Hello,

I used to access Ensembl 54 database with the biomaRt package. The command
below was taken from one of the biomaRt tutorials on the bioconductor
website. This commands used to work properly and I was able to query the
database but something has recently changed I believe, as this command
doesn't work anymore. I have updated my packages and R...  Any clues how
can I still query this version? What I want to do is work in hg18
coordinates, for this reason I am querying the archived db.

Thanks,
Adrian



ensembl54=useMart("ENSEMBL_MART_ENSEMBL", host="
may2009.archive.ensembl.org/biomart/martservice/",
dataset='hsapiens_gene_ensembl')


Error in bmAttrFilt("attributes", mart, verbose = verbose) :
  biomaRt error: looks like we're connecting to incompatible version of
BioMart suite.



> sessionInfo()
R version 2.14.0 (2011-10-31)
Platform: x86_64-unknown-linux-gnu (64-bit)

locale:
 [1] LC_CTYPE=en_AU.UTF-8       LC_NUMERIC=C
 [3] LC_TIME=en_AU.UTF-8        LC_COLLATE=en_AU.UTF-8
 [5] LC_MONETARY=en_AU.UTF-8    LC_MESSAGES=en_AU.UTF-8
 [7] LC_PAPER=C                 LC_NAME=C
 [9] LC_ADDRESS=C               LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_AU.UTF-8 LC_IDENTIFICATION=C

attached base packages:
[1] grid      stats     graphics  grDevices utils     datasets  methods
[8] base

other attached packages:
[1] biomaRt_2.10.0 lodplot_1.1

loaded via a namespace (and not attached):
[1] RCurl_1.7-0 XML_3.4-3

	[[alternative HTML version deleted]]

