Revision 10935
Added by Aaron Marcuse-Kubitza about 11 years ago
| inputs/VegBank/stemcount_/postprocess.sql | ||
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SELECT util.search_path_append('util');
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SELECT mk_derived_col((:table_str, 'aggregateOrganismObservationID'), |
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$$_join("taxonimportance_id"::text, "stemcount_id"::text)$$)
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; -- runtime: 15 s ("Time: 15805.876 ms") @starscream
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| inputs/VegBank/stemcount_/map.csv | ||
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| 1 | 1 |
VegBank,VegCore,Filter,Comments |
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taxonimportance_id,aggregateOrganismObservationID,/_join/1,
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taxonimportance_id,aggregateOrganismObservationID__taxon_presence,,
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taxonobservation_id,taxonOccurrenceID,,"Note that taxonimportance is not 1:1 with taxonobservation [1]. |
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| 5 | 5 |
[1] The following query returns rows: |
| ... | ... | |
| 18 | 18 |
stratumheight,*stratumheight,, |
| 19 | 19 |
emb_taxonimportance,*emb_taxonimportance,, |
| 20 | 20 |
covercode,*covercode,, |
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stemcount_id,aggregateOrganismObservationID,/_join/2,
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stemcount_id,aggregateOrganismObservationID__individual_count,,
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| 22 | 22 |
stemdiameter,diameterBreastHeight_cm,,"""The diameter of the stem in centimeters"" (stemDiameter definition at <http://vegbank.org/vegbank/views/dba_tabledescription_detail.jsp?view=detail&wparam=stemcount&entity=dba_tabledescription&where=where_tablename>)" |
| 23 | 23 |
stemdiameteraccuracy,*stemdiameteraccuracy,, |
| 24 | 24 |
stemheight,height_m,,"""The measured height of the stem in meters"" (stemHeight definition at <http://vegbank.org/vegbank/views/dba_tabledescription_detail.jsp?view=detail&wparam=stemcount&entity=dba_tabledescription&where=where_tablename>)" |
| ... | ... | |
| 26 | 26 |
stemcount,individualCount,, |
| 27 | 27 |
stemtaxonarea,*stemtaxonarea,, |
| 28 | 28 |
emb_stemcount,*emb_stemcount,, |
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aggregateOrganismObservationID,aggregateOrganismObservationID,, |
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| inputs/VegBank/stemcount_/VegBIEN.csv | ||
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| 12 | 12 |
cover,/location/locationevent/taxonoccurrence/aggregateoccurrence/cover_fraction/_percent_to_fraction/value, |
| 13 | 13 |
stemdiameter,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/diameterbreastheight_m/_cm_to_m/value,"""The diameter of the stem in centimeters"" (stemDiameter definition at <http://vegbank.org/vegbank/views/dba_tabledescription_detail.jsp?view=detail&wparam=stemcount&entity=dba_tabledescription&where=where_tablename>)" |
| 14 | 14 |
stemheight,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/height_m,"""The measured height of the stem in meters"" (stemHeight definition at <http://vegbank.org/vegbank/views/dba_tabledescription_detail.jsp?view=detail&wparam=stemcount&entity=dba_tabledescription&where=where_tablename>)" |
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taxonimportance_id,/location/locationevent/taxonoccurrence/aggregateoccurrence/sourceaccessioncode/_join/1, |
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stemcount_id,/location/locationevent/taxonoccurrence/aggregateoccurrence/sourceaccessioncode/_join/2, |
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aggregateOrganismObservationID,/location/locationevent/taxonoccurrence/aggregateoccurrence/sourceaccessioncode, |
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taxonobservation_id,"/location/locationevent/taxonoccurrence/iscultivated/_alt/1/_if[@name=""if TaxonOccurrence""]/cond/_exists","Note that taxonimportance is not 1:1 with taxonobservation [1]. |
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[1] The following query returns rows: |
| ... | ... | |
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GROUP BY taxonobservation_id |
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HAVING count(distinct taxonimportance_id) > 1 |
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-----" |
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taxonimportance_id,"/location/locationevent/taxonoccurrence/sourceaccessioncode/_first/2/_if[@name=""if organism in AggregateOccurrence""]/cond/_exists/_join/1", |
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stemcount_id,"/location/locationevent/taxonoccurrence/sourceaccessioncode/_first/2/_if[@name=""if organism in AggregateOccurrence""]/cond/_exists/_join/2", |
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aggregateOrganismObservationID,"/location/locationevent/taxonoccurrence/sourceaccessioncode/_first/2/_if[@name=""if organism in AggregateOccurrence""]/cond/_exists", |
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taxonobservation_id,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/_if[@name=""if has taxondetermination""]/cond/_exists","Note that taxonimportance is not 1:1 with taxonobservation [1]. |
| 38 | 36 |
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| 39 | 37 |
[1] The following query returns rows: |
| ... | ... | |
| 49 | 47 |
emb_stemcount,,** No join mapping for *emb_stemcount ** |
| 50 | 48 |
emb_taxonimportance,,** No join mapping for *emb_taxonimportance ** |
| 51 | 49 |
inferencearea,,** No join mapping for *inferencearea ** |
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stemcount_id,,** No join mapping for aggregateOrganismObservationID__individual_count ** |
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| 52 | 51 |
stemdiameteraccuracy,,** No join mapping for *stemdiameteraccuracy ** |
| 53 | 52 |
stemheightaccuracy,,** No join mapping for *stemheightaccuracy ** |
| 54 | 53 |
stemtaxonarea,,** No join mapping for *stemtaxonarea ** |
| 55 | 54 |
stratum_id,,** No join mapping for *stratum_id ** |
| 56 | 55 |
stratumbase,,** No join mapping for *stratumbase ** |
| 57 | 56 |
stratumheight,,** No join mapping for *stratumheight ** |
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taxonimportance_id,,** No join mapping for aggregateOrganismObservationID__taxon_presence ** |
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| inputs/VegBank/stemcount_/test.xml.ref | ||
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| 18 | 18 |
<height_m>$stemheight</height_m> |
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</stemobservation> |
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</plantobservation> |
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<sourceaccessioncode> |
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<_join> |
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<1>$taxonimportance_id</1> |
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<2>$stemcount_id</2> |
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</_join> |
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</sourceaccessioncode> |
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<sourceaccessioncode>$aggregateOrganismObservationID</sourceaccessioncode> |
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</aggregateoccurrence> |
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<sourceaccessioncode>$taxonobservation_id</sourceaccessioncode> |
| 29 | 24 |
</taxonoccurrence> |
| inputs/VegBank/stemcount_/new_terms.csv | ||
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taxonimportance_id,aggregateOrganismObservationID,/_join/1,
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taxonimportance_id,aggregateOrganismObservationID__taxon_presence,,
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cover,coverPercent,, |
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stemcount_id,aggregateOrganismObservationID,/_join/2,
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stemcount_id,aggregateOrganismObservationID__individual_count,,
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| 4 | 4 |
stemdiameter,diameterBreastHeight_cm,,"""The diameter of the stem in centimeters"" (stemDiameter definition at <http://vegbank.org/vegbank/views/dba_tabledescription_detail.jsp?view=detail&wparam=stemcount&entity=dba_tabledescription&where=where_tablename>)" |
| inputs/VegBank/stemcount_/unmapped_terms.csv | ||
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aggregateOrganismObservationID__taxon_presence |
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*stratum_id |
| 2 | 3 |
*basalarea |
| 3 | 4 |
*biomass |
| ... | ... | |
| 6 | 7 |
*stratumheight |
| 7 | 8 |
*emb_taxonimportance |
| 8 | 9 |
*covercode |
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aggregateOrganismObservationID__individual_count |
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| 9 | 11 |
*stemdiameteraccuracy |
| 10 | 12 |
*stemheightaccuracy |
| 11 | 13 |
*stemtaxonarea |
Also available in: Unified diff
inputs/VegBank/stemcount_/: translated multi-column filters to postprocessing derived columns, using the steps at http://wiki.vegpath.org/Adding_new-style_import_to_a_datasource#Translating-filters-to-postprocessing-derived-columns