Hi,
I try to combine two different search engine results using iProphet.
One is myrimatch, the other is MSGF+.
The decoy database search is auto conducted by each search engine.
But iProphet failed, exactly PeptideProphetParser failed, when I select
"Analysis
Pipeline (Tandem)" -> "Analyze Peptides" in TPP 4.6.3 to combine them.
The parameters for PeptideProphet and InterProphet are showed below.
<https://lh6.googleusercontent.com/-aIAyfalUSIo/UzPtqmRkHoI/AAAAAAAAAAM/RcNaJf-gpcU/s1600/QQ%E5%9B%BE%E7%89%8720140327172121.jpg>
<https://lh5.googleusercontent.com/-rfMJq_uvl4c/UzPt7QykkQI/AAAAAAAAAAU/DGzmgdsYqhQ/s1600/QQ%E5%9B%BE%E7%89%8720140327172230.jpg>
Here is the log.
running: "C:/Inetpub/tpp-bin/PeptideProphetParser "interact.pep.xml"
MINPROB=0.01 DECOY=###REV###"
Using Decoy Label "###REV###".
(MS-GF+)
WARNING!! The discriminant function for MSGFPL is not yet complete. It is
presented here to help facilitate trial and discussion. Reliance on this code
for publishable scientific results is not recommended.
WARNING: MSGFPL only support semi-parametric PeptideProphet modelling, which
relies on a DECOY search.
WARNING: MSGFPL only support semi-parametric PeptideProphet modelling, which
relies on a DECOY search.
WARNING: MSGFPL only support semi-parametric PeptideProphet modelling, which
relies on a DECOY search.
WARNING: MSGFPL only support semi-parametric PeptideProphet modelling, which
relies on a DECOY search.
WARNING: MSGFPL only support semi-parametric PeptideProphet modelling, which
relies on a DECOY search.
WARNING: MSGFPL only support semi-parametric PeptideProphet modelling, which
relies on a DECOY search.
WARNING: MSGFPL only support semi-parametric PeptideProphet modelling, which
relies on a DECOY search.
init with MS-GF+ trypsin
two different search engines specified: MS-GF+ and MyriMatch
command "C:/Inetpub/tpp-bin/PeptideProphetParser "interact.pep.xml"
MINPROB=0.01 DECOY=###REV###" failed: Operation not permitted
command "C:/Inetpub/tpp-bin/PeptideProphetParser "interact.pep.xml"
MINPROB=0.01 DECOY=###REV###" exited with non-zero exit code: 1
QUIT - the job is incomplete
Can any body tell me why this happen? Why the PeptideProphetParser
failed?
By the way, it didn't print error information when I try the command
manually.
Thanks very much!
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