Hello, Can you verify if you are getting any decent results from your XTandem search? (i.e. open SAMPLE1.tandem.pep.xml in the PepXMLViewer and examine.) The warnings that you see are indicative of either poor data quality, or bad search parameters, so you will want to check those as well.
Cheers, --Luis On Mon, Jan 15, 2018 at 7:48 PM, Vipul Batra <vipulbatra...@gmail.com> wrote: > > On Saturday, 13 January 2018 19:59:06 UTC+5:30, Vipul Batra wrote: >> >> I am getting this error : "*Command FAILED * RETURN CODE:65280" every >> time I am using X!tandem. I have used the same database and mzml files with >> comet and the commands were successfully run, however, there seems to be an >> issue with X! TANDEM. I have even tried with different databases e.g. >> bovine, human, bubalis but no go . Please guide. >> > > Iterations: .........10.........20...... > WARNING: Mixture model quality test failed for charge (2+). > WARNING: Mixture model quality test failed for charge (3+). > WARNING: Mixture model quality test failed for charge (4+). > WARNING: Mixture model quality test failed for charge (5+). > model complete after 27 iterations > command completed in 2 sec > > running: "E:/TPP/bin/ProphetModels.pl -i /tmp/a06808/params/interact.pep.xml" > Analyzing /tmp/a06808/params/interact.pep.xml ... > Parsing search results "e:/TPP/data/raw/SAMPLE1 (X! Tandem (k-score))"... > => Found 0 hits. (0 decoys, 0 excluded) > => Total so far: 0 hits. (0 decoys, 0 excluded) > command completed in 0 sec > moving tempfile /tmp/a06808/params/interact.pep.xml to interact.pep.xml > > running: "E:/TPP/cgi-bin/PepXMLViewer.cgi -I > /tmp/a06808/params/interact.pep.xml.a06808" > > command "E:/TPP/cgi-bin/PepXMLViewer.cgi -I > /tmp/a06808/params/interact.pep.xml.a06808" > failed: Unknown error > > command "E:/TPP/cgi-bin/PepXMLViewer.cgi -I > /tmp/a06808/params/interact.pep.xml.a06808" > exited with non-zero exit code: 255 > QUIT - the job is incomplete > > > > -- > 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 https://groups.google.com/group/spctools-discuss. > For more options, visit https://groups.google.com/d/optout. > -- 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 https://groups.google.com/group/spctools-discuss. For more options, visit https://groups.google.com/d/optout.
