Eileen, The "+" in the file names is not a problem at this stage of processing although it is a reserved character for a URL so you will have issues visualizing results in the web interface. The "-" character is OK. For future reference, it's not enough to simply change the pep.xml and mzML file names. You will have to also make the corresponding changes to the content within the pep.xml file, specifically the "base_name" attributes. I always suggest that researchers stick to numbers, letters, dash "-", and underscore "_" in naming files.
For your specific error, does the following file exist? c:/Inetpub/wwwroot/ISB/data/MAY1335_Phosphopeptides/ MAY1335_Yeast_2+3-D_100ug_PIMAC_75um_140_20130423_VE2.mzML If yes, I couldn't tell you why XPRESS is reporting that error. I would suggest you try this analysis with just a single input file first to confirm you can run the tools to completion. If that works, try this processing this one MAY1335_Yeast_2+3-D_100ug_PIMAC_75um_140_20130423_VE2.mzML file by itself. - Jimmy On Wed, May 1, 2013 at 1:27 PM, Eileen Yue <y...@ohsu.edu> wrote: > > Hello everyone. > I have one error information when I tried to analyze peptide for SILAC > data. I do not know whether this is possibly caused by file's name which > includes "+" and "-" . I did manually change the pep.xml and mzml files's > name (which I deleted "+" and "-" ) but I still get error information. > Could anyone give me some advice about this issue? > > Thanks > Eileen > > > > XPRESS error - cannot open file from basename > c:/Inetpub/wwwroot/ISB/data/MAY1335_Phosphopeptides/MAY1335_Yeast_2+3-D_100ug_PIMAC_75um_140_20130423_VE2, > will try to derive from scan names > > command "C:/Inetpub/tpp-bin/XPressPeptideParser "interact.pep.xml" -m1 > -nK,8 -nR,10 -c6 -p1" failed: Unknown error > > command "C:/Inetpub/tpp-bin/XPressPeptideParser "interact.pep.xml" -m1 > -nK,8 -nR,10 -c6 -p1" exited with non-zero exit code: -1073741819 > QUIT - the job is incomplete > > command "c:\Inetpub\tpp-bin\xinteract -Ninteract.pep.xml -p0.75 -l6 -Op > -dREV -X-m1-nK,8-nR,10-c6-p1 -A-lKR-r0.5 > MAY1335_Yeast_1+4-D_100ug_IMAC_75um_140_20130410_VE2.pep.xml > MAY1335_Yeast_1+4-D_100ug_POLY-Ti_75um_140_20130410_VE2.pep.xml > MAY1335_Yeast_1+4-D_100ug_PierceIMAC_75um_140_20130423_VE2.pep.xml > MAY1335_Yeast_2+3-D_100ug_IMAC_75um_140_20130410_VE2.pep.xml > MAY1335_Yeast_2+3-D_100ug_PIMAC_75um_140_20130423_VE2.pep.xml > MAY1335_Yeast_2+3-D_100ug_POLY-Ti_75um_140_20130410_VE2.pep.xml" failed: > Unknown error > > 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-discuss+unsubscr...@googlegroups.com. > To post to this group, send email to spctools-discuss@googlegroups.com. > 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 spctools-discuss+unsubscr...@googlegroups.com. To post to this group, send email to spctools-discuss@googlegroups.com. Visit this group at http://groups.google.com/group/spctools-discuss?hl=en. For more options, visit https://groups.google.com/groups/opt_out.
