So perhaps it is something wrong with my system? I just placed the
pep.xml file that Jimmy created for me into my c:/Inetpub/wwwroot/ISB/
data folder.
Via petunia I tried to run PeptideProphet with that file, I get the
following error:
Output Files
* c:/Inetpub/wwwroot/ISB/data/interact.pep.
I'm stumped as I can't replicate the error. Ruby sent me her data and
I had no problems running Out2XML to generate the pep.xml file. Both
on a Windows box and under Linux.
- Jimmy
On Mar 1, 1:58 pm, Ruby wrote:
> Hi-
> I just downloaded the latest version of TPP this week, so version:
> TPP v
email it to me directly at this gmail address.
On Tue, Mar 1, 2011 at 3:56 PM, Ruby wrote:
> Ok. Please advice on the best way for me to do that.(SPC tools wiki
> page data upload?)
> Thanks!
>
>
> On Mar 1, 5:49 pm, Jimmy Eng wrote:
>> Those zero's are padded scan numbers but your .out file nam
Ok. Please advice on the best way for me to do that.(SPC tools wiki
page data upload?)
Thanks!
On Mar 1, 5:49 pm, Jimmy Eng wrote:
> Those zero's are padded scan numbers but your .out file names are fine
> too. At this point, I'm not sure if anyone can give you any advice
> w/o seeing your data
Those zero's are padded scan numbers but your .out file names are fine
too. At this point, I'm not sure if anyone can give you any advice
w/o seeing your data. If you want, zip up that directory of out files
and send it to me and I'll take a look.
On Tue, Mar 1, 2011 at 2:35 PM, Ruby wrote:
> H
Hi Ruby,
A couple of more things on top of what Jimmy just posted:
1) While probably not the reason your conversion is failing, there is a way
to specify a semi-enzyme search when converting to pepXML: you want to use
-Esemitrypsin as a parameter to Out2XML. Unfortunately, that option is not
in
Hi Jimmy-
The directory does have the .out files (as that is what I thought I
needed to use for the pepXML conversion). Please correct me if I'm
wrong...
I just looked through several of the data directories that I have
tried and received this error for, and I don't have any files with the
repeati
Ruby,
The problem likely has nothing to do with the -Etrypsin option in the
Out2XML command. Do you have a bunch of *.out files in the directory
c:\Inetpub\wwwroot\ISB\data\RG_81_2\
Are those files named something like RG_81_2.1.1.1.out?
- Jimmy
On Tue, Mar 1, 2011 at 1:58 PM, Ruby
Hi-
I just downloaded the latest version of TPP this week, so version:
TPP v4.4 VUVUZELA rev 1, Build 201010121551 (MinGW)
I'm still really hoping for an answer for the -Etrypsin error.I'm
stuck until I get that figured out.
Thanks!!
Ruby
On Feb 28, 12:04 pm, Joe Slagel wrote:
> Hi Rudy,
>
