Cannot run Barista on Crux output
Nat G
Hi,
I've
been trying to run Barista on my crux search output but
unsuccessfully.
Since the crux
output contains separate target and decoy files, I used the 'separate
searches' option to specify the decoy file, as shown in the
documentation. I added the decoy prefix as reverse since that was the
option I specified in create-index. My command lines looks like
this:
crux barista --overwrite T --decoy-prefix reverse
--separate-searches [...]/search.decoy.txt --output-dir
[...]/Barista/09252012-LC3_MS1
[...]/fasta/yeast_orf_trans_all_05-Jan-2010.fasta
[...]/Ms2files/08292012_LC3_MS1_ISDy.ms2 [...]/search.target.txt
and gives the following error: "FATAL: Cannot compute PEP without target or decoy scores."
What
am I doing wrong?
Should I not be specifying the decoy output
of Crux? Also, should I be including the decoy database generated by
Crux (_random.fasta) in the database argument?
Thanks in
advance for your help!
Nathanael