Dear Group, I have encountered an error in Mascot2XML when processing a WIFF file that had been converted to mgf (for a MascotSearch) and mzXML using msconvert. The program encounters an error, which exits and leaves behind a partially-formed pepXML file.
Mascot2XML simon-J2361.dat -D/mnt/sanfs/APCF/mascot/sequence/ SwissProt/current/uniprot_sprot_April2010.fasta -Etrypsin -pI This produces a lot of warnings of the kind: "Warning: could not find scan numbers of spectrum scan=6087 Set to 0000" and then an error message Replacing 6217 protein id with full ids by parsing through the database... searching /mnt/sanfs/APCF/mascot/sequence/SwissProt/current/ uniprot_sprot_April2010.fasta.....5%.....10%.....15%.....20%..... 30%.....35%.....40%.....45%.....50%. ....60%.....65%.....70%.....75%.....80%.....90%.....95%...done 575. opening scan=6034.out error: only found 0 periods in scan=5771 Can anyone assist me in this matter? Thanks Simon Michnowicz -- 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.
