Fixing this would be great. I've been manually inserting the
ASAPRatio analysis_summary tag into the pep.xml file generated by
iProphet before running ProteinProphet, as was suggested in a previous
discussion thread. That seems to work OK and ProteinProphet does
calculate protein-level ASAPRatio
m] On Behalf Of David Shteynberg
Sent: Thursday, May 28, 2009 11:01 AM
To: spctools-discuss@googlegroups.com
Subject: [spctools-discuss] Re: problem with ASAPcgi display and iprophet
Hi Brian,
I don't have any problems with that change. Have you confirmed that it
fixes the problem?
Thanks,
-Dav
{
> output = false; // stop copying
> }
> }
>
>
> - Brian
>
> -Original Message-
> From: spctools-discuss@googlegroups.com
> [mailto:spctools-disc...@googlegroups.com] On Behalf Of Thomas
>
rsday, May 28, 2009 5:32 AM
To: spctools-discuss
Subject: [spctools-discuss] Re: problem with ASAPcgi display and iprophet
Hi David,
I had some discussion with Brian off list. It seems like there are
some parts missing from the pepxml file
To continue here:
As a test I started the peptide prophet fro
Hi David,
I had some discussion with Brian off list. It seems like there are
some parts missing from the pepxml file
To continue here:
As a test I started the peptide prophet from the command line to
analyse 2 HPL runs from 1 independent experiments (in the end 8 HPLC
runs from 4 experiments):
C
Hi Thomas,
Because iProphet is so new not all of the links will work with it
without some tweaks. Would you mind compressing the problem data and
sending it to us through our FTP server so we can correct the broken
links. Instructions for uploading data to our ftp server can be found
on the wik
- Brian Pratt
Insilicos
-Original Message-
From: spctools-discuss@googlegroups.com
[mailto:spctools-disc...@googlegroups.com] On Behalf Of Jake W
Sent: Wednesday, May 27, 2009 8:25 AM
To: spctools-discuss
Subject: [spctools-discuss] Re: problem with ASAPcgi display and iprophet
I've
I've had a similar problem. The ASAPRatio CGI doesn't crash, but just
displays "error" when I try to look at the protein-level ASAP results
from a prot.xml file generated from an iProphet pep.xml. I can look
at the peptide-level ASAP results from the iProphet pep.xml through
the PepXML viewer, s
Sorry, but I don´t know, how to ftp, but it is a small file for
testing. Therefore I can send it by email.
Thomas
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...@googlegroups.com] On Behalf Of Thomas
Sent: Friday, May 22, 2009 12:54 PM
To: spctools-discuss
Subject: [spctools-discuss] Re: problem with ASAPcgi display and iprophet
That is the content of the browser´s address bar for two different
proteins:
http://localhost/tpp-bin/ASAPCGIDisplay.cgi
That is the content of the browser´s address bar for two different
proteins:
http://localhost/tpp-bin/ASAPCGIDisplay.cgi?ratioType=0&xmlFile=c:/Inetpub/wwwroot/ISB/data/Sabine/Gruss/08-094u129TPP42r1/test_experiment/exp1234_iproph_interact.prot.xml&group_no=1&protein=gi|122936479|gb|AAI30089.1|
s.com
[mailto:spctools-disc...@googlegroups.com] On Behalf Of Thomas
Sent: Friday, May 22, 2009 12:32 PM
To: spctools-discuss
Subject: [spctools-discuss] Re: problem with ASAPcgi display and iprophet
Hi Brian,
I sent you the ..interact.prot.xml file. Is that what you need to
check? Do you need additional
Hi Brian,
I sent you the ..interact.prot.xml file. Is that what you need to
check? Do you need additional files?
Thomas
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To post to this group
I can have a quick look if you want to send me the file that crashes
ASAPCGIDisplay.cgi - it might be something fairly simple.
Brian Pratt
Insilicos
-Original Message-
From: spctools-discuss@googlegroups.com
[mailto:spctools-disc...@googlegroups.com] On Behalf Of thomas
Sent: Friday, May
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