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Philosopher failed to mark contaminant human proteins with prefix `contam_`
This is a bug reported by emails. I put it here in case we forget it. It also let potential affected users know: human contaminant proteins are always not marked with prefix contam_
even when the original fasta file is not from human proteome.
Following are the steps to reproduce this bug:
- generate a test.fasta file with entry
>sp|OABCD|Test_A Keratin, type I cytoskeletal 15 OS=Ovis aries GN=KRT15 PE=2 SV=1
TESTABCD
- Run Philosopher command
philosopher.exe workspace --clean
philosopher.exe workspace --init
philosopher.exe database --custom test.fasta --contam --contamprefix --nodecoys
philosopher.exe workspace --clean
Following are the test.fasta
and the output from Philosopher as references.
dev.zip
Best,
Fengchao