Looks like you're taking search results analyzed on a different system (likely linux based) and trying to analyze on your windows box. Part of the analysis goes back to the original sequence database to map peptides to proteins. As you can see in your error message, that sequence database originally existed in /home/ruse database/ which does not exist on your PC. One fix is to place the sequence database on your computer and make sure to update the database reference in all input files (that is search for and replace /home/ruse/database/IPI_v3.64_contaminants.RS.fasta with whatever the new full path is).
On Wed, Apr 28, 2010 at 10:34 AM, Cristian <[email protected]> wrote: > Hi All, > After running Peptide Prophet, I get the error message pasted below. I > updated the database paths and I still get the following error. Could > you suggest a fix for this error message? > > Thanks a lot, > Cristian > > running: "C:/Inetpub/tpp-bin/DatabaseParser "interact.pep.xml"" > command completed in 3 sec > > running: "C:/Inetpub/tpp-bin/RefreshParser "interact.pep.xml" "/home/ > ruse/database/IPI_v3.64_contaminants.RS.fasta"" > - Searching the tree...error: could not open database file "/home/ > ruse/database/IPI_v3.64_contaminants.RS.fasta" (No such file or > directory) > - Building Commentz-Walter keyword tree... > command "C:/Inetpub/tpp-bin/RefreshParser "interact.pep.xml" "/home/ > ruse/database/IPI_v3.64_contaminants.RS.fasta"" failed: Unknown error > > command "C:/Inetpub/tpp-bin/RefreshParser "interact.pep.xml" "/home/ > ruse/database/IPI_v3.64_contaminants.RS.fasta"" exited with non-zero > exit code: -1 > 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. > > -- 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.
