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Revision 573

NYBG mappings: Add mapping for CollectorNumber to specimen.collectornumber_dwc

View differences:

mappings/VegX-VegBIEN.organisms.csv
91 91
"/*ID->/*s/individualOrganism/*sID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,partyWithRole/role=collector]/partyWithRole/*ID->/parties/party/individualName/givenName","/specimen:[*_id/reference]/collector_id/party/{givenname/_namePart/first,middlename/_namePart/last}"
92 92
"/*ID->/*s/individualOrganism/*sID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,partyWithRole/role=collector]/partyWithRole/*ID->/parties/party/individualName/{givenName/_namePart/{first,middle},surName/_namePart/last}","/specimen:[*_id/reference]/collector_id/party/{givenname/_namePart/first,middlename/_namePart/middle,surname/_namePart/last}"
93 93
"/*ID->/*s/individualOrganism/*sID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,partyWithRole/role=collector]/partyWithRole/*ID->/parties/party/individualName/surName",/specimen:[*_id/reference]/collector_id/party/{surname}
94
/simpleUserdefined[name=collectorNumberDwc]/value,/specimen:[*_id/reference]/collectornumber_dwc
94 95
/*ID->/*s/individualOrganism/*sID->/*s/taxonNameUsageConcept/partyWithRole/*ID->/parties/party/organizationName,"/specimen:[*_id/reference]/{museum_id/party/organizationname,collectioncode_dwc/_namePart/last}"
95 96
/*ID->/*s/individualOrganism/*sID->/*s/taxonNameUsageConcept/partyWithRole/*ID->/parties/party/organizationName/_name/first,/specimen:[*_id/reference]/{museum_id/party/organizationname/_name/first}
96 97
/*ID->/*s/individualOrganism/*sID->/*s/taxonNameUsageConcept/partyWithRole/*ID->/parties/party/organizationName/_name/last,"/specimen:[*_id/reference]/{museum_id/party/organizationname/_name/last,collectioncode_dwc}"
mappings/NYBG-VegX.organisms.csv
20 20
"MonthIdentified","/*ID->/*s/individualOrganism/*sID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,partyWithRole/role=identifier]/date/_date/month",
21 21
"DayIdentified","/*ID->/*s/individualOrganism/*sID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,partyWithRole/role=identifier]/date/_date/day",
22 22
"TypeStatus",,"Brad: OMIT (?). Indicates whether this specimen served as type for taxon name. Probably not relevant for BIEN"
23
"CollectorNumber",,"Brad: OMIT; db-specific element, not relevant to VB/VX"
23
"CollectorNumber","/simpleUserdefined[name=collectorNumberDwc]/value","Brad: OMIT; db-specific element, not relevant to VB/VX"
24 24
"FieldNumber","/*ID->/*s/individualOrganism/*sID->/*s/taxonNameUsageConcept/authorCode","Brad: Correct for VB, not sure about VX; Nick, is there an element in VX fo Collection Number?"
25 25
"Collector","/*ID->/*s/individualOrganism/*sID->/*s/taxonNameUsageConcept->/*s/taxonDetermination[*ID,partyWithRole/role=collector]/partyWithRole/*ID->/parties/party/individualName/{givenName/_namePart/{first,middle},surName/_namePart/last}","Brad: Correct for VB. Nick: is there a way to specifically identify this party as collector of a specimen?"
26 26
"YearCollected","/*ID->/*s/plotObservation/obsStartDate/_date/year",
mappings/NYBG-VegBIEN.organisms.csv
20 20
Vegetation,"/aggregateoccurrence/individualplant/stem/definedvalue[*_id/userdefined[tablename=stem,userdefinedname=vegetation]:[userdefinedtype=varchar]]:[@fkey=tableRecord_ID]/definedvalue","Brad: Free-text description of vegetation community where collected, frequently redundane wrt 'Habitat'. Bob, Nick: keep as user defined or create special element?"
21 21
FieldNumber,/specimen:[*_id/reference]/catalognumber_dwc,"Brad: Correct for VB, not sure about VX; Nick, is there an element in VX fo Collection Number?"
22 22
Collector,"/specimen:[*_id/reference]/collector_id/party/{givenname/_namePart/first,middlename/_namePart/middle,surname/_namePart/last}",Brad: Correct for VB. Nick: is there a way to specifically identify this party as collector of a specimen?
23
CollectorNumber,/specimen:[*_id/reference]/collectornumber_dwc,"Brad: OMIT; db-specific element, not relevant to VB/VX"
23 24
InstitutionCode,/specimen:[*_id/reference]/{museum_id/party/organizationname/_name/first},
24 25
CollectionCode,"/specimen:[*_id/reference]/{museum_id/party/organizationname/_name/last,collectioncode_dwc}",Brad: Not sure if mapping correct. DwC element; code for entire collection; often same as InstitutionCode; Aaron: Combining with InstitutionCode to create collection name
25 26
Sex,"/taxondetermination[role_id/aux_role/rolecode=collector]/definedvalue[*_id/userdefined[tablename=taxondetermination,userdefinedname=sex]:[userdefinedtype=varchar]]:[@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"
mappings/for_review/NYBG-VegX.organisms.csv
20 20
MonthIdentified,//*s/taxonDetermination[role=identifier]/date/_date/month,
21 21
DayIdentified,//*s/taxonDetermination[role=identifier]/date/_date/day,
22 22
TypeStatus,,Brad: OMIT (?). Indicates whether this specimen served as type for taxon name. Probably not relevant for BIEN
23
CollectorNumber,,"Brad: OMIT; db-specific element, not relevant to VB/VX"
23
CollectorNumber,/simpleUserdefined[name=collectorNumberDwc]/value,"Brad: OMIT; db-specific element, not relevant to VB/VX"
24 24
FieldNumber,//taxonNameUsageConcept/authorCode,"Brad: Correct for VB, not sure about VX; Nick, is there an element in VX fo Collection Number?"
25 25
Collector,"//parties/party/individualName/{givenName/_namePart/{first,middle},surName/_namePart/last}",Brad: Correct for VB. Nick: is there a way to specifically identify this party as collector of a specimen?
26 26
YearCollected,//plotObservation/obsStartDate/_date/year,
mappings/for_review/VegX-VegBIEN.organisms.csv
91 91
//individualName/givenName,"/specimen/collector_id/party/{givenname/_namePart/first,middlename/_namePart/last}"
92 92
"//parties/party/individualName/{givenName/_namePart/{first,middle},surName/_namePart/last}","/specimen/collector_id/party/{givenname/_namePart/first,middlename/_namePart/middle,surname/_namePart/last}"
93 93
//individualName/surName,/specimen/collector_id/party/{surname}
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/simpleUserdefined[name=collectorNumberDwc]/value,//specimen/collectornumber_dwc
94 95
//party/organizationName,"/specimen/{museum_id/party/organizationname,collectioncode_dwc/_namePart/last}"
95 96
//party/organizationName/_name/first,/specimen/{museum_id/party/organizationname/_name/first}
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//party/organizationName/_name/last,"/specimen/{museum_id/party/organizationname/_name/last,collectioncode_dwc}"
mappings/for_review/NYBG-VegBIEN.organisms.csv
20 20
Vegetation,"//stem/definedvalue[*_id/userdefined[tablename=stem,userdefinedname=vegetation]]/definedvalue","Brad: Free-text description of vegetation community where collected, frequently redundane wrt 'Habitat'. Bob, Nick: keep as user defined or create special element?"
21 21
FieldNumber,//specimen/catalognumber_dwc,"Brad: Correct for VB, not sure about VX; Nick, is there an element in VX fo Collection Number?"
22 22
Collector,"/specimen/collector_id/party/{givenname/_namePart/first,middlename/_namePart/middle,surname/_namePart/last}",Brad: Correct for VB. Nick: is there a way to specifically identify this party as collector of a specimen?
23
CollectorNumber,//specimen/collectornumber_dwc,"Brad: OMIT; db-specific element, not relevant to VB/VX"
23 24
InstitutionCode,/specimen/{museum_id/party/organizationname/_name/first},
24 25
CollectionCode,"/specimen/{museum_id/party/organizationname/_name/last,collectioncode_dwc}",Brad: Not sure if mapping correct. DwC element; code for entire collection; often same as InstitutionCode; Aaron: Combining with InstitutionCode to create collection name
25 26
Sex,"/taxondetermination[rolecode=collector]/definedvalue[*_id/userdefined[tablename=taxondetermination,userdefinedname=sex]]/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"

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