dear list, i want to run iprophet on a single file i searched with xtandem and omssa. i tried to use iprophet on the 2 results separately but get for both of them a segmentation fault although xinteract finished successfully:
xinteract (TPP v4.4 VUVUZELA rev 1, Build 201102011840 (linux)) running: "/cluster/apps/tpp/4.4.1/bin/InteractParser '/cluster/work/scr3/quandtan/workflow/103/0/0/interact_tandem/interact_tandem.pep.xml' '/cluster/work/scr3/quandtan/workflow/103/0/0/tandem2xml/tandem2xml.pepxml' -L'7'" file 1: /cluster/work/scr3/quandtan/workflow/103/0/0/tandem2xml/tandem2xml.pepxml processed altogether 15566 results results written to file /cluster/work/scr3/quandtan/workflow/103/0/0/interact_tandem/interact_tandem.pep.shtml command completed in 5 sec running: "/cluster/apps/tpp/4.4.1/bin/PeptideProphetParser '/cluster/work/scr3/quandtan/workflow/103/0/0/interact_tandem/interact_tandem.pep.xml' DECOY=DECOY_ ACCMASS NONPARAM DECOYPROBS LEAVE PI INSTRWARN" using Accurate Mass Bins using pI Using no error on different instrument types. Using Decoy Label "DECOY_". Decoy Probabilities will be reported. Using non-parametric distributions (X! Tandem (k-score)) adding Accurate Mass mixture distr adding pI mixture distr init with X! Tandem (k-score) trypsin MS Instrument info: Manufacturer: Thermo Scientific, Model: LTQ Orbitrap XL, Ionization: NSI, Analyzer: FTMS, Detector: unknown Initialising statistical models ... Iterations: .........10.........20...... model complete after 27 iterations command completed in 23 sec running: "/cluster/apps/tpp/4.4.1/bin/ProphetModels.pl -i /cluster/work/scr3/quandtan/workflow/103/0/0/interact_tandem/interact_tandem.pep.xml -d DECOY_" Analyzing /cluster/work/scr3/quandtan/workflow/103/0/0/interact_tandem/interact_tandem.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 "/cluster/scratch/malars/mzxml/s_pombe/B_081220_14_G047L8_D09 (X! Tandem (k-score))"... => Total of 6151 hits. command completed in 2 sec running: "/cluster/apps/tpp/4.4.1/bin/DatabaseParser '/cluster/work/scr3/quandtan/workflow/103/0/0/interact_tandem/interact_tandem.pep.xml'" command completed in 0 sec running: "/cluster/apps/tpp/4.4.1/bin/RefreshParser '/cluster/work/scr3/quandtan/workflow/103/0/0/interact_tandem/interact_tandem.pep.xml' '/cluster/scratch/malars/databases/pp_100324.fasta'" - Searching the tree... - Linking duplicate entries... - Printing results... command completed in 2 sec running: "/cluster/apps/tpp/4.4.1/cgi-bin/PepXMLViewer.cgi -I /cluster/work/scr3/quandtan/workflow/103/0/0/interact_tandem/interact_tandem.pep.xml" command completed in 1 sec /cluster/apps/tpp/4.4.1/bin/InteractParser '/cluster/work/scr3/quandtan/workflow/103/0/0/interact_tandem/interact_tandem.pep.xml' '/cluster/work/scr3/quandtan/workflow/103/0/0/tandem2xml/tandem2xml.pepxml' -L'7' 5 sec /cluster/apps/tpp/4.4.1/bin/PeptideProphetParser '/cluster/work/scr3/quandtan/workflow/103/0/0/interact_tandem/interact_tandem.pep.xml' DECOY=DECOY_ ACCMASS NONPARAM DECOYPROBS LEAVE PI INSTRWARN 23 sec /cluster/apps/tpp/4.4.1/bin/ProphetModels.pl -i /cluster/work/scr3/quandtan/workflow/103/0/0/interact_tandem/interact_tandem.pep.xml -d DECOY_ 2 sec /cluster/apps/tpp/4.4.1/bin/DatabaseParser '/cluster/work/scr3/quandtan/workflow/103/0/0/interact_tandem/interact_tandem.pep.xml' /cluster/apps/tpp/4.4.1/bin/RefreshParser '/cluster/work/scr3/quandtan/workflow/103/0/0/interact_tandem/interact_tandem.pep.xml' '/cluster/scratch/malars/databases/pp_100324.fasta' 2 sec /cluster/apps/tpp/4.4.1/cgi-bin/PepXMLViewer.cgi -I /cluster/work/scr3/quandtan/workflow/103/0/0/interact_tandem/interact_tandem.pep.xml 1 sec job completed in 33 sec it would be great when one of you could tell me what a probable cause for this error could be. many thanks in advance, andreas -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To post to this group, send email to [email protected]. To unsubscribe from this group, send email to [email protected]. For more options, visit this group at http://groups.google.com/group/spctools-discuss?hl=en.
