Ronald,
does your project require you to run the:
- BioMart server locally
OR
- BioMart server + PRIDE database as well ?
Best,
Syed
On 15/02/2011 19:10, Greenman, Ronald (NIH/CIT) [C] wrote:
I'm sorry that I haven't been able to reply sooner. I was pulled off to other
tasks at work, and I'm only now able to get back to this.
Unfortunately, my project requires me to run PRIDE/BioMart locally. I'm now
using the config files from PRIDE's Google Code repository, so those should in
theory be up to date, though I notice that they haven't been updated in a long
time either.
However, the problem remains. In particular, the only Sample Attribute I can
filter on is Species, even though the configuration seems to also offer filters
on Tissue, Cell Type, GO, and Disease. The attributes appear to work normally
when displayed in query results; I just can't filter on them.
What would cause an attribute to be viewable, but not filterable?
-----Original Message-----
From: Joachim Baran [mailto:[email protected]]
Sent: Tuesday, February 01, 2011 3:21 PM
To: Greenman, Ronald (NIH/CIT) [C]
Cc: [email protected]; [email protected]
Subject: Re: [BioMart Users] PRIDE and BioMart: Filtering Problems
Hi!
On 28 January 2011 10:05, Greenman, Ronald (NIH/CIT) [C]
<[email protected]> wrote:
I'm running a locally installed PRIDE/BioMart combination, using the configuration
offered by PRIDE at<http://sourceforge.net/projects/pride-proteome/files/>.
The files on SourceForge seem to be outdated by a couple of years
now. You can access a current version of the PRIDE BioMart via
http://www.ebi.ac.uk/pride/prideMart.do
Whilst you can run your own BioMart locally, I suggest that you also
have a look at querying the PRIDE BioMart at EBI. You can submit
queries manually via the web-interface or you can submit queries
programmatically via the XML/RESTful-interface or via the Perl API.
Hope that helps.
Joachim
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