support for occurrenceRemarks style "Collected from ..."

[jhpoelen]

As referenced in https://discourse.gbif.org/t/health-data-publishing-gbif-technical-support-hour-for-nodes/4237/1 .

Bachmann L (2021). Artsprosjektet - Gyrodactylus. Version 1.10. University of Oslo. Occurrence dataset https://doi.org/10.15468/rcouob

Example record:

id                            ae484814-abaa-48e1-98cb-acecb3e33e03
modified                      2014-11-01
institutionID                 https://ror.org/01xtthb56
institutionCode               ZMO
collectionCode                Gyrodactylus
basisOfRecord                 PreservedSpecimen
occurrenceID                  ae484814-abaa-48e1-98cb-acecb3e33e03
catalogNumber                 1
occurrenceRemarks             Collected from Gasterosteus aculeatus
recordNumber                  
recordedBy                    
individualCount               
sex                           
preparations                  
otherCatalogNumbers           
associatedMedia               
organismID                    
eventID                       
samplingProtocol              
eventDate                     
eventTime                     
startDayOfYear                
year                          
month                         
day                           
habitat                       
fieldNumber                   
continent                     Europe
country                       Norway
stateProvince                 
county                        Rogaland
municipality                  
locality                      Honnestadbekken, Suldal
minimumElevationInMeters      
maximumElevationInMeters      
minimumDepthInMeters          
maximumDepthInMeters          
verbatimCoordinates           
verbatimLatitude              
verbatimLongitude             
verbatimCoordinateSystem      
verbatimSRS                   
decimalLatitude               
decimalLongitude              
geodeticDatum                 
coordinateUncertaintyInMeters 
footprintWKT                  
identifiedBy                  Zeyl
dateIdentified                
identificationRemarks         
typeStatus                    
scientificName                Gyrodactylus alexanderi
kingdom                       Animalia
phylum                        Platyhelminthes
class                         Monogenea
order                         Monopisthocotylea
family                        Gyrodactylidae
genus                         Gyrodactylus
specificEpithet               alexanderi
infraspecificEpithet          
scientificNameAuthorship      

An alternate, often used style to add these associations is via associatedTaxa.

e.g.,

associatedTaxa: "collected from: Gasterosteus aculeatus"

or

associatedTaxa: "ex: Gasterosteus aculeatus"

[jhpoelen]

"Collected from ..." phrase in occurrenceRemarks has been introduced via 2e014f0 .

In next release of Elton, you can have a globi.json

{
  "format": "dwca",
  "citation": "Bachmann L (2021). Artsprosjektet - Gyrodactylus. Version 1.10. University of Oslo.",
  "url": "https://ipt.gbif.no/archive.do?r=gyrodactylus"
}

to produce:

argumentTypeId                         https://en.wiktionary.org/wiki/support
sourceOccurrenceId                     ae484814-abaa-48e1-98cb-acecb3e33e03
sourceCatalogNumber                    1
sourceCollectionCode                   Gyrodactylus
sourceCollectionId                     
sourceInstitutionCode                  ZMO
sourceTaxonId                          
sourceTaxonName                        Gyrodactylus alexanderi
sourceTaxonRank                        
sourceTaxonPathIds                     
sourceTaxonPath                        Animalia | Platyhelminthes | Monogenea | Monopisthocotylea | Gyrodactylidae | Gyrodactylus | Gyrodactylus alexanderi
sourceTaxonPathNames                   kingdom | phylum | class | order | family | genus | species
sourceBodyPartId                       
sourceBodyPartName                     
sourceLifeStageId                      
sourceLifeStageName                    
sourceSexId                            
sourceSexName                          
interactionTypeId                      http://purl.obolibrary.org/obo/RO_0002437
interactionTypeName                    interactsWith
targetOccurrenceId                     
targetCatalogNumber                    
targetCollectionCode                   
targetCollectionId                     
targetInstitutionCode                  
targetTaxonId                          
targetTaxonName                        Gasterosteus aculeatus
targetTaxonRank                        
targetTaxonPathIds                     
targetTaxonPath                        
targetTaxonPathNames                   
targetBodyPartId                       
targetBodyPartName                     
targetLifeStageId                      
targetLifeStageName                    
targetSexId                            
targetSexName                          
basisOfRecordId                        
basisOfRecordName                      PreservedSpecimen
http://rs.tdwg.org/dwc/terms/eventDate 
decimalLatitude                        
decimalLongitude                       
localityId                             
localityName                           Honnestadbekken, Suldal
referenceDoi                           
referenceUrl                           
referenceCitation                      ae484814-abaa-48e1-98cb-acecb3e33e03
namespace                              local
citation                               Bachmann L (2021). Artsprosjektet - Gyrodactylus. Version 1.10. University of Oslo.
...

Note that a GBIF interpretation of this record is available at https://www.gbif.org/occurrence/1324202649 . See also attached screenshot and associated index configuration at https://github.com/globalbioticinteractions/zmo-gyrodactylus