Hi John,

I just got an email that saying that the BioMart service should be restored
now so everything should work at this time.

Cheers,
Steffen

On Wed, Feb 23, 2011 at 11:51 AM, Steffen Durinck <durincks@gene.com> wrote:

> Hi John,
>
> This is a problem at the central BioMart service and needs to be fixed at
> their site.
> I've contacted them to see what is going on and will let you know as soon
> as this is fixed.
>
> Cheers,
> Steffen
>
>
> On Tue, Feb 22, 2011 at 11:20 PM, John Lande <john.lande77@gmail.com>wrote:
>
>> dear BioC
>>
>> I still have problem regarding biomart
>>
>> if I run
>>
>> > ensembl <- useMart("ensembl")
>> > ensembl_human <- useDataset("hsapiens_gene_ensembl", mart=ensembl)
>> > EnsTS <- getGene(id = as.vector(TS[,1]), type="entrezgene",
>> mart=ensembl_human)
>> Error in getBM(attributes = attrib, filters = type, values = id, mart =
>> mart) :
>>  Query ERROR: caught BioMart::Exception::Database: Could not connect to
>> mysql database ensembl_mart_61: DBI
>> connect('database=ensembl_mart_61;host=
>> dcc-qa-db.oicr.on.ca;port=3306','bm_web',...) failed: Can't connect to
>> MySQL
>> server on 'dcc-qa-db.oicr.on.ca' (113) at /srv/biomart_server/
>> biomart.org/biomart-perl/lib/BioMart/Configuration/DBLocation.pm line 98
>>
>>
>> I retrieve this error. how can I solve this???
>>
>>        [[alternative HTML version deleted]]
>>
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>
>

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