[AUTO] Update data

[damianooldoni-bot]

Brief description

This is an automatically generated PR.
The following steps are all automatically performed:

• Fetch raw data
• Map raw data to DwC standard and save the output in ./data/processed
• Get an overview of the changes
• Run some tests, e.g. check the uniqueness of occurrenceID, check that all occurrences have a eventID and scientificName, ...

Note to the reviewer: the workflow automation is still in a development phase. Please, check the output thoroughly before merging to main. In case, improve the data fecthing fetch_data.Rmd, the mapping dwc_mapping.Rmd, both in ./src or the GitHub workflows fetch-data.yaml and mapping_and_testing.yaml in ./.github/workflows.

[PietrH]

The raw data reports species "Lettersierschildpad" with the correct gbif id, however in Opmerkingen there is mention of : 12/06: sabotage, 07/07: Zaagrugschildpad ( groot exemplaar), which is Graptemys sp.

This event has been in the dataset for a while, occurrences in current output:

type	language	license	rightsHolder	datasetID	institutionCode	datasetName	basisOfRecord	eventID	occurrenceID	recordedBy	organismQuantity	organismQuantityType	occurrenceStatus	samplingProtocol	samplingEffort	eventDate	countryCode	municipality	verbatimLatitude	verbatimLongitude	verbatimCoordinateSystem	verbatimSRS	decimalLatitude	decimalLongitude	geodeticDatum	coordinateUncertaintyInMeters	scientificName	kingdom	taxonRank
Event	en	http://creativecommons.org/publicdomain/zero/1.0/	RATO	https://doi.org/10.15468/fw2rbx	RATO	RATO - Daily operations commissioned by the province East Flanders, Belgium	HumanObservation	41583	428110	RATO	2	individual(s)	present	cage trap	1 cage trap	2023-05-19 13:07:41	BE	Gent	198323.4	109641.6	Lambert coordinates	Belgian Datum 1972	51.09361	3.79266	WGS84	30	Trachemys scripta	Animalia	species
Event	en	http://creativecommons.org/publicdomain/zero/1.0/	RATO	https://doi.org/10.15468/fw2rbx	RATO	RATO - Daily operations commissioned by the province East Flanders, Belgium	HumanObservation	41583	430568	RATO	2	individual(s)	present	cage trap	1 cage trap	2023-05-22 11:42:24	BE	Gent	198323.4	109641.6	Lambert coordinates	Belgian Datum 1972	51.09361	3.79266	WGS84	30	Trachemys scripta	Animalia	species
Event	en	http://creativecommons.org/publicdomain/zero/1.0/	RATO	https://doi.org/10.15468/fw2rbx	RATO	RATO - Daily operations commissioned by the province East Flanders, Belgium	HumanObservation	41583	437818	RATO	2	individual(s)	present	cage trap	1 cage trap	2023-05-26 10:42:52	BE	Gent	198323.4	109641.6	Lambert coordinates	Belgian Datum 1972	51.09361	3.79266	WGS84	30	Trachemys scripta	Animalia	species
Event	en	http://creativecommons.org/publicdomain/zero/1.0/	RATO	https://doi.org/10.15468/fw2rbx	RATO	RATO - Daily operations commissioned by the province East Flanders, Belgium	HumanObservation	41583	438973	RATO	2	individual(s)	present	cage trap	1 cage trap	2023-05-30 08:42:31	BE	Gent	198323.4	109641.6	Lambert coordinates	Belgian Datum 1972	51.09361	3.79266	WGS84	30	Trachemys scripta	Animalia	species
Event	en	http://creativecommons.org/publicdomain/zero/1.0/	RATO	https://doi.org/10.15468/fw2rbx	RATO	RATO - Daily operations commissioned by the province East Flanders, Belgium	HumanObservation	41583	444885	RATO	2	individual(s)	present	cage trap	1 cage trap	2023-06-02 09:20:24	BE	Gent	198323.4	109641.6	Lambert coordinates	Belgian Datum 1972	51.09361	3.79266	WGS84	30	Trachemys scripta	Animalia	species
Event	en	http://creativecommons.org/publicdomain/zero/1.0/	RATO	https://doi.org/10.15468/fw2rbx	RATO	RATO - Daily operations commissioned by the province East Flanders, Belgium	HumanObservation	41583	446113	RATO	2	individual(s)	present	cage trap	1 cage trap	2023-06-05 10:13:53	BE	Gent	198323.4	109641.6	Lambert coordinates	Belgian Datum 1972	51.09361	3.79266	WGS84	30	Trachemys scripta	Animalia	species
Event	en	http://creativecommons.org/publicdomain/zero/1.0/	RATO	https://doi.org/10.15468/fw2rbx	RATO	RATO - Daily operations commissioned by the province East Flanders, Belgium	HumanObservation	41583	451724	RATO	2	individual(s)	present	cage trap	1 cage trap	2023-06-08 12:47:56	BE	Gent	198323.4	109641.6	Lambert coordinates	Belgian Datum 1972	51.09361	3.79266	WGS84	30	Trachemys scripta	Animalia	species
Event	en	http://creativecommons.org/publicdomain/zero/1.0/	RATO	https://doi.org/10.15468/fw2rbx	RATO	RATO - Daily operations commissioned by the province East Flanders, Belgium	HumanObservation	41583	455180	RATO	2	individual(s)	present	cage trap	1 cage trap	2023-06-12 13:00:05	BE	Gent	198323.4	109641.6	Lambert coordinates	Belgian Datum 1972	51.09361	3.79266	WGS84	30	Trachemys scripta	Animalia	species
Event	en	http://creativecommons.org/publicdomain/zero/1.0/	RATO	https://doi.org/10.15468/fw2rbx	RATO	RATO - Daily operations commissioned by the province East Flanders, Belgium	HumanObservation	41583	462626	RATO	2	individual(s)	present	cage trap	1 cage trap	2023-06-19 11:20:37	BE	Gent	198323.4	109641.6	Lambert coordinates	Belgian Datum 1972	51.09361	3.79266	WGS84	30	Trachemys scripta	Animalia	species
Event	en	http://creativecommons.org/publicdomain/zero/1.0/	RATO	https://doi.org/10.15468/fw2rbx	RATO	RATO - Daily operations commissioned by the province East Flanders, Belgium	HumanObservation	41583	471851	RATO	2	individual(s)	present	cage trap	1 cage trap	2023-06-26 12:25:41	BE	Gent	198323.4	109641.6	Lambert coordinates	Belgian Datum 1972	51.09361	3.79266	WGS84	30	Trachemys scripta	Animalia	species
Event	en	http://creativecommons.org/publicdomain/zero/1.0/	RATO	https://doi.org/10.15468/fw2rbx	RATO	RATO - Daily operations commissioned by the province East Flanders, Belgium	HumanObservation	41583	477783	RATO	2	individual(s)	present	cage trap	1 cage trap	2023-06-30 13:48:12	BE	Gent	198323.4	109641.6	Lambert coordinates	Belgian Datum 1972	51.09361	3.79266	WGS84	30	Trachemys scripta	Animalia	species
Event	en	http://creativecommons.org/publicdomain/zero/1.0/	RATO	https://doi.org/10.15468/fw2rbx	RATO	RATO - Daily operations commissioned by the province East Flanders, Belgium	HumanObservation	41583	487067	RATO	2	individual(s)	present	cage trap	1 cage trap	2023-07-07 13:04:32	BE	Gent	198323.4	109641.6	Lambert coordinates	Belgian Datum 1972	51.09361	3.79266	WGS84	30	Trachemys scripta	Animalia	species
Event	en	http://creativecommons.org/publicdomain/zero/1.0/	RATO	https://doi.org/10.15468/fw2rbx	RATO	RATO - Daily operations commissioned by the province East Flanders, Belgium	HumanObservation	41583	492257	RATO	2	individual(s)	present	cage trap	1 cage trap	2023-07-14 20:23:27	BE	Gent	198323.4	109641.6	Lambert coordinates	Belgian Datum 1972	51.09361	3.79266	WGS84	30	Trachemys scripta	Animalia	species
Event	en	http://creativecommons.org/publicdomain/zero/1.0/	RATO	https://doi.org/10.15468/fw2rbx	RATO	RATO - Daily operations commissioned by the province East Flanders, Belgium	HumanObservation	41583	498235	RATO	2	individual(s)	present	cage trap	1 cage trap	2023-07-24 09:38:24	BE	Gent	198323.4	109641.6	Lambert coordinates	Belgian Datum 1972	51.09361	3.79266	WGS84	30	Trachemys scripta	Animalia	species

In the raw data we can see only the last 3 records make mention of Graptemys sp.

There are probably more examples of vernacular names being mentioned in Opmerkingen, some of which might also not match the GBIF_Code provided.

For now, I will not make an exception and parse just these records to add a new species, but I'll create an issue to be discussed when everyone involved is back from holidays.

[PietrH]

See issue #51