Dear David, Thank you very much for looking into this problem. I cannot find the ftp://ftp.systemsbiology.net/pub/incoming/ as stated in the FAQ, but I just found the ftp://ftp.systemsbiology.net/incoming/ and put the file melody_lam_xml.zip there.
Regards, Melody Lam On Sep 17, 3:44 am, David Shteynberg <[email protected]> wrote: > Hello Melody, > > It appears you've discovered a bug in the code with this particular > analysis. Would you please zip up the data directory (or just the > analysis*.xml files) and post them to our ftp site, instructions > here:http://tools.proteomecenter.org/wiki/index.php?title=TPP:Frequently_A... > , so I can take a look and debug the problem? > > Thanks, > > -David > > On Wed, Sep 16, 2009 at 2:07 AM, Melody Lam <[email protected]> wrote: > > > Dear all, > > I have TPP v4.3 installed on WindowsXP. I do not install cygwin and > > run the following lines in the MS DOS command or through the TPP GUI. > > Unknown error occurs during iterations in PeptideProphetParser. Can > > you have me some advice on this? > > > Thank you very much in advance! > > > Best regards, > > Melody Lam > > > I run the following command at the directory C:\Inetpub\wwwroot\ISB > > \data\swissprot > > > "c:\Inetpub\tpp-bin\xinteract -Ninteract.pep.xml -p0.05 -l7 -OAm c:/ > > Inetpub/wwwroot/ISB/data/swissprot/analysis100.xml c:/Inetpub/wwwroot/ > > ISB/data/swissprot/analysis125.xml c:/Inetpub/wwwroot/ISB/data/ > > swissprot/analysis150.xml c:/Inetpub/wwwroot/ISB/data/swissprot/ > > analysis200.xml c:/Inetpub/wwwroot/ISB/data/swissprot/analysis25.xml > > c:/Inetpub/wwwroot/ISB/data/swissprot/analysis460.xml c:/Inetpub/ > > wwwroot/ISB/data/swissprot/analysis50.xml c:/Inetpub/wwwroot/ISB/data/ > > swissprot/analysis500.xml c:/Inetpub/wwwroot/ISB/data/swissprot/ > > analysis75.xml c:/Inetpub/wwwroot/ISB/data/swissprot/ > > analysisunbind.xml" > > > Totally 10 xml files from OUT2XML are added. > > > -------------------------- > > Here are the outputs: > > > c:\Inetpub\tpp-bin\xinteract (TPP v4.3 JETSTREAM rev 0, Build > > 200908071234 (MinGW)) > > > running: "C:/Inetpub/tpp-bin/InteractParser "C:/Inetpub/wwwroot/tmp/ > > a02932/ISB/data/swissprot/interact.pep.xml" "c:/Inetpub/wwwroot/ISB/ > > data/swissprot/analysis100.xml" "c:/Inetpub/wwwroot/ISB/data/swissprot/ > > analysis125.xml" "c:/Inetpub/wwwroot/ISB/data/swissprot/ > > analysis150.xml" "c:/Inetpub/wwwroot/ISB/data/swissprot/ > > analysis200.xml" "c:/Inetpub/wwwroot/ISB/data/swissprot/ > > analysis25.xml" "c:/Inetpub/wwwroot/ISB/data/swissprot/ > > analysis460.xml" "c:/Inetpub/wwwroot/ISB/data/swissprot/ > > analysis50.xml" "c:/Inetpub/wwwroot/ISB/data/swissprot/ > > analysis500.xml" "c:/Inetpub/wwwroot/ISB/data/swissprot/ > > analysis75.xml" "c:/Inetpub/wwwroot/ISB/data/swissprot/ > > analysisunbind.xml" -L"7"" > > > file 1: c:/Inetpub/wwwroot/ISB/data/swissprot/analysis100.xml > > file 2: c:/Inetpub/wwwroot/ISB/data/swissprot/analysis125.xml > > file 3: c:/Inetpub/wwwroot/ISB/data/swissprot/analysis150.xml > > file 4: c:/Inetpub/wwwroot/ISB/data/swissprot/analysis200.xml > > file 5: c:/Inetpub/wwwroot/ISB/data/swissprot/analysis25.xml > > file 6: c:/Inetpub/wwwroot/ISB/data/swissprot/analysis460.xml > > file 7: c:/Inetpub/wwwroot/ISB/data/swissprot/analysis50.xml > > file 8: c:/Inetpub/wwwroot/ISB/data/swissprot/analysis500.xml > > file 9: c:/Inetpub/wwwroot/ISB/data/swissprot/analysis75.xml > > file 10: c:/Inetpub/wwwroot/ISB/data/swissprot/analysisunbind.xml > > processed altogether 9098 results > > > results written to file c:/Inetpub/wwwroot/tmp/a02932/ISB/data/ > > swissprot/interact.pep.xml > > > direct your browser tohttp://localhost/interact.pep.shtml > > > command completed in 6 sec > > > running: "C:/Inetpub/tpp-bin/PeptideProphetParser "C:/Inetpub/wwwroot/ > > tmp/a02932/ISB/data/swissprot/interact.pep.xml" MINPROB=0.05 ACCMASS > > MALDI" > > using Accurate Mass Bins > > maldi mode > > (PROBID) > > adding Accurate Mass mixture distr > > init with PROBID Trypsin > > MS Instrument info: Manufacturer: UNKNOWN, Model: UNKNOWN, Ionization: > > UNKNOWN, > > Analyzer: UNKNOWN, Detector: UNKNOWN > > > PeptideProphet (TPP v4.3 JETSTREAM rev 0, Build 200908071234 > > (MinGW)) AKeller@ > > ISB > > read in 8872 1+, 0 2+, 0 3+, 0 4+, 0 5+, 0 6+, and 0 7+ spectra. > > Initialising statistical models ... > > Iterations: .........10.........20 > > > ------------------------------------------------------------ > > The Error dialog box pop up at this point during the iterations!!! I > > clicked "Don't send" on the box which ask if I should send any error > > report to Microsoft > > ------------------------------------------------------------ > > The following appears after clicking "Don't Send" > > > command "C:/Inetpub/tpp-bin/PeptideProphetParser "C:/Inetpub/wwwroot/ > > tmp/a02932/ > > ISB/data/swissprot/interact.pep.xml" MINPROB=0.05 ACCMASS MALDI" > > failed: Unknown > > error > > > command "C:/Inetpub/tpp-bin/PeptideProphetParser "C:/Inetpub/wwwroot/ > > tmp/a02932/ > > ISB/data/swissprot/interact.pep.xml" MINPROB=0.05 ACCMASS MALDI" > > exited with non > > -zero exit code: -1073741819 > > QUIT - the job is incomplete --~--~---------~--~----~------------~-------~--~----~ 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 -~----------~----~----~----~------~----~------~--~---
