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537
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aaronmk
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-- Existing tables
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CREATE TABLE aux_role
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(
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role_id int(11) NOT NULL AUTO_INCREMENT,
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rolecode character varying(30) NOT NULL,
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roledescription character varying(200),
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CONSTRAINT aux_role_pkey PRIMARY KEY (role_id )
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);
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CREATE TABLE reference
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(
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reference_id int(11) NOT NULL AUTO_INCREMENT,
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shortname character varying(250),
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fulltext__ text,
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referencetype character varying(250)
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);
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CREATE TABLE party
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(
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party_id int(11) NOT NULL AUTO_INCREMENT,
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salutation character varying(20),
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givenname character varying(50),
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middlename character varying(50),
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surname character varying(50),
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organizationname character varying(100)
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);
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CREATE TABLE plantname
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(
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plantname_id int(11) NOT NULL AUTO_INCREMENT,
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plantname character varying(255) NOT NULL,
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reference_id int(11),
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dateentered timestamp 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)
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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 plantconcept
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(
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plantconcept_id int(11) NOT NULL AUTO_INCREMENT,
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plantname_id int(11) NOT NULL,
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reference_id int(11) NOT NULL,
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plantname character varying(200),
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plantcode character varying(23),
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plantdescription text,
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d_obscount int(11),
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d_currentaccepted int(1),
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accessioncode character varying(255),
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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 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 )
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);
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566
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aaronmk
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CREATE TABLE locationplace
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552
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aaronmk
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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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566
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aaronmk
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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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552
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aaronmk
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REFERENCES location (location_id) MATCH SIMPLE
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ON UPDATE CASCADE ON DELETE CASCADE,
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566
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aaronmk
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CONSTRAINT locationplace_namedplace_id FOREIGN KEY (namedplace_id)
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552
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aaronmk
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REFERENCES namedplace (namedplace_id) MATCH SIMPLE
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ON UPDATE CASCADE ON DELETE CASCADE,
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566
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aaronmk
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CONSTRAINT locationplace_keys UNIQUE (location_id , namedplace_id )
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552
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aaronmk
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);
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537
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aaronmk
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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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578
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aaronmk
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startdate timestamp NULL,
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stopdate timestamp NULL,
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537
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aaronmk
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d_obscount int(11),
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578
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aaronmk
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d_lastlocationaddeddate timestamp NULL,
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537
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aaronmk
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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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536
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aaronmk
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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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582
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aaronmk
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authorlocationcode character varying(30),
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536
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aaronmk
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reference_id int(11),
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parent_id int(11),
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117 |
582
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aaronmk
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reallatitude double precision,
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reallongitude double precision,
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119 |
536
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aaronmk
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locationaccuracy double precision,
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120 |
575
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aaronmk
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confidentialitystatus int(11) NOT NULL DEFAULT 0,
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536
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aaronmk
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confidentialityreason character varying(200),
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580
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aaronmk
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publiclatitude double precision,
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publiclongitude double precision,
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561
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aaronmk
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`... (truncated) ...` int(11),
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536
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aaronmk
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accessioncode character varying(255),
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126 |
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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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133 |
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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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136 |
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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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139 |
582
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aaronmk
|
CONSTRAINT location_keys_code UNIQUE (reference_id , authorlocationcode ),
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140 |
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CONSTRAINT location_keys_coords UNIQUE (reference_id , reallatitude , reallongitude ),
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141 |
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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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143 |
536
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aaronmk
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);
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144 |
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145 |
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CREATE TABLE locationevent -- VegBank's observation table.
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146 |
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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) NOT NULL,
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project_id int(11),
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151 |
570
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aaronmk
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authoreventcode character varying(30),
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152 |
561
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aaronmk
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`... (truncated) ...` int(11),
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153 |
536
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aaronmk
|
accessioncode character varying(255),
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154 |
586
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aaronmk
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sourceaccessioncode character varying(100),
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155 |
536
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aaronmk
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CONSTRAINT locationevent_pkey PRIMARY KEY (locationevent_id ),
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156 |
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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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162 |
586
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aaronmk
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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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164 |
536
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aaronmk
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);
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165 |
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166 |
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CREATE TABLE taxonoccurrence -- VegBank's taxonobservation table.
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167 |
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(
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taxonoccurrence_id int(11) NOT NULL AUTO_INCREMENT,
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169 |
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locationevent_id int(11) NOT NULL,
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170 |
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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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173 |
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emb_taxonoccurrence int(11),
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174 |
561
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aaronmk
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`... (truncated) ...` int(11),
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175 |
536
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aaronmk
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accessioncode character varying(255),
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176 |
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CONSTRAINT taxonoccurrence_pkey PRIMARY KEY (taxonoccurrence_id ),
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177 |
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CONSTRAINT taxonoccurrence_locationevent_id FOREIGN KEY (locationevent_id)
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178 |
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REFERENCES locationevent (locationevent_id) MATCH SIMPLE
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179 |
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ON UPDATE CASCADE ON DELETE CASCADE,
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180 |
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CONSTRAINT taxonoccurrence_reference_id FOREIGN KEY (reference_id)
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181 |
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REFERENCES reference (reference_id) MATCH SIMPLE
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182 |
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ON UPDATE CASCADE ON DELETE CASCADE
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183 |
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);
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184 |
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185 |
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CREATE TABLE aggregateoccurrence -- VegBank's taxonimportance table.
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186 |
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(
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aggregateoccurrence_id int(11) NOT NULL AUTO_INCREMENT,
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188 |
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taxonoccurrence_id int(11) NOT NULL,
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189 |
584
|
aaronmk
|
taxonbinmethod_id int(11),
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190 |
536
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aaronmk
|
cover double precision,
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191 |
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basalarea double precision,
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192 |
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biomass double precision,
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193 |
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inferencearea double precision,
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194 |
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stratumbase double precision,
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195 |
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stratumheight double precision,
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196 |
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emb_aggregateoccurrence int(11),
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197 |
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covercode character varying(10),
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count int(11) NOT NULL,
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199 |
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accessioncode character varying(255),
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200 |
586
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aaronmk
|
sourceaccessioncode character varying(100),
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201 |
536
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aaronmk
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CONSTRAINT aggregateoccurrence_pkey PRIMARY KEY (aggregateoccurrence_id ),
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202 |
584
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aaronmk
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CONSTRAINT aggregateoccurrence_taxonbinmethod_id FOREIGN KEY (taxonbinmethod_id)
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203 |
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REFERENCES taxonbinmethod (taxonbinmethod_id) MATCH SIMPLE
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204 |
536
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aaronmk
|
ON UPDATE CASCADE ON DELETE CASCADE,
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205 |
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CONSTRAINT aggregateoccurrence_taxonoccurrence_id FOREIGN KEY (taxonoccurrence_id)
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206 |
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REFERENCES taxonoccurrence (taxonoccurrence_id) MATCH SIMPLE
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207 |
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ON UPDATE CASCADE ON DELETE CASCADE,
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208 |
586
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aaronmk
|
CONSTRAINT aggregateoccurrence_keys_accessioncode UNIQUE (taxonoccurrence_id , sourceaccessioncode ),
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209 |
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CONSTRAINT aggregateoccurrence_keys_method UNIQUE (taxonoccurrence_id , taxonbinmethod_id )
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210 |
536
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aaronmk
|
);
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211 |
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212 |
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CREATE TABLE individualplant -- VegBank's stemcount table.
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213 |
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(
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214 |
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individualplant_id int(11) NOT NULL AUTO_INCREMENT,
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215 |
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aggregateoccurrence_id int(11) NOT NULL,
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216 |
563
|
aaronmk
|
overallheight double precision,
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217 |
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overallheightaccuracy double precision,
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218 |
536
|
aaronmk
|
emb_individualplant int(11),
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219 |
570
|
aaronmk
|
authorplantcode character varying(20),
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220 |
536
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aaronmk
|
accessioncode character varying(255),
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221 |
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stemcount int(11),
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222 |
586
|
aaronmk
|
sourceaccessioncode character varying(100),
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223 |
536
|
aaronmk
|
CONSTRAINT individualplant_pkey PRIMARY KEY (individualplant_id ),
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224 |
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CONSTRAINT individualplant_aggregateoccurrence_id FOREIGN KEY (aggregateoccurrence_id)
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225 |
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REFERENCES aggregateoccurrence (aggregateoccurrence_id) MATCH SIMPLE
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226 |
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ON UPDATE CASCADE ON DELETE CASCADE,
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227 |
586
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aaronmk
|
CONSTRAINT individualplant_keys_accessioncode UNIQUE (aggregateoccurrence_id , sourceaccessioncode ),
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228 |
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CONSTRAINT individualplant_keys_code UNIQUE (aggregateoccurrence_id , authorplantcode )
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229 |
536
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aaronmk
|
);
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230 |
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231 |
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CREATE TABLE stem -- VegBank's stemlocation table.
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232 |
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(
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233 |
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stem_id int(11) NOT NULL AUTO_INCREMENT,
|
234 |
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individualplant_id int(11) NOT NULL,
|
235 |
570
|
aaronmk
|
authorstemcode character varying(20),
|
236 |
536
|
aaronmk
|
xposition double precision,
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237 |
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yposition double precision,
|
238 |
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health character varying(50),
|
239 |
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emb_stem int(11),
|
240 |
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diameter double precision,
|
241 |
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height double precision,
|
242 |
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heightaccuracy double precision,
|
243 |
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age double precision,
|
244 |
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accessioncode character varying(255),
|
245 |
556
|
aaronmk
|
diameteraccuracy double precision,
|
246 |
586
|
aaronmk
|
sourceaccessioncode character varying(100),
|
247 |
536
|
aaronmk
|
CONSTRAINT stem_pkey PRIMARY KEY (stem_id ),
|
248 |
|
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CONSTRAINT stem_individualplant_id FOREIGN KEY (individualplant_id)
|
249 |
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REFERENCES individualplant (individualplant_id) MATCH SIMPLE
|
250 |
|
|
ON UPDATE CASCADE ON DELETE CASCADE,
|
251 |
586
|
aaronmk
|
CONSTRAINT stem_keys_accessioncode UNIQUE (individualplant_id , sourceaccessioncode ),
|
252 |
|
|
CONSTRAINT stem_keys_code UNIQUE (individualplant_id , authorstemcode )
|
253 |
536
|
aaronmk
|
);
|
254 |
|
|
|
255 |
537
|
aaronmk
|
CREATE TABLE specimen -- A herbarium specimen. Contains Darwin Core specimen data.
|
256 |
|
|
(
|
257 |
|
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specimen_id int(11) NOT NULL AUTO_INCREMENT,
|
258 |
|
|
reference_id int(11) NOT NULL,
|
259 |
|
|
collectioncode_dwc character varying(255),
|
260 |
|
|
catalognumber_dwc character varying(255),
|
261 |
578
|
aaronmk
|
collectiondate timestamp NULL,
|
262 |
537
|
aaronmk
|
collector_id int(11),
|
263 |
|
|
museum_id int(11),
|
264 |
586
|
aaronmk
|
sourceaccessioncode character varying(100),
|
265 |
537
|
aaronmk
|
accessioncode character varying(255),
|
266 |
576
|
aaronmk
|
taxonoccurrence_id int(11) NOT NULL,
|
267 |
572
|
aaronmk
|
collectornumber_dwc character varying(255),
|
268 |
589
|
aaronmk
|
authorspecimencode character varying(20),
|
269 |
537
|
aaronmk
|
CONSTRAINT specimen_pkey PRIMARY KEY (specimen_id ),
|
270 |
|
|
CONSTRAINT specimen_collector_id FOREIGN KEY (collector_id)
|
271 |
|
|
REFERENCES party (party_id) MATCH SIMPLE
|
272 |
|
|
ON UPDATE CASCADE ON DELETE CASCADE,
|
273 |
|
|
CONSTRAINT specimen_museum_id FOREIGN KEY (museum_id)
|
274 |
|
|
REFERENCES party (party_id) MATCH SIMPLE
|
275 |
|
|
ON UPDATE CASCADE ON DELETE CASCADE,
|
276 |
|
|
CONSTRAINT specimen_reference_id_fkey FOREIGN KEY (reference_id)
|
277 |
|
|
REFERENCES reference (reference_id) MATCH SIMPLE
|
278 |
|
|
ON UPDATE CASCADE ON DELETE CASCADE,
|
279 |
|
|
CONSTRAINT specimen_taxonoccurrence_id FOREIGN KEY (taxonoccurrence_id)
|
280 |
|
|
REFERENCES taxonoccurrence (taxonoccurrence_id) MATCH SIMPLE
|
281 |
|
|
ON UPDATE CASCADE ON DELETE CASCADE,
|
282 |
586
|
aaronmk
|
CONSTRAINT specimen_keys_accessioncode UNIQUE (reference_id , collectioncode_dwc , sourceaccessioncode ),
|
283 |
589
|
aaronmk
|
CONSTRAINT specimen_keys_catalognumber UNIQUE (reference_id , collectioncode_dwc , catalognumber_dwc ),
|
284 |
|
|
CONSTRAINT specimen_keys_code UNIQUE (reference_id , collectioncode_dwc , authorspecimencode )
|
285 |
537
|
aaronmk
|
);
|
286 |
|
|
|
287 |
544
|
aaronmk
|
CREATE TABLE voucher
|
288 |
|
|
(
|
289 |
|
|
voucher_id int(11) NOT NULL AUTO_INCREMENT,
|
290 |
545
|
aaronmk
|
taxonoccurrence_id int(11) NOT NULL,
|
291 |
|
|
specimen_id int(11) NOT NULL,
|
292 |
544
|
aaronmk
|
accessioncode character varying(255),
|
293 |
|
|
CONSTRAINT voucher_pkey PRIMARY KEY (voucher_id ),
|
294 |
|
|
CONSTRAINT voucher_specimen_id FOREIGN KEY (specimen_id)
|
295 |
|
|
REFERENCES specimen (specimen_id) MATCH SIMPLE
|
296 |
|
|
ON UPDATE CASCADE ON DELETE CASCADE,
|
297 |
|
|
CONSTRAINT voucher_taxonoccurrence_id FOREIGN KEY (taxonoccurrence_id)
|
298 |
|
|
REFERENCES taxonoccurrence (taxonoccurrence_id) MATCH SIMPLE
|
299 |
|
|
ON UPDATE CASCADE ON DELETE CASCADE,
|
300 |
|
|
CONSTRAINT voucher_keys UNIQUE (taxonoccurrence_id , specimen_id )
|
301 |
|
|
);
|
302 |
|
|
|
303 |
536
|
aaronmk
|
CREATE TABLE taxondetermination -- VegBank's taxoninterpretation table.
|
304 |
|
|
(
|
305 |
|
|
taxondetermination_id int(11) NOT NULL AUTO_INCREMENT,
|
306 |
|
|
taxonoccurrence_id int(11) NOT NULL,
|
307 |
|
|
plantconcept_id int(11) NOT NULL,
|
308 |
575
|
aaronmk
|
party_id int(11),
|
309 |
536
|
aaronmk
|
role_id int(11) NOT NULL,
|
310 |
|
|
determinationtype character varying(30),
|
311 |
|
|
reference_id int(11),
|
312 |
575
|
aaronmk
|
originaldetermination int(1) NOT NULL DEFAULT false,
|
313 |
|
|
currentdetermination int(1) NOT NULL DEFAULT false,
|
314 |
536
|
aaronmk
|
taxonfit character varying(50),
|
315 |
|
|
taxonconfidence character varying(50),
|
316 |
|
|
grouptype character varying(20),
|
317 |
|
|
notes text,
|
318 |
|
|
notespublic int(1),
|
319 |
|
|
notesmgt int(1),
|
320 |
|
|
revisions int(1),
|
321 |
537
|
aaronmk
|
determinationdate timestamp NOT NULL,
|
322 |
536
|
aaronmk
|
emb_taxondetermination int(11),
|
323 |
|
|
accessioncode character varying(255),
|
324 |
|
|
CONSTRAINT taxondetermination_pkey PRIMARY KEY (taxondetermination_id ),
|
325 |
|
|
CONSTRAINT taxondetermination_party_id FOREIGN KEY (party_id)
|
326 |
|
|
REFERENCES party (party_id) MATCH SIMPLE
|
327 |
|
|
ON UPDATE CASCADE ON DELETE CASCADE,
|
328 |
|
|
CONSTRAINT taxondetermination_plantconcept_id FOREIGN KEY (plantconcept_id)
|
329 |
|
|
REFERENCES plantconcept (plantconcept_id) MATCH SIMPLE
|
330 |
|
|
ON UPDATE CASCADE ON DELETE CASCADE,
|
331 |
|
|
CONSTRAINT taxondetermination_reference_id FOREIGN KEY (reference_id)
|
332 |
|
|
REFERENCES reference (reference_id) MATCH SIMPLE
|
333 |
|
|
ON UPDATE CASCADE ON DELETE CASCADE,
|
334 |
|
|
CONSTRAINT taxondetermination_role_id FOREIGN KEY (role_id)
|
335 |
|
|
REFERENCES aux_role (role_id) MATCH SIMPLE
|
336 |
|
|
ON UPDATE CASCADE ON DELETE CASCADE,
|
337 |
|
|
CONSTRAINT taxondetermination_taxonoccurrence_id FOREIGN KEY (taxonoccurrence_id)
|
338 |
|
|
REFERENCES taxonoccurrence (taxonoccurrence_id) MATCH SIMPLE
|
339 |
|
|
ON UPDATE CASCADE ON DELETE CASCADE
|
340 |
|
|
);
|
341 |
|
|
|
342 |
552
|
aaronmk
|
CREATE TABLE stratum
|
343 |
|
|
(
|
344 |
|
|
stratum_id int(11) NOT NULL AUTO_INCREMENT,
|
345 |
|
|
locationevent_id int(11) NOT NULL,
|
346 |
|
|
stratumtype_id int(11) NOT NULL,
|
347 |
|
|
stratummethod_id int(11),
|
348 |
|
|
stratumname character varying(30),
|
349 |
|
|
stratumheight double precision,
|
350 |
|
|
stratumbase double precision,
|
351 |
|
|
stratumcover double precision,
|
352 |
|
|
stratumdescription character varying(200),
|
353 |
|
|
CONSTRAINT stratum_pkey PRIMARY KEY (stratum_id ),
|
354 |
|
|
CONSTRAINT stratum_locationevent_id FOREIGN KEY (locationevent_id)
|
355 |
|
|
REFERENCES locationevent (locationevent_id) MATCH SIMPLE
|
356 |
559
|
aaronmk
|
ON UPDATE CASCADE ON DELETE CASCADE
|
357 |
552
|
aaronmk
|
);
|
358 |
|
|
|
359 |
537
|
aaronmk
|
CREATE TABLE sizeclass -- A range of size measurements used to aggregate organisms.
|
360 |
536
|
aaronmk
|
(
|
361 |
537
|
aaronmk
|
sizeclass_id int(11) NOT NULL AUTO_INCREMENT,
|
362 |
|
|
mindiameter double precision,
|
363 |
|
|
minheight double precision,
|
364 |
|
|
maxdiameter double precision,
|
365 |
|
|
maxheight double precision,
|
366 |
536
|
aaronmk
|
accessioncode character varying(255),
|
367 |
537
|
aaronmk
|
CONSTRAINT sizeclass_pkey PRIMARY KEY (sizeclass_id )
|
368 |
536
|
aaronmk
|
);
|
369 |
|
|
|
370 |
584
|
aaronmk
|
CREATE TABLE taxonbinmethod -- Defines a set of aggregate measurements. Used by aggregateoccurrence to define how measurements were aggregated.
|
371 |
536
|
aaronmk
|
(
|
372 |
584
|
aaronmk
|
taxonbinmethod_id int(11) NOT NULL,
|
373 |
583
|
aaronmk
|
label character varying(255) NOT NULL DEFAULT '',
|
374 |
536
|
aaronmk
|
stratum_id int(11),
|
375 |
|
|
sizeclass_id int(11),
|
376 |
|
|
coverindex_id int(11),
|
377 |
|
|
accessioncode character varying(255),
|
378 |
584
|
aaronmk
|
CONSTRAINT taxonbinmethod_pkey PRIMARY KEY (taxonbinmethod_id ),
|
379 |
|
|
CONSTRAINT taxonbinmethod_sizeclass_id FOREIGN KEY (sizeclass_id)
|
380 |
536
|
aaronmk
|
REFERENCES sizeclass (sizeclass_id) MATCH SIMPLE
|
381 |
583
|
aaronmk
|
ON UPDATE CASCADE ON DELETE CASCADE,
|
382 |
584
|
aaronmk
|
CONSTRAINT taxonbinmethod_keys UNIQUE (label , stratum_id , sizeclass_id , coverindex_id )
|
383 |
536
|
aaronmk
|
);
|