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1
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-- Existing tables
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2
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3
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CREATE TABLE role
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4
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(
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5
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role_id int(11) NOT NULL AUTO_INCREMENT,
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6
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rolecode character varying(30) NOT NULL,
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7
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roledescription character varying(200),
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8
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CONSTRAINT role_pkey PRIMARY KEY (role_id )
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9
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);
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10
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11
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CREATE TABLE reference
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12
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(
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reference_id int(11) NOT NULL AUTO_INCREMENT,
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14
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shortname character varying(250),
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15
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fulltext__ text,
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16
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referencetype character varying(250)
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17
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);
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18
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19
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CREATE TABLE party
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20
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(
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21
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party_id int(11) NOT NULL AUTO_INCREMENT,
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22
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salutation character varying(20),
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23
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givenname character varying(50),
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24
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middlename character varying(50),
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25
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surname character varying(50),
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26
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organizationname character varying(100)
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27
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);
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28
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29
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CREATE TABLE plantname
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30
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(
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31
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plantname_id int(11) NOT NULL AUTO_INCREMENT,
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32
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plantname character varying(255) NOT NULL,
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33
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reference_id int(11),
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34
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dateentered timestamp NULL DEFAULT now(),
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35
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CONSTRAINT plantname_pkey PRIMARY KEY (plantname_id ),
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36
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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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38
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ON UPDATE CASCADE ON DELETE CASCADE
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39
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);
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40
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41
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CREATE TABLE plantconcept
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42
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(
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43
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plantconcept_id int(11) NOT NULL AUTO_INCREMENT,
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44
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plantname_id int(11) NOT NULL,
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45
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reference_id int(11),
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46
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plantcode character varying(23),
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47
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plantdescription text,
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48
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d_obscount int(11),
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49
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d_currentaccepted int(1),
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50
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accessioncode character varying(255),
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51
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CONSTRAINT plantconcept_pkey PRIMARY KEY (plantconcept_id ),
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52
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CONSTRAINT plantconcept_plantname_id FOREIGN KEY (plantname_id)
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53
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REFERENCES plantname (plantname_id) MATCH SIMPLE
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54
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ON UPDATE CASCADE ON DELETE CASCADE,
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55
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CONSTRAINT plantconcept_reference_id FOREIGN KEY (reference_id)
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56
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REFERENCES reference (reference_id) MATCH SIMPLE
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57
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ON UPDATE CASCADE ON DELETE CASCADE
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58
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);
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59
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60
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CREATE TABLE stratummethod
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61
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(
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62
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stratummethod_id int(11) NOT NULL AUTO_INCREMENT,
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63
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reference_id int(11),
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64
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stratummethodname character varying(30) NOT NULL,
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65
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stratummethoddescription text,
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66
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stratumassignment character varying(50),
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67
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accessioncode character varying(255),
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68
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CONSTRAINT stratummethod_pkey PRIMARY KEY (stratummethod_id ),
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69
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CONSTRAINT stratummethod_reference_id FOREIGN KEY (reference_id)
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70
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REFERENCES reference (reference_id) MATCH SIMPLE
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71
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ON UPDATE CASCADE ON DELETE CASCADE
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72
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);
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73
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74
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CREATE TABLE stratumtype
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75
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(
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76
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stratumtype_id int(11) NOT NULL AUTO_INCREMENT,
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77
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stratummethod_id int(11) NOT NULL,
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78
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stratumindex character varying(10),
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79
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stratumname character varying(30),
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80
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stratumdescription text,
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81
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CONSTRAINT stratumtype_pkey PRIMARY KEY (stratumtype_id ),
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82
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CONSTRAINT stratumtype_stratummethod_id FOREIGN KEY (stratummethod_id)
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83
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REFERENCES stratummethod (stratummethod_id) MATCH SIMPLE
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84
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ON UPDATE CASCADE ON DELETE CASCADE
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85
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);
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86
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87
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CREATE TABLE namedplace
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88
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(
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89
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namedplace_id int(11) NOT NULL AUTO_INCREMENT,
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90
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placesystem character varying(50),
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91
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placename character varying(100) NOT NULL,
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92
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placedescription text,
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93
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placecode character varying(15),
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94
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owner character varying(100),
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95
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reference_id int(11),
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96
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d_obscount int(11),
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97
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accessioncode character varying(255),
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98
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CONSTRAINT namedplace_pkey PRIMARY KEY (namedplace_id ),
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99
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CONSTRAINT namedplace_reference_id FOREIGN KEY (reference_id)
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100
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REFERENCES reference (reference_id) MATCH SIMPLE
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101
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ON UPDATE CASCADE ON DELETE CASCADE,
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102
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CONSTRAINT namedplace_keys UNIQUE (placesystem , placename )
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103
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);
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104
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105
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CREATE TABLE locationplace
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106
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(
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107
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locationplace_id int(11) NOT NULL AUTO_INCREMENT,
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108
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location_id int(11) NOT NULL,
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109
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calculated int(1),
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110
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namedplace_id int(11) NOT NULL,
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111
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CONSTRAINT locationplace_pkey PRIMARY KEY (locationplace_id ),
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112
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CONSTRAINT locationplace_location_id FOREIGN KEY (location_id)
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113
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REFERENCES location (location_id) MATCH SIMPLE
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114
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ON UPDATE CASCADE ON DELETE CASCADE,
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115
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CONSTRAINT locationplace_namedplace_id FOREIGN KEY (namedplace_id)
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116
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REFERENCES namedplace (namedplace_id) MATCH SIMPLE
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117
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ON UPDATE CASCADE ON DELETE CASCADE,
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118
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CONSTRAINT locationplace_keys UNIQUE (location_id , namedplace_id )
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119
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);
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120
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121
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CREATE TABLE project
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122
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(
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123
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project_id int(11) NOT NULL AUTO_INCREMENT,
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124
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projectname character varying(150) NOT NULL,
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125
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projectdescription text,
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126
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startdate timestamp NULL,
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127
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stopdate timestamp NULL,
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128
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d_obscount int(11),
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129
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d_lastlocationaddeddate timestamp NULL,
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130
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accessioncode character varying(255),
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131
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CONSTRAINT project_pkey PRIMARY KEY (project_id ),
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132
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CONSTRAINT project_keys UNIQUE (projectname , startdate , stopdate )
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133
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);
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134
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135
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-- New tables
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136
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137
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CREATE TABLE location
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138
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(
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139
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location_id int(11) NOT NULL AUTO_INCREMENT,
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140
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authorlocationcode character varying(30),
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141
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reference_id int(11),
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142
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parent_id int(11),
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143
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reallatitude double precision,
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144
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reallongitude double precision,
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145
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locationaccuracy double precision,
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146
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confidentialitystatus int(11) NOT NULL DEFAULT 0,
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147
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confidentialityreason character varying(200),
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148
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publiclatitude double precision,
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149
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publiclongitude double precision,
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150
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`... (truncated) ...` int(11),
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151
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accessioncode character varying(255),
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152
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sublocationxposition double precision,
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153
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sublocationyposition double precision,
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154
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namedplace_id int(11),
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155
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CONSTRAINT location_pkey PRIMARY KEY (location_id ),
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156
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CONSTRAINT location_namedplace_id FOREIGN KEY (namedplace_id)
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157
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REFERENCES namedplace (namedplace_id) MATCH SIMPLE
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158
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ON UPDATE CASCADE ON DELETE CASCADE,
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159
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CONSTRAINT location_parent_id FOREIGN KEY (parent_id)
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160
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REFERENCES location (location_id) MATCH SIMPLE
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161
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ON UPDATE CASCADE ON DELETE CASCADE,
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162
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CONSTRAINT location_reference_id FOREIGN KEY (reference_id)
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163
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REFERENCES reference (reference_id) MATCH SIMPLE
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164
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ON UPDATE CASCADE ON DELETE CASCADE,
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165
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CONSTRAINT location_keys_code UNIQUE (reference_id , authorlocationcode ),
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166
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CONSTRAINT location_keys_coords UNIQUE (reference_id , reallatitude , reallongitude ),
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167
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CONSTRAINT location_keys_subplot_code UNIQUE (parent_id , authorlocationcode ),
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168
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CONSTRAINT location_keys_subplot_coords UNIQUE (parent_id , sublocationxposition , sublocationyposition )
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169
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);
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170
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171
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CREATE TABLE locationevent -- VegBank's observation table.
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172
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(
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173
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locationevent_id int(11) NOT NULL AUTO_INCREMENT,
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174
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previous_id int(11),
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175
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location_id int(11),
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176
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project_id int(11),
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177
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authoreventcode character varying(30),
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178
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`... (truncated) ...` int(11),
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179
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accessioncode character varying(255),
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180
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sourceaccessioncode character varying(100),
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181
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CONSTRAINT locationevent_pkey PRIMARY KEY (locationevent_id ),
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182
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CONSTRAINT locationevent_location_id FOREIGN KEY (location_id)
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183
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REFERENCES location (location_id) MATCH SIMPLE
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184
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ON UPDATE CASCADE ON DELETE CASCADE,
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185
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CONSTRAINT locationevent_project_id FOREIGN KEY (project_id)
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186
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REFERENCES project (project_id) MATCH SIMPLE
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187
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ON UPDATE CASCADE ON DELETE CASCADE,
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188
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CONSTRAINT locationevent_keys_accessioncode UNIQUE (location_id , project_id , sourceaccessioncode ),
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189
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CONSTRAINT locationevent_keys_code UNIQUE (location_id , project_id , authoreventcode )
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190
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);
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191
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192
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CREATE TABLE taxonoccurrence -- VegBank's taxonobservation table.
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193
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(
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194
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taxonoccurrence_id int(11) NOT NULL AUTO_INCREMENT,
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195
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locationevent_id int(11),
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196
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authorplantname character varying(255),
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197
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reference_id int(11),
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198
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taxoninferencearea double precision,
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199
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emb_taxonoccurrence int(11),
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200
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`... (truncated) ...` int(11),
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201
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accessioncode character varying(255),
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202
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CONSTRAINT taxonoccurrence_pkey PRIMARY KEY (taxonoccurrence_id ),
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203
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CONSTRAINT taxonoccurrence_locationevent_id FOREIGN KEY (locationevent_id)
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204
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REFERENCES locationevent (locationevent_id) MATCH SIMPLE
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205
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ON UPDATE CASCADE ON DELETE CASCADE,
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206
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CONSTRAINT taxonoccurrence_reference_id FOREIGN KEY (reference_id)
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207
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REFERENCES reference (reference_id) MATCH SIMPLE
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208
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ON UPDATE CASCADE ON DELETE CASCADE
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209
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);
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210
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211
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CREATE TABLE aggregateoccurrence -- VegBank's taxonimportance table.
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212
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(
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213
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aggregateoccurrence_id int(11) NOT NULL AUTO_INCREMENT,
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214
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taxonoccurrence_id int(11) NOT NULL,
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215
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taxonbinmethod_id int(11),
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216
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cover double precision,
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217
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basalarea double precision,
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218
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biomass double precision,
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219
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inferencearea double precision,
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220
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stratumbase double precision,
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221
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stratumheight double precision,
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222
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emb_aggregateoccurrence int(11),
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223
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covercode character varying(10),
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224
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count int(11),
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225
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accessioncode character varying(255),
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226
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sourceaccessioncode character varying(100),
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227
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individualplant_id int(11),
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228
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CONSTRAINT aggregateoccurrence_pkey PRIMARY KEY (aggregateoccurrence_id ),
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229
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CONSTRAINT aggregateoccurrence_individualplant_id FOREIGN KEY (individualplant_id)
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230
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REFERENCES individualplant (individualplant_id) MATCH SIMPLE
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231
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ON UPDATE CASCADE ON DELETE CASCADE,
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232
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CONSTRAINT aggregateoccurrence_taxonbinmethod_id FOREIGN KEY (taxonbinmethod_id)
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233
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REFERENCES taxonbinmethod (taxonbinmethod_id) MATCH SIMPLE
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234
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ON UPDATE CASCADE ON DELETE CASCADE,
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235
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CONSTRAINT aggregateoccurrence_taxonoccurrence_id FOREIGN KEY (taxonoccurrence_id)
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236
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REFERENCES taxonoccurrence (taxonoccurrence_id) MATCH SIMPLE
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237
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ON UPDATE CASCADE ON DELETE CASCADE,
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238
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CONSTRAINT aggregateoccurrence_keys_accessioncode UNIQUE (taxonoccurrence_id , sourceaccessioncode ),
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239
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CONSTRAINT aggregateoccurrence_keys_method UNIQUE (taxonoccurrence_id , taxonbinmethod_id )
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240
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);
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241
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242
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CREATE TABLE individualplant -- VegBank's stemcount table.
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243
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(
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244
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individualplant_id int(11) NOT NULL AUTO_INCREMENT,
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245
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aggregateoccurrence_id int(11) NOT NULL,
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246
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overallheight double precision,
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247
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overallheightaccuracy double precision,
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248
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emb_individualplant int(11),
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249
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authorplantcode character varying(20),
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250
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accessioncode character varying(255),
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251
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stemcount int(11),
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252
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sourceaccessioncode character varying(100),
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253
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CONSTRAINT individualplant_pkey PRIMARY KEY (individualplant_id ),
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254
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CONSTRAINT individualplant_aggregateoccurrence_id FOREIGN KEY (aggregateoccurrence_id)
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255
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REFERENCES aggregateoccurrence (aggregateoccurrence_id) MATCH SIMPLE
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256
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ON UPDATE CASCADE ON DELETE CASCADE,
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257
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CONSTRAINT individualplant_keys_accessioncode UNIQUE (aggregateoccurrence_id , sourceaccessioncode ),
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258
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CONSTRAINT individualplant_keys_code UNIQUE (aggregateoccurrence_id , authorplantcode )
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259
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);
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260
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261
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CREATE TABLE stem -- VegBank's stemlocation table.
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262
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(
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263
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stem_id int(11) NOT NULL AUTO_INCREMENT,
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264
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individualplant_id int(11) NOT NULL,
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265
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authorstemcode character varying(20),
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266
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xposition double precision,
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267
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yposition double precision,
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268
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health character varying(50),
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269
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emb_stem int(11),
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270
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diameter double precision,
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271
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height double precision,
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272
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heightaccuracy double precision,
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273
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age double precision,
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274
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accessioncode character varying(255),
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275
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diameteraccuracy double precision,
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276
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sourceaccessioncode character varying(100),
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277
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CONSTRAINT stem_pkey PRIMARY KEY (stem_id ),
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278
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CONSTRAINT stem_individualplant_id FOREIGN KEY (individualplant_id)
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279
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REFERENCES individualplant (individualplant_id) MATCH SIMPLE
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|
280
|
ON UPDATE CASCADE ON DELETE CASCADE,
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281
|
CONSTRAINT stem_keys_accessioncode UNIQUE (individualplant_id , sourceaccessioncode ),
|
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282
|
CONSTRAINT stem_keys_code UNIQUE (individualplant_id , authorstemcode )
|
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283
|
);
|
|
284
|
|
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285
|
CREATE TABLE specimen -- A herbarium specimen. Contains Darwin Core specimen data.
|
|
286
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(
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287
|
specimen_id int(11) NOT NULL AUTO_INCREMENT,
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288
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reference_id int(11) NOT NULL,
|
|
289
|
collectioncode_dwc character varying(255), -- The code for the collection that the specimen is from.
|
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290
|
catalognumber_dwc character varying(255),
|
|
291
|
collectiondate timestamp NULL,
|
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292
|
museum_id int(11),
|
|
293
|
sourceaccessioncode character varying(100),
|
|
294
|
accessioncode character varying(255),
|
|
295
|
taxonoccurrence_id int(11) NOT NULL,
|
|
296
|
verbatimcollectorname character varying(255),
|
|
297
|
collectionnumber character varying(255), -- The number of the specimen within the collection.
|
|
298
|
CONSTRAINT specimen_pkey PRIMARY KEY (specimen_id ),
|
|
299
|
CONSTRAINT specimen_museum_id FOREIGN KEY (museum_id)
|
|
300
|
REFERENCES party (party_id) MATCH SIMPLE
|
|
301
|
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
|
|
307
|
ON UPDATE CASCADE ON DELETE CASCADE,
|
|
308
|
CONSTRAINT specimen_keys_accessioncode UNIQUE (reference_id , collectioncode_dwc , sourceaccessioncode ),
|
|
309
|
CONSTRAINT specimen_keys_catalognumber UNIQUE (reference_id , collectioncode_dwc , catalognumber_dwc ),
|
|
310
|
CONSTRAINT specimen_keys_collectionnumber UNIQUE (reference_id , collectioncode_dwc , collectionnumber )
|
|
311
|
);
|
|
312
|
|
|
313
|
CREATE TABLE voucher
|
|
314
|
(
|
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315
|
voucher_id int(11) NOT NULL AUTO_INCREMENT,
|
|
316
|
taxonoccurrence_id int(11) NOT NULL,
|
|
317
|
specimen_id int(11) NOT NULL,
|
|
318
|
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
|
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,
|
|
334
|
party_id int(11),
|
|
335
|
role_id int(11) NOT NULL,
|
|
336
|
determinationtype character varying(30),
|
|
337
|
reference_id int(11),
|
|
338
|
isoriginal int(1) NOT NULL DEFAULT false,
|
|
339
|
iscurrent int(1) NOT NULL DEFAULT false,
|
|
340
|
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
|
determinationdate timestamp NULL,
|
|
348
|
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
|
REFERENCES role (role_id) MATCH SIMPLE
|
|
362
|
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
|
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
|
ON UPDATE CASCADE ON DELETE CASCADE,
|
|
383
|
CONSTRAINT stratum_stratumtype_id FOREIGN KEY (stratumtype_id)
|
|
384
|
REFERENCES stratumtype (stratumtype_id) MATCH SIMPLE
|
|
385
|
ON UPDATE CASCADE ON DELETE CASCADE
|
|
386
|
);
|
|
387
|
|
|
388
|
CREATE TABLE sizeclass -- A range of size measurements used to aggregate organisms.
|
|
389
|
(
|
|
390
|
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
|
accessioncode character varying(255),
|
|
396
|
CONSTRAINT sizeclass_pkey PRIMARY KEY (sizeclass_id )
|
|
397
|
);
|
|
398
|
|
|
399
|
CREATE TABLE taxonbinmethod
|
|
400
|
(
|
|
401
|
taxonbinmethod_id int(11) NOT NULL,
|
|
402
|
label character varying(255),
|
|
403
|
stratumtype_id int(11),
|
|
404
|
sizeclass_id int(11),
|
|
405
|
coverindex_id int(11),
|
|
406
|
accessioncode character varying(255),
|
|
407
|
CONSTRAINT taxonbinmethod_pkey PRIMARY KEY (taxonbinmethod_id ),
|
|
408
|
CONSTRAINT taxonbinmethod_sizeclass_id FOREIGN KEY (sizeclass_id)
|
|
409
|
REFERENCES sizeclass (sizeclass_id) MATCH SIMPLE
|
|
410
|
ON UPDATE CASCADE ON DELETE CASCADE,
|
|
411
|
CONSTRAINT taxonbinmethod_stratumtype_id FOREIGN KEY (stratumtype_id)
|
|
412
|
REFERENCES stratumtype (stratumtype_id) MATCH SIMPLE
|
|
413
|
ON UPDATE CASCADE ON DELETE CASCADE
|
|
414
|
);
|
