Hi,
I have got the results of XTandem, Tandem2XML, PeptideProphetParser .
But on running the Protein Prophet it is showing did not find any
PeptideProphet results in input data! Did you forget to run
PeptideProphet?
Please guide me where I am going wrong.
It is not throwing any error when I am
Thank you.Will do it.
Regards,
Rishika
On Fri, Jul 26, 2013 at 2:03 PM, Joseph Slagel <
joseph.sla...@systemsbiology.org> wrote:
> Rishika,
>
> The TPP version of X!Tandem has some dependencies (such as mzParser) that
> are outside of the src_tpp directory.
>
> I hate to say it but the easiest
Rishika,
The TPP version of X!Tandem has some dependencies (such as mzParser) that
are outside of the src_tpp directory.
I hate to say it but the easiest thing to do is download and build all of
TPP.
-Joe
On Fri, Jul 26, 2013 at 9:44 AM, Rishika Bisaria wrote:
> Hi,
> Thank you for the reply.
Hi,
Thank you for the reply.
I copied all teh files to src folder , changed the permission0 and ran the
make command.
But still I am getting this error:
In file included from loadmzparser.cpp:7:0:
loadmzparser.h:47:2: error: ‘BasicSpectrum’ does not name a type
loadmzparser.h:48:2: error: ‘MzPars
That's an old page you're referencing. Try these files:
http://sourceforge.net/p/sashimi/code/6253/tree/tags/release_4-6-3/trans_proteomic_pipeline/extern/xtandem/src_tpp/
On Thu, Jul 25, 2013 at 4:46 PM, Rishika Bisaria wrote:
> Hi ,
> Thank you for the reply.
> I downloaded the two files in
Hi ,
Thank you for the reply.
I downloaded the two files in src folder of XTandem from
https://proteomics.fhcrc.org/CPAS/Project/Published%20Experiments/Tandem%20Pluggable%20Scoring/begin.view
?.
But I am getting error on running the make command.
g++ -M -O2 -DGCC4_3 mscore_k.cpp > mscore_k.d
g++
You would need a version of X!Tandem that has k-score in it so use the one
distributed with the TPP. Beyond that, the minimum parameter to set would
be:
k-score
On Thu, Jul 25, 2013 at 1:15 PM, Rishika Bisaria wrote:
> Hi,
> I am a newbie to proteomics analysis.
> I wanted to know how can w
Hi,
I am a newbie to proteomics analysis.
I wanted to know how can we use k-score in XTandem. Just modifying the
parameter in the file is sufficient or we have to make other changes also.
Thank You.
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