Revision 7244
Added by Aaron Marcuse-Kubitza almost 12 years ago
schemas/vegbien.sql | ||
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CREATE VIEW analytical_stem_view AS |
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SELECT source.shortname AS datasource, sourcelist.name AS "institutionCode", specimenreplicate.collectioncode_dwc AS "collectionCode", specimenreplicate.catalognumber_dwc AS "catalogNumber", specimenreplicate.sourceaccessioncode AS "occurrenceID", canon_place.country, canon_place.stateprovince AS "stateProvince", datasource_place.county, coordinates.latitude_deg AS "decimalLatitude", coordinates.longitude_deg AS "decimalLongitude", coordinates.coordsaccuracy_m AS "coordinateUncertaintyInMeters", (canon_place.geovalid)::integer AS geovalid, ("newWorldCountries"."isNewWorld")::integer AS "isNewWorld", COALESCE(project.sourceaccessioncode, project.projectname) AS "projectID", COALESCE(location.sourceaccessioncode, NULLIF(array_to_string(ARRAY[COALESCE(parent_location.sourceaccessioncode, parent_location.authorlocationcode), location.authorlocationcode], '; '::text), ''::text)) AS "locationID", COALESCE(parent_location.authorlocationcode, location.authorlocationcode) AS "locationName", CASE WHEN (parent_location.location_id IS NOT NULL) THEN location.authorlocationcode ELSE NULL::text END AS subplot, plantobservation.authorplantcode AS "individualCode", COALESCE(location.elevation_m, parent_location.elevation_m) AS "elevationInMeters", _m2_to_ha(location.area_m2) AS "plotArea_ha", method.name AS "samplingProtocol", COALESCE(locationevent.obsstartdate, parent_event.obsstartdate, aggregateoccurrence.collectiondate) AS "dateCollected", family_higher_plant_group.higher_plant_group AS "higherPlantGroup", taxonverbatim.family, taxonverbatim.genus, ((taxonverbatim.genus || ' '::text) || taxonverbatim.specific_epithet) AS "speciesBinomial", taxonlabel.taxonomicname AS "scientificName", taxonverbatim.author AS "scientificNameAuthorship", NULLIF(array_to_string(ARRAY[COALESCE(taxonverbatim.genus, taxonverbatim.family), COALESCE(taxonverbatim.specific_epithet, taxonverbatim.morphospecies)], ' '::text), ''::text) AS "speciesBinomialWithMorphospecies", NULLIF(array_to_string(ARRAY[taxonlabel.taxonomicname, taxonverbatim.morphospecies], ' '::text), ''::text) AS "scientificNameWithMorphospecies", ((threatened_taxonlabel.taxonlabel_id IS NOT NULL))::integer AS threatened, identifiedby.fullname AS "identifiedBy", taxonoccurrence.growthform AS "growthForm", (((cultivated_family_locations.country IS NOT NULL) OR _or(taxonoccurrence.iscultivated, location.iscultivated)))::integer AS cultivated, CASE WHEN (taxonoccurrence.iscultivated IS NOT NULL) THEN taxonoccurrence.cultivatedbasis WHEN (location.iscultivated IS NOT NULL) THEN NULL::text ELSE NULL::text END AS "cultivatedBasis", collector.fullname AS "recordedBy", plantobservation.authorplantcode AS "recordNumber", _fraction_to_percent(aggregateoccurrence.cover_fraction) AS "coverPercent", _m_to_cm(stemobservation.diameterbreastheight_m) AS "diameterBreastHeight_cm", stemobservation.height_m, stemobservation.tag, stemobservation.xposition_m AS "organismX_m", stemobservation.yposition_m AS "organismY_m", taxonoccurrence.sourceaccessioncode AS "taxonOccurrenceID", taxonoccurrence.authortaxoncode AS "authorTaxonCode", plantobservation.sourceaccessioncode AS "individualObservationID", stemobservation.authorstemcode AS "authorStemCode" FROM ((((((((((((((((((((((((((source JOIN location USING (source_id)) LEFT JOIN locationevent USING (location_id)) LEFT JOIN location parent_location ON ((parent_location.location_id = location.parent_id))) LEFT JOIN locationplace ON ((locationplace.location_id = COALESCE(parent_location.location_id, location.location_id)))) LEFT JOIN place datasource_place USING (place_id)) LEFT JOIN place canon_place ON ((canon_place.place_id = datasource_place.canon_place_id))) LEFT JOIN coordinates ON ((coordinates.coordinates_id = canon_place.coordinates_id))) LEFT JOIN "newWorld".iso_code_gadm ON ((iso_code_gadm."GADM country" = canon_place.country))) LEFT JOIN "newWorld"."newWorldCountries" ON (("newWorldCountries"."isoCode" = iso_code_gadm."2-digit iso code"))) LEFT JOIN taxonoccurrence USING (locationevent_id)) LEFT JOIN locationevent parent_event ON ((parent_event.locationevent_id = locationevent.parent_id))) LEFT JOIN project ON ((project.project_id = COALESCE(locationevent.project_id, parent_event.project_id)))) LEFT JOIN method ON ((method.method_id = COALESCE(locationevent.method_id, parent_event.method_id)))) LEFT JOIN party collector ON ((collector.party_id = taxonoccurrence.collector_id))) LEFT JOIN taxondetermination USING (taxonoccurrence_id)) LEFT JOIN party identifiedby ON ((identifiedby.party_id = taxondetermination.party_id))) LEFT JOIN taxonverbatim USING (taxonverbatim_id)) LEFT JOIN taxonlabel USING (taxonlabel_id)) LEFT JOIN threatened_taxonlabel ON ((threatened_taxonlabel.taxonlabel_id = taxonlabel.taxonlabel_id))) LEFT JOIN aggregateoccurrence USING (taxonoccurrence_id)) LEFT JOIN family_higher_plant_group ON ((family_higher_plant_group.family = taxonverbatim.family))) LEFT JOIN cultivated_family_locations ON (((cultivated_family_locations.family = taxonverbatim.family) AND (cultivated_family_locations.country = canon_place.country)))) LEFT JOIN plantobservation USING (aggregateoccurrence_id)) LEFT JOIN stemobservation USING (plantobservation_id)) LEFT JOIN specimenreplicate USING (plantobservation_id)) LEFT JOIN sourcelist ON ((sourcelist.sourcelist_id = specimenreplicate.institution_id))) WHERE COALESCE(taxondetermination.iscurrent, true);
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SELECT source.shortname AS datasource, sourcelist.name AS "institutionCode", specimenreplicate.collectioncode_dwc AS "collectionCode", specimenreplicate.catalognumber_dwc AS "catalogNumber", specimenreplicate.sourceaccessioncode AS "occurrenceID", canon_place.country, canon_place.stateprovince AS "stateProvince", datasource_place.county, coordinates.latitude_deg AS "decimalLatitude", coordinates.longitude_deg AS "decimalLongitude", coordinates.coordsaccuracy_m AS "coordinateUncertaintyInMeters", (canon_place.geovalid)::integer AS geovalid, ("newWorldCountries"."isNewWorld")::integer AS "isNewWorld", COALESCE(project.sourceaccessioncode, project.projectname) AS "projectID", COALESCE(location.sourceaccessioncode, NULLIF(array_to_string(ARRAY[COALESCE(parent_location.sourceaccessioncode, parent_location.authorlocationcode), location.authorlocationcode], '; '::text), ''::text)) AS "locationID", COALESCE(parent_location.authorlocationcode, location.authorlocationcode) AS "locationName", CASE WHEN (parent_location.location_id IS NOT NULL) THEN location.authorlocationcode ELSE NULL::text END AS subplot, plantobservation.authorplantcode AS "individualCode", COALESCE(location.elevation_m, parent_location.elevation_m) AS "elevationInMeters", _m2_to_ha(location.area_m2) AS "plotArea_ha", method.name AS "samplingProtocol", COALESCE(locationevent.obsstartdate, parent_event.obsstartdate, aggregateoccurrence.collectiondate) AS "dateCollected", family_higher_plant_group.higher_plant_group AS "higherPlantGroup", taxonverbatim.family, taxonverbatim.genus, ((taxonverbatim.genus || ' '::text) || taxonverbatim.specific_epithet) AS "speciesBinomial", taxonlabel.taxonomicname AS "scientificName", taxonverbatim.author AS "scientificNameAuthorship", NULLIF(array_to_string(ARRAY[COALESCE(taxonverbatim.genus, taxonverbatim.family), COALESCE(taxonverbatim.specific_epithet, taxonverbatim.morphospecies)], ' '::text), ''::text) AS "speciesBinomialWithMorphospecies", NULLIF(array_to_string(ARRAY[taxonlabel.taxonomicname, taxonverbatim.morphospecies], ' '::text), ''::text) AS "scientificNameWithMorphospecies", ((threatened_taxonlabel.taxonlabel_id IS NOT NULL))::integer AS threatened, identifiedby.fullname AS "identifiedBy", taxonoccurrence.growthform AS "growthForm", (((cultivated_family_locations.country IS NOT NULL) OR _or(taxonoccurrence.iscultivated, location.iscultivated)))::integer AS cultivated, CASE WHEN (taxonoccurrence.iscultivated IS NOT NULL) THEN taxonoccurrence.cultivatedbasis WHEN (location.iscultivated IS NOT NULL) THEN NULL::text ELSE NULL::text END AS "cultivatedBasis", collector.fullname AS "recordedBy", plantobservation.authorplantcode AS "recordNumber", _fraction_to_percent(aggregateoccurrence.cover_fraction) AS "coverPercent", _m_to_cm(stemobservation.diameterbreastheight_m) AS "diameterBreastHeight_cm", stemobservation.height_m, stemobservation.tag, stemobservation.xposition_m AS "organismX_m", stemobservation.yposition_m AS "organismY_m", taxonoccurrence.sourceaccessioncode AS "taxonOccurrenceID", taxonoccurrence.authortaxoncode AS "authorTaxonCode", plantobservation.sourceaccessioncode AS "individualObservationID", stemobservation.authorstemcode AS "authorStemCode" FROM ((((((((((((((((((((((((((source JOIN location USING (source_id)) LEFT JOIN locationevent USING (location_id)) LEFT JOIN location parent_location ON ((parent_location.location_id = location.parent_id))) LEFT JOIN locationplace ON ((locationplace.location_id = COALESCE(parent_location.location_id, location.location_id)))) LEFT JOIN place datasource_place USING (place_id)) LEFT JOIN place canon_place ON ((canon_place.place_id = datasource_place.canon_place_id))) LEFT JOIN coordinates ON ((coordinates.coordinates_id = canon_place.coordinates_id))) LEFT JOIN "newWorld".iso_code_gadm ON ((iso_code_gadm."GADM country" = canon_place.country))) LEFT JOIN "newWorld"."newWorldCountries" ON (("newWorldCountries"."isoCode" = iso_code_gadm."2-digit iso code"))) LEFT JOIN taxonoccurrence USING (locationevent_id)) LEFT JOIN locationevent parent_event ON ((parent_event.locationevent_id = locationevent.parent_id))) LEFT JOIN project ON ((project.project_id = COALESCE(locationevent.project_id, parent_event.project_id)))) LEFT JOIN method ON ((method.method_id = COALESCE(locationevent.method_id, parent_event.method_id)))) LEFT JOIN party collector ON ((collector.party_id = taxonoccurrence.collector_id))) LEFT JOIN aggregateoccurrence USING (taxonoccurrence_id)) LEFT JOIN plantobservation USING (aggregateoccurrence_id)) LEFT JOIN stemobservation USING (plantobservation_id)) LEFT JOIN specimenreplicate USING (plantobservation_id)) LEFT JOIN sourcelist ON ((sourcelist.sourcelist_id = specimenreplicate.institution_id))) LEFT JOIN taxondetermination ON (((taxondetermination.taxonoccurrence_id = taxonoccurrence.taxonoccurrence_id) AND taxondetermination.iscurrent))) LEFT JOIN party identifiedby ON ((identifiedby.party_id = taxondetermination.party_id))) LEFT JOIN taxonverbatim USING (taxonverbatim_id)) LEFT JOIN taxonlabel USING (taxonlabel_id)) LEFT JOIN family_higher_plant_group ON ((family_higher_plant_group.family = taxonverbatim.family))) LEFT JOIN cultivated_family_locations ON (((cultivated_family_locations.family = taxonverbatim.family) AND (cultivated_family_locations.country = canon_place.country)))) LEFT JOIN threatened_taxonlabel ON ((threatened_taxonlabel.taxonlabel_id = taxonlabel.taxonlabel_id)));
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Also available in: Unified diff
schemas/vegbien.sql: analytical_stem_view: Changed `WHERE COALESCE` to a join condition to enable using the taxondetermination_single_current_determination index, which produces the filtered rows directly. Note that this index will not be used for full-database imports, because the query planner uses hash joins everywhere instead of nested loops.