I imagine that the "%" signs in the file names could be causing some trouble. Can you try to see if this would fix this specific instance? Cheers, --Luis
On Mon, Apr 8, 2013 at 1:14 PM, Jimmy Eng <[email protected]> wrote: > Damian, > > I'll contact you offline to see if we can figure out what's happening. > Both Lorikeet and old Comet viewer access the underlying spectra in the > same way. So the fact that the old viewer is having an issue means that > Lorikeet will to. > > - Jimmy > > > On Mon, Apr 8, 2013 at 12:15 PM, GATTACA <[email protected]> wrote: > >> Hi. >> >> I'm running TPP 4.6.2 on RHEL 6.4 (64bit) fully patched. >> Users are having problems viewing spectra in this version with lorikeet. >> >> It doesn't happen for all data sets but generally speaking the older the >> interact XML files are, the less likely they are to be viewable in lorikeet. >> >> If I click on the 'Ions2' link in a pepXML file I get a grey screen with >> nothing in the window. Here is the URL for the page: >> >> http://111.111.111.111/tpp/cgi-bin/plot-msms-js.cgi?PrecursorMassType=1&FragmentMassType=0&PepMass=1331.6054&Pep=SLRPGTAEQDEK&Dta=/tpp.data/venky/UM_2013_1308.2013_03_05.091612/UM_2013_1308_50%/UM_2013_1308_50%.00028.00028.2.dta >> >> Nothing gets written to the error logs. The http access logs report this: >> [08/Apr/2013:15:01:53 -0400] "GET >> /tpp/cgi-bin/plot-msms-js.cgi?PrecursorMassType=1&FragmentMassType=0&PepMass=1331.6054&Pep=SLRPGTAEQDEK&Dta=/tpp.data/venky/UM_2013_1308.2013_03_05.091612/UM_2013_1308_50%/UM_2013_1308_50%.00028.00028.2.dta >> HTTP/1.1" 200 2138 >> >> Using the old Comet viewer at least generates an error on the browser: >> Error - cannot get scan number from input file >> /tpp.data/venky/UM_2013_1308.2013_03_05.091612/; unexpected dta name format >> >> The error logs for httpd also get something: >> [Mon Apr 08 15:09:56 2013] [error] [client 111.111.111.111] script not >> found or unable to stat: /usr/local/apps/tpp/cgi-bin/vbasrur, referer: >> http://111.111.1.111/tpp/cgi-bin/PepXMLViewer.cgi?page=1&columns=Pprobability%2CGspectrum%2CSexpect%2CGions2%2CGpeptide%2CGprotein%2CGcalc_neutral_pep_mass%2CGions&displayState=columnsOptionsDiv&exportSpreadsheet=0&sortField2=Gspectrum&sortDir2=0&FmPprobability2=&FMPprobability2=&xmlFileName=%2Ftpp.data%2Fvbasrur%2FUM_2013_1308.2013_03_05.091612%2Finteract.pep.xml&perPage=50&sortField=Gspectrum&sortDir=0&highlightedPeptideText=&highlightedProteinText=&highlightedSpectrumText=&expandProteinList=condense&minimizeTableHeaders=yes&requiredAA=&requiredPeptideText=&requiredProteinText=&requiredSpectrumText=&FmGnum_tol_term=&FmShyperscore=&FMShyperscore=&FmSnextscore=&FMSnextscore=&FmSbscore=&FMSbscore=&FmSyscore=&FMSyscore=&FmSexpect=&FMSexpect=&FmPprobability=&FMPprobability=&jumpPage=1 >> >> >> Any ideas for what's going on? >> Thanks, >> Damian >> >> -- >> 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?hl=en >> . >> 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. > 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?hl=en. > 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. 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?hl=en. For more options, visit https://groups.google.com/groups/opt_out.
