Revision 7549
Added by Aaron Marcuse-Kubitza almost 12 years ago
| inputs/NY/Specimen/map.csv | ||
|---|---|---|
| 1 |
NY,VegCore,Filter,Comments |
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| 2 |
key,OMIT,,UniqueNYInternalRecordNumber is a better pkey |
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| 3 |
DateLastModified,modified,, |
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| 4 |
InstitutionCode,custodialInstitutions,, |
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| 5 |
CollectionCode,collection,, |
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| 6 |
CatalogNumber,catalogNumber,, |
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| 7 |
ScientificName,taxonName,, |
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| 8 |
BasisOfRecord,basisOfRecord,, |
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Kingdom,kingdom,, |
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| 10 |
Phylum,phylum,, |
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| 11 |
Class,class,, |
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| 12 |
Order,order,, |
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| 13 |
Family,family,, |
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| 14 |
Genus,genus,, |
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| 15 |
Species,specificEpithet,, |
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| 16 |
Subspecies,subspecies,, |
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ScientificNameAuthor,scientificNameAuthorship,, |
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| 18 |
IdentifiedBy,identifiedBy,, |
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| 19 |
YearIdentified,yearIdentified,, |
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| 20 |
MonthIdentified,monthIdentified,, |
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| 21 |
DayIdentified,dayIdentified,, |
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| 22 |
TypeStatus,typeStatus,, |
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| 23 |
CollectorNumber,UNUSED,, |
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| 24 |
FieldNumber,collectorNumber,,Usage inconsistent with DwC definition |
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| 25 |
Collector,recordedBy,, |
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YearCollected,yearCollected,, |
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MonthCollected,monthCollected,, |
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| 28 |
DayCollected,dayCollected,, |
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| 29 |
JulianDay,day,, |
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| 30 |
TimeOfDay,eventTime,, |
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| 31 |
ContinentOcean,continent,, |
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| 32 |
Country,country,, |
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| 33 |
StateProvince,stateProvince,, |
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County,county,, |
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| 35 |
Locality,locality,/_join/1, |
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| 36 |
Longitude,decimalLongitude,, |
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| 37 |
Latitude,decimalLatitude,, |
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| 38 |
CoordinatePrecision,coordinateUncertaintyInMeters,,"Usage inconsistent with DwC definition, which only allows degrees. Assuming units based on the range and precision of values." |
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| 39 |
BoundingBox,footprintWKT,, |
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| 40 |
MinimumElevation,minimumElevationInMeters,/_nullIf:[null=.]/value, |
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| 41 |
MaximumElevation,maximumElevationInMeters,, |
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| 42 |
MinimumDepth,minimumDepthInMeters,, |
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| 43 |
MaximumDepth,maximumDepthInMeters,, |
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| 44 |
Sex,sex,, |
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| 45 |
PreparationType,preparations,, |
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| 46 |
IndividualCount,individualCount,, |
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| 47 |
PreviousCatalogNumber,otherCatalogNumbers,, |
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| 48 |
RelationshipType,relationshipOfResource,, |
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| 49 |
RelatedCatalogItem,relatedResourceID,, |
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| 50 |
Notes,organismNotes,/_join/1, |
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| 51 |
Habitat,habitat,, |
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| 52 |
PlantFungusDescription,organismNotes,"/_join/2/_label[label=""plant fungus""]/value", |
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Substrate,locality,"/_join/2/_label[label=""substrate""]/value", |
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| 54 |
Vegetation,locality,"/_join/3/_label[label=""vegetation""]/value", |
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UniqueNYInternalRecordNumber,OMIT,,"Globally unique when provided, but omitted to avoid confusion since this is an internal-only ID" |
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| inputs/NY/Specimen/test.xml.ref | ||
|---|---|---|
| 1 |
Put template: |
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| 2 |
<VegBIEN> |
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| 3 |
<_setDefault id="-1"> |
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| 4 |
<source_id><source><shortname>NY</shortname></source></source_id> |
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| 5 |
<path> |
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| 6 |
<_simplifyPath> |
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| 7 |
<next>parent_id</next> |
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| 8 |
<path> |
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| 9 |
<location> |
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| 10 |
<authorlocationcode> |
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| 11 |
<_join> |
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<1>$InstitutionCode</1> |
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| 13 |
<2>$CollectionCode</2> |
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| 14 |
<3>$CatalogNumber</3> |
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| 15 |
</_join> |
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| 16 |
</authorlocationcode> |
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| 17 |
<elevation_m> |
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| 18 |
<_avg> |
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| 19 |
<max>$MaximumElevation</max> |
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| 20 |
<min> |
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| 21 |
<_nullIf> |
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| 22 |
<null>.</null> |
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| 23 |
<value>$MinimumElevation</value> |
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| 24 |
</_nullIf> |
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| 25 |
</min> |
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| 26 |
</_avg> |
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| 27 |
</elevation_m> |
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| 28 |
<iscultivated> |
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| 29 |
<_locationnarrative_is_cultivated> |
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| 30 |
<locationnarrative> |
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| 31 |
<_join> |
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| 32 |
<1> |
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| 33 |
<_join> |
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| 34 |
<1>$Locality</1> |
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| 35 |
<2> |
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| 36 |
<_label> |
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| 37 |
<label>substrate</label> |
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| 38 |
<value>$Substrate</value> |
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| 39 |
</_label> |
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| 40 |
</2> |
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| 41 |
<3> |
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| 42 |
<_label> |
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| 43 |
<label>vegetation</label> |
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<value>$Vegetation</value> |
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| 45 |
</_label> |
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| 46 |
</3> |
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| 47 |
</_join> |
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| 48 |
</1> |
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| 49 |
<3>$Habitat</3> |
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| 50 |
</_join> |
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| 51 |
</locationnarrative> |
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| 52 |
</_locationnarrative_is_cultivated> |
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| 53 |
</iscultivated> |
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| 54 |
<locationevent> |
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| 55 |
<taxonoccurrence> |
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| 56 |
<aggregateoccurrence> |
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| 57 |
<collectiondate> |
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| 58 |
<_date> |
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| 59 |
<day> |
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| 60 |
<_nullIf> |
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| 61 |
<null>0</null> |
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| 62 |
<type>float</type> |
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| 63 |
<value>$DayCollected</value> |
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| 64 |
</_nullIf> |
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| 65 |
</day> |
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| 66 |
<month> |
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| 67 |
<_nullIf> |
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| 68 |
<null>0</null> |
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| 69 |
<type>float</type> |
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| 70 |
<value>$MonthCollected</value> |
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| 71 |
</_nullIf> |
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| 72 |
</month> |
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| 73 |
<year> |
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| 74 |
<_nullIf> |
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| 75 |
<null>0</null> |
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| 76 |
<type>float</type> |
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| 77 |
<value>$YearCollected</value> |
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| 78 |
</_nullIf> |
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| 79 |
</year> |
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| 80 |
</_date> |
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| 81 |
</collectiondate> |
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| 82 |
<count>$IndividualCount</count> |
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| 83 |
<notes> |
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| 84 |
<_join> |
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| 85 |
<1>$Notes</1> |
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| 86 |
<2> |
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| 87 |
<_label> |
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| 88 |
<label>plant fungus</label> |
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| 89 |
<value>$PlantFungusDescription</value> |
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| 90 |
</_label> |
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| 91 |
</2> |
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| 92 |
</_join> |
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| 93 |
</notes> |
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| 94 |
<plantobservation> |
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| 95 |
<authorplantcode>$FieldNumber</authorplantcode> |
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| 96 |
<definedvalue fkey="tablerecord_id"> |
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| 97 |
<userdefined_id> |
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| 98 |
<userdefined> |
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| 99 |
<tablename>plantobservation</tablename> |
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| 100 |
<userdefinedname>sex</userdefinedname> |
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| 101 |
</userdefined> |
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| 102 |
</userdefined_id> |
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| 103 |
<definedvalue>$Sex</definedvalue> |
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| 104 |
</definedvalue> |
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| 105 |
<specimenreplicate> |
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| 106 |
<catalognumber_dwc>$CatalogNumber</catalognumber_dwc> |
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| 107 |
<collectioncode_dwc>$CollectionCode</collectioncode_dwc> |
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| 108 |
<collectionnumber>$FieldNumber</collectionnumber> |
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| 109 |
<institution_id> |
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| 110 |
<sourcelist> |
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| 111 |
<name>$InstitutionCode</name> |
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| 112 |
<sourcename> |
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| 113 |
<name> |
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| 114 |
<_split> |
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| 115 |
<separator>[,;] *</separator> |
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| 116 |
<value>$InstitutionCode</value> |
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| 117 |
</_split> |
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| 118 |
</name> |
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| 119 |
</sourcename> |
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| 120 |
</sourcelist> |
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| 121 |
</institution_id> |
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| 122 |
</specimenreplicate> |
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| 123 |
</plantobservation> |
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| 124 |
</aggregateoccurrence> |
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| 125 |
<collector_id><party><fullname>$Collector</fullname></party></collector_id> |
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| 126 |
<taxondetermination> |
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| 127 |
<party_id><party><fullname>$IdentifiedBy</fullname></party></party_id> |
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| 128 |
<taxonverbatim_id> |
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| 129 |
<taxonverbatim> |
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| 130 |
<taxonlabel_id> |
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| 131 |
<taxonlabel> |
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| 132 |
<parent_id> |
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| 133 |
<taxonlabel> |
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| 134 |
<parent_id> |
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| 135 |
<taxonlabel> |
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| 136 |
<rank>cultivar</rank> |
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| 137 |
<parent_id> |
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| 138 |
<taxonlabel> |
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| 139 |
<rank>forma</rank> |
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| 140 |
<parent_id> |
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| 141 |
<taxonlabel> |
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| 142 |
<rank>variety</rank> |
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| 143 |
<parent_id> |
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| 144 |
<taxonlabel> |
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| 145 |
<rank>subspecies</rank> |
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| 146 |
<taxonepithet>$Subspecies</taxonepithet> |
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| 147 |
<parent_id> |
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| 148 |
<taxonlabel> |
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| 149 |
<rank>species</rank> |
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| 150 |
<taxonepithet>$Species</taxonepithet> |
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| 151 |
<parent_id> |
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| 152 |
<taxonlabel> |
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| 153 |
<rank>genus</rank> |
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| 154 |
<taxonepithet>$Genus</taxonepithet> |
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| 155 |
<parent_id> |
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| 156 |
<taxonlabel> |
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| 157 |
<rank>family</rank> |
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| 158 |
<taxonepithet>$Family</taxonepithet> |
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| 159 |
<parent_id> |
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| 160 |
<taxonlabel> |
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| 161 |
<rank>order</rank> |
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| 162 |
<taxonepithet>$Order</taxonepithet> |
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| 163 |
<parent_id> |
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| 164 |
<taxonlabel> |
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| 165 |
<rank>class</rank> |
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| 166 |
<taxonepithet>$Class</taxonepithet> |
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| 167 |
<parent_id> |
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| 168 |
<taxonlabel> |
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| 169 |
<rank>phylum</rank> |
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| 170 |
<taxonepithet>$Phylum</taxonepithet> |
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| 171 |
<parent_id> |
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| 172 |
<taxonlabel> |
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| 173 |
<rank>kingdom</rank> |
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| 174 |
<taxonepithet>$Kingdom</taxonepithet> |
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| 175 |
</taxonlabel> |
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| 176 |
</parent_id> |
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| 177 |
</taxonlabel> |
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| 178 |
</parent_id> |
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| 179 |
</taxonlabel> |
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| 180 |
</parent_id> |
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| 181 |
</taxonlabel> |
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| 182 |
</parent_id> |
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| 183 |
</taxonlabel> |
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| 184 |
</parent_id> |
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| 185 |
</taxonlabel> |
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| 186 |
</parent_id> |
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| 187 |
</taxonlabel> |
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| 188 |
</parent_id> |
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| 189 |
</taxonlabel> |
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| 190 |
</parent_id> |
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| 191 |
</taxonlabel> |
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| 192 |
</parent_id> |
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| 193 |
</taxonlabel> |
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| 194 |
</parent_id> |
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| 195 |
</taxonlabel> |
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| 196 |
</parent_id> |
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| 197 |
</taxonlabel> |
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| 198 |
</parent_id> |
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| 199 |
<taxonomicname> |
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| 200 |
<_merge_prefix> |
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| 201 |
<prefix><_taxon_family_require_std><family>$Family</family></_taxon_family_require_std></prefix> |
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| 202 |
<value> |
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| 203 |
<_join_words> |
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| 204 |
<1> |
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| 205 |
<_alt> |
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| 206 |
<1>$ScientificName</1> |
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| 207 |
<2> |
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| 208 |
<_join_words> |
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| 209 |
<2>$Genus</2> |
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| 210 |
<3>$Species</3> |
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| 211 |
<4>$Subspecies</4> |
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| 212 |
</_join_words> |
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| 213 |
</2> |
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| 214 |
</_alt> |
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| 215 |
</1> |
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| 216 |
<2>$ScientificNameAuthor</2> |
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| 217 |
</_join_words> |
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| 218 |
</value> |
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| 219 |
</_merge_prefix> |
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| 220 |
</taxonomicname> |
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| 221 |
</taxonlabel> |
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| 222 |
</taxonlabel_id> |
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| 223 |
<author>$ScientificNameAuthor</author> |
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| 224 |
<family>$Family</family> |
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| 225 |
<genus>$Genus</genus> |
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| 226 |
<specific_epithet>$Species</specific_epithet> |
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| 227 |
<taxonname>$ScientificName</taxonname> |
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| 228 |
</taxonverbatim> |
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| 229 |
</taxonverbatim_id> |
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| 230 |
<determinationdate> |
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| 231 |
<_date> |
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| 232 |
<day> |
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| 233 |
<_nullIf> |
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| 234 |
<null>0</null> |
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| 235 |
<type>float</type> |
|
| 236 |
<value>$DayIdentified</value> |
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| 237 |
</_nullIf> |
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| 238 |
</day> |
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| 239 |
<month> |
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| 240 |
<_nullIf> |
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| 241 |
<null>0</null> |
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| 242 |
<type>float</type> |
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| 243 |
<value>$MonthIdentified</value> |
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| 244 |
</_nullIf> |
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| 245 |
</month> |
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| 246 |
<year> |
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| 247 |
<_nullIf> |
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| 248 |
<null>0</null> |
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| 249 |
<type>float</type> |
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| 250 |
<value>$YearIdentified</value> |
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| 251 |
</_nullIf> |
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| 252 |
</year> |
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| 253 |
</_date> |
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| 254 |
</determinationdate> |
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| 255 |
</taxondetermination> |
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| 256 |
</taxonoccurrence> |
|
| 257 |
<waterdepth_m> |
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| 258 |
<_avg> |
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| 259 |
<max>$MaximumDepth</max> |
|
| 260 |
<min>$MinimumDepth</min> |
|
| 261 |
</_avg> |
|
| 262 |
</waterdepth_m> |
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| 263 |
</locationevent> |
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| 264 |
<locationnarrative> |
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| 265 |
<_merge> |
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| 266 |
<1> |
|
| 267 |
<_join> |
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| 268 |
<1>$Locality</1> |
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| 269 |
<2> |
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| 270 |
<_label> |
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| 271 |
<label>substrate</label> |
|
| 272 |
<value>$Substrate</value> |
|
| 273 |
</_label> |
|
| 274 |
</2> |
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| 275 |
<3> |
|
| 276 |
<_label> |
|
| 277 |
<label>vegetation</label> |
|
| 278 |
<value>$Vegetation</value> |
|
| 279 |
</_label> |
|
| 280 |
</3> |
|
| 281 |
</_join> |
|
| 282 |
</1> |
|
| 283 |
<3> |
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| 284 |
<_label> |
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| 285 |
<label>habitat</label> |
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| 286 |
<value>$Habitat</value> |
|
| 287 |
</_label> |
|
| 288 |
</3> |
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| 289 |
</_merge> |
|
| 290 |
</locationnarrative> |
|
| 291 |
<locationplace> |
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| 292 |
<place_id> |
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| 293 |
<place> |
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| 294 |
<coordinates_id> |
|
| 295 |
<coordinates> |
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| 296 |
<coordsaccuracy_m><_noCV><value>$CoordinatePrecision</value></_noCV></coordsaccuracy_m> |
|
| 297 |
<footprintgeometry_dwc>$BoundingBox</footprintgeometry_dwc> |
|
| 298 |
<latitude_deg> |
|
| 299 |
<_nullIf> |
|
| 300 |
<null>0</null> |
|
| 301 |
<type>float</type> |
|
| 302 |
<value>$Latitude</value> |
|
| 303 |
</_nullIf> |
|
| 304 |
</latitude_deg> |
|
| 305 |
<longitude_deg> |
|
| 306 |
<_nullIf> |
|
| 307 |
<null>0</null> |
|
| 308 |
<type>float</type> |
|
| 309 |
<value>$Longitude</value> |
|
| 310 |
</_nullIf> |
|
| 311 |
</longitude_deg> |
|
| 312 |
</coordinates> |
|
| 313 |
</coordinates_id> |
|
| 314 |
<continent>$ContinentOcean</continent> |
|
| 315 |
<country>$Country</country> |
|
| 316 |
<county>$County</county> |
|
| 317 |
<matched_place_id> |
|
| 318 |
<place> |
|
| 319 |
<source_id><source><shortname>geoscrub</shortname></source></source_id> |
|
| 320 |
<coordinates_id> |
|
| 321 |
<coordinates> |
|
| 322 |
<source_id><source><shortname>geoscrub</shortname></source></source_id> |
|
| 323 |
<latitude_deg> |
|
| 324 |
<_nullIf> |
|
| 325 |
<null>0</null> |
|
| 326 |
<type>float</type> |
|
| 327 |
<value>$Latitude</value> |
|
| 328 |
</_nullIf> |
|
| 329 |
</latitude_deg> |
|
| 330 |
<longitude_deg> |
|
| 331 |
<_nullIf> |
|
| 332 |
<null>0</null> |
|
| 333 |
<type>float</type> |
|
| 334 |
<value>$Longitude</value> |
|
| 335 |
</_nullIf> |
|
| 336 |
</longitude_deg> |
|
| 337 |
</coordinates> |
|
| 338 |
</coordinates_id> |
|
| 339 |
<country>$Country</country> |
|
| 340 |
<county>$County</county> |
|
| 341 |
<stateprovince>$StateProvince</stateprovince> |
|
| 342 |
</place> |
|
| 343 |
</matched_place_id> |
|
| 344 |
<stateprovince>$StateProvince</stateprovince> |
|
| 345 |
</place> |
|
| 346 |
</place_id> |
|
| 347 |
</locationplace> |
|
| 348 |
</location> |
|
| 349 |
</path> |
|
| 350 |
</_simplifyPath> |
|
| 351 |
</path> |
|
| 352 |
</_setDefault> |
|
| 353 |
</VegBIEN> |
|
| 354 |
Inserted 43 new rows into database |
|
| inputs/NY/Specimen/VegBIEN.csv | ||
|---|---|---|
| 1 |
NY,VegBIEN:/_setDefault:[source_id/source/shortname/_env:[name=source]]/path/_simplifyPath:[next=parent_id]/path,Comments |
|
| 2 |
CatalogNumber,"/_if[@name=""if specimen""]/cond/_exists", |
|
| 3 |
InstitutionCode,"/_if[@name=""if specimen""]/else/source/shortname/_first/1", |
|
| 4 |
CatalogNumber,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/3/_if[@name=""if plot""]/else/_alt/2/_if[@name=""if catalogNumber""]/cond/_exists", |
|
| 5 |
CatalogNumber,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/3/_if[@name=""if plot""]/else/_alt/2/_if[@name=""if catalogNumber""]/then/_join/1/_if[@name=""if specimen""]/cond/_exists", |
|
| 6 |
InstitutionCode,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/3/_if[@name=""if plot""]/else/_alt/2/_if[@name=""if catalogNumber""]/then/_join/1/_if[@name=""if specimen""]/then/_first/2", |
|
| 7 |
CollectionCode,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/3/_if[@name=""if plot""]/else/_alt/2/_if[@name=""if catalogNumber""]/then/_join/2/_join/1", |
|
| 8 |
CatalogNumber,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/3/_if[@name=""if plot""]/else/_alt/2/_if[@name=""if catalogNumber""]/then/_join/3/_if[@name=""if indirect voucher""]/else", |
|
| 9 |
MaximumElevation,/location/elevation_m/_alt/2/_avg/max, |
|
| 10 |
MinimumElevation,/location/elevation_m/_alt/2/_avg/min/_nullIf:[null=.]/value, |
|
| 11 |
FieldNumber,"/location/iscultivated/_or/1/_if[@name=""if TaxonOccurrence""]/cond/_exists",Usage inconsistent with DwC definition |
|
| 12 |
Locality,/location/iscultivated/_or/2/_locationnarrative_is_cultivated/locationnarrative/_join/1/_join/1, |
|
| 13 |
Substrate,"/location/iscultivated/_or/2/_locationnarrative_is_cultivated/locationnarrative/_join/1/_join/2/_label[label=""substrate""]/value", |
|
| 14 |
Vegetation,"/location/iscultivated/_or/2/_locationnarrative_is_cultivated/locationnarrative/_join/1/_join/3/_label[label=""vegetation""]/value", |
|
| 15 |
Habitat,/location/iscultivated/_or/2/_locationnarrative_is_cultivated/locationnarrative/_join/3, |
|
| 16 |
DayIdentified,"/location/locationevent/taxonoccurrence/_if[@name=""if has accepted name""]/then/taxondetermination:[determinationtype=accepted]/determinationdate/_alt/2/_date/day/_nullIf:[null=0,type=float]/value", |
|
| 17 |
MonthIdentified,"/location/locationevent/taxonoccurrence/_if[@name=""if has accepted name""]/then/taxondetermination:[determinationtype=accepted]/determinationdate/_alt/2/_date/month/_nullIf:[null=0,type=float]/value", |
|
| 18 |
YearIdentified,"/location/locationevent/taxonoccurrence/_if[@name=""if has accepted name""]/then/taxondetermination:[determinationtype=accepted]/determinationdate/_alt/2/_date/year/_nullIf:[null=0,type=float]/value", |
|
| 19 |
DayCollected,"/location/locationevent/taxonoccurrence/aggregateoccurrence/collectiondate/_alt/2/_date/day/_nullIf:[null=0,type=float]/value", |
|
| 20 |
MonthCollected,"/location/locationevent/taxonoccurrence/aggregateoccurrence/collectiondate/_alt/2/_date/month/_nullIf:[null=0,type=float]/value", |
|
| 21 |
YearCollected,"/location/locationevent/taxonoccurrence/aggregateoccurrence/collectiondate/_alt/2/_date/year/_nullIf:[null=0,type=float]/value", |
|
| 22 |
IndividualCount,/location/locationevent/taxonoccurrence/aggregateoccurrence/count, |
|
| 23 |
Notes,/location/locationevent/taxonoccurrence/aggregateoccurrence/notes/_join/1, |
|
| 24 |
PlantFungusDescription,"/location/locationevent/taxonoccurrence/aggregateoccurrence/notes/_join/2/_label[label=""plant fungus""]/value", |
|
| 25 |
FieldNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/authorplantcode/_first/2,Usage inconsistent with DwC definition |
|
| 26 |
Sex,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/definedvalue[*_id/userdefined[tablename=plantobservation,userdefinedname=sex]]:[@fkey=tablerecord_id]/definedvalue","Brad: OMIT. Apparently not used by this institution and of uncertain applicability to plants. With other collections, *sometimes* used for phenological information (if specimen in flower, in fruit, sterile, etc.). If so, this is important information we should keep. Bob, Nick, anywhere for phenological information in VB and VX?; Aaron: Keeping it because it's useful for some collections" |
|
| 27 |
CatalogNumber,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/else", |
|
| 28 |
CollectionCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectioncode_dwc/_join/1,Brad: Not sure if mapping correct. DwC element; code for entire collection; often same as InstitutionCode; Aaron: Combining with InstitutionCode to create collection name |
|
| 29 |
FieldNumber,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectionnumber/_if[@name=""if indirect voucher""]/else",Usage inconsistent with DwC definition |
|
| 30 |
CatalogNumber,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/cond/_exists", |
|
| 31 |
InstitutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/name/_first/2", |
|
| 32 |
InstitutionCode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/sourcelist/_if[@name=""if specimen""]/then/sourcename/name/_first/2/_split:[separator=""[,;] *""]/value", |
|
| 33 |
FieldNumber,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/2/_first/3",Usage inconsistent with DwC definition |
|
| 34 |
ScientificName,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/then/_first/3/_first/3", |
|
| 35 |
Collector,/location/locationevent/taxonoccurrence/collector_id/party/fullname, |
|
| 36 |
FieldNumber,"/location/locationevent/taxonoccurrence/iscultivated/_alt/1/_if[@name=""if TaxonOccurrence""]/cond/_exists",Usage inconsistent with DwC definition |
|
| 37 |
IdentifiedBy,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/party/fullname, |
|
| 38 |
Subspecies,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/parent_id/taxonlabel/parent_id/_forEach:[in:[cultivar,forma,variety,],do=""taxonlabel[rank=_val]/parent_id""]/taxonlabel[rank=subspecies]/taxonepithet", |
|
| 39 |
Species,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/parent_id/taxonlabel/parent_id/_forEach:[in:[cultivar,forma,variety,subspecies,],do=""taxonlabel[rank=_val]/parent_id""]/taxonlabel[rank=species]/taxonepithet", |
|
| 40 |
Genus,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/parent_id/taxonlabel/parent_id/_forEach:[in:[cultivar,forma,variety,subspecies,species,],do=""taxonlabel[rank=_val]/parent_id""]/taxonlabel[rank=genus]/taxonepithet", |
|
| 41 |
Family,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/parent_id/taxonlabel/parent_id/_forEach:[in:[cultivar,forma,variety,subspecies,species,genus,],do=""taxonlabel[rank=_val]/parent_id""]/taxonlabel[rank=family]/taxonepithet", |
|
| 42 |
Order,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/parent_id/taxonlabel/parent_id/_forEach:[in:[cultivar,forma,variety,subspecies,species,genus,family,],do=""taxonlabel[rank=_val]/parent_id""]/taxonlabel[rank=order]/taxonepithet", |
|
| 43 |
Class,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/parent_id/taxonlabel/parent_id/_forEach:[in:[cultivar,forma,variety,subspecies,species,genus,family,order,],do=""taxonlabel[rank=_val]/parent_id""]/taxonlabel[rank=class]/taxonepithet", |
|
| 44 |
Phylum,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/parent_id/taxonlabel/parent_id/_forEach:[in:[cultivar,forma,variety,subspecies,species,genus,family,order,class,],do=""taxonlabel[rank=_val]/parent_id""]/taxonlabel[rank=phylum]/taxonepithet", |
|
| 45 |
Kingdom,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/parent_id/taxonlabel/parent_id/_forEach:[in:[cultivar,forma,variety,subspecies,species,genus,family,order,class,phylum,],do=""taxonlabel[rank=_val]/parent_id""]/taxonlabel[rank=kingdom]/taxonepithet", |
|
| 46 |
Family,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_merge_prefix/prefix/_taxon_family_require_std/family, |
|
| 47 |
ScientificName,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_merge_prefix/value/_alt/2/_join_words/1/_alt/1, |
|
| 48 |
Genus,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_merge_prefix/value/_alt/2/_join_words/1/_alt/2/_join_words/2, |
|
| 49 |
Species,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_merge_prefix/value/_alt/2/_join_words/1/_alt/2/_join_words/3/_join_words/1, |
|
| 50 |
Subspecies,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_merge_prefix/value/_alt/2/_join_words/1/_alt/2/_join_words/4, |
|
| 51 |
ScientificNameAuthor,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/*_id/taxonlabel/taxonomicname/_merge_prefix/value/_alt/2/_join_words/2, |
|
| 52 |
ScientificNameAuthor,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/author, |
|
| 53 |
Family,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/family, |
|
| 54 |
Genus,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/genus, |
|
| 55 |
Species,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/specific_epithet, |
|
| 56 |
ScientificName,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/taxonname, |
|
| 57 |
DayIdentified,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/determinationdate/_alt/2/_date/day/_nullIf:[null=0,type=float]/value", |
|
| 58 |
MonthIdentified,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/determinationdate/_alt/2/_date/month/_nullIf:[null=0,type=float]/value", |
|
| 59 |
YearIdentified,"/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/determinationdate/_alt/2/_date/year/_nullIf:[null=0,type=float]/value", |
|
| 60 |
CatalogNumber,"/location/locationevent/taxonoccurrence/voucher/*_id/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/then", |
|
| 61 |
FieldNumber,"/location/locationevent/taxonoccurrence/voucher/*_id/specimenreplicate/collectionnumber/_if[@name=""if indirect voucher""]/then",Usage inconsistent with DwC definition |
|
| 62 |
MaximumDepth,/location/locationevent/waterdepth_m/_avg/max, |
|
| 63 |
MinimumDepth,/location/locationevent/waterdepth_m/_avg/min, |
|
| 64 |
Locality,/location/locationnarrative/_merge/1/_join/1, |
|
| 65 |
Substrate,"/location/locationnarrative/_merge/1/_join/2/_label[label=""substrate""]/value", |
|
| 66 |
Vegetation,"/location/locationnarrative/_merge/1/_join/3/_label[label=""vegetation""]/value", |
|
| 67 |
Habitat,"/location/locationnarrative/_merge/3/_label[label=""habitat""]/value","Brad: Free-text description of vegetation community where collected, frequently redundane wrt 'Vegetation'. Bob, Nick: keep as user defined or create special element?" |
|
| 68 |
CoordinatePrecision,/location/locationplace/*_id/place/*_id/coordinates/coordsaccuracy_m/_noCV/value,"Usage inconsistent with DwC definition, which only allows degrees. Assuming units based on the range and precision of values." |
|
| 69 |
BoundingBox,/location/locationplace/*_id/place/*_id/coordinates/footprintgeometry_dwc, |
|
| 70 |
Latitude,"/location/locationplace/*_id/place/*_id/coordinates/latitude_deg/_nullIf:[null=0,type=float]/value", |
|
| 71 |
Longitude,"/location/locationplace/*_id/place/*_id/coordinates/longitude_deg/_nullIf:[null=0,type=float]/value", |
|
| 72 |
ContinentOcean,/location/locationplace/*_id/place/continent, |
|
| 73 |
Country,/location/locationplace/*_id/place/country, |
|
| 74 |
County,/location/locationplace/*_id/place/county, |
|
| 75 |
Latitude,"/location/locationplace/*_id/place/matched_place_id/place:[.,source_id/source/shortname=geoscrub]/*_id/coordinates:[source_id/source/shortname=geoscrub]/_first/2/latitude_deg/_nullIf:[null=0,type=float]/value",""".,"" sorts it with other coordinates mappings" |
|
| 76 |
Longitude,"/location/locationplace/*_id/place/matched_place_id/place:[.,source_id/source/shortname=geoscrub]/*_id/coordinates:[source_id/source/shortname=geoscrub]/_first/2/longitude_deg/_nullIf:[null=0,type=float]/value",""".,"" sorts it with other coordinates mappings" |
|
| 77 |
Country,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/country/_first/2, |
|
| 78 |
County,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/county/_first/2, |
|
| 79 |
StateProvince,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/stateprovince/_first/2, |
|
| 80 |
StateProvince,/location/locationplace/*_id/place/stateprovince, |
|
| 81 |
BasisOfRecord,,** No join mapping for basisOfRecord ** |
|
| 82 |
CollectorNumber,,** No non-empty join mapping for UNUSED ** |
|
| 83 |
DateLastModified,,** No join mapping for modified ** |
|
| 84 |
JulianDay,,** No join mapping for day ** |
|
| 85 |
PreparationType,,** No join mapping for preparations ** |
|
| 86 |
PreviousCatalogNumber,,** No join mapping for otherCatalogNumbers ** |
|
| 87 |
RelatedCatalogItem,,** No join mapping for relatedResourceID ** |
|
| 88 |
RelationshipType,,** No join mapping for relationshipOfResource ** |
|
| 89 |
TimeOfDay,,** No join mapping for eventTime ** |
|
| 90 |
TypeStatus,,** No join mapping for typeStatus ** |
|
| 91 |
UniqueNYInternalRecordNumber,,"** No non-empty join mapping for OMIT ** Globally unique when provided, but omitted to avoid confusion since this is an internal-only ID" |
|
| 92 |
key,,** No non-empty join mapping for OMIT ** UniqueNYInternalRecordNumber is a better pkey |
|
| inputs/NY/Specimen/new_terms.csv | ||
|---|---|---|
| 1 |
key,OMIT,,UniqueNYInternalRecordNumber is a better pkey |
|
| 2 |
CoordinatePrecision,coordinateUncertaintyInMeters,,"Usage inconsistent with DwC definition, which only allows degrees. Assuming units based on the range and precision of values." |
|
| 3 |
PlantFungusDescription,organismNotes,"/_join/2/_label[label=""plant fungus""]/value", |
|
| 4 |
Substrate,locality,"/_join/2/_label[label=""substrate""]/value", |
|
| 5 |
Vegetation,locality,"/_join/3/_label[label=""vegetation""]/value", |
|
| 6 |
UniqueNYInternalRecordNumber,OMIT,,"Globally unique when provided, but omitted to avoid confusion since this is an internal-only ID" |
|
| inputs/NY/Specimen/unmapped_terms.csv | ||
|---|---|---|
| 1 |
modified |
|
| 2 |
basisOfRecord |
|
| 3 |
typeStatus |
|
| 4 |
day |
|
| 5 |
eventTime |
|
| 6 |
preparations |
|
| 7 |
otherCatalogNumbers |
|
| 8 |
relationshipOfResource |
|
| 9 |
relatedResourceID |
|
| inputs/NY/import_order.txt | ||
|---|---|---|
| 1 | 1 |
Source |
| 2 |
Specimen |
|
| 3 | 2 |
Ecatalog_all |
Also available in: Unified diff
inputs/NY/: Removed tables from previous extract