08-10109_c.pep.xml' > '/IMSB/results/workflow/158/init/O08-10108_c.pep.xml' > '/IMSB/results/workflow/158/init/O08-10113_c.pep.xml' > '/IMSB/results/workflow/158/init/O08-10115_c.pep.xml' -L'7'" > > file 1: /IMSB/results/workflow/158/init/O08-10100_c.pep.xml > file 2: /IMSB/results/workflow/158/init/O08-10105_c.pep.xml > file 3: /IMSB/results/workflow/158/init/O08-10114_c.pep.xml > file 4: /IMSB/results/workflow/158/init/O08-10107_c.pep.xml > > file 5: /IMSB/results/workflow/158/init/O08-10093_c.pep.xml > file 6: /IMSB/results/workflow/158/init/O08-10094_c.pep.xml > file 7: /IMSB/results/workflow/158/init/O08-10102_c.pep.xml > file 8: /IMSB/results/workflow/158/init/O08-10096_c.pep.xml > > file 9: /IMSB/results/workflow/158/init/O08-10104_c.pep.xml > file 10: /IMSB/results/workflow/158/init/O08-10095_c.pep.xml > file 11: /IMSB/results/workflow/158/init/O08-10111_c.pep.xml > file 12: /IMSB/results/workflow/158/init/O08-10098_c.pep.xml > > file 13: /IMSB/results/workflow/158/init/O08-10116_c.pep.xml > file 14: /IMSB/results/workflow/158/init/O08-10099_c.pep.xml > file 15: /IMSB/results/workflow/158/init/O08-10103_c.pep.xml > file 16: /IMSB/results/workflow/158/init/O08-10106_c.pep.xml > > file 17: /IMSB/results/workflow/158/init/O08-10112_c.pep.xml > file 18: /IMSB/results/workflow/158/init/O08-10097_c.pep.xml > file 19: /IMSB/results/workflow/158/init/O08-10109_c.pep.xml > file 20: /IMSB/results/workflow/158/init/O08-10108_c.pep.xml > > file 21: /IMSB/results/workflow/158/init/O08-10113_c.pep.xml > file 22: /IMSB/results/workflow/158/init/O08-10115_c.pep.xml > processed altogether 99822 results > > > results written to file > /IMSB/results/workflow/158/spectrast_xinteract/Xinteract.pep.shtml > > > > command completed in 23 sec > > running: "/usr/local/apps/tpp/bin/PeptideProphetParser > '/IMSB/results/workflow/158/spectrast_xinteract/Xinteract.pep.xml' > DECOY=DECOY_ ACCMASS LEAVE PI INSTRWARN" > > using Accurate Mass Bins > using pI > Using no error on different instrument types. > Using Decoy Label "DECOY_". > (SpectraST) > adding Accurate Mass mixture distr > adding pI mixture distr > init with SpectraST trypsin > > MS Instrument info: Manufacturer: ThermoFinnigan, Model: LTQ Orbitrap XL, > Ionization: ESI, Analyzer: ITMS, Detector: EMT > > PeptideProphet (TPP v4.3 JETSTREAM rev 1, Build 200909181208 (linux)) > akel...@isb > read in 0 1+, 75687 2+, 21029 3+, 2960 4+, 146 5+, 0 6+, and 0 7+ spectra. > > Initialising statistical models ... > Iterations: .........10.........20......... > model complete after 30 iterations > command completed in 79 sec > > running: "/usr/local/apps/tpp/bin/ProphetModels.pl -i > /IMSB/results/workflow/158/spectrast_xinteract/Xinteract.pep.xml" > > Analyzing /IMSB/results/workflow/158/spectrast_xinteract/Xinteract.pep.xml ... > Reading Accurate Mass Model model +1 ... > Reading kernel density calc pI [pI] model +1 ... > Reading Accurate Mass Model model +2 ... > > Reading kernel density calc pI [pI] model +2 ... > Reading Accurate Mass Model model +3 ... > Reading kernel density calc pI [pI] model +3 ... > Reading Accurate Mass Model model +4 ... > Reading kernel density calc pI [pI] model +4 ... > > Reading Accurate Mass Model model +5 ... > Reading kernel density calc pI [pI] model +5 ... > Reading Accurate Mass Model model +6 ... > Reading kernel density calc pI [pI] model +6 ... > Reading Accurate Mass Model model +7 ... > > Reading kernel density calc pI [pI] model +7 ... > Parsing search results "/home/andqua/O08-10100_c (SpectraST)"... > => Total of 2389 hits. > Parsing search results "/home/andqua/O08-10105_c (SpectraST)"... > > => Total of 2321 hits. > Parsing search results "/home/andqua/O08-10114_c (SpectraST)"... > => Total of 1933 hits. > Parsing search results "/home/andqua/O08-10107_c (SpectraST)"... > => Total of 1949 hits. > > Parsing search results "/home/andqua/O08-10093_c (SpectraST)"... > => Total of 2660 hits. > Parsing search results "/home/andqua/O08-10094_c (SpectraST)"... > => Total of 2756 hits. > Parsing search results "/home/andqua/O08-10102_c (SpectraST)"... > > => Total of 2743 hits. > Parsing search results "/home/andqua/O08-10096_c (SpectraST)"... > => Total of 2813 hits. > Parsing search results "/home/andqua/O08-10104_c (SpectraST)"... > => Total of 2457 hits. > > Parsing search results "/home/andqua/O08-10095_c (SpectraST)"... > => Total of 2889 hits. > Parsing search results "/home/andqua/O08-10111_c (SpectraST)"... > => Total of 298 hits. > Parsing search results "/home/andqua/O08-10098_c (SpectraST)"... > > => Total of 454 hits. > Parsing search results "/home/andqua/O08-10116_c (SpectraST)"... > => Total of 2116 hits. > Parsing search results "/home/andqua/O08-10099_c (SpectraST)"... > => Total of 1861 hits. > > Parsing search results "/home/andqua/O08-10103_c (SpectraST)"... > => Total of 2690 hits. > Parsing search results "/home/andqua/O08-10106_c (SpectraST)"... > => Total of 1997 hits. > Parsing search results "/home/andqua/O08-10112_c (SpectraST)"... > > => Total of 492 hits. > Parsing search results "/home/andqua/O08-10097_c (SpectraST)"... > => Total of 2191 hits. > Parsing search results "/home/andqua/O08-10109_c (SpectraST)"... > => Total of 743 hits. > > Parsing search results "/home/andqua/O08-10108_c (SpectraST)"... > => Total of 1959 hits. > Parsing search results "/home/andqua/O08-10113_c (SpectraST)"... > => Total of 921 hits. > Parsing search results "/home/andqua/O08-10115_c (SpectraST)"... > > => Total of 2376 hits. > Warning: empty y range [0:0], adjusting to [0:1] > > plot > "/IMSB/results/workflow/158/spectrast_xinteract/Xinteract.pep_IPPROB.tsv" > using 2:1 title "iProphet" with line lc 2 , x notitle with line lt 0 lc -1 > > > ^ > "/IMSB/results/workflow/158/spectrast_xinteract/Xinteract.pep_IPPROB.gp", > line 16: warning: Skipping data file with no valid points > > command completed in 6 sec > > running: "/usr/local/apps/tpp/bin/DatabaseParser > '/IMSB/results/workflow/158/spectrast_xinteract/Xinteract.pep.xml'" > command completed in 1 sec > > running: "/usr/local/apps/tpp/bin/RefreshParser > '/IMSB/results/workflow/158/spectrast_xinteract/Xinteract.pep.xml' > '/IMSB/data/databases/swissprot_57.7/sp_9606.fasta'" > > - Building Commentz-Walter keyword tree... - Searching the tree... > - Linking duplicate entries... - Printing results... > > command completed in 14 sec > > running: "/usr/local/apps/tpp/cgi-bin/PepXMLViewer.cgi -I > /IMSB/results/workflow/158/spectrast_xinteract/Xinteract.pep.xml" > > command completed in 6 sec > > running: "/usr/local/apps/tpp/bin/ProteinProphet > '/IMSB/results/workflow/158/spectrast_xinteract/Xinteract.pep.xml' > '/IMSB/results/workflow/158/spectrast_xinteract/Xinteract.prot.xml' XML" > > ProteinProphet (C++) by Insilicos LLC and LabKey Software, after the original > Perl by A. Keller (TPP v4.3 JETSTREAM rev 1, Build 200909181208 (linux)) > (xml input) (report Protein Length) (using degen pep info) > . . . reading in > /IMSB/results/workflow/158/spectrast_xinteract/Xinteract.pep.xml. . . > > . . . read in 0 1+, 33817 2+, 8212 3+, 926 4+, 53 5+, 0 6+, 0 7+ spectra with > min prob 0.05 > INFO: mu=4.69978e-06, db_size=90930969 > > protein probabilities written to file > /IMSB/results/workflow/158/spectrast_xinteract/Xinteract.prot.xml > > direct your browser to > http://cal//IMSB/results/workflow/158/spectrast_xinteract/Xinteract.prot.shtml > > command completed in 71 sec > > running: "/usr/local/apps/tpp/bin/ProtProphModels.pl -i > /IMSB/results/workflow/158/spectrast_xinteract/Xinteract.prot.xml" > Illegal division by zero at /usr/local/apps/tpp/bin/ProtProphModels.pl line > 231. > > Analyzing /IMSB/results/workflow/158/spectrast_xinteract/Xinteract.prot.xml > ... > > command "/usr/local/apps/tpp/bin/ProtProphModels.pl -i > /IMSB/results/workflow/158/spectrast_xinteract/Xinteract.prot.xml" exited > with non-zero exit code: 6400 > > QUIT - the job is incomplete > > > > > --~--~---------~--~----~------------~-------~--~----~ You received this message because you are subscribed to the Google Groups "spctools-discuss" group. 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