NCBI C Toolkit Cross Reference

C/asn/change.txt

  1 Changes in version 3.0 of NCBI ASN.1 specification
  2 
  3 these change the asn.1 files and their object loaders.
  4 NOTE: simple.c changes also
  5 
  6 general.asn -
  7     1) Int-fuzz
  8         A) added "circle" to indicate artificial break in a location
  9            that spans origin of a circular sequence
 10         B) added "alt" for a series of alternate positions
 11 
 12 biblio.asn -
 13         1) Cit-pat adapted to include additional fields
 14                 A) Cit-pat.class changed from VisibleString to SEQUENCE OF
 15              VisibleString. Since class was not formally populated this
 16              destructive change should not be a problem.
 17         B) new fields
 18              assignees, priority, abstract
 19 
 20     2) Affil - 
 21         added email, fax, phone
 22     3) Cit-sub -
 23         added descr for author to describe any changes for the public
 24         added date, and made imprint optional. Imprint will go away and
 25          be replaced by just a date.
 26     4) retraction/erratum notice added to imprint.
 27 CitRetract ::= SEQUENCE {
 28     type ENUMERATED {                    -- retraction of an entry
 29         retracted (1) ,               -- this citation retracted
 30         notice (2) ,                  -- this citation is a retraction notice
 31         in-error (3) ,                -- an erratum was published about this
 32         erratum (4) } ,               -- this is a published erratum
 33     exp VisibleString OPTIONAL }      -- citation and/or explanation
 34         5) added part-supi on imprint for part/supplement on issue
 35        old part-sup now specificially for volume
 36              
 37 seq.asn -
 38     1) Seq-descr redefined as SET OF Seqdesc, with Seqdesc being a CHOICE
 39        of the old elements of Seqdesc, Seqdesc.E  This enables single
 40        elements to be named for various tools.
 41     2) GIBB-mod, GIBB-mol, GIBB-method, org expanded and consolidated into
 42          MolInfo and new Org-ref. These old descriptors will be removed
 43          with the next spec.
 44         3) Seq-inst added
 45          type "delta", Delta-seq, Seq-literal, for constructing a sequence
 46          by changes (deltas) to another.
 47     4) Seq-annot
 48          changed "id" to use Annot-id
 49          changed "db" to represent a source db
 50          changed "name" to represent a source name
 51          changed "desc" from VisibleString to Annot-descr for separate
 52          seq-annots to have comments, titles, publications, etc.
 53         5) Added BioSource and MolInfo to Seq-descr
 54 
 55 seqblock.asn -
 56     1) Added divisions est, pat, sts to EMBL block
 57 
 58 seqfeat.asn -
 59     1) added sites
 60         signal-peptide (23) ,
 61         transit_peptide (24) ,
 62         transmembrane-region (25)
 63     2) expanded Org-ref
 64     3) added processing status to Prot-ref
 65          processed ENUMERATED {             -- processing status
 66             not-set (0) ,
 67             preprotein (1) ,
 68             mature (2) } DEFAULT not-set }
 69     4) added BioSource type for biological source of materials
 70 
 71 
 72 seqset.asn -
 73     1) added new set classes
 74          mut-set = set of mutations of a sequence
 75          pop-set = population set (look for frequency in BioSource)
 76          phy-set = phylogenetic study
 77 
 78 submit.asn -
 79     1) added tool field for string defining tool that made the entry
 80     2) added user-tag field for user supplied id for this entry
 81     3) added comment for user comments/advice to database on this entry
 82     4) added type to indicate new, update, revise
 83 
 84 
 85
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