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Revision 5905

mappings/VegCore-VegBIEN.csv: Map locationID to place.placecode instead when geovalidation columns are provided

View differences:

inputs/Madidi/Organism/VegBIEN.csv
4 4
Inventory code,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/2/_if[@name=""if locationID""]/cond/_exists",
5 5
Specimen,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/3/_alt/2/_if[@name=""if catalogNumber""]/cond/_exists",
6 6
Specimen,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/3/_alt/2/_if[@name=""if catalogNumber""]/then/_join/3/_if[@name=""if indirect voucher""]/else",
7
Inventory code,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode",
7
Inventory code,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode/_if[@name=""if geovalidation""]/else",
8 8
Inventory name,"/location/_if[@name=""if subplot""]/then/parent_id/location/authorlocationcode",
9 9
Inventory code,"/location/_if[@name=""if subplot""]/then/parent_id/location/sourceaccessioncode",
10 10
Number of subplot,/location/authorlocationcode,
......
65 65
Field name,/location/locationevent/taxonoccurrence/taxondetermination[isoriginal=true]/*_id/taxonverbatim/genus,Often = Genera
66 66
Index collector,/location/locationevent/taxonoccurrence/verbatimcollectorname,
67 67
Specimen,"/location/locationevent/taxonoccurrence/voucher/*_id/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/then",
68
Inventory code,"/location/locationplace/*_id/place/placecode/_if[@name=""if geovalidation""]/then",
68 69
Number of subplot,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/cond/_exists",
69 70
Inventory code,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/then/_first/1",
70 71
Inventory name,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/then/_first/2",
inputs/Madidi/Plot/VegBIEN.csv
1 1
Madidi,VegBIEN:/_simplifyPath:[next=parent_id]/path,Comments
2 2
Inventory name,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/1",
3 3
Inventory code,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/2/_if[@name=""if locationID""]/cond/_exists",
4
Inventory code,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode",
4
Inventory code,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode/_if[@name=""if geovalidation""]/else",
5 5
Inventory name,"/location/_if[@name=""if subplot""]/then/parent_id/location/authorlocationcode",
6 6
Inventory code,"/location/_if[@name=""if subplot""]/then/parent_id/location/sourceaccessioncode",
7 7
Area,/location/area_m2/_ha_to_m2/value,"""0.1 ha transects"" (""Madidi Transects"" description in <https://projects.nceas.ucsb.edu/nceas/projects/bien/repository/raw/inputs/BIEN2.datasources.xlsx>)"
......
88 88
Longitude,"/location/locationplace/*_id/place/*_id/coordinates/longitude_deg/_nullIf:[null=0,type=float]/value",
89 89
Latitude (DMS),/location/locationplace/*_id/place/*_id/coordinates/verbatimlatitude,
90 90
Longitude (DMS),/location/locationplace/*_id/place/*_id/coordinates/verbatimlongitude,
91
Inventory code,"/location/locationplace/*_id/place/placecode/_if[@name=""if geovalidation""]/then",
91 92
Observaciones,/location/notespublic,
92 93
Direction,/location/slopeaspect_deg/_alt/1/_compass/value/_alt/1,Part files provide either this field or OrientaciĆ³n
93 94
OrientaciĆ³n/exposicion,/location/slopeaspect_deg/_alt/1/_compass/value/_alt/2,Part files provide either this field or Direction
inputs/SALVIAS-CSV/Organism/VegBIEN.csv
7 7
det_type,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/3/_alt/2/_if[@name=""if catalogNumber""]/then/_join/3/_if[@name=""if indirect voucher""]/cond/_eq:[right=indirect]/left","Brad: A SALVIAS value referring to the relationship between the voucher specimen and the observation. Affect how the identification of the specimen(latin name) is transferred to the observation. 'direct'=voucher specimen was collected from this same tree; they are one and the same individual. 'indirect'=voucher specimen was collected for a different individual, but the original data provider confirmed that this is the same species. 'default'=basically same as 'indirect'. 'uncollected'=no voucher specimen, data provider  asserted that this was the name but was unable to collect. The main different is that with 'direct', 'indirect', and 'default', the scientific name can be updated automatically based on the name attached to the specimen voucher (assuming you have a link to that data, presumably from a herbarium database. Whereas, if det_type='uncollected', the name can never change because there is no specimen."
8 8
coll_number,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/3/_alt/2/_if[@name=""if catalogNumber""]/then/_join/3/_if[@name=""if indirect voucher""]/else/_alt/1",Brad: Map instead as for voucher_string
9 9
voucher_string,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/3/_alt/2/_if[@name=""if catalogNumber""]/then/_join/3/_if[@name=""if indirect voucher""]/else/_alt/2","Brad: OMIT. This is the verbatim text, which includes both collectors name and collection number. I would use coll_number, below."
10
PLOT_ID,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode",
10
PLOT_ID,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode/_if[@name=""if geovalidation""]/else",
11 11
plot_code,"/location/_if[@name=""if subplot""]/then/parent_id/location/authorlocationcode",
12 12
PLOT_ID,"/location/_if[@name=""if subplot""]/then/parent_id/location/sourceaccessioncode",
13 13
subplot,/location/authorlocationcode,
......
108 108
det_type,"/location/locationevent/taxonoccurrence/voucher/*_id/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/cond/_eq:[right=indirect]/left","Brad: A SALVIAS value referring to the relationship between the voucher specimen and the observation. Affect how the identification of the specimen(latin name) is transferred to the observation. 'direct'=voucher specimen was collected from this same tree; they are one and the same individual. 'indirect'=voucher specimen was collected for a different individual, but the original data provider confirmed that this is the same species. 'default'=basically same as 'indirect'. 'uncollected'=no voucher specimen, data provider  asserted that this was the name but was unable to collect. The main different is that with 'direct', 'indirect', and 'default', the scientific name can be updated automatically based on the name attached to the specimen voucher (assuming you have a link to that data, presumably from a herbarium database. Whereas, if det_type='uncollected', the name can never change because there is no specimen."
109 109
coll_number,"/location/locationevent/taxonoccurrence/voucher/*_id/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/then/_alt/1",Brad: Map instead as for voucher_string
110 110
voucher_string,"/location/locationevent/taxonoccurrence/voucher/*_id/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/then/_alt/2","Brad: OMIT. This is the verbatim text, which includes both collectors name and collection number. I would use coll_number, below."
111
PLOT_ID,"/location/locationplace/*_id/place/placecode/_if[@name=""if geovalidation""]/then",
111 112
subplot,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/cond/_exists",
112 113
PLOT_ID,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/then/_first/1",
113 114
plot_code,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/then/_first/2",
inputs/SALVIAS-CSV/Plot/VegBIEN.csv
1 1
SALVIAS-CSV,VegBIEN:/_simplifyPath:[next=parent_id]/path,Comments
2 2
plot_code,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/1",Brad: plotCode is as-assigned by data provider; guranteed to be unique only within dataset (=project)
3 3
PLOT_ID,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/2/_if[@name=""if locationID""]/cond/_exists","Brad: This is artificial internal database ID; a unique identifier within SALVIAS DB to each plot, within the table plotMetadata."
4
PLOT_ID,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode","Brad: This is artificial internal database ID; a unique identifier within SALVIAS DB to each plot, within the table plotMetadata."
4
PLOT_ID,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode/_if[@name=""if geovalidation""]/else","Brad: This is artificial internal database ID; a unique identifier within SALVIAS DB to each plot, within the table plotMetadata."
5 5
plot_code,"/location/_if[@name=""if subplot""]/then/parent_id/location/authorlocationcode",Brad: plotCode is as-assigned by data provider; guranteed to be unique only within dataset (=project)
6 6
PLOT_ID,"/location/_if[@name=""if subplot""]/then/parent_id/location/sourceaccessioncode","Brad: This is artificial internal database ID; a unique identifier within SALVIAS DB to each plot, within the table plotMetadata."
7 7
plot_area_ha,/location/area_m2/_ha_to_m2/value,"Brad: Area in hectares. Is there any way to store units?; Aaron: VegX plot area annotation says ""Total area of the plot in square meters."" so units are fixed"
......
43 43
major_geo,/location/locationplace/*_id/place/continent,
44 44
country,/location/locationplace/*_id/place/country,
45 45
pol2,/location/locationplace/*_id/place/county,Brad: No pol2=countyParish
46
PLOT_ID,"/location/locationplace/*_id/place/placecode/_if[@name=""if geovalidation""]/then","Brad: This is artificial internal database ID; a unique identifier within SALVIAS DB to each plot, within the table plotMetadata."
46 47
pol1,/location/locationplace/*_id/place/stateprovince,Brad: No; pol1=stateProvince
47 48
slope_aspect,/location/slopeaspect_deg/_alt/1/_compass/value,
48 49
slope_gradient,/location/slopegradient_fraction/_alt/1,
inputs/CTFS/StemObservation/VegBIEN.csv
1 1
CTFS,VegBIEN:/_simplifyPath:[next=parent_id]/path,Comments
2 2
QuadratID,"/location/_if[@name=""if subplot""]/cond/_exists",Not globally unique; unique only within Site
3 3
PlotID,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/2/_if[@name=""if locationID""]/cond/_exists",
4
PlotID,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode",
4
PlotID,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode/_if[@name=""if geovalidation""]/else",
5 5
PlotID,"/location/_if[@name=""if subplot""]/then/parent_id/location/sourceaccessioncode",
6 6
QuadratID,/location/authorlocationcode,Not globally unique; unique only within Site
7 7
QuadratID,"/location/locationevent/_if[@name=""if subplot""]/cond/_exists",Not globally unique; unique only within Site
......
41 41
Family,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/family,
42 42
Genus,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/genus,
43 43
SpeciesName,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/specific_epithet,
44
PlotID,"/location/locationplace/*_id/place/placecode/_if[@name=""if geovalidation""]/then",
44 45
QuadratID,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/cond/_exists",Not globally unique; unique only within Site
45 46
PlotID,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/then/_first/1",
46 47
QuadratID,/location/sourceaccessioncode/_join/2,Not globally unique; unique only within Site
inputs/CTFS/Subplot/VegBIEN.csv
1 1
CTFS,VegBIEN:/_simplifyPath:[next=parent_id]/path,Comments
2 2
QuadratID,"/location/_if[@name=""if subplot""]/cond/_exists",Not globally unique; unique only within Site
3 3
PlotID,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/2/_if[@name=""if locationID""]/cond/_exists",
4
PlotID,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode",
4
PlotID,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode/_if[@name=""if geovalidation""]/else",
5 5
PlotID,"/location/_if[@name=""if subplot""]/then/parent_id/location/sourceaccessioncode",
6 6
QuadratID,/location/authorlocationcode,Not globally unique; unique only within Site
7 7
QuadratID,"/location/locationevent/_if[@name=""if subplot""]/cond/_exists",Not globally unique; unique only within Site
8 8
PlotID,"/location/locationevent/_if[@name=""if subplot""]/then/_if[@name=""if event""]/then/parent_id/locationevent/*_id/location/sourceaccessioncode",
9 9
PlotID,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/cond/_exists",
10
PlotID,"/location/locationplace/*_id/place/placecode/_if[@name=""if geovalidation""]/then",
10 11
QuadratID,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/cond/_exists",Not globally unique; unique only within Site
11 12
PlotID,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/then/_first/1",
12 13
QuadratID,/location/sourceaccessioncode/_join/2,Not globally unique; unique only within Site
inputs/CTFS/PlotObservation/VegBIEN.csv
1 1
CTFS,VegBIEN:/_simplifyPath:[next=parent_id]/path,Comments
2 2
PlotID,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/2/_if[@name=""if locationID""]/cond/_exists",
3 3
PlotCensusNumber,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/2/_if[@name=""if locationID""]/else",
4
PlotID,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode",
4
PlotID,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode/_if[@name=""if geovalidation""]/else",
5 5
PlotID,"/location/_if[@name=""if subplot""]/then/parent_id/location/sourceaccessioncode",
6 6
PlotCensusNumber,"/location/locationevent/_if[@name=""if subplot""]/else/authoreventcode",
7 7
CensusID,"/location/locationevent/_if[@name=""if subplot""]/else/sourceaccessioncode",
......
15 15
CensusID,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/cond/_exists",
16 16
PlotCensusNumber,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/cond/_exists",
17 17
PlotID,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/cond/_exists",
18
PlotID,"/location/locationplace/*_id/place/placecode/_if[@name=""if geovalidation""]/then",
18 19
PlotID,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/then/_first/1",
19 20
Description,,** No join mapping for *Description ** 
inputs/CTFS/TaxonOccurrence/VegBIEN.csv
1 1
CTFS,VegBIEN:/_simplifyPath:[next=parent_id]/path,Comments
2 2
PlotID,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/2/_if[@name=""if locationID""]/cond/_exists",
3
PlotID,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode",
3
PlotID,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode/_if[@name=""if geovalidation""]/else",
4 4
PlotID,"/location/_if[@name=""if subplot""]/then/parent_id/location/sourceaccessioncode",
5 5
CensusID,"/location/locationevent/_if[@name=""if subplot""]/else/sourceaccessioncode",
6 6
CensusID,"/location/locationevent/_if[@name=""if subplot""]/then/_if[@name=""if event""]/cond/_exists",
......
26 26
Family,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/family,
27 27
Genus,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/genus,
28 28
SpeciesName,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/specific_epithet,
29
PlotID,"/location/locationplace/*_id/place/placecode/_if[@name=""if geovalidation""]/then",
29 30
PlotID,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/then/_first/1",
30 31
Description,,** No join mapping for *Description ** 
31 32
FamilyID,,** No join mapping for *FamilyID ** 
inputs/CTFS/SubplotObservation/VegBIEN.csv
1 1
CTFS,VegBIEN:/_simplifyPath:[next=parent_id]/path,Comments
2 2
QuadratID,"/location/_if[@name=""if subplot""]/cond/_exists",Not globally unique; unique only within Site
3 3
PlotID,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/2/_if[@name=""if locationID""]/cond/_exists",
4
PlotID,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode",
4
PlotID,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode/_if[@name=""if geovalidation""]/else",
5 5
PlotID,"/location/_if[@name=""if subplot""]/then/parent_id/location/sourceaccessioncode",
6 6
QuadratID,/location/authorlocationcode,Not globally unique; unique only within Site
7 7
QuadratID,"/location/locationevent/_if[@name=""if subplot""]/cond/_exists",Not globally unique; unique only within Site
......
11 11
CensusID,"/location/locationevent/_if[@name=""if subplot""]/then/_if[@name=""if event""]/then/parent_id/locationevent/sourceaccessioncode",
12 12
CensusID,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/cond/_exists",
13 13
PlotID,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/cond/_exists",
14
PlotID,"/location/locationplace/*_id/place/placecode/_if[@name=""if geovalidation""]/then",
14 15
QuadratID,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/cond/_exists",Not globally unique; unique only within Site
15 16
PlotID,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/then/_first/1",
16 17
QuadratID,/location/sourceaccessioncode/_join/2,Not globally unique; unique only within Site
inputs/CTFS/Plot/VegBIEN.csv
1 1
CTFS,VegBIEN:/_simplifyPath:[next=parent_id]/path,Comments
2 2
PlotName,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/1",
3 3
PlotID,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/2/_if[@name=""if locationID""]/cond/_exists",
4
PlotID,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode",
4
PlotID,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode/_if[@name=""if geovalidation""]/else",
5 5
PlotName,"/location/_if[@name=""if subplot""]/then/parent_id/location/authorlocationcode",
6 6
PlotID,"/location/_if[@name=""if subplot""]/then/parent_id/location/sourceaccessioncode",
7 7
SizeOfSite,/location/area_m2/_ha_to_m2/value,"""Size in hectares"" (SizeOfSite comments in <https://projects.nceas.ucsb.edu/nceas/projects/bien/repository/raw/inputs/CTFS/_src/ctfs-comments_worksheet.xls>)"
......
24 24
Latitude,"/location/locationplace/*_id/place/*_id/coordinates/latitude_deg/_nullIf:[null=0,type=float]/value",
25 25
Longitude,"/location/locationplace/*_id/place/*_id/coordinates/longitude_deg/_nullIf:[null=0,type=float]/value",
26 26
CountryName,/location/locationplace/*_id/place/country,
27
PlotID,"/location/locationplace/*_id/place/placecode/_if[@name=""if geovalidation""]/then",
27 28
PlotID,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/then/_first/1",
28 29
PlotName,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/then/_first/2",
29 30
CountryID,,** No join mapping for *CountryID ** 
inputs/FIA/Organism/VegBIEN.csv
1 1
FIA,VegBIEN:/_simplifyPath:[next=parent_id]/path,Comments
2 2
PlotCD,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/2/_if[@name=""if locationID""]/cond/_exists",
3
PlotCD,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode",
3
PlotCD,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode/_if[@name=""if geovalidation""]/else",
4 4
PlotCD,"/location/_if[@name=""if subplot""]/then/parent_id/location/sourceaccessioncode",
5 5
PlotCD,"/location/locationevent/_if[@name=""if subplot""]/then/_if[@name=""if event""]/then/parent_id/locationevent/*_id/location/sourceaccessioncode",
6 6
MeasDay,"/location/locationevent/taxonoccurrence/aggregateoccurrence/collectiondate/_alt/2/_date/day/_nullIf:[null=0,type=float]/value",
......
26 26
DecimalLatitude,"/location/locationplace/*_id/place/*_id/coordinates/latitude_deg/_nullIf:[null=0,type=float]/value",
27 27
DecimalLongitude,"/location/locationplace/*_id/place/*_id/coordinates/longitude_deg/_nullIf:[null=0,type=float]/value",
28 28
County,/location/locationplace/*_id/place/county,
29
PlotCD,"/location/locationplace/*_id/place/placecode/_if[@name=""if geovalidation""]/then",
29 30
StateProvince,/location/locationplace/*_id/place/stateprovince,
30 31
PlotCD,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/then/_first/1",
31 32
HOM,,** No join mapping for *HOM ** 
inputs/SALVIAS/plotMetadata/VegBIEN.csv
1 1
SALVIAS,VegBIEN:/_simplifyPath:[next=parent_id]/path,Comments
2 2
SiteCode,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/1",Brad: plotCode is as-assigned by data provider; guranteed to be unique only within dataset (=project)
3 3
PlotID,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/2/_if[@name=""if locationID""]/cond/_exists","Brad: This is artificial internal database ID; a unique identifier within SALVIAS DB to each plot, within the table plotMetadata."
4
PlotID,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode","Brad: This is artificial internal database ID; a unique identifier within SALVIAS DB to each plot, within the table plotMetadata."
4
PlotID,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode/_if[@name=""if geovalidation""]/else","Brad: This is artificial internal database ID; a unique identifier within SALVIAS DB to each plot, within the table plotMetadata."
5 5
SiteCode,"/location/_if[@name=""if subplot""]/then/parent_id/location/authorlocationcode",Brad: plotCode is as-assigned by data provider; guranteed to be unique only within dataset (=project)
6 6
PlotID,"/location/_if[@name=""if subplot""]/then/parent_id/location/sourceaccessioncode","Brad: This is artificial internal database ID; a unique identifier within SALVIAS DB to each plot, within the table plotMetadata."
7 7
plot_area_ha,/location/area_m2/_ha_to_m2/value,"Brad: Area in hectares. Is there any way to store units?; Aaron: VegX plot area annotation says ""Total area of the plot in square meters."" so units are fixed"
......
44 44
MajorGeo,/location/locationplace/*_id/place/continent,
45 45
Country,/location/locationplace/*_id/place/country,
46 46
pol2,/location/locationplace/*_id/place/county,Brad: No pol2=countyParish
47
PlotID,"/location/locationplace/*_id/place/placecode/_if[@name=""if geovalidation""]/then","Brad: This is artificial internal database ID; a unique identifier within SALVIAS DB to each plot, within the table plotMetadata."
47 48
PolDiv1,/location/locationplace/*_id/place/stateprovince,Brad: No; pol1=stateProvince
48 49
plot_notes,/location/notespublic,
49 50
slope_aspect,/location/slopeaspect_deg/_alt/1/_compass/value,
inputs/SALVIAS/plotObservations/VegBIEN.csv
7 7
DetType,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/3/_alt/2/_if[@name=""if catalogNumber""]/then/_join/3/_if[@name=""if indirect voucher""]/cond/_eq:[right=indirect]/left","Brad: A SALVIAS value referring to the relationship between the voucher specimen and the observation. Affect how the identification of the specimen(latin name) is transferred to the observation. 'direct'=voucher specimen was collected from this same tree; they are one and the same individual. 'indirect'=voucher specimen was collected for a different individual, but the original data provider confirmed that this is the same species. 'default'=basically same as 'indirect'. 'uncollected'=no voucher specimen, data provider  asserted that this was the name but was unable to collect. The main different is that with 'direct', 'indirect', and 'default', the scientific name can be updated automatically based on the name attached to the specimen voucher (assuming you have a link to that data, presumably from a herbarium database. Whereas, if det_type='uncollected', the name can never change because there is no specimen."
8 8
coll_number,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/3/_alt/2/_if[@name=""if catalogNumber""]/then/_join/3/_if[@name=""if indirect voucher""]/else/_alt/1",Brad: Map instead as for voucher_string
9 9
SourceVoucher,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/3/_alt/2/_if[@name=""if catalogNumber""]/then/_join/3/_if[@name=""if indirect voucher""]/else/_alt/2","Brad: OMIT. This is the verbatim text, which includes both collectors name and collection number. I would use coll_number, below."
10
PlotID,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode",
10
PlotID,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode/_if[@name=""if geovalidation""]/else",
11 11
PlotCode,"/location/_if[@name=""if subplot""]/then/parent_id/location/authorlocationcode",
12 12
PlotID,"/location/_if[@name=""if subplot""]/then/parent_id/location/sourceaccessioncode",
13 13
Line,/location/authorlocationcode,
......
105 105
DetType,"/location/locationevent/taxonoccurrence/voucher/*_id/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/cond/_eq:[right=indirect]/left","Brad: A SALVIAS value referring to the relationship between the voucher specimen and the observation. Affect how the identification of the specimen(latin name) is transferred to the observation. 'direct'=voucher specimen was collected from this same tree; they are one and the same individual. 'indirect'=voucher specimen was collected for a different individual, but the original data provider confirmed that this is the same species. 'default'=basically same as 'indirect'. 'uncollected'=no voucher specimen, data provider  asserted that this was the name but was unable to collect. The main different is that with 'direct', 'indirect', and 'default', the scientific name can be updated automatically based on the name attached to the specimen voucher (assuming you have a link to that data, presumably from a herbarium database. Whereas, if det_type='uncollected', the name can never change because there is no specimen."
106 106
coll_number,"/location/locationevent/taxonoccurrence/voucher/*_id/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/then/_alt/1",Brad: Map instead as for voucher_string
107 107
SourceVoucher,"/location/locationevent/taxonoccurrence/voucher/*_id/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/then/_alt/2","Brad: OMIT. This is the verbatim text, which includes both collectors name and collection number. I would use coll_number, below."
108
PlotID,"/location/locationplace/*_id/place/placecode/_if[@name=""if geovalidation""]/then",
108 109
Line,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/cond/_exists",
109 110
PlotID,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/then/_first/1",
110 111
PlotCode,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/then/_first/2",
inputs/VegBank/observation_/VegBIEN.csv
1 1
VegBank,VegBIEN:/_simplifyPath:[next=parent_id]/path,Comments
2 2
plot_id,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/2/_if[@name=""if locationID""]/cond/_exists",
3 3
authorobscode,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/2/_if[@name=""if locationID""]/else",
4
plot_id,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode",
4
plot_id,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode/_if[@name=""if geovalidation""]/else",
5 5
plot_id,"/location/_if[@name=""if subplot""]/then/parent_id/location/sourceaccessioncode",
6 6
methodnarrative,/location/locationevent/*_id/method/name,
7 7
project_id,/location/locationevent/*_id/project/sourceaccessioncode,
......
25 25
authorobscode,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/cond/_exists",
26 26
observation_id,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/cond/_exists",
27 27
plot_id,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/cond/_exists",
28
plot_id,"/location/locationplace/*_id/place/placecode/_if[@name=""if geovalidation""]/then",
28 29
plot_id,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/then/_first/1",
29 30
accessioncode,,** No join mapping for *accessioncode ** 
30 31
autotaxoncover,,** No join mapping for *autotaxoncover ** 
inputs/VegBank/plot_/VegBIEN.csv
1 1
VegBank,VegBIEN:/_simplifyPath:[next=parent_id]/path,Comments
2 2
authorplotcode,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/1",
3 3
plot_id,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/2/_if[@name=""if locationID""]/cond/_exists",
4
plot_id,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode",
4
plot_id,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode/_if[@name=""if geovalidation""]/else",
5 5
authorplotcode,"/location/_if[@name=""if subplot""]/then/parent_id/location/authorlocationcode",
6 6
plot_id,"/location/_if[@name=""if subplot""]/then/parent_id/location/sourceaccessioncode",
7 7
area,/location/area_m2,"""Total area of the plot in m2"" (area definition at <http://vegbank.org/vegbank/views/dba_tabledescription_detail.jsp?view=detail&wparam=plot&entity=dba_tabledescription&where=where_tablename>)"
......
20 20
area|country|territory,/location/locationplace/*_id/place/country,
21 21
country,/location/locationplace/*_id/place/country,
22 22
county,/location/locationplace/*_id/place/county,
23
plot_id,"/location/locationplace/*_id/place/placecode/_if[@name=""if geovalidation""]/then",
23 24
region|state|province,/location/locationplace/*_id/place/stateprovince,
24 25
stateprovince,/location/locationplace/*_id/place/stateprovince,
25 26
parent_id,/location/parent_id/location/sourceaccessioncode,
mappings/VegCore-VegBIEN.csv
11 11
collectionID,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/3/_alt/2/_if[@name=""if catalogNumber""]/then/_join/2/_join/2",
12 12
voucherType,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/3/_alt/2/_if[@name=""if catalogNumber""]/then/_join/3/_if[@name=""if indirect voucher""]/cond/_eq:[right=indirect]/left",
13 13
catalogNumber,"/location/_if[@name=""if subplot""]/else/authorlocationcode/_first/3/_alt/2/_if[@name=""if catalogNumber""]/then/_join/3/_if[@name=""if indirect voucher""]/else",
14
locationID,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode",
14
georeferenceInvalid,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode/_if[@name=""if geovalidation""]/cond/_exists",
15
georeferenceValid,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode/_if[@name=""if geovalidation""]/cond/_exists",
16
locationID,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode/_if[@name=""if geovalidation""]/else",
15 17
plotName,"/location/_if[@name=""if subplot""]/then/parent_id/location/authorlocationcode",
16 18
locationID,"/location/_if[@name=""if subplot""]/then/parent_id/location/sourceaccessioncode",
17 19
plotArea_m2,/location/area_m2,
......
312 314
continent,/location/locationplace/*_id/place/continent,
313 315
country,/location/locationplace/*_id/place/country,
314 316
county,/location/locationplace/*_id/place/county,
317
georeferenceInvalid,"/location/locationplace/*_id/place/placecode/_if[@name=""if geovalidation""]/cond/_exists",
318
georeferenceValid,"/location/locationplace/*_id/place/placecode/_if[@name=""if geovalidation""]/cond/_exists",
319
locationID,"/location/locationplace/*_id/place/placecode/_if[@name=""if geovalidation""]/then",
315 320
stateProvince,/location/locationplace/*_id/place/stateprovince,
316 321
plotNotes,/location/notespublic,
317 322
parentPlotName,/location/parent_id/location/authorlocationcode,
mappings/for_review/VegCore-VegBIEN.csv
11 11
collectionID,"/location/authorlocationcode/_if[@name=""if catalogNumber""]/then",
12 12
voucherType,"/location/authorlocationcode/_if[@name=""if indirect voucher""]/cond",
13 13
catalogNumber,"/location/authorlocationcode/_if[@name=""if indirect voucher""]/else",
14
locationID,"/location/_if[@name=""if subplot""]/else/sourceaccessioncode",
14
georeferenceInvalid,"/location/sourceaccessioncode/_if[@name=""if geovalidation""]/cond/_exists",
15
georeferenceValid,"/location/sourceaccessioncode/_if[@name=""if geovalidation""]/cond/_exists",
16
locationID,"/location/sourceaccessioncode/_if[@name=""if geovalidation""]/else",
15 17
plotName,"/location/_if[@name=""if subplot""]/then/parent_id/location/authorlocationcode",
16 18
locationID,"/location/_if[@name=""if subplot""]/then/parent_id/location/sourceaccessioncode",
17 19
plotArea_m2,//location/area_m2,
......
312 314
continent,//place/continent,
313 315
country,//place/country,
314 316
county,//place/county,
317
georeferenceInvalid,"//place/placecode/_if[@name=""if geovalidation""]/cond/_exists",
318
georeferenceValid,"//place/placecode/_if[@name=""if geovalidation""]/cond/_exists",
319
locationID,"//place/placecode/_if[@name=""if geovalidation""]/then",
315 320
stateProvince,//place/stateprovince,
316 321
plotNotes,//location/notespublic,
317 322
parentPlotName,//location/authorlocationcode,

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