blastdb.asn

ncbi源码

--
-- ===========================================================================
-- PRODUCTION $Log: blastdb.asn,v $
-- PRODUCTION Revision 1000.0  2003/10/29 21:08:44  gouriano
-- PRODUCTION PRODUCTION: IMPORTED [ORIGINAL] Dev-tree R6.4
-- PRODUCTION
-- ===========================================================================
--

--$Id: blastdb.asn,v 1000.0 2003/10/29 21:08:44 gouriano Exp $
--
-- Notes:
--
-- taxonomy: an integer is proposed, which would require some sort of 
-- table (or network connection) to do the conversions from integer 
-- to various names.  This could save quite a bit of space for databases 
-- that are predominantly of one organism (e.g., human in htgs).
-- I've proposed here that table contain scientific-, common-, and 
-- blast-names at the advice of Scott Federhen.  Scott also was in 
-- favor of having the complete lineage in the file, but it seems like 
-- this would be seldom used and we could have a view with a link back 
-- to the taxonomy page for anyone needing it. Since one file would 
-- suffice for all blast databases, it seems like this should be a new file.
--
-- memberships: a sequence of integers is proposed.  Each bit of an integer 
-- would indicate membership in some (virtual) blast database (e.g., pdb, 
-- swissprot) or some classification (e.g., mRNA, genomic).
--
-- links: a sequence of integers is proposed.  Each bit of an integer would 
-- indicate a link that could be established based upon the gi of the 
-- database sequence.
--
-- $Revision: 1000.0 $
--
-- $Log: blastdb.asn,v $
-- Revision 1000.0  2003/10/29 21:08:44  gouriano
-- PRODUCTION: IMPORTED [ORIGINAL] Dev-tree R6.4
--
-- Revision 6.4  2001/11/02 21:44:54  camacho
-- Make title and taxid optional fields
--
-- Revision 6.3  2001/04/02 15:08:53  madden
-- Add other-info SEQUENCE OF INTEGER for future use
--
-- Revision 6.2  2001/03/29 19:03:40  madden
-- Minor change for consistency
--
-- Revision 6.1  2000/09/14 20:05:00  shavirin
-- Initial revision.
--
--
NCBI-BlastDL DEFINITIONS ::=
BEGIN

EXPORTS Blast-def-line-set, Blast-def-line;
        
IMPORTS Seq-id FROM NCBI-Seqloc;

Blast-def-line-set ::= SEQUENCE OF Blast-def-line  -- all deflines for an entry

Blast-def-line ::= SEQUENCE {
	title VisibleString OPTIONAL,             -- simple title
	seqid SEQUENCE OF Seq-id,                 -- Regular NCBI Seq-Id
	taxid  INTEGER OPTIONAL,                  -- taxonomy id
	memberships SEQUENCE OF INTEGER OPTIONAL, -- bit arrays
	links SEQUENCE OF INTEGER OPTIONAL,       -- bit arrays
	other-info SEQUENCE OF INTEGER OPTIONAL   -- for future use (probably genomic sequences)
}

END