Revision 6294
Added by Aaron Marcuse-Kubitza about 12 years ago
| inputs/NCU-NCSC/Specimen/test.xml.ref | ||
|---|---|---|
| 123 | 123 |
</coordinates> |
| 124 | 124 |
</coordinates_id> |
| 125 | 125 |
<country>$Country</country> |
| 126 |
<county>$County</county> |
|
| 126 | 127 |
<stateprovince>$State</stateprovince> |
| 127 | 128 |
</place> |
| 128 | 129 |
</matched_place_id> |
| inputs/VegBank/observation_/VegBIEN.csv | ||
|---|---|---|
| 29 | 29 |
authorobscode,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/cond/_exists", |
| 30 | 30 |
observation_id,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/cond/_exists", |
| 31 | 31 |
plot_id,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/cond/_exists", |
| 32 |
plot_id,"/location/locationplace/*_id/place/placecode/_if[@name=""if geovalidation""]/then", |
|
| 33 | 32 |
plot_id,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/then/_first/1", |
| 34 | 33 |
accessioncode,,** No join mapping for *accessioncode ** |
| 35 | 34 |
autotaxoncover,,** No join mapping for *autotaxoncover ** |
| inputs/SALVIAS-CSV/Plot/VegBIEN.csv | ||
|---|---|---|
| 50 | 50 |
lat_decimal,"/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" |
| 51 | 51 |
long_decimal,"/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" |
| 52 | 52 |
country,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/country/_first/2, |
| 53 |
pol2,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/county/_first/2,Brad: No pol2=countyParish |
|
| 53 | 54 |
pol1,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/stateprovince/_first/2,Brad: No; pol1=stateProvince |
| 54 |
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." |
|
| 55 | 55 |
pol1,/location/locationplace/*_id/place/stateprovince,Brad: No; pol1=stateProvince |
| 56 | 56 |
slope_aspect,/location/slopeaspect_deg/_alt/1/_compass/value, |
| 57 | 57 |
slope_gradient,/location/slopegradient_fraction/_alt/1, |
| inputs/REMIB/Specimen/VegBIEN.csv | ||
|---|---|---|
| 64 | 64 |
lat_deg,"/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" |
| 65 | 65 |
long_deg,"/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" |
| 66 | 66 |
country,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/country/_first/2, |
| 67 |
county,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/county/_first/2, |
|
| 67 | 68 |
state,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/stateprovince/_first/2, |
| 68 | 69 |
state,/location/locationplace/*_id/place/stateprovince, |
| 69 | 70 |
lat_min,,** No join mapping for *lat_min ** |
| inputs/FIA/Organism/VegBIEN.csv | ||
|---|---|---|
| 28 | 28 |
County,/location/locationplace/*_id/place/county, |
| 29 | 29 |
DecimalLatitude,"/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" |
| 30 | 30 |
DecimalLongitude,"/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" |
| 31 |
County,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/county/_first/2, |
|
| 31 | 32 |
StateProvince,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/stateprovince/_first/2, |
| 32 |
PlotCD,"/location/locationplace/*_id/place/placecode/_if[@name=""if geovalidation""]/then", |
|
| 33 | 33 |
StateProvince,/location/locationplace/*_id/place/stateprovince, |
| 34 | 34 |
PlotCD,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/then/_first/1", |
| 35 | 35 |
HOM,,** No join mapping for *HOM ** |
| inputs/ARIZ/Specimen/VegBIEN.csv | ||
|---|---|---|
| 77 | 77 |
DecimalLatitude,"/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" |
| 78 | 78 |
DecimalLongitude,"/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" |
| 79 | 79 |
Country,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/country/_first/2, |
| 80 |
County,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/county/_first/2, |
|
| 80 | 81 |
StateProvince,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/stateprovince/_first/2, |
| 81 | 82 |
StateProvince,/location/locationplace/*_id/place/stateprovince, |
| 82 | 83 |
AgeClass,,** No join mapping for lifeStage ** |
| inputs/NCU-NCSC/Specimen/VegBIEN.csv | ||
|---|---|---|
| 23 | 23 |
Lat (-=S),"/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/_replace:[""\?$""=]/value",""".,"" sorts it with other coordinates mappings" |
| 24 | 24 |
Long (-=W),"/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/_replace:[""\?$""=]/value",""".,"" sorts it with other coordinates mappings" |
| 25 | 25 |
Country,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/country/_first/2, |
| 26 |
County,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/county/_first/2, |
|
| 26 | 27 |
State,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/stateprovince/_first/2, |
| 27 | 28 |
State,/location/locationplace/*_id/place/stateprovince, |
| 28 | 29 |
Elevation,/location/verbatimelevation, |
| inputs/MO/Specimen/test.xml.ref | ||
|---|---|---|
| 241 | 241 |
</coordinates> |
| 242 | 242 |
</coordinates_id> |
| 243 | 243 |
<country>$Country</country> |
| 244 |
<county>$County</county> |
|
| 244 | 245 |
<stateprovince>$StateProvince</stateprovince> |
| 245 | 246 |
</place> |
| 246 | 247 |
</matched_place_id> |
| inputs/VegBank/plot_/test.xml.ref | ||
|---|---|---|
| 81 | 81 |
<1>$country</1> |
| 82 | 82 |
</_alt> |
| 83 | 83 |
</country> |
| 84 |
<county>$county</county> |
|
| 84 | 85 |
<stateprovince> |
| 85 | 86 |
<_alt> |
| 86 | 87 |
<0>$region|state|province</0> |
| inputs/XAL/Specimen/VegBIEN.csv | ||
|---|---|---|
| 64 | 64 |
darwin: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" |
| 65 | 65 |
darwin: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" |
| 66 | 66 |
darwin:Country,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/country/_first/2, |
| 67 |
darwin:County,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/county/_first/2, |
|
| 67 | 68 |
darwin:StateProvince,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/stateprovince/_first/2, |
| 68 | 69 |
darwin:StateProvince,/location/locationplace/*_id/place/stateprovince, |
| 69 | 70 |
darwin:BasisOfRecord,,** No join mapping for basisOfRecord ** |
| inputs/ACAD/Specimen/VegBIEN.csv | ||
|---|---|---|
| 71 | 71 |
decimalLatitude,"/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" |
| 72 | 72 |
decimalLongitude,"/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" |
| 73 | 73 |
country,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/country/_first/2, |
| 74 |
county,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/county/_first/2, |
|
| 74 | 75 |
stateProvince,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/stateprovince/_first/2, |
| 75 | 76 |
stateProvince,/location/locationplace/*_id/place/stateprovince, |
| 76 | 77 |
verbatimElevation,/location/verbatimelevation, |
| inputs/ACAD/Specimen/test.xml.ref | ||
|---|---|---|
| 268 | 268 |
</coordinates> |
| 269 | 269 |
</coordinates_id> |
| 270 | 270 |
<country>$country</country> |
| 271 |
<county>$county</county> |
|
| 271 | 272 |
<stateprovince>$stateProvince</stateprovince> |
| 272 | 273 |
</place> |
| 273 | 274 |
</matched_place_id> |
| inputs/CTFS/StemObservation/VegBIEN.csv | ||
|---|---|---|
| 43 | 43 |
Family,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/family, |
| 44 | 44 |
Genus,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/genus, |
| 45 | 45 |
SpeciesName,/location/locationevent/taxonoccurrence/taxondetermination[!isoriginal]/*_id/taxonverbatim/specific_epithet, |
| 46 |
PlotID,"/location/locationplace/*_id/place/placecode/_if[@name=""if geovalidation""]/then", |
|
| 47 | 46 |
QuadratID,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/cond/_exists",Not globally unique; unique only within Site |
| 48 | 47 |
PlotID,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/then/_first/1", |
| 49 | 48 |
QuadratID,/location/sourceaccessioncode/_join/2,Not globally unique; unique only within Site |
| inputs/CTFS/Subplot/VegBIEN.csv | ||
|---|---|---|
| 9 | 9 |
QuadratID,"/location/locationevent/_if[@name=""if subplot""]/then/_if[@name=""if has event""]/then/parent_id/locationevent/*_id/location/sourceaccessioncode/_if[@name=""if subplot""]/cond/_first/2",Not globally unique; unique only within Site |
| 10 | 10 |
PlotID,"/location/locationevent/_if[@name=""if subplot""]/then/_if[@name=""if has event""]/then/parent_id/locationevent/*_id/location/sourceaccessioncode/_if[@name=""if subplot""]/then", |
| 11 | 11 |
PlotID,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/cond/_exists", |
| 12 |
PlotID,"/location/locationplace/*_id/place/placecode/_if[@name=""if geovalidation""]/then", |
|
| 13 | 12 |
QuadratID,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/cond/_exists",Not globally unique; unique only within Site |
| 14 | 13 |
PlotID,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/then/_first/1", |
| 15 | 14 |
QuadratID,/location/sourceaccessioncode/_join/2,Not globally unique; unique only within Site |
| inputs/CTFS/PlotObservation/VegBIEN.csv | ||
|---|---|---|
| 19 | 19 |
CensusID,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/cond/_exists", |
| 20 | 20 |
PlotCensusNumber,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/cond/_exists", |
| 21 | 21 |
PlotID,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/cond/_exists", |
| 22 |
PlotID,"/location/locationplace/*_id/place/placecode/_if[@name=""if geovalidation""]/then", |
|
| 23 | 22 |
PlotID,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/then/_first/1", |
| 24 | 23 |
Description,,** No join mapping for *Description ** |
| inputs/CTFS/TaxonOccurrence/VegBIEN.csv | ||
|---|---|---|
| 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", |
|
| 30 | 29 |
PlotID,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/then/_first/1", |
| 31 | 30 |
Description,,** No join mapping for *Description ** |
| 32 | 31 |
FamilyID,,** No join mapping for *FamilyID ** |
| inputs/CTFS/SubplotObservation/VegBIEN.csv | ||
|---|---|---|
| 13 | 13 |
CensusID,"/location/locationevent/_if[@name=""if subplot""]/then/_if[@name=""if has event""]/then/parent_id/locationevent/sourceaccessioncode", |
| 14 | 14 |
CensusID,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/cond/_exists", |
| 15 | 15 |
PlotID,"/location/locationevent/taxonoccurrence/authortaxoncode/_if[@name=""if in plot""]/cond/_exists", |
| 16 |
PlotID,"/location/locationplace/*_id/place/placecode/_if[@name=""if geovalidation""]/then", |
|
| 17 | 16 |
QuadratID,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/cond/_exists",Not globally unique; unique only within Site |
| 18 | 17 |
PlotID,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/then/_first/1", |
| 19 | 18 |
QuadratID,/location/sourceaccessioncode/_join/2,Not globally unique; unique only within Site |
| inputs/CTFS/Plot/VegBIEN.csv | ||
|---|---|---|
| 27 | 27 |
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" |
| 28 | 28 |
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" |
| 29 | 29 |
CountryName,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/country/_first/2, |
| 30 |
PlotID,"/location/locationplace/*_id/place/placecode/_if[@name=""if geovalidation""]/then", |
|
| 31 | 30 |
PlotID,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/then/_first/1", |
| 32 | 31 |
PlotName,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/then/_first/2", |
| 33 | 32 |
CountryID,,** No join mapping for *CountryID ** |
| inputs/SALVIAS/plotObservations/VegBIEN.csv | ||
|---|---|---|
| 131 | 131 |
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." |
| 132 | 132 |
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 |
| 133 | 133 |
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." |
| 134 |
PlotID,"/location/locationplace/*_id/place/placecode/_if[@name=""if geovalidation""]/then", |
|
| 135 | 134 |
Line,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/cond/_exists", |
| 136 | 135 |
PlotID,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/then/_first/1", |
| 137 | 136 |
PlotCode,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/then/_first/2", |
| inputs/SALVIAS/plotMetadata_/VegBIEN.csv | ||
|---|---|---|
| 58 | 58 |
LatDec,"/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" |
| 59 | 59 |
LongDec,"/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" |
| 60 | 60 |
Country,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/country/_first/2, |
| 61 |
pol2,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/county/_first/2,Brad: No pol2=countyParish |
|
| 61 | 62 |
PolDiv1,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/stateprovince/_first/2,Brad: No; pol1=stateProvince |
| 62 |
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." |
|
| 63 | 63 |
PolDiv1,/location/locationplace/*_id/place/stateprovince,Brad: No; pol1=stateProvince |
| 64 | 64 |
plot_notes,/location/notespublic, |
| 65 | 65 |
slope_aspect,/location/slopeaspect_deg/_alt/1/_compass/value, |
| inputs/SALVIAS/plotMetadata_/test.xml.ref | ||
|---|---|---|
| 159 | 159 |
</coordinates> |
| 160 | 160 |
</coordinates_id> |
| 161 | 161 |
<country>$Country</country> |
| 162 |
<county>$pol2</county> |
|
| 162 | 163 |
<stateprovince>$PolDiv1</stateprovince> |
| 163 | 164 |
</place> |
| 164 | 165 |
</matched_place_id> |
| inputs/GBIF/Specimen/VegBIEN.csv | ||
|---|---|---|
| 58 | 58 |
VerbatimLatitude,"/location/locationplace/*_id/place/matched_place_id/place:[.,source_id/source/shortname=geoscrub]/*_id/coordinates:[source_id/source/shortname=geoscrub]/_first/2/latitude_deg/_nullIf:[null=0,type=float]/value",""".,"" sorts it with other coordinates mappings" |
| 59 | 59 |
VerbatimLongitude,"/location/locationplace/*_id/place/matched_place_id/place:[.,source_id/source/shortname=geoscrub]/*_id/coordinates:[source_id/source/shortname=geoscrub]/_first/2/longitude_deg/_nullIf:[null=0,type=float]/value",""".,"" sorts it with other coordinates mappings" |
| 60 | 60 |
Country,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/country/_first/2, |
| 61 |
County,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/county/_first/2, |
|
| 61 | 62 |
StateProvince,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/stateprovince/_first/2, |
| 62 | 63 |
StateProvince,/location/locationplace/*_id/place/stateprovince, |
| 63 | 64 |
0,,** No join mapping for *0 ** |
| inputs/GBIF/Specimen/test.xml.ref | ||
|---|---|---|
| 269 | 269 |
</coordinates> |
| 270 | 270 |
</coordinates_id> |
| 271 | 271 |
<country>$Country</country> |
| 272 |
<county>$County</county> |
|
| 272 | 273 |
<stateprovince>$StateProvince</stateprovince> |
| 273 | 274 |
</place> |
| 274 | 275 |
</matched_place_id> |
| inputs/SpeciesLink/Specimen/VegBIEN.csv | ||
|---|---|---|
| 222 | 222 |
conceptual_darwin_2003_1_0_Country,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/country/_first/2, |
| 223 | 223 |
dwc_dwcore_Country,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/country/_first/2, |
| 224 | 224 |
dwc_terms_country,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/country/_first/2, |
| 225 |
conceptual_darwin_2003_1_0_County,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/county/_first/2, |
|
| 226 |
dwc_dwcore_County,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/county/_first/2, |
|
| 227 |
dwc_terms_county,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/county/_first/2, |
|
| 225 | 228 |
conceptual_darwin_2003_1_0_StateProvince,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/stateprovince/_first/2, |
| 226 | 229 |
dwc_dwcore_StateProvince,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/stateprovince/_first/2, |
| 227 | 230 |
dwc_terms_stateProvince,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/stateprovince/_first/2, |
| inputs/SpeciesLink/Specimen/test.xml.ref | ||
|---|---|---|
| 671 | 671 |
<2>$dwc_terms_country</2> |
| 672 | 672 |
</_alt> |
| 673 | 673 |
</country> |
| 674 |
<county> |
|
| 675 |
<_alt> |
|
| 676 |
<0>$conceptual_darwin_2003_1_0_County</0> |
|
| 677 |
<1>$dwc_dwcore_County</1> |
|
| 678 |
<2>$dwc_terms_county</2> |
|
| 679 |
</_alt> |
|
| 680 |
</county> |
|
| 674 | 681 |
<stateprovince> |
| 675 | 682 |
<_alt> |
| 676 | 683 |
<0>$conceptual_darwin_2003_1_0_StateProvince</0> |
| inputs/NY/Specimen/VegBIEN.csv | ||
|---|---|---|
| 73 | 73 |
Latitude,"/location/locationplace/*_id/place/matched_place_id/place:[.,source_id/source/shortname=geoscrub]/*_id/coordinates:[source_id/source/shortname=geoscrub]/_first/2/latitude_deg/_nullIf:[null=0,type=float]/value",""".,"" sorts it with other coordinates mappings" |
| 74 | 74 |
Longitude,"/location/locationplace/*_id/place/matched_place_id/place:[.,source_id/source/shortname=geoscrub]/*_id/coordinates:[source_id/source/shortname=geoscrub]/_first/2/longitude_deg/_nullIf:[null=0,type=float]/value",""".,"" sorts it with other coordinates mappings" |
| 75 | 75 |
Country,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/country/_first/2, |
| 76 |
County,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/county/_first/2, |
|
| 76 | 77 |
StateProvince,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/stateprovince/_first/2, |
| 77 | 78 |
StateProvince,/location/locationplace/*_id/place/stateprovince, |
| 78 | 79 |
BasisOfRecord,,** No join mapping for basisOfRecord ** |
| inputs/NY/Specimen/test.xml.ref | ||
|---|---|---|
| 354 | 354 |
</coordinates> |
| 355 | 355 |
</coordinates_id> |
| 356 | 356 |
<country>$Country</country> |
| 357 |
<county>$County</county> |
|
| 357 | 358 |
<stateprovince>$StateProvince</stateprovince> |
| 358 | 359 |
</place> |
| 359 | 360 |
</matched_place_id> |
| inputs/Madidi/Organism/VegBIEN.csv | ||
|---|---|---|
| 66 | 66 |
Field family,/location/locationevent/taxonoccurrence/taxondetermination[isoriginal=true]/*_id/taxonverbatim/family, |
| 67 | 67 |
Field name,/location/locationevent/taxonoccurrence/taxondetermination[isoriginal=true]/*_id/taxonverbatim/genus,Often = Genera |
| 68 | 68 |
Specimen,"/location/locationevent/taxonoccurrence/voucher/*_id/specimenreplicate/catalognumber_dwc/_if[@name=""if indirect voucher""]/then", |
| 69 |
Inventory code,"/location/locationplace/*_id/place/placecode/_if[@name=""if geovalidation""]/then", |
|
| 70 | 69 |
Number of subplot,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/cond/_exists", |
| 71 | 70 |
Inventory code,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/then/_first/1", |
| 72 | 71 |
Inventory name,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/then/_first/2", |
| inputs/Madidi/Plot/VegBIEN.csv | ||
|---|---|---|
| 93 | 93 |
Longitude (DMS),/location/locationplace/*_id/place/*_id/coordinates/verbatimlongitude, |
| 94 | 94 |
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" |
| 95 | 95 |
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" |
| 96 |
Inventory code,"/location/locationplace/*_id/place/placecode/_if[@name=""if geovalidation""]/then", |
|
| 97 | 96 |
Observaciones,/location/notespublic, |
| 98 | 97 |
Direction,/location/slopeaspect_deg/_alt/1/_compass/value/_alt/1,Part files provide either this field or Orientación |
| 99 | 98 |
Orientación/exposicion,/location/slopeaspect_deg/_alt/1/_compass/value/_alt/2,Part files provide either this field or Direction |
| inputs/UNCC/Specimen/VegBIEN.csv | ||
|---|---|---|
| 90 | 90 |
country,/location/locationplace/*_id/place/country, |
| 91 | 91 |
county,/location/locationplace/*_id/place/county, |
| 92 | 92 |
country,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/country/_first/2, |
| 93 |
county,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/county/_first/2, |
|
| 93 | 94 |
state,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/stateprovince/_first/2, |
| 94 | 95 |
state,/location/locationplace/*_id/place/stateprovince, |
| 95 | 96 |
filler,,"** No join mapping for *filler ** Where used, same as family" |
| inputs/UNCC/Specimen/test.xml.ref | ||
|---|---|---|
| 266 | 266 |
<place> |
| 267 | 267 |
<source_id><source><shortname>geoscrub</shortname></source></source_id> |
| 268 | 268 |
<country>$country</country> |
| 269 |
<county>$county</county> |
|
| 269 | 270 |
<stateprovince>$state</stateprovince> |
| 270 | 271 |
</place> |
| 271 | 272 |
</matched_place_id> |
| inputs/CVS/Organism/VegBIEN.csv | ||
|---|---|---|
| 18 | 18 |
county,/location/locationplace/*_id/place/county, |
| 19 | 19 |
publicLatitude,"/location/locationplace/*_id/place/matched_place_id/place:[.,source_id/source/shortname=geoscrub]/*_id/coordinates:[source_id/source/shortname=geoscrub]/_first/2/latitude_deg/_nullIf:[null=0,type=float]/value",""".,"" sorts it with other coordinates mappings" |
| 20 | 20 |
publicLongitude,"/location/locationplace/*_id/place/matched_place_id/place:[.,source_id/source/shortname=geoscrub]/*_id/coordinates:[source_id/source/shortname=geoscrub]/_first/2/longitude_deg/_nullIf:[null=0,type=float]/value",""".,"" sorts it with other coordinates mappings" |
| 21 |
county,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/county/_first/2, |
|
| 21 | 22 |
state,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/stateprovince/_first/2, |
| 22 | 23 |
state,/location/locationplace/*_id/place/stateprovince, |
| 23 | 24 |
confidentialityStatus,,** No join mapping for *confidentialityStatus ** |
| inputs/CVS/Organism/test.xml.ref | ||
|---|---|---|
| 76 | 76 |
</longitude_deg> |
| 77 | 77 |
</coordinates> |
| 78 | 78 |
</coordinates_id> |
| 79 |
<county>$county</county> |
|
| 79 | 80 |
<stateprovince>$state</stateprovince> |
| 80 | 81 |
</place> |
| 81 | 82 |
</matched_place_id> |
| inputs/SALVIAS-CSV/Organism/VegBIEN.csv | ||
|---|---|---|
| 133 | 133 |
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." |
| 134 | 134 |
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 |
| 135 | 135 |
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." |
| 136 |
PLOT_ID,"/location/locationplace/*_id/place/placecode/_if[@name=""if geovalidation""]/then", |
|
| 137 | 136 |
subplot,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/cond/_exists", |
| 138 | 137 |
PLOT_ID,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/then/_first/1", |
| 139 | 138 |
plot_code,"/location/sourceaccessioncode/_join/1/_if[@name=""if subplot and unique only within parent""]/then/_first/2", |
| inputs/SALVIAS-CSV/Plot/test.xml.ref | ||
|---|---|---|
| 123 | 123 |
</coordinates> |
| 124 | 124 |
</coordinates_id> |
| 125 | 125 |
<country>$country</country> |
| 126 |
<county>$pol2</county> |
|
| 126 | 127 |
<stateprovince>$pol1</stateprovince> |
| 127 | 128 |
</place> |
| 128 | 129 |
</matched_place_id> |
| inputs/REMIB/Specimen/test.xml.ref | ||
|---|---|---|
| 187 | 187 |
</coordinates> |
| 188 | 188 |
</coordinates_id> |
| 189 | 189 |
<country>$country</country> |
| 190 |
<county>$county</county> |
|
| 190 | 191 |
<stateprovince>$state</stateprovince> |
| 191 | 192 |
</place> |
| 192 | 193 |
</matched_place_id> |
| inputs/FIA/Organism/test.xml.ref | ||
|---|---|---|
| 154 | 154 |
</longitude_deg> |
| 155 | 155 |
</coordinates> |
| 156 | 156 |
</coordinates_id> |
| 157 |
<county>$County</county> |
|
| 157 | 158 |
<stateprovince>$StateProvince</stateprovince> |
| 158 | 159 |
</place> |
| 159 | 160 |
</matched_place_id> |
| inputs/ARIZ/Specimen/test.xml.ref | ||
|---|---|---|
| 330 | 330 |
</coordinates> |
| 331 | 331 |
</coordinates_id> |
| 332 | 332 |
<country>$Country</country> |
| 333 |
<county>$County</county> |
|
| 333 | 334 |
<stateprovince>$StateProvince</stateprovince> |
| 334 | 335 |
</place> |
| 335 | 336 |
</matched_place_id> |
| inputs/MO/Specimen/VegBIEN.csv | ||
|---|---|---|
| 53 | 53 |
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" |
| 54 | 54 |
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" |
| 55 | 55 |
Country,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/country/_first/2, |
| 56 |
County,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/county/_first/2, |
|
| 56 | 57 |
StateProvince,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/stateprovince/_first/2, |
| 57 | 58 |
StateProvince,/location/locationplace/*_id/place/stateprovince, |
| 58 | 59 |
BasisOfRecord,,** No join mapping for basisOfRecord ** |
| inputs/VegBank/plot_/VegBIEN.csv | ||
|---|---|---|
| 25 | 25 |
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" |
| 26 | 26 |
area|country|territory,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/country/_first/2, |
| 27 | 27 |
country,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/country/_first/2, |
| 28 |
county,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/county/_first/2, |
|
| 28 | 29 |
region|state|province,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/stateprovince/_first/2, |
| 29 | 30 |
stateprovince,/location/locationplace/*_id/place/matched_place_id/place:[source_id/source/shortname=geoscrub]/stateprovince/_first/2, |
| 30 |
plot_id,"/location/locationplace/*_id/place/placecode/_if[@name=""if geovalidation""]/then", |
|
| 31 | 31 |
region|state|province,/location/locationplace/*_id/place/stateprovince, |
| 32 | 32 |
stateprovince,/location/locationplace/*_id/place/stateprovince, |
| 33 | 33 |
parent_id,/location/parent_id/location/sourceaccessioncode, |
Also available in: Unified diff
mappings/VegCore-VegBIEN.csv: Mapped acceptedCounty, county to the matched place