general.asn

ncbi源码

--
-- ===========================================================================
-- PRODUCTION $Log: general.asn,v $
-- PRODUCTION Revision 1000.0  2003/10/29 21:15:01  gouriano
-- PRODUCTION PRODUCTION: IMPORTED [ORIGINAL] Dev-tree R6.4
-- PRODUCTION
-- ===========================================================================
--

--$Revision: 1000.0 $
--**********************************************************************
--
--  NCBI General Data elements
--  by James Ostell, 1990
--  Version 3.0 - June 1994
--
--**********************************************************************

NCBI-General DEFINITIONS ::=
BEGIN

EXPORTS Date, Person-id, Object-id, Dbtag, Int-fuzz, User-object;

-- StringStore is really a VisibleString.  It is used to define very
--   long strings which may need to be stored by the receiving program
--   in special structures, such as a ByteStore, but it's just a hint.
--   AsnTool stores StringStores in ByteStore structures.
-- OCTET STRINGs are also stored in ByteStores by AsnTool
-- 
-- typedef struct bsunit {             /* for building multiline strings */
   -- Nlm_Handle str;            /* the string piece */
   -- Nlm_Int2 len_avail,
       -- len;
   -- struct bsunit PNTR next; }       /* the next one */
-- Nlm_BSUnit, PNTR Nlm_BSUnitPtr;
-- 
-- typedef struct bytestore {
   -- Nlm_Int4 seekptr,       /* current position */
      -- totlen,             /* total stored data length in bytes */
      -- chain_offset;       /* offset in ByteStore of first byte in curchain */
   -- Nlm_BSUnitPtr chain,       /* chain of elements */
      -- curchain;           /* the BSUnit containing seekptr */
-- } Nlm_ByteStore, PNTR Nlm_ByteStorePtr;
--
-- AsnTool incorporates this as a primitive type, so the definition
--   is here just for completeness
-- 
--  StringStore ::= [APPLICATION 1] IMPLICIT OCTET STRING
--

-- BigInt is really an INTEGER. It is used to warn the receiving code to expect
--   a value bigger than Int4 (actually Int8). It will be stored in DataVal.bigintvalue
--
--   Like StringStore, AsnTool incorporates it as a primitive. The definition would be:
--   BigInt ::= [APPLICATION 2] IMPLICIT INTEGER
--

-- Date is used to replace the (overly complex) UTCTtime, GeneralizedTime
--  of ASN.1
--  It stores only a date
--

Date ::= CHOICE {
    str VisibleString ,        -- for those unparsed dates
    std Date-std }             -- use this if you can

Date-std ::= SEQUENCE {        -- NOTE: this is NOT a unix tm struct
    year INTEGER ,             -- full year (including 1900)
    month INTEGER OPTIONAL ,   -- month (1-12)
    day INTEGER OPTIONAL ,     -- day of month (1-31)
    season VisibleString OPTIONAL ,  -- for "spring", "may-june", etc
    hour INTEGER OPTIONAL ,    -- hour of day (0-23)
    minute INTEGER OPTIONAL ,  -- minute of hour (0-59)
    second INTEGER OPTIONAL }  -- second of minute (0-59)

-- Dbtag is generalized for tagging
-- eg. { "Social Security", str "023-79-8841" }
-- or  { "member", id 8882224 }

Dbtag ::= SEQUENCE {
    db VisibleString ,          -- name of database or system
    tag Object-id }         -- appropriate tag

-- Object-id can tag or name anything
--

Object-id ::= CHOICE {
    id INTEGER ,
    str VisibleString }

-- Person-id is to define a std element for people
--

Person-id ::= CHOICE {
    dbtag Dbtag ,               -- any defined database tag
    name Name-std ,             -- structured name
    ml VisibleString ,          -- MEDLINE name (semi-structured)
                                --    eg. "Jones RM"
    str VisibleString,          -- unstructured name
    consortium VisibleString }  -- consortium name

Name-std ::= SEQUENCE { -- Structured names
    last VisibleString ,
    first VisibleString OPTIONAL ,
    middle VisibleString OPTIONAL ,
    full VisibleString OPTIONAL ,    -- full name eg. "J. John Smith, Esq"
    initials VisibleString OPTIONAL,  -- first + middle initials
    suffix VisibleString OPTIONAL ,   -- Jr, Sr, III
    title VisibleString OPTIONAL }    -- Dr., Sister, etc

--**** Int-fuzz **********************************************
--*
--*   uncertainties in integer values

Int-fuzz ::= CHOICE {
    p-m INTEGER ,                    -- plus or minus fixed amount
    range SEQUENCE {                 -- max to min
        max INTEGER ,
        min INTEGER } ,
    pct INTEGER ,                    -- % plus or minus (x10) 0-1000
    lim ENUMERATED {                 -- some limit value
        unk (0) ,                    -- unknown
        gt (1) ,                     -- greater than
        lt (2) ,                     -- less than
        tr (3) ,                     -- space to right of position
        tl (4) ,                     -- space to left of position
        circle (5) ,                 -- artificial break at origin of circle
        other (255) } ,              -- something else
    alt SET OF INTEGER }             -- set of alternatives for the integer


--**** User-object **********************************************
--*
--*   a general object for a user defined structured data item
--*    used by Seq-feat and Seq-descr

User-object ::= SEQUENCE {
    class VisibleString OPTIONAL ,   -- endeavor which designed this object
    type Object-id ,                 -- type of object within class
    data SEQUENCE OF User-field }    -- the object itself

User-field ::= SEQUENCE {
    label Object-id ,                -- field label
    num INTEGER OPTIONAL ,           -- required for strs, ints, reals, oss
    data CHOICE {                    -- field contents
        str VisibleString ,
        int INTEGER ,
        real REAL ,
        bool BOOLEAN ,
        os OCTET STRING ,
        object User-object ,         -- for using other definitions
        strs SEQUENCE OF VisibleString ,
        ints SEQUENCE OF INTEGER ,
        reals SEQUENCE OF REAL ,
        oss SEQUENCE OF OCTET STRING ,
        fields SEQUENCE OF User-field ,
        objects SEQUENCE OF User-object } }



END