[BioC] getBM weird error

Dick Beyer dbeyer at u.washington.edu
Thu Oct 4 20:25:21 CEST 2012


I'm hoping someone might have a work-around for this getBM problem:

library(biomaRt)
mart <- useMart( "ensembl", dataset="mmusculus_gene_ensembl")
tmp <- getBM(attributes=c("uniprot_swissprot_accession","ipi"), filters="ipi", values="IPI00134704", mart=mart)

Error in getBM(attributes = c("uniprot_swissprot_accession", "ipi"), filters = "ipi",  :
   Query ERROR: caught BioMart::Exception::Database: Could not connect to mysql database ensembl_mart_68: DBI connect('database=ensembl_mart_68;host=bmdccdb.oicr.on.ca;port=3306','bm_web',...) failed: Host 'bmdcc1.oicr.on.ca' is blocked because of many connection errors; unblock with 'mysqladmin flush-hosts' at /srv/biomart_server/biomart.org/biomart-perl/lib/BioMart/Configuration/DBLocation.pm line 98

Thanks much,
Dick
*******************************************************************************
Richard P. Beyer, Ph.D.	University of Washington
Tel.:(206) 616 7378	Env. & Occ. Health Sci. , Box 354695
Fax: (206) 685 4696	4225 Roosevelt Way NE, # 100
 			Seattle, WA 98105-6099
http://depts.washington.edu/ceeh/members_fc_IEHSFC.html
http://staff.washington.edu/dbeyer



More information about the Bioconductor mailing list