Hi Rhoda,
ok, thanks for your answer.
Rubén.
Rhoda Kinsella wrote:
Hi Ruben,
I suspect that there is inconsistency between the spelling of the
internal name of the filter and the attribute. I will look into it and
try to fix it for release 54 (approx end of April). Many apologies for
any inconvenience caused.
Regards,
Rhoda
On 14 Apr 2009, at 12:27, Ruben wrote:
Hi to all,
I am trying to invoke the following R code,
ensembl = useMart("ensembl");
ensembl = useDataset("drerio_gene_ensembl", mart=ensembl);
ids <- getBM(attributes = c("ensembl_gene_id","agilent_g2519F"),
filters = "with_agilent_g2519f", values =TRUE,mart=ensembl);
but the result is always the same:
1 Query ERROR: caught BioMart::Exception::Usage: Attribute
agilent_g2519F NOT FOUND
Error en getBM(attributes = c("ensembl_gene_id", "agilent_g2519F"),
filters = c("with_agilent_g2519f"), :
Number of columns in the query result doesn't equal number of
attributes in query. This is probably an internal error, please report.
However, if I retrieve the list of available attributes I can see
"agilent_g2519F" in the list.
Can you help me? There is a mistake in my code or there is something
wrong in biomart?
Thanks in advance,
Rubén.
Rhoda Kinsella Ph.D.
Ensembl Bioinformatician,
European Bioinformatics Institute (EMBL-EBI),
Wellcome Trust Genome Campus,
Hinxton
Cambridge CB10 1SD,
UK.
