Nothing
tests/testthat/test-flagAbsent.R
In BeeBDC: Occurrence Data Cleaning
requireNamespace("dplyr")
library(dplyr) # couldn't use %>% without this
# make some test data - this is derived from GBIF data but it is HEAVILY EDITED and USELESS
testData <- dplyr::tribble( # even step coordinates (different for lat/long)
~database_id, ~datasetName, ~id, ~institutionCode, ~collectionCode, ~ownerInstitutionCode, ~basisOfRecord, ~occurrenceID, ~catalogNumber, ~otherCatalogNumbers, ~kingdom, ~phylum, ~class, ~order, ~family, ~scientificName, ~taxonID, ~scientificNameAuthorship, ~genus, ~specificEpithet, ~recordedBy, ~eventDate, ~year, ~month, ~day, ~verbatimEventDate, ~country, ~stateProvince, ~locality, ~locationRemarks, ~decimalLatitude, ~decimalLongitude, ~minimumElevationInMeters, ~rights, ~rightsHolder, ~accessRights, ~recordId, ~occurrenceStatus,
"fake SCAN1", "fakeDataset", 13775122L, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", "CAS:ANTWEB:casent0106100", "casent0106100", NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "P.S. Ward", "6/28/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.541, -121.7567, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:46a46727-6535-4e70-88e7-a42c98f806ed", "PRESENT",
"fake SCAN2", "fakeDataset", 13775123L, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", "CAS:ANTWEB:casent0106100-d01", "casent0106100-d01", NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "P.S. Ward", "6/28/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.542, -121.7568, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:d6ff3ddb-4695-4aaf-ab89-c251ab2fc7e6", "PRESENT",
"fake SCAN3", "fakeDataset", 13775124L, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", "CAS:ANTWEB:casent0106100-d11", "casent0106100-d11", NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "P.S. Ward", "6/28/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.543, -121.7569, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:4504a6e6-ab1c-4de7-ac43-a3588a63ae90", "PRESENT",
"fake SCAN4", "fakeDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "P.S. Ward", "6/28/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.544, -121.7570, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "ABSENT",
"fake SCAN5", "fakeDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "P.S. Ward", "6/28/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.545, -121.7571, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "ABSENT",
"fake SCAN6", "fakeDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "P.S. Ward", "6/28/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.546, -121.7572, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "ABSENT",
"fake SCAN7", "fakeDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "P.S. Ward", "6/28/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.54, -121.7567, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "PRESENT",
"fake SCAN8", "fakeDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "P.S. Ward", "6/28/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.54, -121.7567, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "ABSENT",
"fake SCAN9", "fakeDataset", 13852774L, "CAS", "ANTWEB", "CAS, San Francisco, CA, USA", "PreservedSpecimen", "CAS:ANTWEB:casent0249086", "casent0249086", NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "C. Schöning", "9/1/09", 2009L, 9L, 1L, "1-Sep-09", "Kenya", NA, "Chogoria", NA, -0.20222, 37.5083, 2277L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:964139d3-fb07-4a57-9b7c-e9a5830f4c82", "ABSENT",
"fake SCAN10", "fakeDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "P.S. Ward", "6/29/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.546, -121.7572, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "ABSENT",
"fake SCAN11", "newDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "P.S. Ward", "6/29/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.54, -121.7567, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "PRESENT",
"fake SCAN12", "newDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "P.S. Ward", "6/29/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.54, -121.7567, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "PRESENT",
"fake SCAN13", "newDataset", 13852774L, "CAS", "ANTWEB", "CAS, San Francisco, CA, USA", "PreservedSpecimen", "CAS:ANTWEB:casent0249086", "casent0249086", NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "C. Schöning", "9/1/09", 2009L, 9L, 1L, "1-Sep-09", "Kenya", NA, "Chogoria", NA, -0.20222, 37.5083, 2277L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:964139d3-fb07-4a57-9b7c-e9a5830f4c82", "ABSENT",
"fake SCAN14", "fakeDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "Ward", "4/29/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.54, -121.756, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "PRESENT",
"fake SCAN15", "fakeDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "Ward", "4/29/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.54, -121.756, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "PRESENT",
"fake SCAN16", "fakeDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "Ward", "4/29/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.54, -121.756, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "PRESENT",
"fake SCAN17", "fakeDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "Ward", "4/29/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.54, -121.756, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "PRESENT",
"fake SCAN18", "fakeDataset", 13775123L, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", "CAS:ANTWEB:casent0106100-d01", "casent0106100-d01", NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "BeeNerd", "6/30/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 28.742, -121.75, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:d6ff3ddb-4695-4aaf-ab89-c251ab2fc7e6", "ABSENT",
"fake SCAN19", "fakeDataset", 13775124L, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", "CAS:ANTWEB:casent0106100-d11", "casent0106100-d11", NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "BeeNerd", "6/30/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 28.743, -121.75, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:4504a6e6-ab1c-4de7-ac43-a3588a63ae90", "ABSENT",
"fake SCAN20", "fakeDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "BeeNerd", "6/30/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 28.744, -121.75, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "ABSENT",
"fake SCAN21", "fakeDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "BeeNerd", "6/30/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 28.745, -121.75, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "ABSENT",
"fake SCAN22", "fakeDataset", 13775123L, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", "CAS:ANTWEB:casent0106100-d01", "casent0106100-d01", NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "easterEgg", "6/30/15", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 28.7400, -121.7512, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:d6ff3ddb-4695-4aaf-ab89-c251ab2fc7e6", "ABSENT",
"fake SCAN23", "fakeDataset", 13775124L, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", "CAS:ANTWEB:casent0106100-d11", "casent0106100-d11", NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "easterEgg", "6/30/15", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 28.7400, -121.7513, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:4504a6e6-ab1c-4de7-ac43-a3588a63ae90", "PRESENT",
"fake SCAN24", "fakeDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "easterEgg", "6/30/15", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 28.7400, -121.7514, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "PRESENT",
"fake SCAN25", "fakeDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "easterEgg", "6/30/15", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 28.7400, -121.7515, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "PRESENT",
"fake SCAN26", "fakeDataset", 13775124L, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", "CAS:ANTWEB:casent0106100-d11", "casent0106100-d11", NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "P.S. Ward", "6/28/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.543, -121.7569, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:4504a6e6-ab1c-4de7-ac43-a3588a63ae90", "ABSENT",
# no matching
"fake SCAN27", "fakeDataset", 13775123L, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", "CAS:ANTWEB:casent0106100-d01", "casent0106100-d01", NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "Yadad", "14/04/09", 2009L, 4L, 14L, "", "United States", "California", "Davis", "coordinates obtained from Label", 21.08, -128.75, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:d6ff3ddb-4695-4aaf-ab89-c251ab2fc7e6", "ABSENT",
"fake SCAN28", "fakeDataset", 13775124L, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", "CAS:ANTWEB:casent0106100-d11", "casent0106100-d11", NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "Yadad", "21/06/92", 1992L, 6L, 21L, "", "United States", "California", "Davis", "coordinates obtained from Label", 50.75400, -12.73, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:4504a6e6-ab1c-4de7-ac43-a3588a63ae90", "ABSENT",
"fake SCAN29", "fakeDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "Yadad", "2/06/25", 2025L, 6L, 2L, "", "United States", "California", "Davis", "coordinates obtained from Label", 13.2400, -150.7514, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "ABSENT",
"fake SCAN30", "fakeDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "Yadad", "8/01/00", 2000L, 1L, 8L, "", "United States", "California", "Davis", "coordinates obtained from Label", 09.712400, -11.753215, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "ABSENT",
"fake SCAN31", "fakeDataset", 13775124L, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", "CAS:ANTWEB:casent0106100-d11", "casent0106100-d11", NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "P.S. Ward", "31/12/76", 1876L, 12L, 31L, "", "United States", "California", "Davis", "coordinates obtained from Label", 38.5423, -21.752369, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:4504a6e6-ab1c-4de7-ac43-a3588a63ae90", "ABSENT",
# Too few decimals
"fake SCAN32", "newDataset", 13775122L, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", "CAS:ANTWEB:casent0106100", "casent0106100", NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "E Fischer", "6/28/95", 2095L, 6L, 28L, "28 Jun 2095/29 Jun 2095", "United States", "OuterSpace", "Davis", "coordinates obtained from Label", 38.54, -121.75, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:46a46727-6535-4e70-88e7-a42c98f806ed", "PRESENT",
"fake SCAN33", "newDataset", 13775123L, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", "CAS:ANTWEB:casent0106100-d01", "casent0106100-d01", NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "E Fischer", "6/28/95", 2095L, 6L, 28L, "28 Jun 2095/29 Jun 2095", "United States", "OuterSpace", "Davis", "coordinates obtained from Label", 38.55, -121.75, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:d6ff3ddb-4695-4aaf-ab89-c251ab2fc7e6", "PRESENT",
"fake SCAN34", "newDataset", 13775124L, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", "CAS:ANTWEB:casent0106100-d11", "casent0106100-d11", NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "E Fischer", "6/28/95", 2095L, 6L, 28L, "28 Jun 2095/29 Jun 2095", "United States", "OuterSpace", "Davis", "coordinates obtained from Label", 38.56, -121.75, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:4504a6e6-ab1c-4de7-ac43-a3588a63ae90", "PRESENT",
"fake SCAN35", "newDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "E Fischer", "6/28/95", 2095L, 6L, 28L, "28 Jun 2095/29 Jun 2095", "United States", "OuterSpace", "Davis", "coordinates obtained from Label", 38.57, -121.75, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "PRESENT"
)
# Run the function
testOut <- BeeBDC::flagAbsent(data = testData, PresAbs = "occurrenceStatus")
# test number of TRUE and FALSE values in the flag column, .occurrenceAbsent
resultsT <- length(testOut$.occurrenceAbsent[testOut$.occurrenceAbsent == TRUE])
resultsF <- length(testOut$.occurrenceAbsent[testOut$.occurrenceAbsent == FALSE])
testthat::test_that("flagAbsent column .occurrenceAbsent results TRUE", {
testthat::expect_equal(resultsT, 17)
})
testthat::test_that("flagAbsent column .occurrenceAbsent results FALSE", {
testthat::expect_equal(resultsF, 18)
})
# test the order of the TRUE and FALSE values in the flag column, .occurrenceAbsent
correct <- c(TRUE, TRUE, TRUE, FALSE, FALSE, FALSE, TRUE, FALSE, FALSE, FALSE, TRUE, TRUE, FALSE, TRUE, TRUE,
TRUE, TRUE, FALSE, FALSE, FALSE, FALSE, FALSE, TRUE, TRUE, TRUE, FALSE, FALSE, FALSE, FALSE, FALSE, FALSE,
TRUE, TRUE, TRUE, TRUE)
testthat::test_that("flagAbsent column .occurrenceAbsent results correct series", {
testthat::expect_equal(correct, testOut$.occurrenceAbsent)
})
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BeeBDC documentation built on Nov. 4, 2024, 9:06 a.m.
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requireNamespace("dplyr")
library(dplyr) # couldn't use %>% without this
# make some test data - this is derived from GBIF data but it is HEAVILY EDITED and USELESS
testData <- dplyr::tribble( # even step coordinates (different for lat/long)
~database_id, ~datasetName, ~id, ~institutionCode, ~collectionCode, ~ownerInstitutionCode, ~basisOfRecord, ~occurrenceID, ~catalogNumber, ~otherCatalogNumbers, ~kingdom, ~phylum, ~class, ~order, ~family, ~scientificName, ~taxonID, ~scientificNameAuthorship, ~genus, ~specificEpithet, ~recordedBy, ~eventDate, ~year, ~month, ~day, ~verbatimEventDate, ~country, ~stateProvince, ~locality, ~locationRemarks, ~decimalLatitude, ~decimalLongitude, ~minimumElevationInMeters, ~rights, ~rightsHolder, ~accessRights, ~recordId, ~occurrenceStatus,
"fake SCAN1", "fakeDataset", 13775122L, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", "CAS:ANTWEB:casent0106100", "casent0106100", NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "P.S. Ward", "6/28/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.541, -121.7567, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:46a46727-6535-4e70-88e7-a42c98f806ed", "PRESENT",
"fake SCAN2", "fakeDataset", 13775123L, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", "CAS:ANTWEB:casent0106100-d01", "casent0106100-d01", NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "P.S. Ward", "6/28/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.542, -121.7568, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:d6ff3ddb-4695-4aaf-ab89-c251ab2fc7e6", "PRESENT",
"fake SCAN3", "fakeDataset", 13775124L, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", "CAS:ANTWEB:casent0106100-d11", "casent0106100-d11", NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "P.S. Ward", "6/28/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.543, -121.7569, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:4504a6e6-ab1c-4de7-ac43-a3588a63ae90", "PRESENT",
"fake SCAN4", "fakeDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "P.S. Ward", "6/28/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.544, -121.7570, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "ABSENT",
"fake SCAN5", "fakeDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "P.S. Ward", "6/28/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.545, -121.7571, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "ABSENT",
"fake SCAN6", "fakeDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "P.S. Ward", "6/28/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.546, -121.7572, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "ABSENT",
"fake SCAN7", "fakeDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "P.S. Ward", "6/28/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.54, -121.7567, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "PRESENT",
"fake SCAN8", "fakeDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "P.S. Ward", "6/28/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.54, -121.7567, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "ABSENT",
"fake SCAN9", "fakeDataset", 13852774L, "CAS", "ANTWEB", "CAS, San Francisco, CA, USA", "PreservedSpecimen", "CAS:ANTWEB:casent0249086", "casent0249086", NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "C. Schöning", "9/1/09", 2009L, 9L, 1L, "1-Sep-09", "Kenya", NA, "Chogoria", NA, -0.20222, 37.5083, 2277L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:964139d3-fb07-4a57-9b7c-e9a5830f4c82", "ABSENT",
"fake SCAN10", "fakeDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "P.S. Ward", "6/29/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.546, -121.7572, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "ABSENT",
"fake SCAN11", "newDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "P.S. Ward", "6/29/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.54, -121.7567, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "PRESENT",
"fake SCAN12", "newDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "P.S. Ward", "6/29/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.54, -121.7567, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "PRESENT",
"fake SCAN13", "newDataset", 13852774L, "CAS", "ANTWEB", "CAS, San Francisco, CA, USA", "PreservedSpecimen", "CAS:ANTWEB:casent0249086", "casent0249086", NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "C. Schöning", "9/1/09", 2009L, 9L, 1L, "1-Sep-09", "Kenya", NA, "Chogoria", NA, -0.20222, 37.5083, 2277L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:964139d3-fb07-4a57-9b7c-e9a5830f4c82", "ABSENT",
"fake SCAN14", "fakeDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "Ward", "4/29/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.54, -121.756, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "PRESENT",
"fake SCAN15", "fakeDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "Ward", "4/29/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.54, -121.756, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "PRESENT",
"fake SCAN16", "fakeDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "Ward", "4/29/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.54, -121.756, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "PRESENT",
"fake SCAN17", "fakeDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "Ward", "4/29/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.54, -121.756, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "PRESENT",
"fake SCAN18", "fakeDataset", 13775123L, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", "CAS:ANTWEB:casent0106100-d01", "casent0106100-d01", NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "BeeNerd", "6/30/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 28.742, -121.75, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:d6ff3ddb-4695-4aaf-ab89-c251ab2fc7e6", "ABSENT",
"fake SCAN19", "fakeDataset", 13775124L, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", "CAS:ANTWEB:casent0106100-d11", "casent0106100-d11", NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "BeeNerd", "6/30/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 28.743, -121.75, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:4504a6e6-ab1c-4de7-ac43-a3588a63ae90", "ABSENT",
"fake SCAN20", "fakeDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "BeeNerd", "6/30/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 28.744, -121.75, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "ABSENT",
"fake SCAN21", "fakeDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "BeeNerd", "6/30/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 28.745, -121.75, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "ABSENT",
"fake SCAN22", "fakeDataset", 13775123L, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", "CAS:ANTWEB:casent0106100-d01", "casent0106100-d01", NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "easterEgg", "6/30/15", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 28.7400, -121.7512, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:d6ff3ddb-4695-4aaf-ab89-c251ab2fc7e6", "ABSENT",
"fake SCAN23", "fakeDataset", 13775124L, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", "CAS:ANTWEB:casent0106100-d11", "casent0106100-d11", NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "easterEgg", "6/30/15", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 28.7400, -121.7513, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:4504a6e6-ab1c-4de7-ac43-a3588a63ae90", "PRESENT",
"fake SCAN24", "fakeDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "easterEgg", "6/30/15", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 28.7400, -121.7514, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "PRESENT",
"fake SCAN25", "fakeDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "easterEgg", "6/30/15", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 28.7400, -121.7515, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "PRESENT",
"fake SCAN26", "fakeDataset", 13775124L, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", "CAS:ANTWEB:casent0106100-d11", "casent0106100-d11", NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "P.S. Ward", "6/28/05", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.543, -121.7569, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:4504a6e6-ab1c-4de7-ac43-a3588a63ae90", "ABSENT",
# no matching
"fake SCAN27", "fakeDataset", 13775123L, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", "CAS:ANTWEB:casent0106100-d01", "casent0106100-d01", NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "Yadad", "14/04/09", 2009L, 4L, 14L, "", "United States", "California", "Davis", "coordinates obtained from Label", 21.08, -128.75, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:d6ff3ddb-4695-4aaf-ab89-c251ab2fc7e6", "ABSENT",
"fake SCAN28", "fakeDataset", 13775124L, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", "CAS:ANTWEB:casent0106100-d11", "casent0106100-d11", NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "Yadad", "21/06/92", 1992L, 6L, 21L, "", "United States", "California", "Davis", "coordinates obtained from Label", 50.75400, -12.73, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:4504a6e6-ab1c-4de7-ac43-a3588a63ae90", "ABSENT",
"fake SCAN29", "fakeDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "Yadad", "2/06/25", 2025L, 6L, 2L, "", "United States", "California", "Davis", "coordinates obtained from Label", 13.2400, -150.7514, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "ABSENT",
"fake SCAN30", "fakeDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "Yadad", "8/01/00", 2000L, 1L, 8L, "", "United States", "California", "Davis", "coordinates obtained from Label", 09.712400, -11.753215, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "ABSENT",
"fake SCAN31", "fakeDataset", 13775124L, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", "CAS:ANTWEB:casent0106100-d11", "casent0106100-d11", NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "P.S. Ward", "31/12/76", 1876L, 12L, 31L, "", "United States", "California", "Davis", "coordinates obtained from Label", 38.5423, -21.752369, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:4504a6e6-ab1c-4de7-ac43-a3588a63ae90", "ABSENT",
# Too few decimals
"fake SCAN32", "newDataset", 13775122L, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", "CAS:ANTWEB:casent0106100", "casent0106100", NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "E Fischer", "6/28/95", 2095L, 6L, 28L, "28 Jun 2095/29 Jun 2095", "United States", "OuterSpace", "Davis", "coordinates obtained from Label", 38.54, -121.75, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:46a46727-6535-4e70-88e7-a42c98f806ed", "PRESENT",
"fake SCAN33", "newDataset", 13775123L, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", "CAS:ANTWEB:casent0106100-d01", "casent0106100-d01", NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "E Fischer", "6/28/95", 2095L, 6L, 28L, "28 Jun 2095/29 Jun 2095", "United States", "OuterSpace", "Davis", "coordinates obtained from Label", 38.55, -121.75, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:d6ff3ddb-4695-4aaf-ab89-c251ab2fc7e6", "PRESENT",
"fake SCAN34", "newDataset", 13775124L, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", "CAS:ANTWEB:casent0106100-d11", "casent0106100-d11", NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "E Fischer", "6/28/95", 2095L, 6L, 28L, "28 Jun 2095/29 Jun 2095", "United States", "OuterSpace", "Davis", "coordinates obtained from Label", 38.56, -121.75, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:4504a6e6-ab1c-4de7-ac43-a3588a63ae90", "PRESENT",
"fake SCAN35", "newDataset", NA, "CAS", "ANTWEB", "UCDC, Davis, CA, USA", "PreservedSpecimen", NA, NA, NA, "Animalia", "Arthropoda", "Insecta", "Hymenoptera", "apidae", "apis mellifera", 235783L, "Linnaeus, 1758", "Apis", "mellifera", "E Fischer", "6/28/95", 2095L, 6L, 28L, "28 Jun 2095/29 Jun 2095", "United States", "OuterSpace", "Davis", "coordinates obtained from Label", 38.57, -121.75, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, "PRESENT"
)
# Run the function
testOut <- BeeBDC::flagAbsent(data = testData, PresAbs = "occurrenceStatus")
# test number of TRUE and FALSE values in the flag column, .occurrenceAbsent
resultsT <- length(testOut$.occurrenceAbsent[testOut$.occurrenceAbsent == TRUE])
resultsF <- length(testOut$.occurrenceAbsent[testOut$.occurrenceAbsent == FALSE])
testthat::test_that("flagAbsent column .occurrenceAbsent results TRUE", {
testthat::expect_equal(resultsT, 17)
})
testthat::test_that("flagAbsent column .occurrenceAbsent results FALSE", {
testthat::expect_equal(resultsF, 18)
})
# test the order of the TRUE and FALSE values in the flag column, .occurrenceAbsent
correct <- c(TRUE, TRUE, TRUE, FALSE, FALSE, FALSE, TRUE, FALSE, FALSE, FALSE, TRUE, TRUE, FALSE, TRUE, TRUE,
TRUE, TRUE, FALSE, FALSE, FALSE, FALSE, FALSE, TRUE, TRUE, TRUE, FALSE, FALSE, FALSE, FALSE, FALSE, FALSE,
TRUE, TRUE, TRUE, TRUE)
testthat::test_that("flagAbsent column .occurrenceAbsent results correct series", {
testthat::expect_equal(correct, testOut$.occurrenceAbsent)
})
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