Joachim: BioMart get the filters from the importable dasChr or dasGene. Please refer to page 72 of the BioMart documentation (http://www.biomart.org/user-docs.pdf) for more details or reference Ensembl xml for examples.
Regards, Christina > -----Original Message----- > From: [email protected] > [mailto:[email protected]] On Behalf Of Joachim Baran > Sent: Friday, February 05, 2010 8:45 AM > To: [email protected] > Subject: [mart-dev] DAS Request: Where does it get its filters from? > > Hello, > > When I am running a simple DAS request, such as: > > http://myhost/biomart/das/default__hsapiens_gene_ensembl__ense > mbl_das_chr/features?segment=13:31787617,31871805 > I am getting a "XML Parsing Error: not well-formed" message, > which includes the following line: > <LINK > href="http://myhost/biomart/martview?VIRTUALSCHEMANAME=default &ATTRIBUTES=hsapiens_gene_ensembl.default.feature_page.ensembl_gene_id|hsapiens_gene_ens> embl.default.feature_page.mydata_1090&FILTERS=hsapiens_gene_en sembl.default.filters.ensembl_gene_id.ENSG00000187676&VISIBLEPANEL=resultspanel"></LINK> > > The attribute mydata_1090 is not present in my mart (it has a > different numerical part), so I am wondering where BioMart > gets this data from. I am also surprised that an extra > attribute besides the gene_id is included at all. Why would > that be the case? > > DAS queries have worked before for my mart and I am not sure > what I have changed that causes this behaviour. I would > appreciate if someone could point out to me what to look for. > > Thanks, > Joachim > > -- > B.1079 Michael Smith Building > Faculty of Life Sciences > The University of Manchester > Oxford Road > Manchester > M13 9PT > United Kingdom >
