Project

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1 537 aaronmk
-- Existing tables
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3 596 aaronmk
CREATE TABLE role
4 537 aaronmk
(
5
  role_id int(11) NOT NULL AUTO_INCREMENT,
6
  rolecode character varying(30) NOT NULL,
7
  roledescription character varying(200),
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  CONSTRAINT role_pkey PRIMARY KEY (role_id )
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);
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11
CREATE TABLE reference
12
(
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  reference_id int(11) NOT NULL AUTO_INCREMENT,
14
  shortname character varying(250),
15
  fulltext__ text,
16
  referencetype character varying(250)
17
);
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19
CREATE TABLE party
20
(
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  party_id int(11) NOT NULL AUTO_INCREMENT,
22
  salutation character varying(20),
23
  givenname character varying(50),
24
  middlename character varying(50),
25
  surname character varying(50),
26
  organizationname character varying(100)
27
);
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CREATE TABLE plantname
30
(
31
  plantname_id int(11) NOT NULL AUTO_INCREMENT,
32
  plantname character varying(255) NOT NULL,
33
  reference_id int(11),
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  dateentered timestamp NULL DEFAULT now(),
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  CONSTRAINT plantname_pkey PRIMARY KEY (plantname_id ),
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  CONSTRAINT plantname_reference_id FOREIGN KEY (reference_id)
37
      REFERENCES reference (reference_id) MATCH SIMPLE
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      ON UPDATE CASCADE ON DELETE CASCADE
39
);
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CREATE TABLE plantconcept
42
(
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  plantconcept_id int(11) NOT NULL AUTO_INCREMENT,
44
  plantname_id int(11) NOT NULL,
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  reference_id int(11),
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  plantcode character varying(23),
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  plantdescription text,
48
  d_obscount int(11),
49
  d_currentaccepted int(1),
50
  accessioncode character varying(255),
51
  CONSTRAINT plantconcept_pkey PRIMARY KEY (plantconcept_id ),
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  CONSTRAINT plantconcept_plantname_id FOREIGN KEY (plantname_id)
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      REFERENCES plantname (plantname_id) MATCH SIMPLE
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      ON UPDATE CASCADE ON DELETE CASCADE,
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  CONSTRAINT plantconcept_reference_id FOREIGN KEY (reference_id)
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      REFERENCES reference (reference_id) MATCH SIMPLE
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      ON UPDATE CASCADE ON DELETE CASCADE
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);
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CREATE TABLE stratummethod
61
(
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  stratummethod_id int(11) NOT NULL AUTO_INCREMENT,
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  reference_id int(11),
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  stratummethodname character varying(30) NOT NULL,
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  stratummethoddescription text,
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  stratumassignment character varying(50),
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  accessioncode character varying(255),
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  CONSTRAINT stratummethod_pkey PRIMARY KEY (stratummethod_id ),
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  CONSTRAINT stratummethod_reference_id FOREIGN KEY (reference_id)
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      REFERENCES reference (reference_id) MATCH SIMPLE
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      ON UPDATE CASCADE ON DELETE CASCADE
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);
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CREATE TABLE stratumtype
75
(
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  stratumtype_id int(11) NOT NULL AUTO_INCREMENT,
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  stratummethod_id int(11) NOT NULL,
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  stratumindex character varying(10),
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  stratumname character varying(30),
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  stratumdescription text,
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  CONSTRAINT stratumtype_pkey PRIMARY KEY (stratumtype_id ),
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  CONSTRAINT stratumtype_stratummethod_id FOREIGN KEY (stratummethod_id)
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      REFERENCES stratummethod (stratummethod_id) MATCH SIMPLE
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      ON UPDATE CASCADE ON DELETE CASCADE
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);
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CREATE TABLE namedplace
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(
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  namedplace_id int(11) NOT NULL AUTO_INCREMENT,
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  placesystem character varying(50),
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  placename character varying(100) NOT NULL,
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  placedescription text,
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  placecode character varying(15),
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  owner character varying(100),
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  reference_id int(11),
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  d_obscount int(11),
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  accessioncode character varying(255),
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  CONSTRAINT namedplace_pkey PRIMARY KEY (namedplace_id ),
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  CONSTRAINT namedplace_reference_id FOREIGN KEY (reference_id)
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      REFERENCES reference (reference_id) MATCH SIMPLE
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      ON UPDATE CASCADE ON DELETE CASCADE,
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  CONSTRAINT namedplace_keys UNIQUE (placesystem , placename )
103
);
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CREATE TABLE locationplace
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(
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  locationplace_id int(11) NOT NULL AUTO_INCREMENT,
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  location_id int(11) NOT NULL,
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  calculated int(1),
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  namedplace_id int(11) NOT NULL,
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  CONSTRAINT locationplace_pkey PRIMARY KEY (locationplace_id ),
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  CONSTRAINT locationplace_location_id FOREIGN KEY (location_id)
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      REFERENCES location (location_id) MATCH SIMPLE
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      ON UPDATE CASCADE ON DELETE CASCADE,
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  CONSTRAINT locationplace_namedplace_id FOREIGN KEY (namedplace_id)
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      REFERENCES namedplace (namedplace_id) MATCH SIMPLE
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      ON UPDATE CASCADE ON DELETE CASCADE,
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  CONSTRAINT locationplace_keys UNIQUE (location_id , namedplace_id )
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);
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CREATE TABLE project
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(
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  project_id int(11) NOT NULL AUTO_INCREMENT,
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  projectname character varying(150) NOT NULL,
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  projectdescription text,
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  startdate timestamp NULL,
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  stopdate timestamp NULL,
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  d_obscount int(11),
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  d_lastlocationaddeddate timestamp NULL,
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  accessioncode character varying(255),
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  CONSTRAINT project_pkey PRIMARY KEY (project_id ),
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  CONSTRAINT project_keys UNIQUE (projectname , startdate , stopdate )
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);
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-- New tables
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CREATE TABLE location
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(
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  location_id int(11) NOT NULL AUTO_INCREMENT,
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  authorlocationcode character varying(30),
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  reference_id int(11),
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  parent_id int(11),
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  reallatitude double precision,
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  reallongitude double precision,
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  locationaccuracy double precision,
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  confidentialitystatus int(11) NOT NULL DEFAULT 0,
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  confidentialityreason character varying(200),
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  publiclatitude double precision,
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  publiclongitude double precision,
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  `... (truncated) ...` int(11),
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  accessioncode character varying(255),
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  sublocationxposition double precision,
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  sublocationyposition double precision,
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  namedplace_id int(11),
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  CONSTRAINT location_pkey PRIMARY KEY (location_id ),
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  CONSTRAINT location_namedplace_id FOREIGN KEY (namedplace_id)
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      REFERENCES namedplace (namedplace_id) MATCH SIMPLE
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      ON UPDATE CASCADE ON DELETE CASCADE,
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  CONSTRAINT location_parent_id FOREIGN KEY (parent_id)
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      REFERENCES location (location_id) MATCH SIMPLE
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      ON UPDATE CASCADE ON DELETE CASCADE,
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  CONSTRAINT location_reference_id FOREIGN KEY (reference_id)
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      REFERENCES reference (reference_id) MATCH SIMPLE
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      ON UPDATE CASCADE ON DELETE CASCADE,
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  CONSTRAINT location_keys_code UNIQUE (reference_id , authorlocationcode ),
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  CONSTRAINT location_keys_coords UNIQUE (reference_id , reallatitude , reallongitude ),
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  CONSTRAINT location_keys_subplot_code UNIQUE (parent_id , authorlocationcode ),
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  CONSTRAINT location_keys_subplot_coords UNIQUE (parent_id , sublocationxposition , sublocationyposition )
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);
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CREATE TABLE locationevent -- VegBank's observation table.
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(
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  locationevent_id int(11) NOT NULL AUTO_INCREMENT,
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  previous_id int(11),
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  location_id int(11),
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  project_id int(11),
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  authoreventcode character varying(30),
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  `... (truncated) ...` int(11),
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  accessioncode character varying(255),
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  sourceaccessioncode character varying(100),
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  CONSTRAINT locationevent_pkey PRIMARY KEY (locationevent_id ),
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  CONSTRAINT locationevent_location_id FOREIGN KEY (location_id)
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      REFERENCES location (location_id) MATCH SIMPLE
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      ON UPDATE CASCADE ON DELETE CASCADE,
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  CONSTRAINT locationevent_project_id FOREIGN KEY (project_id)
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      REFERENCES project (project_id) MATCH SIMPLE
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      ON UPDATE CASCADE ON DELETE CASCADE,
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  CONSTRAINT locationevent_keys_accessioncode UNIQUE (location_id , project_id , sourceaccessioncode ),
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  CONSTRAINT locationevent_keys_code UNIQUE (location_id , project_id , authoreventcode )
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);
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CREATE TABLE taxonoccurrence -- VegBank's taxonobservation table.
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(
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  taxonoccurrence_id int(11) NOT NULL AUTO_INCREMENT,
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  locationevent_id int(11),
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  authorplantname character varying(255),
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  reference_id int(11),
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  taxoninferencearea double precision,
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  emb_taxonoccurrence int(11),
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  `... (truncated) ...` int(11),
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  accessioncode character varying(255),
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  CONSTRAINT taxonoccurrence_pkey PRIMARY KEY (taxonoccurrence_id ),
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  CONSTRAINT taxonoccurrence_locationevent_id FOREIGN KEY (locationevent_id)
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      REFERENCES locationevent (locationevent_id) MATCH SIMPLE
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      ON UPDATE CASCADE ON DELETE CASCADE,
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  CONSTRAINT taxonoccurrence_reference_id FOREIGN KEY (reference_id)
207
      REFERENCES reference (reference_id) MATCH SIMPLE
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      ON UPDATE CASCADE ON DELETE CASCADE
209
);
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CREATE TABLE aggregateoccurrence -- VegBank's taxonimportance table.
212
(
213
  aggregateoccurrence_id int(11) NOT NULL AUTO_INCREMENT,
214
  taxonoccurrence_id int(11) NOT NULL,
215 584 aaronmk
  taxonbinmethod_id int(11),
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  cover double precision,
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  basalarea double precision,
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  biomass double precision,
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  inferencearea double precision,
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  stratumbase double precision,
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  stratumheight double precision,
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  emb_aggregateoccurrence int(11),
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  covercode character varying(10),
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  count int(11),
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  accessioncode character varying(255),
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  sourceaccessioncode character varying(100),
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  CONSTRAINT aggregateoccurrence_pkey PRIMARY KEY (aggregateoccurrence_id ),
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  CONSTRAINT aggregateoccurrence_taxonbinmethod_id FOREIGN KEY (taxonbinmethod_id)
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      REFERENCES taxonbinmethod (taxonbinmethod_id) MATCH SIMPLE
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      ON UPDATE CASCADE ON DELETE CASCADE,
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  CONSTRAINT aggregateoccurrence_taxonoccurrence_id FOREIGN KEY (taxonoccurrence_id)
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      REFERENCES taxonoccurrence (taxonoccurrence_id) MATCH SIMPLE
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      ON UPDATE CASCADE ON DELETE CASCADE,
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  CONSTRAINT aggregateoccurrence_keys_accessioncode UNIQUE (taxonoccurrence_id , sourceaccessioncode ),
235
  CONSTRAINT aggregateoccurrence_keys_method UNIQUE (taxonoccurrence_id , taxonbinmethod_id )
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);
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CREATE TABLE individualplant -- VegBank's stemcount table.
239
(
240
  individualplant_id int(11) NOT NULL AUTO_INCREMENT,
241
  aggregateoccurrence_id int(11) NOT NULL,
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  overallheight double precision,
243
  overallheightaccuracy double precision,
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  emb_individualplant int(11),
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  authorplantcode character varying(20),
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  accessioncode character varying(255),
247
  stemcount int(11),
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  sourceaccessioncode character varying(100),
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  CONSTRAINT individualplant_pkey PRIMARY KEY (individualplant_id ),
250
  CONSTRAINT individualplant_aggregateoccurrence_id FOREIGN KEY (aggregateoccurrence_id)
251
      REFERENCES aggregateoccurrence (aggregateoccurrence_id) MATCH SIMPLE
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      ON UPDATE CASCADE ON DELETE CASCADE,
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  CONSTRAINT individualplant_keys_accessioncode UNIQUE (aggregateoccurrence_id , sourceaccessioncode ),
254
  CONSTRAINT individualplant_keys_code UNIQUE (aggregateoccurrence_id , authorplantcode )
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);
256
257
CREATE TABLE stem -- VegBank's stemlocation table.
258
(
259
  stem_id int(11) NOT NULL AUTO_INCREMENT,
260
  individualplant_id int(11) NOT NULL,
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  authorstemcode character varying(20),
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  xposition double precision,
263
  yposition double precision,
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  health character varying(50),
265
  emb_stem int(11),
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  diameter double precision,
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  height double precision,
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  heightaccuracy double precision,
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  age double precision,
270
  accessioncode character varying(255),
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  diameteraccuracy double precision,
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  sourceaccessioncode character varying(100),
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  CONSTRAINT stem_pkey PRIMARY KEY (stem_id ),
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  CONSTRAINT stem_individualplant_id FOREIGN KEY (individualplant_id)
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      REFERENCES individualplant (individualplant_id) MATCH SIMPLE
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      ON UPDATE CASCADE ON DELETE CASCADE,
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  CONSTRAINT stem_keys_accessioncode UNIQUE (individualplant_id , sourceaccessioncode ),
278
  CONSTRAINT stem_keys_code UNIQUE (individualplant_id , authorstemcode )
279 536 aaronmk
);
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CREATE TABLE specimen -- A herbarium specimen. Contains Darwin Core specimen data.
282
(
283
  specimen_id int(11) NOT NULL AUTO_INCREMENT,
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  reference_id int(11) NOT NULL,
285
  collectioncode_dwc character varying(255),
286
  catalognumber_dwc character varying(255),
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  collectiondate timestamp NULL,
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  collector_id int(11),
289
  museum_id int(11),
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  sourceaccessioncode character varying(100),
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  accessioncode character varying(255),
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  taxonoccurrence_id int(11) NOT NULL,
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  collectornumber_dwc character varying(255),
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  authorspecimencode character varying(20),
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  CONSTRAINT specimen_pkey PRIMARY KEY (specimen_id ),
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  CONSTRAINT specimen_collector_id FOREIGN KEY (collector_id)
297
      REFERENCES party (party_id) MATCH SIMPLE
298
      ON UPDATE CASCADE ON DELETE CASCADE,
299
  CONSTRAINT specimen_museum_id FOREIGN KEY (museum_id)
300
      REFERENCES party (party_id) MATCH SIMPLE
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      ON UPDATE CASCADE ON DELETE CASCADE,
302
  CONSTRAINT specimen_reference_id_fkey FOREIGN KEY (reference_id)
303
      REFERENCES reference (reference_id) MATCH SIMPLE
304
      ON UPDATE CASCADE ON DELETE CASCADE,
305
  CONSTRAINT specimen_taxonoccurrence_id FOREIGN KEY (taxonoccurrence_id)
306
      REFERENCES taxonoccurrence (taxonoccurrence_id) MATCH SIMPLE
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      ON UPDATE CASCADE ON DELETE CASCADE,
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  CONSTRAINT specimen_keys_accessioncode UNIQUE (reference_id , collectioncode_dwc , sourceaccessioncode ),
309 589 aaronmk
  CONSTRAINT specimen_keys_catalognumber UNIQUE (reference_id , collectioncode_dwc , catalognumber_dwc ),
310
  CONSTRAINT specimen_keys_code UNIQUE (reference_id , collectioncode_dwc , authorspecimencode )
311 537 aaronmk
);
312
313 544 aaronmk
CREATE TABLE voucher
314
(
315
  voucher_id int(11) NOT NULL AUTO_INCREMENT,
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  taxonoccurrence_id int(11) NOT NULL,
317
  specimen_id int(11) NOT NULL,
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  accessioncode character varying(255),
319
  CONSTRAINT voucher_pkey PRIMARY KEY (voucher_id ),
320
  CONSTRAINT voucher_specimen_id FOREIGN KEY (specimen_id)
321
      REFERENCES specimen (specimen_id) MATCH SIMPLE
322
      ON UPDATE CASCADE ON DELETE CASCADE,
323
  CONSTRAINT voucher_taxonoccurrence_id FOREIGN KEY (taxonoccurrence_id)
324
      REFERENCES taxonoccurrence (taxonoccurrence_id) MATCH SIMPLE
325
      ON UPDATE CASCADE ON DELETE CASCADE,
326
  CONSTRAINT voucher_keys UNIQUE (taxonoccurrence_id , specimen_id )
327
);
328
329 536 aaronmk
CREATE TABLE taxondetermination -- VegBank's taxoninterpretation table.
330
(
331
  taxondetermination_id int(11) NOT NULL AUTO_INCREMENT,
332
  taxonoccurrence_id int(11) NOT NULL,
333
  plantconcept_id int(11) NOT NULL,
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  party_id int(11),
335 536 aaronmk
  role_id int(11) NOT NULL,
336
  determinationtype character varying(30),
337
  reference_id int(11),
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  originaldetermination int(1) NOT NULL DEFAULT false,
339
  currentdetermination int(1) NOT NULL DEFAULT false,
340 536 aaronmk
  taxonfit character varying(50),
341
  taxonconfidence character varying(50),
342
  grouptype character varying(20),
343
  notes text,
344
  notespublic int(1),
345
  notesmgt int(1),
346
  revisions int(1),
347 591 aaronmk
  determinationdate timestamp NULL,
348 536 aaronmk
  emb_taxondetermination int(11),
349
  accessioncode character varying(255),
350
  CONSTRAINT taxondetermination_pkey PRIMARY KEY (taxondetermination_id ),
351
  CONSTRAINT taxondetermination_party_id FOREIGN KEY (party_id)
352
      REFERENCES party (party_id) MATCH SIMPLE
353
      ON UPDATE CASCADE ON DELETE CASCADE,
354
  CONSTRAINT taxondetermination_plantconcept_id FOREIGN KEY (plantconcept_id)
355
      REFERENCES plantconcept (plantconcept_id) MATCH SIMPLE
356
      ON UPDATE CASCADE ON DELETE CASCADE,
357
  CONSTRAINT taxondetermination_reference_id FOREIGN KEY (reference_id)
358
      REFERENCES reference (reference_id) MATCH SIMPLE
359
      ON UPDATE CASCADE ON DELETE CASCADE,
360
  CONSTRAINT taxondetermination_role_id FOREIGN KEY (role_id)
361 596 aaronmk
      REFERENCES role (role_id) MATCH SIMPLE
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      ON UPDATE CASCADE ON DELETE CASCADE,
363
  CONSTRAINT taxondetermination_taxonoccurrence_id FOREIGN KEY (taxonoccurrence_id)
364
      REFERENCES taxonoccurrence (taxonoccurrence_id) MATCH SIMPLE
365
      ON UPDATE CASCADE ON DELETE CASCADE
366
);
367
368 552 aaronmk
CREATE TABLE stratum
369
(
370
  stratum_id int(11) NOT NULL AUTO_INCREMENT,
371
  locationevent_id int(11) NOT NULL,
372
  stratumtype_id int(11) NOT NULL,
373
  stratummethod_id int(11),
374
  stratumname character varying(30),
375
  stratumheight double precision,
376
  stratumbase double precision,
377
  stratumcover double precision,
378
  stratumdescription character varying(200),
379
  CONSTRAINT stratum_pkey PRIMARY KEY (stratum_id ),
380
  CONSTRAINT stratum_locationevent_id FOREIGN KEY (locationevent_id)
381
      REFERENCES locationevent (locationevent_id) MATCH SIMPLE
382 592 aaronmk
      ON UPDATE CASCADE ON DELETE CASCADE,
383
  CONSTRAINT stratum_stratumtype_id FOREIGN KEY (stratumtype_id)
384
      REFERENCES stratumtype (stratumtype_id) MATCH SIMPLE
385 559 aaronmk
      ON UPDATE CASCADE ON DELETE CASCADE
386 552 aaronmk
);
387
388 537 aaronmk
CREATE TABLE sizeclass -- A range of size measurements used to aggregate organisms.
389 536 aaronmk
(
390 537 aaronmk
  sizeclass_id int(11) NOT NULL AUTO_INCREMENT,
391
  mindiameter double precision,
392
  minheight double precision,
393
  maxdiameter double precision,
394
  maxheight double precision,
395 536 aaronmk
  accessioncode character varying(255),
396 537 aaronmk
  CONSTRAINT sizeclass_pkey PRIMARY KEY (sizeclass_id )
397 536 aaronmk
);
398
399 592 aaronmk
CREATE TABLE taxonbinmethod
400 536 aaronmk
(
401 584 aaronmk
  taxonbinmethod_id int(11) NOT NULL,
402 592 aaronmk
  label character varying(255),
403
  stratumtype_id int(11),
404 536 aaronmk
  sizeclass_id int(11),
405
  coverindex_id int(11),
406
  accessioncode character varying(255),
407 584 aaronmk
  CONSTRAINT taxonbinmethod_pkey PRIMARY KEY (taxonbinmethod_id ),
408
  CONSTRAINT taxonbinmethod_sizeclass_id FOREIGN KEY (sizeclass_id)
409 536 aaronmk
      REFERENCES sizeclass (sizeclass_id) MATCH SIMPLE
410 583 aaronmk
      ON UPDATE CASCADE ON DELETE CASCADE,
411 592 aaronmk
  CONSTRAINT taxonbinmethod_stratumtype_id FOREIGN KEY (stratumtype_id)
412
      REFERENCES stratumtype (stratumtype_id) MATCH SIMPLE
413
      ON UPDATE CASCADE ON DELETE CASCADE
414 536 aaronmk
);