[ensembl-dev] biomaRt issue
Julien Roux
julien.roux at unil.ch
Wed Apr 15 15:34:41 BST 2015
Hi all,
Not sure this is the right place to post this, please redirect me if not.
I'm having troubles retrieving data with biomaRt (2.18) from Ensembl 71
> library("biomaRt")
> ensembl71 <- useMart(host='apr2013.archive.ensembl.org',
biomart='ENSEMBL_MART_ENSEMBL', dataset='hsapiens_gene_ensembl')
> GO <- getBM(attributes=c('go_id', 'name_1006', 'namespace_1003'),
mart = ensembl71)
Error in value[[3L]](cond) :
Request to BioMart web service failed. Verify if you are still
connected to the internet. Alternatively the BioMart web service is
temporarily down.
However the fwollowing commands work well, so I wonder if the service is
really down or if there is some other issue
> listFilters(ensembl71)
> listAttributes(ensembl71)
Best
Julien
--
Julien Roux
Marie-Curie postdoctoral fellow
Department of Ecology and Evolution, University of Lausanne, Switzerland
http://www.unil.ch/dee/home/menuinst/people/post-docs--associates/dr-julien-roux.html
Tel: +41 78 700 2931
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