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UWPR / Comet

An tandem mass spectrometry (MS/MS) sequence database search tool.
https://uwpr.github.io/Comet/
Apache License 2.0
42 stars 13 forks source link

Comet 2024.01 stalls during search #62

Closed cbielow closed 2 months ago

cbielow commented 2 months ago

When running our test suite, the latest Comet version stalls at 2% of the search and runs indefinitely. Previous Comet versions ran fine on the same input.

comet.exe  ../openms/share/OpenMS/examples/FRACTIONS/BSA1_F1.mzML

This happens on both Windows and Linux. Adding some sanity checks (-D_GLIBCXX_ASSERTIONS -g -fsanitize=address on Linux does not reveal any immediate problems).

I will attach the comet.params.txt here. The mzML can be downloaded here, the FASTA here

The issue seems unrelated to #60 and #59 (i.e. it does not matter what is used as peptide_mass_tolerance)

jke000 commented 2 months ago

Thanks Chris. Fix for this is known; it will be committed soon.

jke000 commented 2 months ago

This is addressed by commit e5cf236.