Kierstin, Try checking your input to X!Tandem. Make sure the database doesn't have any "bad" sequences in it. Often times special characters sneak into the file and can cause X!Tandem to crash. Also take a look at your spectrum -- can you see the input file in Pep3D?
-Joe On Mon, Jul 22, 2013 at 9:20 AM, Kierstin <[email protected]>wrote: > Hi! > > Thanks for the suggestion! I removed all of the spaces and alternate > characters and am still getting the same error messages. Is there anything > else I should try? Should I recheck my parameters file? > > Thanks! > > Kierstin > > > - c:/Inetpub/wwwroot/ISB/data/Tandem/MS13668QE_sample2.tandem (*file > not found:* not created or deleted?) > - c:/Inetpub/wwwroot/ISB/data/Tandem/MS13668QE_sample2.tandem.pep.xml ( > *file not found:* not created or deleted?) > > > > Command 1 *[Mon Jul 22 12:11:18 2013] * [ Show / Hide ] > > run_in c:/Inetpub/wwwroot/ISB/data/Tandem; c:\Inetpub\tpp-bin\tandem > c:/Inetpub/wwwroot/ISB/data/Tandem/MS13668QE_sample2.tandem.params > > ------------------------------ > > X! TANDEM 2010.10.01.1 (LabKey, Insilicos and ISB) > > Loading spectra . > This application has requested the Runtime to terminate it in an unusual way. > Please contact the application's support team for more information. > > command "c:\Inetpub\tpp-bin\tandem > c:/Inetpub/wwwroot/ISB/data/Tandem/MS13668QE_sample2.tandem.params" failed: > No such process > > *Command FAILED* > > > Command 2 *[Mon Jul 22 12:11:19 2013] * [ Show / Hide ] > > run_in c:/Inetpub/wwwroot/ISB/data/Tandem; c:\Inetpub\tpp-bin\Tandem2XML > c:/Inetpub/wwwroot/ISB/data/Tandem/MS13668QE_sample2.tandem > c:/Inetpub/wwwroot/ISB/data/Tandem/MS13668QE_sample2.tandem.pep.xml > > ------------------------------ > > Failed to open input file > 'c:/Inetpub/wwwroot/ISB/data/Tandem/MS13668QE_sample2.tandem'. > > command "c:\Inetpub\tpp-bin\Tandem2XML > c:/Inetpub/wwwroot/ISB/data/Tandem/MS13668QE_sample2.tandem > c:/Inetpub/wwwroot/ISB/data/Tandem/MS13668QE_sample2.tandem.pep.xml" failed: > Operation not permitted > > *Command FAILED* > > On Wednesday, July 17, 2013 7:28:22 PM UTC-4, Jimmy Eng wrote: > >> Along these lines, everyone should simply avoid any symbols in directory >> and file names. There are some character symbols that are OK (I tell folks >> to use dash '-' and underscore '_' only besides letters and numbers) but >> it's best to avoid them all if you don't know which ones will work. >> >> >> On Wed, Jul 17, 2013 at 3:28 PM, Brian Hampton <[email protected]>wrote: >> >>> Well, I could be wrong, but that space in the directory name is probably >>> the culprit. I would rename the directory .../data/X! Tandem to something >>> without a space in it. Just call it .../data/tandem instead. >>> >>> Cheers, >>> >>> Brian >>> >>> Brian Hampton >>> Protein Analysis Lab >>> Center for Vascular and Inflammatory Diseases >>> University of Maryland School of Medicine >>> 800 West Baltimore Street Rm 307 >>> Baltimore MD 21201 >>> V: 410-706-8207 >>> F: 410-706-8234 >>> >>> >>> On Wed, Jul 17, 2013 at 5:24 PM, Kierstin Schmidt <[email protected] >>> > wrote: >>> >>>> Hi! >>>> I am a new user of TPP. I am trying to load my mzXML files to be >>>> searched by X! Tandem, and I keep getting the following errors. If anyone >>>> has advice, it would be greatly appreciated! >>>> >>>> Thanks! >>>> >>>> Kierstin >>>> >>>> >>>> "c:/Inetpub/wwwroot/ISB/data/**X! Tandem/MS138QE_sample2.tandem.**pep.xml >>>> (*file not found:* not created or deleted?) >>>> >>>> Followed by >>>> >>>> run_in c:/Inetpub/wwwroot/ISB/data/X!**Tandem; c:\Inetpub\tpp-bin\tandem >>>> c:/Inetpub/wwwroot/ISB/data/X! Tandem/MS138QE_sample2.tandem.**params >>>> >>>> ------------------------------ >>>> >>>> X! TANDEM 2010.10.01.1 (LabKey, Insilicos and ISB) >>>> >>>> Loading spectra . >>>> Failed to open: "c:/Inetpub/wwwroot/ISB/data/**X!Tandem" >>>> The input parameter file "c:/Inetpub/wwwroot/ISB/data/**X!Tandem" could >>>> not be located. >>>> Check the file path name and try again. >>>> >>>> >>>> An error was detected while loading the input parameters. >>>> Please follow the advice above or contact a GPM administrator to help you. >>>> command "c:\Inetpub\tpp-bin\tandem c:/Inetpub/wwwroot/ISB/data/X! >>>> Tandem/MS138QE_sample2.tandem.**params" failed: Unknown error >>>> >>>> *Command FAILED* >>>> >>>> >>>> Command 2 *[Wed Jul 17 17:11:38 2013] * [ Show / Hide ] >>>> >>>> run_in c:/Inetpub/wwwroot/ISB/data/X!**Tandem; >>>> c:\Inetpub\tpp-bin\Tandem2XML c:/Inetpub/wwwroot/ISB/data/X! >>>> Tandem/MS138QE_sample2.tandem c:/Inetpub/wwwroot/ISB/data/X! >>>> Tandem/MS138QE_sample2.tandem.**pep.xml >>>> >>>> ------------------------------ >>>> >>>> c:\Inetpub\tpp-bin\Tandem2XML(**TPP v4.5 RAPTURE rev 2, Build >>>> 201202031108 (MinGW)) >>>> Usage: c:\Inetpub\tpp-bin\Tandem2XML <input-file> [<output-file>] >>>> >>>> command "c:\Inetpub\tpp-bin\Tandem2XML c:/Inetpub/wwwroot/ISB/data/X! >>>> Tandem/MS138QE_sample2.tandem c:/Inetpub/wwwroot/ISB/data/X! >>>> Tandem/MS138QE_sample2.tandem.**pep.xml" failed: Operation not permitted >>>> >>>> *Command FAILED* >>>> >>>> -- >>>> 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 spctools-discu...@**googlegroups.com. >>>> To post to this group, send email to spctools...@googlegroups.**com. >>>> >>>> Visit this group at >>>> http://groups.google.com/**group/spctools-discuss<http://groups.google.com/group/spctools-discuss> >>>> . >>>> For more options, visit >>>> https://groups.google.com/**groups/opt_out<https://groups.google.com/groups/opt_out> >>>> . >>>> >>>> >>>> >>> >>> -- >>> 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 spctools-discu...@**googlegroups.com. >>> To post to this group, send email to spctools...@googlegroups.**com. >>> >>> Visit this group at >>> http://groups.google.com/**group/spctools-discuss<http://groups.google.com/group/spctools-discuss> >>> . >>> For more options, visit >>> https://groups.google.com/**groups/opt_out<https://groups.google.com/groups/opt_out> >>> . >>> >>> >>> >> >> -- > 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. > > > -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. 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