Hi, I am trying to get gff output on a local install of biomart. Seems like an exportable named "gtf" must be defined with a set of attributes. Copied the following from http://www.biomart.org/biomart/martservice?type=configuration&dataset=oanatinus_gene_ensembl
<Exportable attributes="ensembl_gene_id,ensembl_transcript_id,ensembl_exon_id,chromosome_name,exon_chrom_start,exon_chrom_end,coding_start_offset,coding_end_offset,strand,exon_id,rank,start_exon_id,end_exon_id,transcript_count" internalName="gtf" linkName="gtf" name="gtf" orderBy="ensembl_gene_id,ensembl_transcript_id,rank" pointer="true" type="formatter" /> Without having a "gtf" exportable, when I select "GFF" as output type, I get "No attributes selected". When I defined the exportable, no errors, but no output either. Figured I didn't have proper attributes exported. Could anyone help me with what the required attributes are or rather what they might mean for the gff formatter? In particular the follwing attributes exported in "gtf": coding_start_offset --> seq_start_1068 (corresponding field in __translation__main table in ensembl_mart_54.) coding_end_offset ----> seq_end_1068 start_exon_id --------> start_exon_id end_exon_id ----------> end_exon_id Thanks, Rochak
