Hi Arek,
apologies for the delay in answering - it slipped through the net
yesterday. Unfortunately the EBI spam monitor removed the
attachments so can you send me the mail again with the error message
pasted in the text. Also which version of MartEditor - the latest
stable 0_4 branch one downloaded from biomart.org presumably?
Unfortunately I can't cut and paste the error message from the window
(would be nice to be able to do this in biomart 0.5 :-)).
I guess I will have to type it! When exporting I got the message:
The following names are incorrect links
hsapiens_gene_ensembl_structure__str_chrom_name in exportable gtf
hsapiens_gene_ensembl_structure__exon_chrom_start in exportable gtf
hsapiens_gene_ensembl_structure__exon_chrom_end in exportable gtf
hsapiens_gene_ensembl_structure__transcript_chrom_strand in
exportable gtf
hsapiens_gene_ensembl_structure__gtf_cds_chrom_start in exportable gtf
hsapiens_gene_ensembl_structure__gtf_cds_chrom_end in exportable gtf
hsapiens_gene_ensembl_structure__gtf_start_codon_start in exportable gtf
hsapiens_gene_ensembl_structure__gtf_stop_codon_start in exportable gtf
hsapiens_gene_ensembl_structure__gtf_frame in exportable gtf
hsapiens_gene_ensembl_structure__gene_stable_id in exportable gtf
hsapiens_gene_ensembl_structure__gene_stable_id_v in exportable gtf
hsapiens_gene_ensembl_structure__transcript_stable_id_v in exportable
gtf
hsapiens_gene_ensembl_structure__exon_stable_id_v in exportable gtf
MartEditor is the version downloaded from
http://www.biomart.org/MartJ1.html
Kind Regards and Thanks,
Steve
Hi Steve,
sorry for the late reply. Please remove exportable 'gtf' from this dataset
and then export it. It should work fine.
apologies for this oversight
a.
That fixes it. Thanks!
Why does this problem occur in the first place?
Kind Regards,
Steve
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Medical Sciences Division
Weatherall Institute of Molecular Medicine/Sir William Dunn School
Oxford University
