dbiblast

[Peter Rice]

Qingjuan Gu (Grace) wrote:
> 
> >Thirdly, do not use
> >the very latest formatdb (NCBI have not yet released the
> >details of their index format so EMBOSS cannot index them).
> 
> I did not use 'formatdb' for blast database, I just download from ncbi ftpsite "ftp://ftp.ncbi.nih.gov/blast/db/FormattedDatabases/" download and use gunzip and untar command to get these database.

NCBI have changed the format of blast databases to "ASN.1 headers" (also
known as 'format version 4')

If you FTP the databases from NCBI you will probably get them in this
format.

We have asked NCBI for a description of the format. They promised to send
one.
Until then, the new blast format is not supported.

I checked the latest code for the FASTA package, which has the same
problem.

Has anyone figured out how to decode this new blast database format yet?

regards,

Peter Rice

-- 
------------------------------------------------
Peter Rice, LION Bioscience Ltd, Cambridge, UK
peter.rice at uk.lionbioscience.com +44 1223 224723