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Revision 4707

mappings/VegCore-VegBIEN.csv: Moved scientificNameWithAuthorship before scientificName in taxonoccurrence.authortaxoncode's _alts

View differences:

inputs/XAL/Specimen/VegBIEN.csv
27 27
darwin:InstitutionCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/party/organizationname,
28 28
darwin:CollectorNumber,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/1/_alt/1,
29 29
darwin:FieldNumber,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/1/_alt/2,"This historical DwC term (http://rs.tdwg.org/dwc/terms/history/index.htm#fieldNumber-2009-04-24) has close to the same meaning as recordNumber (http://rs.tdwg.org/dwc/terms/#recordNumber). It is also unused: `grep -F ""<darwin:FieldNumber>"" inputs/XAL/src/digir.specimens.xml` returns no lines."
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darwin:ScientificName,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/2,
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darwin:ScientificName,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/3,
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darwin:IdentifiedBy,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/party/givenname/_namePart/first,
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darwin:IdentifiedBy,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/party/middlename/_namePart/middle,
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darwin:IdentifiedBy,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/party/surname/_namePart/last,
inputs/NY/Specimen/VegBIEN.csv
29 29
InstitutionCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/party/organizationname,
30 30
UniqueNYInternalRecordNumber,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode,
31 31
FieldNumber,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/1,Usage inconsistent with DwC definition
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ScientificName,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/2,
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ScientificName,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/3,
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IdentifiedBy,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/party/givenname/_namePart/first,
34 34
IdentifiedBy,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/party/middlename/_namePart/middle,
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IdentifiedBy,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/party/surname/_namePart/last,
inputs/Madidi/Organism/VegBIEN.csv
22 22
Subplot X,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/xposition,
23 23
Subplot Y,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/yposition,
24 24
Tree number,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/1,
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Specie+autor,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/2,
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Specie+autor,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/3,
26 26
Habit,"/location/locationevent/taxonoccurrence/growthform/_map:[./{T,Arbol,palm}=tree,./{H,""Hemiepífito""}=hemiepiphyte,./{L,l,""L?"",Liana}=liana,E=epiphyte,S=shrub,Hb=herb,""vine-herbaceous""=vine,graminoid=grass,rosette=forb,*=*]/value","According to <http://salvias.net/Documents/salvias_data_dictionary.html#Plot+data.habit>, <https://projects.nceas.ucsb.edu/nceas/projects/bien/wiki/SALVIAS#Habit>"
27 27
Determined by,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/party/givenname/_namePart/first,
28 28
Determined by,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/party/middlename/_namePart/middle,
inputs/UNCC/Specimen/VegBIEN.csv
18 18
herbarium,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/party/organizationname,
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accession,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode,
20 20
collectno,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/1,
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SciName,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/2,
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SciName,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/3,
22 22
cultivated,/location/locationevent/taxonoccurrence/iscultivated/_alt/1,Ignore other values
23 23
family,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/plantconcept/family,
24 24
genus,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/plantconcept/genus,
inputs/ACAD/Specimen/VegBIEN.csv
20 20
institutionCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/party/organizationname,
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id,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode,
22 22
recordNumber,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/1,
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scientificName,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/2,
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scientificName,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/3,
24 24
identifiedBy,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/party/givenname/_namePart/first,
25 25
identifiedBy,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/party/middlename/_namePart/middle,
26 26
identifiedBy,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/party/surname/_namePart/last,
inputs/CVS/Organism/VegBIEN.csv
10 10
authorObsCode,"/location/locationevent/_if[@name=""if subplot""]/then/_if[@name=""if event""]/then/parent_id/locationevent/authorlocationcode",
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obsStartDate,/location/locationevent/obsstartdate/_*/date/_alt/1,
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%cover,/location/locationevent/taxonoccurrence/aggregateoccurrence/cover,
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currentTaxonName sec Weakley 2006,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/2,
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currentTaxonName sec Weakley 2006,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/3,
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currentTaxonName sec Weakley 2006,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/plantconcept/scientificname,
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confidentialityStatus,,** No join mapping for confidentialityStatus ** 
16 16
realLatitude,,** No join mapping for OMIT ** 
inputs/ARIZ/Specimen/VegBIEN.csv
34 34
InstitutionCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/party/organizationname,
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GlobalUniqueIdentifier,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode,
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CollectorNumber,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/1,
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ScientificNameAuthor,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/2/_alt/1,Contains the binomial in addition to the authority
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ScientificName,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/2/_alt/2,
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ScientificNameAuthor,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/3/_alt/1,Contains the binomial in addition to the authority
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ScientificName,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/3/_alt/2,
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IdentifiedBy,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/party/givenname/_namePart/first,
40 40
IdentifiedBy,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/party/middlename/_namePart/middle,
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IdentifiedBy,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/party/surname/_namePart/last,
inputs/GBIF/Specimen/VegBIEN.csv
19 19
CollectionCD,/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
20 20
InstitutionCD,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/party/organizationname,
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ScientificNameOriginal,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/1,
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ScientificName,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/2,
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ScientificName,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/3,
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IdentifiedBy,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/party/givenname/_namePart/first,
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IdentifiedBy,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/party/middlename/_namePart/middle,
25 25
IdentifiedBy,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/party/surname/_namePart/last,
inputs/GBIF/Specimen/test.xml.ref
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                        <authortaxoncode>
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                            <_alt>
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                                <1>$ScientificNameOriginal</1>
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                                <2>$ScientificName</2>
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                                <3>$ScientificName</3>
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                            </_alt>
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                        </authortaxoncode>
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                        <taxondetermination>
inputs/NCU-NCSC/Specimen/VegBIEN.csv
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Barcode,"/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/else",
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SeriesName,/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
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Accession Number,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode,
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Full Taxon Name,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/2,
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Full Taxon Name,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/3,
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Cultivated?,/location/locationevent/taxonoccurrence/iscultivated/_alt/1,
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Full Taxon Name,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/plantconcept/scientificname,
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Barcode,"/location/locationevent/taxonoccurrence/voucher/*_id/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/then",
inputs/SpeciesLink/Specimen/VegBIEN.csv
107 107
-----"
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conceptual_darwin_2003_1_0_CollectorNumber,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/1/_alt/3,
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dwc_curatorial_CollectorNumber,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/1/_alt/3,
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conceptual_darwin_2003_1_0_ScientificName,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/2,
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dwc_dwcore_ScientificName,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/2,
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dwc_terms_scientificName,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/2,
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conceptual_darwin_2003_1_0_ScientificName,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/3,
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dwc_dwcore_ScientificName,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/3,
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dwc_terms_scientificName,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/3,
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conceptual_darwin_2003_1_0_IdentifiedBy,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/party/givenname/_namePart/first,
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dwc_curatorial_IdentifiedBy,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/party/givenname/_namePart/first,
115 115
dwc_terms_identifiedBy,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/party/givenname/_namePart/first,
inputs/MO/Specimen/VegBIEN.csv
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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
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InstitutionCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/party/organizationname,
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CollectorNumber,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/1,
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ScientificName,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/2,
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ScientificName,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/3,
28 28
IdentifiedBy,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/party/givenname/_namePart/first,
29 29
IdentifiedBy,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/party/middlename/_namePart/middle,
30 30
IdentifiedBy,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/party/surname/_namePart/last,
inputs/QMOR/Specimen/VegBIEN.csv
30 30
collectionID,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/collectioncode_dwc/_join/2,
31 31
institutionCode,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/institution_id/party/organizationname,
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id,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/specimenreplicate/sourceaccessioncode,
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scientificName,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/2,
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scientificName,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/3,
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identifiedBy,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/party/givenname/_namePart/first,
35 35
identifiedBy,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/party/middlename/_namePart/middle,
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identifiedBy,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/party/surname/_namePart/last,
mappings/VegCore-VegBIEN.csv
106 106
organismY,/location/locationevent/taxonoccurrence/aggregateoccurrence/plantobservation/stemobservation/yposition,
107 107
recordNumber,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/1,
108 108
verbatimScientificName,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/1,
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scientificName,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/2,
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scientificNameWithAuthorship,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/3,
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scientificNameWithAuthorship,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/2,
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scientificName,/location/locationevent/taxonoccurrence/authortaxoncode/_alt/2/_alt/3,
111 111
growthForm,/location/locationevent/taxonoccurrence/growthform,
112 112
verbatimGrowthForm,"/location/locationevent/taxonoccurrence/growthform/_map:[./{T,Arbol,palm}=tree,./{H,""Hemiepífito""}=hemiepiphyte,./{L,l,""L?"",Liana}=liana,E=epiphyte,S=shrub,Hb=herb,""vine-herbaceous""=vine,graminoid=grass,rosette=forb,*=*]/value","According to <http://salvias.net/Documents/salvias_data_dictionary.html#Plot+data.habit>, <https://projects.nceas.ucsb.edu/nceas/projects/bien/wiki/SALVIAS#Habit>"
113 113
cultivated,/location/locationevent/taxonoccurrence/iscultivated/_alt/1,
mappings/for_review/VegCore-VegBIEN.csv
106 106
organismY,//stemobservation/yposition,
107 107
recordNumber,//taxonoccurrence/authortaxoncode,
108 108
verbatimScientificName,//taxonoccurrence/authortaxoncode,
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scientificNameWithAuthorship,//taxonoccurrence/authortaxoncode,
109 110
scientificName,//taxonoccurrence/authortaxoncode,
110
scientificNameWithAuthorship,//taxonoccurrence/authortaxoncode,
111 111
growthForm,//taxonoccurrence/growthform,
112 112
verbatimGrowthForm,//taxonoccurrence/growthform,"According to <http://salvias.net/Documents/salvias_data_dictionary.html#Plot+data.habit>, <https://projects.nceas.ucsb.edu/nceas/projects/bien/wiki/SALVIAS#Habit>"
113 113
cultivated,//taxonoccurrence/iscultivated,

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