Hi David, Thanks for having a look. I sent you a link to the interact…pep.xml and the database files to download at your convenience.
Brian On Jan 29, 2019, at 1:09 PM, David Shteynberg <david.shteynb...@systemsbiology.org<mailto:david.shteynb...@systemsbiology.org>> wrote: Hi Brian, Can you post the files for me to trace the execution of RefreshParser and troubleshoot the issue? Thanks, -David On Tue, Jan 29, 2019 at 7:24 AM Hampton, Brian <bhamp...@som.umaryland.edu<mailto:bhamp...@som.umaryland.edu>> wrote: Hello, I cannot determine why RefreshParser would not be able to remap all entries. Since the PSMs are derived from the fasta db used in the search, I would expect all PSMs to map to their respective database entries. For example: running: "/usr/local/tpp/bin/RefreshParser '/tmp/X33oJO/data/SMC/16-18-27-6094/source/interact-a-2.pep.xml' '/usr/local/tpp/data/dbase/human-reviewed-190128_DECOY-crap.fasta'" - Building Commentz-Walter keyword tree... - Searching the tree... - Linking duplicate entries... - Printing results... Warning: could not map 3081 entries command completed in 5 sec Thanks in advance for any help. Brian -- 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<mailto:spctools-discuss+unsubscr...@googlegroups.com>. To post to this group, send email to spctools-discuss@googlegroups.com<mailto: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<mailto:spctools-discuss+unsubscr...@googlegroups.com>. To post to this group, send email to spctools-discuss@googlegroups.com<mailto: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.
