[BioC] GenomeGraphs error

michael watson (IAH-C) michael.watson at bbsrc.ac.uk
Wed Jan 7 00:15:30 CET 2009

Dear Arnaud

That is a problem with biomaRt, not GenomeGraphs.  I suggest you send the error to the author as something may have changed on the biomart server


-----Original Message-----
From: bioconductor-bounces at stat.math.ethz.ch on behalf of Droit Arnaud
Sent: Tue 06/01/2009 4:08 PM
To: bioconductor at stat.math.ethz.ch
Subject: [BioC] GenomeGraphs error
Dear BioC,

For many months, I have used the GenomeGraphs package without any problems.
But since a few days, the following code from the documentation :

mart <- useMart("ensembl", dataset = "hsapiens_gene_ensembl")
gene <- makeGene(id = "ENSG00000095203",type = "ensembl_gene_id", biomart = mart)

Gives the following error message :

error in getBM(c("structure_gene_stable_id", "structure_transcript_stable_id",  :
Number of columns in the query result doesn't equal number of attributes in query.  This is probably an internal error, please report.

I have the following version of R on 64 bit : R version 2.8.1 RC (2008-12-20 r47269)
Also, I have installed the release version and development version of GenomeGraphs.

Does anyone know what is the problem ?



Bioconductor mailing list
Bioconductor at stat.math.ethz.ch
Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor

More information about the Bioconductor mailing list