BioMart Ensembl Perl API: Attribute 'cdna' not found in dataset

Question

[pld]

I am trying to use ensembl's BioMart API to download seqeuences, but it fails on the following query:

$query->setDataset("hsapiens_gene_ensembl");
$query->addAttribute("ensembl_transcript_id");
$query->addAttribute("cdna");
$query->formatter("FASTA");

With the following error message:

Attribute 'cdna' not found in dataset default.hsapiens_gene_ensembl

Trace begun at /usr/local/apps/Biomart/biomart-perl/lib/BioMart/Registry.pm line 490
BioMart::Registry::getAttribute('BioMart::Registry=HASH(0x3bd9f00)', 'hsapiens_gene_ensembl', 'cdna', 'default', 'default') called at /usr/local/apps/Biomart/biomart-perl/lib/BioMart/Query.pm line 1243
BioMart::Query::addAttribute('BioMart::Query=HASH(0x3be8a68)', 'cdna') called at pull-annos2.pl line 157
main::biomart_get_trans_seq('BioMart::Registry=HASH(0x3bd9f00)', 'hsapiens_gene_ensembl') called at pull-annos2.pl line 211

I'm not sure what the problem is, all of the other queries I run that don't ask for sequence information work correctly, it is only when I try and pull sequence information down that there is any issue. Can someone point to my mistake?

[Devon Ryan]

Have a look at this thread, perhaps it's the same issue.

[pld]

That seems to have been the issue. It looks like the GenomicSequence datasets are not totally supported, I'm getting errors about unimplemented methods...