[BioC] biomaRt and ensembl tables

TM tabare.mourot at igf.cnrs.fr
Thu Apr 20 17:09:02 CEST 2006


Hi
I am having some trouble in using the biomart package.
I get this error message :
/Error in mysqlExecStatement(conn, statement, ...) :    RS-DBI driver: 
(could not run statement: Table 
'ensembl_mart_38.hsapiens_gene_ensembl__structure__dm' doesn't exist)/
when executing  this command 
*getBM(attributes=listAttributes(martMm)[202], 
filters=listFilters(martMm)[15], values=listT , mart=martMm)
with 
**listAttributes(martMm)[202]=**"mmusculus_gene_ensembl_structure.exon_stable_id_v"
and **listFilters(martMm)[15] = *
where martMm has been created this way :* martMm <- useMart(biomart = 
"ensembl", dataset="mmusculus_gene_ensembl", 
host="ensembldb.ensembl.org", mysql=TRUE)

*Can someone help me please
thank you.


*
*






-- 
MOUROT Tabaré
Stagiaire Master Pro BioInfo
Plateforme transcriptome
Institut de Génomique Fonctionnelle
141, rue de la Cardonille
34094 Montpellier Cedex 5

Tel : +33 (0)4 67 14 29 64
E-mail : tabare.mourot at igf.cnrs.fr


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