I need to run both BioMart and PRIDE locally. -----Original Message----- From: Syed Haider [mailto:[email protected]] Sent: Tuesday, February 15, 2011 2:26 PM To: Greenman, Ronald (NIH/CIT) [C] Cc: Joachim Baran; [email protected]; [email protected] Subject: Re: [BioMart Users] PRIDE and BioMart: Filtering Problems
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 The files on SourceForge seem to be outdated by a couple of years 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 > _______________________________________________ > Users mailing list > [email protected] > https://lists.biomart.org/mailman/listinfo/users _______________________________________________ Users mailing list [email protected] https://lists.biomart.org/mailman/listinfo/users
