Hi Thomas and Rhoda, would you be able to advise on this problem? a
On Thu, Aug 30, 2012 at 3:18 PM, myGrid Support <[email protected]>wrote: > Hi Harish, > > The problem is that the attribute should be called illumina_human660wquad, > not Illumina_Human660Wquad. > > Taverna is getting the wrong attribute ID from the Biomart configuration > for this dataset - > http://www.biomart.org/biomart/martservice?type=configuration&dataset=hsapiens_snp > > I think it will require a fix from Biomart so I'm copying this to the > Biomart support list. > > David. > > On 30 Aug 2012, at 14:15, <[email protected]> <[email protected]> > wrote: > > > > > Greetings Alan, > > Thank you for your prompt reply. Please find attached an example > workflow that gives the error message that I was talking about. Basically, > the workflow determines genomic location of the gene (provided as a > constant input) and feeds it to the next biomart service that should return > all the Illumina-chip specific snp ids, instead it issues the error message. > > Best Regards, > > Harish. > > ________________________________________ > > From: Alan R Williams [[email protected]] > > Sent: Thursday, August 30, 2012 2:42 PM > > To: Dharuri, H.K. (HG) > > Cc: [email protected] > > Subject: Re: Problems with Biomart service > > > > On 30/08/2012 12:38, [email protected] wrote: > >> Hi, > > > > Hello > > > >> I am having issues with the Biomart service within Taverna. More > >> specifically, I am using the service to generate Illumina SNP IDs given > >> an input of chromosome name and start and end positions. This works well > >> with other "attributes" like the affy IDs. Also, I looked up the online > >> version of Biomart and it seems to be working fine, I am wondering if > >> this is a problem with Taverna. The error message issued was: "Query > >> ERROR: caught BioMart::Exception::Usage: Attribute > >> Illumina_Human660Wquad NOT FOUND". > >> > >> Please let me know what you think of this. > > > > Are you able to send the workflow or even better a smaller version of > > the workflow that just calls the service? > > > >> Best Regards, > >> > >> Harish. > > > > Alan<error_prone_biomart_service.t2flow> > > myGrid Support > [email protected] > > > > _______________________________________________ > Users mailing list > [email protected] > https://lists.biomart.org/mailman/listinfo/users > -- Arek Kasprzyk, MD, MSc, PhD BioMart Project Lead www.biomart.org
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