Matt,
The version we are seeing the problem with is:
MyriMatch 1.6.74 (2010-7-2)
FreiCore 1.6.107 (2010-6-21)
ProteoWizard MSData 2.1.2068 (2010-6-21)
ProteoWizard Proteome 2.1.2071 (2010-6-21)
Vanderbilt University Mass Spectrometry Research Center,
D.Tabb/M.Chambers/S.Dasari
Licensed under the
I've been able to reproduce the issue. It's due to the fairly recent improvements to the CleavageRules variable which now supports of cleavage agent names
(from the PSI-MS CV), Perl zero-width regular expressions (like those in the PSI-MS CV) while still supporting the old proprietary syntax.
I've committed a fix. The MM version doesn't change, but the FreiCore version
will:
http://fenchurch.mc.vanderbilt.edu:37280/viewLog.html?buildId=540tab=artifactsbuildTypeId=bt3guest=1
This has an updated pwiz with a fix for the intermittent crashes on multi-core
machines due to a bug in
Er, in what version of MM have you seen this bug? I don't remember that bug,
and that code hasn't been changed since at least March 2009.
Latest version gives:
sample_enzyme name=trypsin
specificity cut=KRM no_cut= sense=C /
/sample_enzyme
This search was configured to allow cleavage after
Apologies for any rushed conclusions, but we came across this bug at
the isb just yesterday. I will have to verify the exact version of MM
that failed to generate this tag at isb. BTW RefreshParser was fixed
to generate a reasonable error in this scenario instead of a seg
fault.
David
On
