Nothing
tests/testthat/test-dateFindR.R
In BeeBDC: Occurrence Data Cleaning
requireNamespace("dplyr")
testData <- dplyr::tribble( # even step coordinates (different for lat/long)
~database_id, ~datasetName, ~fieldNotes, ~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, ~references,
"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", "", NA, NA, NA, "", "United States", "California", "Davis", "coordinates obtained from Label; 6/28/05", 38.541, -121.75667, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:46a46727-6535-4e70-88e7-a42c98f806ed", "https://scan-bugs.org:443/portal/collections/individual/index.php?occid=13775122",
"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", "", NA, NA, NA, "", "United States", "California", "Davis", "coordinates obtained from Label: 3 march 2022", 38.542, -121.75668, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:d6ff3ddb-4695-4aaf-ab89-c251ab2fc7e6", "https://scan-bugs.org:443/portal/collections/individual/index.php?occid=13775123",
"fake SCAN3", "fakeDataset", "28 Jun 2005", 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", "", NA, NA, NA, "", "United States", "California", "Davis", "coordinates obtained from Label", 38.543, -121.75669, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:4504a6e6-ab1c-4de7-ac43-a3588a63ae90", "https://scan-bugs.org:443/portal/collections/individual/index.php?occid=13775124",
"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", "", 2022, 2, 1, "", "United States", "California", "Davis", "coordinates obtained from Label", 38.544, -121.75670, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, NA,
"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", "", NA, NA, NA, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.545, -121.75671, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, NA,
"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", "", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.546, -121.75672, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, NA,
"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", "", NA, NA, NA, "28 IX 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.546, -121.75672, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, NA,
"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", "", NA, NA, NA, "I 2022", "United States", "California", "Davis", "coordinates obtained from Label", 38.546, -121.75672, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, NA,
"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", "", NA, NA, NA, "2022", "United States", "California", "Davis", "coordinates obtained from Label", 38.546, -121.75672, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, NA,
"fake SCAN11", "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", "2005-05-05", NA, NA, NA, "2022", "United States", "California", "Davis", "coordinates obtained from Label", 38.546, -121.75672, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, NA
)
testOut <- BeeBDC::dateFindR(data = testData,
# Years above this are removed (from the recovered dates only)
maxYear = lubridate::year(Sys.Date()),
# Years below this are removed (from the recovered dates only)
minYear = 1700) %>%
dplyr::select(database_id, eventDate, fieldNotes, locationRemarks, verbatimEventDate,
day, month, year) %>%
dplyr::arrange(desc(database_id))
# Test the expected results
testthat::test_that("dateFindR results successfuly matched", {
testthat::expect_equal(sum(complete.cases(testOut$eventDate) ), 9)
})
testthat::test_that("dateFindR results unsuccessfuly matched", {
testthat::expect_equal(sum(is.na(testOut$eventDate) ), 1)
})
testthat::test_that("dateFindR output dates match", {
testthat::expect_equal(testOut$eventDate %>% as.character(),
c( "2022-01-01", "2005-09-28","2005-06-28", "2005-06-28",
"2022-02-01", "2005-06-28", "2022-03-03", "2005-05-05",
NA, "2005-06-28"))
})
# Test classes
testthat::test_that("dateFindR expected class", {
testthat::expect_type(testOut, "list")
})
testthat::test_that("dateFindR expected class", {
testthat::expect_equal(attributes(testOut)$class, c("tbl_df","tbl" ,"data.frame"))
})
troubleRows <- dplyr::tribble(
~database_id, ~scientificName, ~family, ~subfamily, ~genus, ~subgenus, ~species, ~specificEpithet, ~infraspecificEpithet, ~taxonRank, ~scientificNameAuthorship, ~identificationQualifier, ~higherClassification, ~typeStatus, ~previousIdentifications, ~verbatimIdentification, ~identifiedBy, ~dateIdentified, ~decimalLatitude, ~decimalLongitude, ~verbatimLatitude, ~verbatimLongitude, ~verbatimElevation, ~stateProvince, ~country, ~continent, ~locality, ~county, ~municipality, ~countryCode, ~level0Gid, ~level0Name, ~level1Gid, ~level1Name, ~license, ~issue, ~eventDate, ~eventTime, ~startDayOfYear, ~endDayOfYear, ~day, ~month, ~year, ~basisOfRecord, ~type, ~occurrenceStatus, ~recordNumber, ~recordedBy, ~eventID, ~samplingProtocol, ~samplingEffort, ~individualCount, ~coordinatePrecision, ~coordinateUncertaintyInMeters, ~catalogNumber, ~gbifID, ~datasetID, ~institutionCode, ~datasetName, ~otherCatalogNumbers, ~occurrenceID, ~taxonKey, ~coreid, ~recordId, ~collectionID, ~associatedSequences, ~verbatimScientificName, ~verbatimEventDate, ~associatedTaxa, ~associatedOrganisms, ~fieldNotes, ~sex, ~rightsHolder, ~accessRights, ~associatedReferences, ~bibliographicCitation, ~references, ~informationWithheld, ~hasCoordinate, ~hasGeospatialIssues, ~id, ~associatedOccurrences, ~locationRemarks, ~dataSource, ~.scientificName_empty, ~.coordinates_empty, ~.coordinates_outOfRange, ~.basisOfRecords_notStandard, ~.basisOfRecord_notSpecimen, ~verbatimCounty, ~.occurrenceAbsent, ~rights, ~.unLicensed, ~.GBIFflags, ~.uncer_terms, ~.invalidName, ~.rou, ~.val, ~.equ, ~.zer, ~.cap, ~.cen, ~.gbf, ~.inst, ~.summary, ~.sequential, ~.lonFlag, ~.latFlag, ~.gridSummary, ~.uncertaintyThreshold,
"NC_checklist_32750", "Dialictus Robertson, 1902", "Halictidae", NA, "Dialictus", NA, NA, NA, NA, "GENUS", NA, NA, NA, NA, NA, NA, "Russell, P. J. (Phillip J.)", "2010-01-01T00:00:00", 35.1675, -83.3044, NA, NA, NA, "North Carolina", NA, "NORTH_AMERICA", "\"GSMNP Oconaluftee residential area, 35°10'3\"\"N 83°18'16\"\"W, 2039ft, Old Field, Swain Co., NC\"", "Swain", NA, "US", "USA", "United States", "USA.34_1", "North Carolina", "CC_BY_4_0", "GEODETIC_DATUM_ASSUMED_WGS84;CONTINENT_DERIVED_FROM_COORDINATES;OCCURRENCE_STATUS_INFERRED_FROM_INDIVIDUAL_COUNT;INSTITUTION_MATCH_NONE", "2004-07-14T00:00:00", NA, NA, NA, 14L, 7L, 2004L, "PRESERVED_SPECIMEN", NA, "PRESENT", NA, "Steck, G., Sutton & Super", NA, "Malaise trap", NA, 1L, NA, NA, "UCFC 0 260 365", 1800769439L, NA, "University of Central Florida Collection of Arthopods (UCFC)", NA, NA, "urn:lsid:biosci.ohio-state.edu:osuc_occurrences:UCFC__0__260__365", 1352488L, NA, NA, NA, NA, "Lasioglossum (Dialictus)", "14-Jul-04", NA, NA, "lot_id: 6994; preparation: pointed", NA, NA, NA, NA, NA, NA, NA, TRUE, FALSE, NA, NA, NA, "GBIF_Halictidae", TRUE, TRUE, TRUE, TRUE, TRUE, "Swain", TRUE, NA, TRUE, TRUE, TRUE, FALSE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_3666", "Andrena accepta Viereck, 1916", "Andrenidae", "Andreninae", "Andrena", NA, "Andrena accepta", "accepta", NA, "GENUS", "Viereck, 1916", NA, NA, NA, NA, NA, "Mitchell, T. B. (Theodore B.)", "1962-01-01T00:00:00", 34.476556, -77.969157, NA, NA, NA, "North Carolina", NA, "NORTH_AMERICA", "Savanna, Burgaw, Pender Co., NC, Pender, North Carolina, United States", "Pender", NA, "US", "USA", "United States", "USA.34_1", "North Carolina", "CC_BY_4_0", "COORDINATE_ROUNDED;GEODETIC_DATUM_ASSUMED_WGS84;CONTINENT_DERIVED_FROM_COORDINATES;TAXON_MATCH_SCIENTIFIC_NAME_ID_IGNORED;OCCURRENCE_STATUS_INFERRED_FROM_INDIVIDUAL_COUNT;INSTITUTION_MATCH_FUZZY;COLLECTION_MATCH_FUZZY", NA, NA, NA, NA, NA, NA, NA, "PRESERVED_SPECIMEN", NA, "PRESENT", NA, "Mitchell, T. B. (Theodore B.)", NA, "none specified", NA, 1L, NA, NA, "FSCA 00096225", NA, NA, "FSCA", NA, NA, "http://mbd-db.osu.edu/hol/collecting_units/403a7c17-66f1-4bfe-9047-d23cb4669bf3", 1345710L, NA, NA, NA, NA, "Andrena accepta", NA, NA, NA, "[Savanna at Burgaw, N. C.] [T. B. Mitchell Oct. 23, 1957] [Hellanthus] [Andrena accepta Vier. ♀ det. Mitch. '62] [Andrena (Pterandrena) accepta]", "FEMALE", NA, NA, NA, NA, "http://mbd-db.osu.edu/hol/collecting_units/403a7c17-66f1-4bfe-9047-d23cb4669bf3", NA, TRUE, FALSE, NA, NA, NA, "GBIF_Andrenidae", TRUE, TRUE, TRUE, TRUE, TRUE, "Pender", TRUE, NA, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_45856", "Halictidae", "Halictidae", NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, "Dasch, C.", "2001", 35.7547, -82.2556, NA, NA, NA, "North Carolina", "United States", NA, "Mount Mitchell, 5500ft, Yancey Co., NC", "Yancey", NA, NA, NA, NA, NA, NA, NA, NA, "8/17/1970", NA, NA, NA, NA, NA, NA, "PreservedSpecimen", NA, NA, NA, "Dasch, C.", NA, "trap", NA, 1L, NA, NA, "OSUC 102262", NA, NA, "C.A. Triplehorn Insect Collection, Ohio State University, Columbus, OH (OSUC)", NA, NA, "urn:lsid:biosci.ohio-state.edu:osuc_occurrences:OSUC__102262", NA, "57ba61b4-c249-411b-b46f-cb15d7f75913", NA, NA, NA, NA, NA, NA, NA, "C. Dasch Collection [Mt. Mitchell, N.C. 5500 ft.; added 12-JUL-2002] [Aug 17 1970; added 12-JUL-2002]", "undetermined", NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, "iDigBio_Halictidae", TRUE, TRUE, TRUE, TRUE, TRUE, "Yancey", TRUE, NA, TRUE, TRUE, TRUE, FALSE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_45975", "Halictidae", "Halictidae", NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, "2002", 35.2247, -75.5303, NA, NA, NA, "North Carolina", "United States", NA, "Cape Hatteras, Coccino, Dare Co., NC", "Dare", NA, NA, NA, NA, NA, NA, NA, NA, "8/24/1971", NA, NA, NA, NA, NA, NA, "PreservedSpecimen", NA, NA, NA, "Dasch, C.", NA, "none specified", NA, 1L, NA, NA, "OSUC 102376", NA, NA, "C.A. Triplehorn Insect Collection, Ohio State University, Columbus, OH (OSUC)", NA, NA, "urn:lsid:biosci.ohio-state.edu:osuc_occurrences:OSUC__102376", NA, "364cca84-19f9-4883-b777-f28587802925", NA, NA, NA, NA, NA, NA, NA, "C. Dasch Collection [Coccino Cape Hatteras NC.; added 12-JUL-2002] [Aug. 24, 1971; added 12-JUL-2002]", "undetermined", NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, "iDigBio_Halictidae", TRUE, TRUE, TRUE, TRUE, TRUE, "Dare", TRUE, NA, TRUE, TRUE, TRUE, FALSE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_45007", "Bombus terricola Kirby, 1837", "Apidae", "Apinae", "Bombus", NA, "Bombus terricola", "terricola", NA, NA, "Kirby, 1837", NA, NA, NA, NA, NA, NA, "2001", 35.7547, -82.2556, NA, NA, NA, "North Carolina", "United States", NA, "Mount Mitchell, 5500ft, Yancey Co., NC", "Yancey", NA, NA, NA, NA, NA, NA, NA, NA, "8/13/1970", NA, NA, NA, NA, NA, NA, "PreservedSpecimen", NA, NA, NA, "Dasch, C.", NA, "none specified", NA, 1L, NA, NA, "OSUC 100900", NA, NA, "C.A. Triplehorn Insect Collection, Ohio State University, Columbus, OH (OSUC)", NA, NA, "urn:lsid:biosci.ohio-state.edu:osuc_occurrences:OSUC__100900", NA, "0047d1b4-94ef-4b45-a74f-913867ac965b", NA, NA, NA, "Bombus terricola", NA, NA, NA, "[Mt. Mitchell N.C.5500 ft. Aug. 13, 1970 C. Dasch]", "female", NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, "iDigBio_Apidae", TRUE, TRUE, TRUE, TRUE, TRUE, "Yancey", TRUE, NA, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_87482", "Nomada articulata Smith, 1854", "Apidae", "Nomadinae", "Nomada", NA, "Nomada articulata", "articulata", NA, NA, "Smith, 1854", NA, NA, NA, NA, NA, "Snelling", NA, 35.17173, -79.39167, NA, NA, NA, "North Carolina", "United States", NA, "Southern Pines", NA, "Southern Pines", NA, NA, NA, NA, NA, NA, NA, "4/14/2010", NA, 104L, NA, 14L, 4L, 1910L, "PreservedSpecimen", NA, NA, NA, "A. H. Manoo", NA, NA, NA, NA, NA, 2000L, "9949", NA, NA, "UNSM", NA, NA, "7942d7fb-d0fb-436a-aa65-f367143443ce", NA, NA, "urn:uuid:7942d7fb-d0fb-436a-aa65-f367143443ce", NA, NA, "Nomada articulata", "4/14/2010", NA, NA, NA, "M", NA, NA, NA, NA, "https://scan-bugs.org:443/portal/collections/individual/index.php?occid=64923665", NA, NA, NA, 64923665L, NA, NA, "SCAN_Apidae", TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, NA, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, TRUE,
"NC_checklist_49805", "Andrena integra Smith, 1853", "Andrenidae", "Andreninae", "Andrena", NA, "Andrena integra", "integra", NA, NA, "Smith, 1853", NA, NA, NA, NA, NA, NA, "2001", 35.4267, -83.0853, NA, NA, NA, "North Carolina", "United States", NA, "Balsam, Jackson Co., NC", "Jackson", NA, NA, NA, NA, NA, NA, NA, NA, "6/1/1956", NA, NA, NA, NA, NA, NA, "PreservedSpecimen", NA, NA, NA, "Knull, D. J. (Dorothy Johnson) & Knull, J. N. (Josef Nissley)", NA, "none specified", NA, 1L, NA, NA, "OSUC 125900", NA, NA, "C.A. Triplehorn Insect Collection, Ohio State University, Columbus, OH (OSUC)", NA, NA, "urn:lsid:biosci.ohio-state.edu:osuc_occurrences:OSUC__125900", NA, "fd50033e-f274-4e47-9225-e546aa140562", NA, NA, NA, "Andrena integra", NA, NA, NA, "[Balsam, N.C.; added 12-JUL-2002] [VI-1-56; added 12-JUL-2002]", "female", NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, "iDigBio_Andrenidae", TRUE, TRUE, TRUE, TRUE, TRUE, "Jackson", TRUE, NA, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_49033", "Halictidae", "Halictidae", NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, "Dasch, C.", "2001", 35.7547, -82.2556, NA, NA, NA, "North Carolina", "United States", NA, "Mount Mitchell, 5500ft, Yancey Co., NC", "Yancey", NA, NA, NA, NA, NA, NA, NA, NA, "8/13/1970", NA, NA, NA, NA, NA, NA, "PreservedSpecimen", NA, NA, NA, "Dasch, B. (Betty) & Dasch, C.", NA, "none specified", NA, 1L, NA, NA, "OSUC 102252", NA, NA, "C.A. Triplehorn Insect Collection, Ohio State University, Columbus, OH (OSUC)", NA, NA, "urn:lsid:biosci.ohio-state.edu:osuc_occurrences:OSUC__102252", NA, "ab5ccc45-f82b-450b-8634-b3be0b426804", NA, NA, NA, NA, NA, NA, NA, "C. Dasch Collection [Mt. Mitchell, N.C. 5500 ft.; added 12-JUL-2002] [Aug 13 1970; added 12-JUL-2002]", "undetermined", NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, "iDigBio_Halictidae", TRUE, TRUE, TRUE, TRUE, TRUE, "Yancey", TRUE, NA, TRUE, TRUE, TRUE, FALSE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_46230", "Triepeolus lunatus (Say, 1824)", "Apidae", "Nomadinae", "Triepeolus", NA, "Triepeolus lunatus", "lunatus", NA, NA, "(Say, 1824)", NA, "Animalia;Arthropoda;Apidae;Nomadinae;Epeolini", "None", NA, NA, "M. G. Rightmyer", "2006", 35.17389, -79.3925, NA, NA, "159 m", "North Carolina", "UNITED STATES", NA, "Southern Pines", "Moore", NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, "PreservedSpecimen", NA, NA, NA, "unknown", NA, "Netting", NA, 1L, NA, NA, "AMNH_BEE 00233319", NA, "urn:uuid:13674fa4-8611-11e4-8259-0026552be7ea", "AMNH", "Collaborative databasing of North American bee collections within a global informatics network project", NA, "urn:uuid:87faf44e-d8e1-11e2-99a2-0026552be7ea", NA, "2cd38ed1-e14c-4d7d-86e9-d59ec87e19a5", NA, NA, NA, "Triepeolus lunatus", "31-Jul-18", "associated with:Aster", NA, NA, "Male", NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, "iDigBio_Apidae", TRUE, TRUE, TRUE, TRUE, TRUE, "Moore", TRUE, NA, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_44059", "Bombus Latreille, 1802", "Apidae", NA, "Bombus", NA, NA, NA, NA, "GENUS", NA, NA, "Animalia, Arthropoda, Insecta, Hymenoptera, Apidae, Apinae", NA, NA, NA, NA, NA, 35.5561, -83.3114, NA, NA, NA, "Tennessee", NA, "NORTH_AMERICA", "Smokemont, Great Smoky Mountains National Park", NA, NA, "US", "USA", "United States", "USA.34_1", "North Carolina", "CC0_1_0", "GEODETIC_DATUM_ASSUMED_WGS84;CONTINENT_DERIVED_FROM_COORDINATES;OCCURRENCE_STATUS_INFERRED_FROM_INDIVIDUAL_COUNT", "1835-08-01T00:00:00", NA, 243L, 243L, NA, 8L, 1835L, "PRESERVED_SPECIMEN", NA, "PRESENT", NA, "H. Allard", NA, NA, NA, 1L, NA, NA, "USNMENT01053032", 1321292009L, NA, "USNM", "NMNH Extant Biology", NA, "http://n2t.net/ark:/65665/3b4dcb978-d77c-4e2e-94ef-e051c2db9206", 1340278L, NA, NA, "urn:uuid:18e3cd08-a962-4f0a-b72c-9a0b3600c5ad", NA, "Bombus sp.", "Aug. '35", NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, TRUE, FALSE, NA, NA, NA, "GBIF_Apidae", TRUE, TRUE, TRUE, TRUE, TRUE, "Sevier", TRUE, NA, TRUE, TRUE, TRUE, FALSE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_100075", "Protandrena compositarum (Robertson, 1893)", "Andrenidae", "Panurginae", "Protandrena", NA, "Protandrena compositarum", "compositarum", NA, NA, "(Robertson, 1893)", NA, NA, NA, NA, NA, "Mitchell", NA, NA, NA, NA, NA, NA, "North Carolina", "United States", NA, "Savannah", "Pender", "Burgaw", NA, NA, NA, NA, NA, NA, NA, "1954-00-00", NA, NA, NA, 10L, 13L, 1954L, "PreservedSpecimen", NA, NA, NA, "T. B. Mitchell", NA, NA, NA, NA, NA, NA, "NCSU_ENT 00302466", NA, NA, "NCSU", NA, NA, "960e4015-413d-4e46-a458-a78b11f57e52", NA, NA, "urn:uuid:960e4015-413d-4e46-a458-a78b11f57e52", NA, NA, "Pseudopanurgus compositarum", "1954-13-10", "Aster", NA, NA, NA, NA, NA, NA, NA, "https://scan-bugs.org:443/portal/collections/individual/index.php?occid=65350841", NA, NA, NA, 65350841L, NA, NA, "SCAN_Andrenidae", TRUE, FALSE, TRUE, TRUE, TRUE, "Pender", TRUE, NA, TRUE, TRUE, TRUE, TRUE, FALSE, NA, NA, NA, NA, NA, NA, NA, FALSE, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_28295", "Lasioglossum perpunctatum (Ellis, 1913)", "Halictidae", "Halictinae", "Lasioglossum", NA, "Lasioglossum perpunctatum", "perpunctatum", NA, "SPECIES", "(Ellis, 1913)", NA, NA, NA, NA, NA, NA, NA, 35.792278, -82.310111, NA, NA, NA, "North Carolina", NA, "NORTH_AMERICA", "Valley of Black Mountains", "Yancey", NA, "US", "USA", "United States", "USA.34_1", "North Carolina", "CC_BY_4_0", "GEODETIC_DATUM_ASSUMED_WGS84;CONTINENT_DERIVED_FROM_COORDINATES;OCCURRENCE_STATUS_INFERRED_FROM_INDIVIDUAL_COUNT;COLLECTION_MATCH_NONE;INSTITUTION_MATCH_FUZZY", NA, NA, NA, NA, NA, NA, NA, "PRESERVED_SPECIMEN", NA, "PRESENT", NA, "W. Beutenmuller", NA, "Netting", NA, 1L, NA, NA, "AMNH_BEE 00068888", NA, NA, "AMNH", "AMNH Hymenoptera", NA, "8450fb18-d8e1-11e2-99a2-0026552be7ea", 1353845L, NA, NA, NA, NA, "Lasioglossum perpunctatum (Ellis, 1913)", "6/20/1906", NA, NA, NA, "FEMALE", "American Museum of Natural History", NA, NA, NA, NA, NA, TRUE, FALSE, NA, NA, NA, "GBIF_Halictidae", TRUE, TRUE, TRUE, TRUE, TRUE, "Yancey Co.", TRUE, NA, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_26803", "Xenoglossa kansensis Cockerell, 1905", "Apidae", "Apinae", "Xenoglossa", NA, "Xenoglossa kansensis", "kansensis", NA, "SPECIES", "Cockerell, 1905", NA, NA, NA, NA, NA, NA, NA, 35.173889, -79.3925, NA, NA, NA, "North Carolina", NA, "NORTH_AMERICA", "Southern Pines", "Moore", NA, "US", "USA", "United States", "USA.34_1", "North Carolina", "CC_BY_4_0", "GEODETIC_DATUM_ASSUMED_WGS84;CONTINENT_DERIVED_FROM_COORDINATES;OCCURRENCE_STATUS_INFERRED_FROM_INDIVIDUAL_COUNT;COLLECTION_MATCH_NONE;INSTITUTION_MATCH_FUZZY", NA, NA, NA, NA, NA, NA, NA, "PRESERVED_SPECIMEN", NA, "PRESENT", NA, NA, NA, "Netting", NA, 1L, NA, NA, "AMNH_BEE 00014019", NA, NA, "AMNH", "AMNH Hymenoptera", NA, "82cf63f6-d8e1-11e2-99a2-0026552be7ea", 1339365L, NA, NA, NA, NA, "Xenoglossa kansensis Cockerell, 1905", "6/13/1918", NA, NA, NA, "MALE", "American Museum of Natural History", NA, NA, NA, NA, NA, TRUE, FALSE, NA, NA, NA, "GBIF_Apidae", TRUE, TRUE, TRUE, TRUE, TRUE, "Moore Co.", TRUE, NA, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_18034", "Augochloropsis metallica (Fabricius, 1793)", "Halictidae", "Halictinae", "Augochloropsis", NA, "Augochloropsis metallica", "metallica", NA, "SPECIES", "(Fabricius, 1793)", NA, NA, NA, NA, NA, "Mitchell, T. B.", NA, 35.7721, -78.6386, NA, NA, NA, "North Carolina", NA, "NORTH_AMERICA", "Raleigh", "Wake", NA, "US", "USA", "United States", "USA.34_1", "North Carolina", "CC_BY_NC_4_0", "GEODETIC_DATUM_ASSUMED_WGS84;CONTINENT_DERIVED_FROM_COORDINATES;RECORDED_DATE_INVALID;OCCURRENCE_STATUS_INFERRED_FROM_INDIVIDUAL_COUNT;INSTITUTION_MATCH_FUZZY;INSTITUTION_COLLECTION_MISMATCH", NA, NA, NA, NA, NA, NA, NA, "PRESERVED_SPECIMEN", NA, "PRESENT", NA, "Mitchell, T. B.", NA, NA, NA, 1L, NA, NA, "NCSU_ENT 00231139", NA, NA, "NCSU", NA, NA, "87bdfd32-d434-4d7a-9c56-65d3ad72092d", 1353091L, NA, NA, "d4501850-33c3-41fd-82de-b6b1d86a3f8b", NA, "Augochloropsis metallica (Fabricius, 1793)", "mid April 1921", NA, NA, NA, NA, NA, NA, NA, NA, "https://scan-bugs.org:443/portal/collections/individual/index.php?occid=60681396", NA, TRUE, FALSE, NA, NA, NA, "GBIF_Halictidae", TRUE, TRUE, TRUE, TRUE, TRUE, "Wake", TRUE, NA, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_16325", "Melissodes niveus Robertson, 1895", "Apidae", "Apinae", "Melissodes", NA, "Melissodes niveus", "niveus", NA, "SPECIES", "Robertson, 1895", NA, NA, NA, NA, NA, "LaBerge, Wallace E.", NA, 35.7721, -78.6386, NA, NA, NA, "North Carolina", NA, "NORTH_AMERICA", "Raleigh", "Wake", NA, "US", "USA", "United States", "USA.34_1", "North Carolina", "CC_BY_NC_4_0", "GEODETIC_DATUM_ASSUMED_WGS84;CONTINENT_DERIVED_FROM_COORDINATES;RECORDED_DATE_INVALID;TAXON_MATCH_FUZZY;OCCURRENCE_STATUS_INFERRED_FROM_INDIVIDUAL_COUNT;INSTITUTION_MATCH_FUZZY;INSTITUTION_COLLECTION_MISMATCH", NA, NA, NA, NA, NA, NA, NA, "PRESERVED_SPECIMEN", NA, "PRESENT", NA, "Mitchell, T. B.", NA, NA, NA, 1L, NA, NA, "NCSU_ENT 00248253", NA, NA, "NCSU", NA, NA, "cd4ff679-e751-4b96-91c0-f31ea85b7332", 5040625L, NA, NA, "d4501850-33c3-41fd-82de-b6b1d86a3f8b", NA, "Melissodes niveus Robertson, 1895", "mid September 1921", NA, NA, NA, NA, NA, NA, NA, NA, "https://scan-bugs.org:443/portal/collections/individual/index.php?occid=60686464", NA, TRUE, FALSE, NA, NA, NA, "GBIF_Apidae", TRUE, TRUE, TRUE, TRUE, TRUE, "Wake", TRUE, NA, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_36870", "Hylaeus Fabricius, 1793", "Colletidae", NA, "Hylaeus", NA, NA, NA, NA, "GENUS", NA, NA, NA, NA, NA, NA, "Fullerton, S. M. (Stuart M.)", "2010-01-01T00:00:00", 35.5856, -83.0731, NA, NA, NA, "North Carolina", NA, "NORTH_AMERICA", "\"GSMNP The Purchase, nr. house, 35°35'8\"\"N 83°4'23\"\"W, 1945ft, cut lawn/forest edge, Haywood Co., NC\"", "Haywood", NA, "US", "USA", "United States", "USA.34_1", "North Carolina", "CC_BY_4_0", "GEODETIC_DATUM_ASSUMED_WGS84;CONTINENT_DERIVED_FROM_COORDINATES;OCCURRENCE_STATUS_INFERRED_FROM_INDIVIDUAL_COUNT;INSTITUTION_MATCH_NONE", "2003-06-27T00:00:00", NA, NA, NA, 27L, 6L, 2003L, "PRESERVED_SPECIMEN", NA, "PRESENT", NA, "Steck, G., Sutton & Super", NA, "Malaise trap", NA, 1L, NA, NA, "UCFC 0 237 724", 1800748733L, NA, "University of Central Florida Collection of Arthopods (UCFC)", NA, NA, "urn:lsid:biosci.ohio-state.edu:osuc_occurrences:UCFC__0__237__724", 1349360L, NA, NA, NA, NA, "Hylaeus", "27-Jun-03", NA, NA, "lot_id: 6710; preparation: pointed", NA, NA, NA, NA, NA, NA, NA, TRUE, FALSE, NA, NA, NA, "GBIF_Colletidae", TRUE, TRUE, TRUE, TRUE, TRUE, "Haywood", TRUE, NA, TRUE, TRUE, TRUE, FALSE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_27278", "Bombus pensylvanicus (De Geer, 1773)", "Apidae", "Apinae", "Bombus", NA, "Bombus pensylvanicus", "pensylvanicus", NA, "SPECIES", "(De Geer, 1773)", NA, NA, NA, NA, NA, NA, NA, 36.067333, -75.690917, NA, NA, NA, "North Carolina", NA, "NORTH_AMERICA", "Kitty Hawk, 703 Kitty Hawk Rd.", "Dare", NA, "US", "USA", "United States", "USA.34_1", "North Carolina", "CC_BY_4_0", "GEODETIC_DATUM_ASSUMED_WGS84;CONTINENT_DERIVED_FROM_COORDINATES;OCCURRENCE_STATUS_INFERRED_FROM_INDIVIDUAL_COUNT;COLLECTION_MATCH_NONE;INSTITUTION_MATCH_FUZZY", NA, NA, NA, NA, NA, NA, NA, "PRESERVED_SPECIMEN", NA, "PRESENT", NA, "D. Boyce", NA, "Netting", NA, 1L, NA, NA, "AMNH_BEE 00203662", NA, NA, "AMNH", "AMNH Hymenoptera", NA, "8632d73a-d8e1-11e2-99a2-0026552be7ea", 1340416L, NA, NA, NA, NA, "Bombus pensylvanicus (De Geer, 1773)", "7/30/2011", NA, NA, NA, "FEMALE", "American Museum of Natural History", NA, NA, NA, NA, NA, TRUE, FALSE, NA, NA, NA, "GBIF_Apidae", TRUE, TRUE, TRUE, TRUE, TRUE, "Dare Co.", TRUE, NA, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_58897", "Xylocopa virginica (Linnaeus, 1771)", "Apidae", "Xylocopinae", "Xylocopa", NA, "Xylocopa virginica", "virginica", NA, NA, "(Linnaeus, 1771)", NA, NA, NA, NA, NA, "15734", "2014", NA, NA, NA, NA, NA, "North Carolina", "United States of America", NA, "Havelock", "Craven", NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, 4L, 9L, "PreservedSpecimen", NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, "X0408943", NA, NA, "TAMU", NA, NA, "e81ba7ce-2187-465f-86fa-797cf6af17fd", NA, NA, "urn:uuid:cbb99381-6856-4a89-b44e-8a6877e6ca86", NA, NA, "Xylocopa virginica", "10/27/2015 11:56", NA, NA, NA, NA, NA, NA, NA, NA, "https://scan-bugs.org:443/portal/collections/individual/index.php?occid=48867181", NA, NA, NA, 48867181L, NA, NA, "SCAN_Apidae", TRUE, FALSE, TRUE, TRUE, TRUE, "Craven", TRUE, NA, TRUE, TRUE, TRUE, TRUE, FALSE, NA, NA, NA, NA, NA, NA, NA, FALSE, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_3249", "Colletes Latreille, 1802", "Colletidae", NA, "Colletes", NA, NA, NA, NA, "GENUS", NA, NA, NA, NA, NA, NA, "Wiley, J. R. (James R.)", "2002-01-01T00:00:00", 34.69572, -76.68854, NA, NA, NA, "North Carolina", NA, "NORTH_AMERICA", "Fort Macon State Park, Carteret Co., NC, Carteret, North Carolina, United States", "Carteret", NA, "US", "USA", "United States", "USA.34_1", "North Carolina", "CC_BY_4_0", "GEODETIC_DATUM_ASSUMED_WGS84;CONTINENT_DERIVED_FROM_COORDINATES;TAXON_MATCH_SCIENTIFIC_NAME_ID_IGNORED;OCCURRENCE_STATUS_INFERRED_FROM_INDIVIDUAL_COUNT;INSTITUTION_MATCH_FUZZY;COLLECTION_MATCH_FUZZY", NA, NA, NA, NA, NA, NA, NA, "PRESERVED_SPECIMEN", NA, "PRESENT", NA, "Newman, R.", NA, "sweeping", NA, 1L, NA, NA, "FSCA 00106813", NA, NA, "FSCA", NA, NA, "http://mbd-db.osu.edu/hol/collecting_units/305d11e2-be34-4bd1-abce-0eb2cab04092", 1348504L, NA, NA, NA, NA, "Colletes", NA, NA, NA, "[N CAROLINA: Carteret Co. Fort Macon State Park Sweep Netting 20-X-2005 Coll: Randy Newman]", NA, NA, NA, NA, NA, "http://mbd-db.osu.edu/hol/collecting_units/305d11e2-be34-4bd1-abce-0eb2cab04092", NA, TRUE, FALSE, NA, NA, NA, "GBIF_Colletidae", TRUE, TRUE, TRUE, TRUE, TRUE, "Carteret", TRUE, NA, TRUE, TRUE, TRUE, FALSE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, NA
) %>%
dplyr::select(database_id, eventDate, fieldNotes, locationRemarks, verbatimEventDate, locality,
day, month, year)
testOut2 <- BeeBDC::dateFindR(data = troubleRows,
# Years above this are removed (from the recovered dates only)
maxYear = lubridate::year(Sys.Date()),
# Years below this are removed (from the recovered dates only)
minYear = 1700) %>%
dplyr::arrange(desc(database_id))
# Test the expected results
testthat::test_that("dateFindR results successfuly matched", {
testthat::expect_equal(sum(complete.cases(testOut2$eventDate) ), 18)
})
testthat::test_that("dateFindR results unsuccessfuly matched", {
testthat::expect_equal(sum(is.na(testOut2$eventDate) ), 1)
})
testthat::test_that("dateFindR output dates match", {
testthat::expect_equal(testOut2$eventDate %>% as.character(),
c("2010-04-14", "2015-10-27", "1956-06-01", "1970-08-13", "2018-07-31",
"1971-08-24", "1970-08-17", "1970-08-13", "1835-08-01",
"2003-06-27", "2023-10-01", "2004-07-14", "2005-10-20", "1906-06-20",
"2011-07-30", "1918-06-13", "1921-04-01", "1921-09-01",
NA))
})
# Test classes
testthat::test_that("dateFindR expected class", {
testthat::expect_type(testOut2, "list")
})
testthat::test_that("dateFindR expected class", {
testthat::expect_equal(attributes(testOut2)$class, c("tbl_df","tbl" ,"data.frame"))
})
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BeeBDC documentation built on Nov. 4, 2024, 9:06 a.m.
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requireNamespace("dplyr")
testData <- dplyr::tribble( # even step coordinates (different for lat/long)
~database_id, ~datasetName, ~fieldNotes, ~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, ~references,
"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", "", NA, NA, NA, "", "United States", "California", "Davis", "coordinates obtained from Label; 6/28/05", 38.541, -121.75667, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:46a46727-6535-4e70-88e7-a42c98f806ed", "https://scan-bugs.org:443/portal/collections/individual/index.php?occid=13775122",
"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", "", NA, NA, NA, "", "United States", "California", "Davis", "coordinates obtained from Label: 3 march 2022", 38.542, -121.75668, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:d6ff3ddb-4695-4aaf-ab89-c251ab2fc7e6", "https://scan-bugs.org:443/portal/collections/individual/index.php?occid=13775123",
"fake SCAN3", "fakeDataset", "28 Jun 2005", 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", "", NA, NA, NA, "", "United States", "California", "Davis", "coordinates obtained from Label", 38.543, -121.75669, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, "urn:uuid:4504a6e6-ab1c-4de7-ac43-a3588a63ae90", "https://scan-bugs.org:443/portal/collections/individual/index.php?occid=13775124",
"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", "", 2022, 2, 1, "", "United States", "California", "Davis", "coordinates obtained from Label", 38.544, -121.75670, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, NA,
"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", "", NA, NA, NA, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.545, -121.75671, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, NA,
"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", "", 2005L, 6L, 28L, "28 Jun 2005/29 Jun 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.546, -121.75672, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, NA,
"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", "", NA, NA, NA, "28 IX 2005", "United States", "California", "Davis", "coordinates obtained from Label", 38.546, -121.75672, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, NA,
"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", "", NA, NA, NA, "I 2022", "United States", "California", "Davis", "coordinates obtained from Label", 38.546, -121.75672, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, NA,
"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", "", NA, NA, NA, "2022", "United States", "California", "Davis", "coordinates obtained from Label", 38.546, -121.75672, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, NA,
"fake SCAN11", "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", "2005-05-05", NA, NA, NA, "2022", "United States", "California", "Davis", "coordinates obtained from Label", 38.546, -121.75672, 15L, "http://creativecommons.org/publicdomain/zero/1.0/", "The California Academy of Sciences - AntWeb.org", NA, NA, NA
)
testOut <- BeeBDC::dateFindR(data = testData,
# Years above this are removed (from the recovered dates only)
maxYear = lubridate::year(Sys.Date()),
# Years below this are removed (from the recovered dates only)
minYear = 1700) %>%
dplyr::select(database_id, eventDate, fieldNotes, locationRemarks, verbatimEventDate,
day, month, year) %>%
dplyr::arrange(desc(database_id))
# Test the expected results
testthat::test_that("dateFindR results successfuly matched", {
testthat::expect_equal(sum(complete.cases(testOut$eventDate) ), 9)
})
testthat::test_that("dateFindR results unsuccessfuly matched", {
testthat::expect_equal(sum(is.na(testOut$eventDate) ), 1)
})
testthat::test_that("dateFindR output dates match", {
testthat::expect_equal(testOut$eventDate %>% as.character(),
c( "2022-01-01", "2005-09-28","2005-06-28", "2005-06-28",
"2022-02-01", "2005-06-28", "2022-03-03", "2005-05-05",
NA, "2005-06-28"))
})
# Test classes
testthat::test_that("dateFindR expected class", {
testthat::expect_type(testOut, "list")
})
testthat::test_that("dateFindR expected class", {
testthat::expect_equal(attributes(testOut)$class, c("tbl_df","tbl" ,"data.frame"))
})
troubleRows <- dplyr::tribble(
~database_id, ~scientificName, ~family, ~subfamily, ~genus, ~subgenus, ~species, ~specificEpithet, ~infraspecificEpithet, ~taxonRank, ~scientificNameAuthorship, ~identificationQualifier, ~higherClassification, ~typeStatus, ~previousIdentifications, ~verbatimIdentification, ~identifiedBy, ~dateIdentified, ~decimalLatitude, ~decimalLongitude, ~verbatimLatitude, ~verbatimLongitude, ~verbatimElevation, ~stateProvince, ~country, ~continent, ~locality, ~county, ~municipality, ~countryCode, ~level0Gid, ~level0Name, ~level1Gid, ~level1Name, ~license, ~issue, ~eventDate, ~eventTime, ~startDayOfYear, ~endDayOfYear, ~day, ~month, ~year, ~basisOfRecord, ~type, ~occurrenceStatus, ~recordNumber, ~recordedBy, ~eventID, ~samplingProtocol, ~samplingEffort, ~individualCount, ~coordinatePrecision, ~coordinateUncertaintyInMeters, ~catalogNumber, ~gbifID, ~datasetID, ~institutionCode, ~datasetName, ~otherCatalogNumbers, ~occurrenceID, ~taxonKey, ~coreid, ~recordId, ~collectionID, ~associatedSequences, ~verbatimScientificName, ~verbatimEventDate, ~associatedTaxa, ~associatedOrganisms, ~fieldNotes, ~sex, ~rightsHolder, ~accessRights, ~associatedReferences, ~bibliographicCitation, ~references, ~informationWithheld, ~hasCoordinate, ~hasGeospatialIssues, ~id, ~associatedOccurrences, ~locationRemarks, ~dataSource, ~.scientificName_empty, ~.coordinates_empty, ~.coordinates_outOfRange, ~.basisOfRecords_notStandard, ~.basisOfRecord_notSpecimen, ~verbatimCounty, ~.occurrenceAbsent, ~rights, ~.unLicensed, ~.GBIFflags, ~.uncer_terms, ~.invalidName, ~.rou, ~.val, ~.equ, ~.zer, ~.cap, ~.cen, ~.gbf, ~.inst, ~.summary, ~.sequential, ~.lonFlag, ~.latFlag, ~.gridSummary, ~.uncertaintyThreshold,
"NC_checklist_32750", "Dialictus Robertson, 1902", "Halictidae", NA, "Dialictus", NA, NA, NA, NA, "GENUS", NA, NA, NA, NA, NA, NA, "Russell, P. J. (Phillip J.)", "2010-01-01T00:00:00", 35.1675, -83.3044, NA, NA, NA, "North Carolina", NA, "NORTH_AMERICA", "\"GSMNP Oconaluftee residential area, 35°10'3\"\"N 83°18'16\"\"W, 2039ft, Old Field, Swain Co., NC\"", "Swain", NA, "US", "USA", "United States", "USA.34_1", "North Carolina", "CC_BY_4_0", "GEODETIC_DATUM_ASSUMED_WGS84;CONTINENT_DERIVED_FROM_COORDINATES;OCCURRENCE_STATUS_INFERRED_FROM_INDIVIDUAL_COUNT;INSTITUTION_MATCH_NONE", "2004-07-14T00:00:00", NA, NA, NA, 14L, 7L, 2004L, "PRESERVED_SPECIMEN", NA, "PRESENT", NA, "Steck, G., Sutton & Super", NA, "Malaise trap", NA, 1L, NA, NA, "UCFC 0 260 365", 1800769439L, NA, "University of Central Florida Collection of Arthopods (UCFC)", NA, NA, "urn:lsid:biosci.ohio-state.edu:osuc_occurrences:UCFC__0__260__365", 1352488L, NA, NA, NA, NA, "Lasioglossum (Dialictus)", "14-Jul-04", NA, NA, "lot_id: 6994; preparation: pointed", NA, NA, NA, NA, NA, NA, NA, TRUE, FALSE, NA, NA, NA, "GBIF_Halictidae", TRUE, TRUE, TRUE, TRUE, TRUE, "Swain", TRUE, NA, TRUE, TRUE, TRUE, FALSE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_3666", "Andrena accepta Viereck, 1916", "Andrenidae", "Andreninae", "Andrena", NA, "Andrena accepta", "accepta", NA, "GENUS", "Viereck, 1916", NA, NA, NA, NA, NA, "Mitchell, T. B. (Theodore B.)", "1962-01-01T00:00:00", 34.476556, -77.969157, NA, NA, NA, "North Carolina", NA, "NORTH_AMERICA", "Savanna, Burgaw, Pender Co., NC, Pender, North Carolina, United States", "Pender", NA, "US", "USA", "United States", "USA.34_1", "North Carolina", "CC_BY_4_0", "COORDINATE_ROUNDED;GEODETIC_DATUM_ASSUMED_WGS84;CONTINENT_DERIVED_FROM_COORDINATES;TAXON_MATCH_SCIENTIFIC_NAME_ID_IGNORED;OCCURRENCE_STATUS_INFERRED_FROM_INDIVIDUAL_COUNT;INSTITUTION_MATCH_FUZZY;COLLECTION_MATCH_FUZZY", NA, NA, NA, NA, NA, NA, NA, "PRESERVED_SPECIMEN", NA, "PRESENT", NA, "Mitchell, T. B. (Theodore B.)", NA, "none specified", NA, 1L, NA, NA, "FSCA 00096225", NA, NA, "FSCA", NA, NA, "http://mbd-db.osu.edu/hol/collecting_units/403a7c17-66f1-4bfe-9047-d23cb4669bf3", 1345710L, NA, NA, NA, NA, "Andrena accepta", NA, NA, NA, "[Savanna at Burgaw, N. C.] [T. B. Mitchell Oct. 23, 1957] [Hellanthus] [Andrena accepta Vier. ♀ det. Mitch. '62] [Andrena (Pterandrena) accepta]", "FEMALE", NA, NA, NA, NA, "http://mbd-db.osu.edu/hol/collecting_units/403a7c17-66f1-4bfe-9047-d23cb4669bf3", NA, TRUE, FALSE, NA, NA, NA, "GBIF_Andrenidae", TRUE, TRUE, TRUE, TRUE, TRUE, "Pender", TRUE, NA, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_45856", "Halictidae", "Halictidae", NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, "Dasch, C.", "2001", 35.7547, -82.2556, NA, NA, NA, "North Carolina", "United States", NA, "Mount Mitchell, 5500ft, Yancey Co., NC", "Yancey", NA, NA, NA, NA, NA, NA, NA, NA, "8/17/1970", NA, NA, NA, NA, NA, NA, "PreservedSpecimen", NA, NA, NA, "Dasch, C.", NA, "trap", NA, 1L, NA, NA, "OSUC 102262", NA, NA, "C.A. Triplehorn Insect Collection, Ohio State University, Columbus, OH (OSUC)", NA, NA, "urn:lsid:biosci.ohio-state.edu:osuc_occurrences:OSUC__102262", NA, "57ba61b4-c249-411b-b46f-cb15d7f75913", NA, NA, NA, NA, NA, NA, NA, "C. Dasch Collection [Mt. Mitchell, N.C. 5500 ft.; added 12-JUL-2002] [Aug 17 1970; added 12-JUL-2002]", "undetermined", NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, "iDigBio_Halictidae", TRUE, TRUE, TRUE, TRUE, TRUE, "Yancey", TRUE, NA, TRUE, TRUE, TRUE, FALSE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_45975", "Halictidae", "Halictidae", NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, "2002", 35.2247, -75.5303, NA, NA, NA, "North Carolina", "United States", NA, "Cape Hatteras, Coccino, Dare Co., NC", "Dare", NA, NA, NA, NA, NA, NA, NA, NA, "8/24/1971", NA, NA, NA, NA, NA, NA, "PreservedSpecimen", NA, NA, NA, "Dasch, C.", NA, "none specified", NA, 1L, NA, NA, "OSUC 102376", NA, NA, "C.A. Triplehorn Insect Collection, Ohio State University, Columbus, OH (OSUC)", NA, NA, "urn:lsid:biosci.ohio-state.edu:osuc_occurrences:OSUC__102376", NA, "364cca84-19f9-4883-b777-f28587802925", NA, NA, NA, NA, NA, NA, NA, "C. Dasch Collection [Coccino Cape Hatteras NC.; added 12-JUL-2002] [Aug. 24, 1971; added 12-JUL-2002]", "undetermined", NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, "iDigBio_Halictidae", TRUE, TRUE, TRUE, TRUE, TRUE, "Dare", TRUE, NA, TRUE, TRUE, TRUE, FALSE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_45007", "Bombus terricola Kirby, 1837", "Apidae", "Apinae", "Bombus", NA, "Bombus terricola", "terricola", NA, NA, "Kirby, 1837", NA, NA, NA, NA, NA, NA, "2001", 35.7547, -82.2556, NA, NA, NA, "North Carolina", "United States", NA, "Mount Mitchell, 5500ft, Yancey Co., NC", "Yancey", NA, NA, NA, NA, NA, NA, NA, NA, "8/13/1970", NA, NA, NA, NA, NA, NA, "PreservedSpecimen", NA, NA, NA, "Dasch, C.", NA, "none specified", NA, 1L, NA, NA, "OSUC 100900", NA, NA, "C.A. Triplehorn Insect Collection, Ohio State University, Columbus, OH (OSUC)", NA, NA, "urn:lsid:biosci.ohio-state.edu:osuc_occurrences:OSUC__100900", NA, "0047d1b4-94ef-4b45-a74f-913867ac965b", NA, NA, NA, "Bombus terricola", NA, NA, NA, "[Mt. Mitchell N.C.5500 ft. Aug. 13, 1970 C. Dasch]", "female", NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, "iDigBio_Apidae", TRUE, TRUE, TRUE, TRUE, TRUE, "Yancey", TRUE, NA, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_87482", "Nomada articulata Smith, 1854", "Apidae", "Nomadinae", "Nomada", NA, "Nomada articulata", "articulata", NA, NA, "Smith, 1854", NA, NA, NA, NA, NA, "Snelling", NA, 35.17173, -79.39167, NA, NA, NA, "North Carolina", "United States", NA, "Southern Pines", NA, "Southern Pines", NA, NA, NA, NA, NA, NA, NA, "4/14/2010", NA, 104L, NA, 14L, 4L, 1910L, "PreservedSpecimen", NA, NA, NA, "A. H. Manoo", NA, NA, NA, NA, NA, 2000L, "9949", NA, NA, "UNSM", NA, NA, "7942d7fb-d0fb-436a-aa65-f367143443ce", NA, NA, "urn:uuid:7942d7fb-d0fb-436a-aa65-f367143443ce", NA, NA, "Nomada articulata", "4/14/2010", NA, NA, NA, "M", NA, NA, NA, NA, "https://scan-bugs.org:443/portal/collections/individual/index.php?occid=64923665", NA, NA, NA, 64923665L, NA, NA, "SCAN_Apidae", TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, NA, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, TRUE,
"NC_checklist_49805", "Andrena integra Smith, 1853", "Andrenidae", "Andreninae", "Andrena", NA, "Andrena integra", "integra", NA, NA, "Smith, 1853", NA, NA, NA, NA, NA, NA, "2001", 35.4267, -83.0853, NA, NA, NA, "North Carolina", "United States", NA, "Balsam, Jackson Co., NC", "Jackson", NA, NA, NA, NA, NA, NA, NA, NA, "6/1/1956", NA, NA, NA, NA, NA, NA, "PreservedSpecimen", NA, NA, NA, "Knull, D. J. (Dorothy Johnson) & Knull, J. N. (Josef Nissley)", NA, "none specified", NA, 1L, NA, NA, "OSUC 125900", NA, NA, "C.A. Triplehorn Insect Collection, Ohio State University, Columbus, OH (OSUC)", NA, NA, "urn:lsid:biosci.ohio-state.edu:osuc_occurrences:OSUC__125900", NA, "fd50033e-f274-4e47-9225-e546aa140562", NA, NA, NA, "Andrena integra", NA, NA, NA, "[Balsam, N.C.; added 12-JUL-2002] [VI-1-56; added 12-JUL-2002]", "female", NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, "iDigBio_Andrenidae", TRUE, TRUE, TRUE, TRUE, TRUE, "Jackson", TRUE, NA, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_49033", "Halictidae", "Halictidae", NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, "Dasch, C.", "2001", 35.7547, -82.2556, NA, NA, NA, "North Carolina", "United States", NA, "Mount Mitchell, 5500ft, Yancey Co., NC", "Yancey", NA, NA, NA, NA, NA, NA, NA, NA, "8/13/1970", NA, NA, NA, NA, NA, NA, "PreservedSpecimen", NA, NA, NA, "Dasch, B. (Betty) & Dasch, C.", NA, "none specified", NA, 1L, NA, NA, "OSUC 102252", NA, NA, "C.A. Triplehorn Insect Collection, Ohio State University, Columbus, OH (OSUC)", NA, NA, "urn:lsid:biosci.ohio-state.edu:osuc_occurrences:OSUC__102252", NA, "ab5ccc45-f82b-450b-8634-b3be0b426804", NA, NA, NA, NA, NA, NA, NA, "C. Dasch Collection [Mt. Mitchell, N.C. 5500 ft.; added 12-JUL-2002] [Aug 13 1970; added 12-JUL-2002]", "undetermined", NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, "iDigBio_Halictidae", TRUE, TRUE, TRUE, TRUE, TRUE, "Yancey", TRUE, NA, TRUE, TRUE, TRUE, FALSE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_46230", "Triepeolus lunatus (Say, 1824)", "Apidae", "Nomadinae", "Triepeolus", NA, "Triepeolus lunatus", "lunatus", NA, NA, "(Say, 1824)", NA, "Animalia;Arthropoda;Apidae;Nomadinae;Epeolini", "None", NA, NA, "M. G. Rightmyer", "2006", 35.17389, -79.3925, NA, NA, "159 m", "North Carolina", "UNITED STATES", NA, "Southern Pines", "Moore", NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, "PreservedSpecimen", NA, NA, NA, "unknown", NA, "Netting", NA, 1L, NA, NA, "AMNH_BEE 00233319", NA, "urn:uuid:13674fa4-8611-11e4-8259-0026552be7ea", "AMNH", "Collaborative databasing of North American bee collections within a global informatics network project", NA, "urn:uuid:87faf44e-d8e1-11e2-99a2-0026552be7ea", NA, "2cd38ed1-e14c-4d7d-86e9-d59ec87e19a5", NA, NA, NA, "Triepeolus lunatus", "31-Jul-18", "associated with:Aster", NA, NA, "Male", NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, "iDigBio_Apidae", TRUE, TRUE, TRUE, TRUE, TRUE, "Moore", TRUE, NA, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_44059", "Bombus Latreille, 1802", "Apidae", NA, "Bombus", NA, NA, NA, NA, "GENUS", NA, NA, "Animalia, Arthropoda, Insecta, Hymenoptera, Apidae, Apinae", NA, NA, NA, NA, NA, 35.5561, -83.3114, NA, NA, NA, "Tennessee", NA, "NORTH_AMERICA", "Smokemont, Great Smoky Mountains National Park", NA, NA, "US", "USA", "United States", "USA.34_1", "North Carolina", "CC0_1_0", "GEODETIC_DATUM_ASSUMED_WGS84;CONTINENT_DERIVED_FROM_COORDINATES;OCCURRENCE_STATUS_INFERRED_FROM_INDIVIDUAL_COUNT", "1835-08-01T00:00:00", NA, 243L, 243L, NA, 8L, 1835L, "PRESERVED_SPECIMEN", NA, "PRESENT", NA, "H. Allard", NA, NA, NA, 1L, NA, NA, "USNMENT01053032", 1321292009L, NA, "USNM", "NMNH Extant Biology", NA, "http://n2t.net/ark:/65665/3b4dcb978-d77c-4e2e-94ef-e051c2db9206", 1340278L, NA, NA, "urn:uuid:18e3cd08-a962-4f0a-b72c-9a0b3600c5ad", NA, "Bombus sp.", "Aug. '35", NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, TRUE, FALSE, NA, NA, NA, "GBIF_Apidae", TRUE, TRUE, TRUE, TRUE, TRUE, "Sevier", TRUE, NA, TRUE, TRUE, TRUE, FALSE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_100075", "Protandrena compositarum (Robertson, 1893)", "Andrenidae", "Panurginae", "Protandrena", NA, "Protandrena compositarum", "compositarum", NA, NA, "(Robertson, 1893)", NA, NA, NA, NA, NA, "Mitchell", NA, NA, NA, NA, NA, NA, "North Carolina", "United States", NA, "Savannah", "Pender", "Burgaw", NA, NA, NA, NA, NA, NA, NA, "1954-00-00", NA, NA, NA, 10L, 13L, 1954L, "PreservedSpecimen", NA, NA, NA, "T. B. Mitchell", NA, NA, NA, NA, NA, NA, "NCSU_ENT 00302466", NA, NA, "NCSU", NA, NA, "960e4015-413d-4e46-a458-a78b11f57e52", NA, NA, "urn:uuid:960e4015-413d-4e46-a458-a78b11f57e52", NA, NA, "Pseudopanurgus compositarum", "1954-13-10", "Aster", NA, NA, NA, NA, NA, NA, NA, "https://scan-bugs.org:443/portal/collections/individual/index.php?occid=65350841", NA, NA, NA, 65350841L, NA, NA, "SCAN_Andrenidae", TRUE, FALSE, TRUE, TRUE, TRUE, "Pender", TRUE, NA, TRUE, TRUE, TRUE, TRUE, FALSE, NA, NA, NA, NA, NA, NA, NA, FALSE, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_28295", "Lasioglossum perpunctatum (Ellis, 1913)", "Halictidae", "Halictinae", "Lasioglossum", NA, "Lasioglossum perpunctatum", "perpunctatum", NA, "SPECIES", "(Ellis, 1913)", NA, NA, NA, NA, NA, NA, NA, 35.792278, -82.310111, NA, NA, NA, "North Carolina", NA, "NORTH_AMERICA", "Valley of Black Mountains", "Yancey", NA, "US", "USA", "United States", "USA.34_1", "North Carolina", "CC_BY_4_0", "GEODETIC_DATUM_ASSUMED_WGS84;CONTINENT_DERIVED_FROM_COORDINATES;OCCURRENCE_STATUS_INFERRED_FROM_INDIVIDUAL_COUNT;COLLECTION_MATCH_NONE;INSTITUTION_MATCH_FUZZY", NA, NA, NA, NA, NA, NA, NA, "PRESERVED_SPECIMEN", NA, "PRESENT", NA, "W. Beutenmuller", NA, "Netting", NA, 1L, NA, NA, "AMNH_BEE 00068888", NA, NA, "AMNH", "AMNH Hymenoptera", NA, "8450fb18-d8e1-11e2-99a2-0026552be7ea", 1353845L, NA, NA, NA, NA, "Lasioglossum perpunctatum (Ellis, 1913)", "6/20/1906", NA, NA, NA, "FEMALE", "American Museum of Natural History", NA, NA, NA, NA, NA, TRUE, FALSE, NA, NA, NA, "GBIF_Halictidae", TRUE, TRUE, TRUE, TRUE, TRUE, "Yancey Co.", TRUE, NA, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_26803", "Xenoglossa kansensis Cockerell, 1905", "Apidae", "Apinae", "Xenoglossa", NA, "Xenoglossa kansensis", "kansensis", NA, "SPECIES", "Cockerell, 1905", NA, NA, NA, NA, NA, NA, NA, 35.173889, -79.3925, NA, NA, NA, "North Carolina", NA, "NORTH_AMERICA", "Southern Pines", "Moore", NA, "US", "USA", "United States", "USA.34_1", "North Carolina", "CC_BY_4_0", "GEODETIC_DATUM_ASSUMED_WGS84;CONTINENT_DERIVED_FROM_COORDINATES;OCCURRENCE_STATUS_INFERRED_FROM_INDIVIDUAL_COUNT;COLLECTION_MATCH_NONE;INSTITUTION_MATCH_FUZZY", NA, NA, NA, NA, NA, NA, NA, "PRESERVED_SPECIMEN", NA, "PRESENT", NA, NA, NA, "Netting", NA, 1L, NA, NA, "AMNH_BEE 00014019", NA, NA, "AMNH", "AMNH Hymenoptera", NA, "82cf63f6-d8e1-11e2-99a2-0026552be7ea", 1339365L, NA, NA, NA, NA, "Xenoglossa kansensis Cockerell, 1905", "6/13/1918", NA, NA, NA, "MALE", "American Museum of Natural History", NA, NA, NA, NA, NA, TRUE, FALSE, NA, NA, NA, "GBIF_Apidae", TRUE, TRUE, TRUE, TRUE, TRUE, "Moore Co.", TRUE, NA, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_18034", "Augochloropsis metallica (Fabricius, 1793)", "Halictidae", "Halictinae", "Augochloropsis", NA, "Augochloropsis metallica", "metallica", NA, "SPECIES", "(Fabricius, 1793)", NA, NA, NA, NA, NA, "Mitchell, T. B.", NA, 35.7721, -78.6386, NA, NA, NA, "North Carolina", NA, "NORTH_AMERICA", "Raleigh", "Wake", NA, "US", "USA", "United States", "USA.34_1", "North Carolina", "CC_BY_NC_4_0", "GEODETIC_DATUM_ASSUMED_WGS84;CONTINENT_DERIVED_FROM_COORDINATES;RECORDED_DATE_INVALID;OCCURRENCE_STATUS_INFERRED_FROM_INDIVIDUAL_COUNT;INSTITUTION_MATCH_FUZZY;INSTITUTION_COLLECTION_MISMATCH", NA, NA, NA, NA, NA, NA, NA, "PRESERVED_SPECIMEN", NA, "PRESENT", NA, "Mitchell, T. B.", NA, NA, NA, 1L, NA, NA, "NCSU_ENT 00231139", NA, NA, "NCSU", NA, NA, "87bdfd32-d434-4d7a-9c56-65d3ad72092d", 1353091L, NA, NA, "d4501850-33c3-41fd-82de-b6b1d86a3f8b", NA, "Augochloropsis metallica (Fabricius, 1793)", "mid April 1921", NA, NA, NA, NA, NA, NA, NA, NA, "https://scan-bugs.org:443/portal/collections/individual/index.php?occid=60681396", NA, TRUE, FALSE, NA, NA, NA, "GBIF_Halictidae", TRUE, TRUE, TRUE, TRUE, TRUE, "Wake", TRUE, NA, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_16325", "Melissodes niveus Robertson, 1895", "Apidae", "Apinae", "Melissodes", NA, "Melissodes niveus", "niveus", NA, "SPECIES", "Robertson, 1895", NA, NA, NA, NA, NA, "LaBerge, Wallace E.", NA, 35.7721, -78.6386, NA, NA, NA, "North Carolina", NA, "NORTH_AMERICA", "Raleigh", "Wake", NA, "US", "USA", "United States", "USA.34_1", "North Carolina", "CC_BY_NC_4_0", "GEODETIC_DATUM_ASSUMED_WGS84;CONTINENT_DERIVED_FROM_COORDINATES;RECORDED_DATE_INVALID;TAXON_MATCH_FUZZY;OCCURRENCE_STATUS_INFERRED_FROM_INDIVIDUAL_COUNT;INSTITUTION_MATCH_FUZZY;INSTITUTION_COLLECTION_MISMATCH", NA, NA, NA, NA, NA, NA, NA, "PRESERVED_SPECIMEN", NA, "PRESENT", NA, "Mitchell, T. B.", NA, NA, NA, 1L, NA, NA, "NCSU_ENT 00248253", NA, NA, "NCSU", NA, NA, "cd4ff679-e751-4b96-91c0-f31ea85b7332", 5040625L, NA, NA, "d4501850-33c3-41fd-82de-b6b1d86a3f8b", NA, "Melissodes niveus Robertson, 1895", "mid September 1921", NA, NA, NA, NA, NA, NA, NA, NA, "https://scan-bugs.org:443/portal/collections/individual/index.php?occid=60686464", NA, TRUE, FALSE, NA, NA, NA, "GBIF_Apidae", TRUE, TRUE, TRUE, TRUE, TRUE, "Wake", TRUE, NA, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_36870", "Hylaeus Fabricius, 1793", "Colletidae", NA, "Hylaeus", NA, NA, NA, NA, "GENUS", NA, NA, NA, NA, NA, NA, "Fullerton, S. M. (Stuart M.)", "2010-01-01T00:00:00", 35.5856, -83.0731, NA, NA, NA, "North Carolina", NA, "NORTH_AMERICA", "\"GSMNP The Purchase, nr. house, 35°35'8\"\"N 83°4'23\"\"W, 1945ft, cut lawn/forest edge, Haywood Co., NC\"", "Haywood", NA, "US", "USA", "United States", "USA.34_1", "North Carolina", "CC_BY_4_0", "GEODETIC_DATUM_ASSUMED_WGS84;CONTINENT_DERIVED_FROM_COORDINATES;OCCURRENCE_STATUS_INFERRED_FROM_INDIVIDUAL_COUNT;INSTITUTION_MATCH_NONE", "2003-06-27T00:00:00", NA, NA, NA, 27L, 6L, 2003L, "PRESERVED_SPECIMEN", NA, "PRESENT", NA, "Steck, G., Sutton & Super", NA, "Malaise trap", NA, 1L, NA, NA, "UCFC 0 237 724", 1800748733L, NA, "University of Central Florida Collection of Arthopods (UCFC)", NA, NA, "urn:lsid:biosci.ohio-state.edu:osuc_occurrences:UCFC__0__237__724", 1349360L, NA, NA, NA, NA, "Hylaeus", "27-Jun-03", NA, NA, "lot_id: 6710; preparation: pointed", NA, NA, NA, NA, NA, NA, NA, TRUE, FALSE, NA, NA, NA, "GBIF_Colletidae", TRUE, TRUE, TRUE, TRUE, TRUE, "Haywood", TRUE, NA, TRUE, TRUE, TRUE, FALSE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_27278", "Bombus pensylvanicus (De Geer, 1773)", "Apidae", "Apinae", "Bombus", NA, "Bombus pensylvanicus", "pensylvanicus", NA, "SPECIES", "(De Geer, 1773)", NA, NA, NA, NA, NA, NA, NA, 36.067333, -75.690917, NA, NA, NA, "North Carolina", NA, "NORTH_AMERICA", "Kitty Hawk, 703 Kitty Hawk Rd.", "Dare", NA, "US", "USA", "United States", "USA.34_1", "North Carolina", "CC_BY_4_0", "GEODETIC_DATUM_ASSUMED_WGS84;CONTINENT_DERIVED_FROM_COORDINATES;OCCURRENCE_STATUS_INFERRED_FROM_INDIVIDUAL_COUNT;COLLECTION_MATCH_NONE;INSTITUTION_MATCH_FUZZY", NA, NA, NA, NA, NA, NA, NA, "PRESERVED_SPECIMEN", NA, "PRESENT", NA, "D. Boyce", NA, "Netting", NA, 1L, NA, NA, "AMNH_BEE 00203662", NA, NA, "AMNH", "AMNH Hymenoptera", NA, "8632d73a-d8e1-11e2-99a2-0026552be7ea", 1340416L, NA, NA, NA, NA, "Bombus pensylvanicus (De Geer, 1773)", "7/30/2011", NA, NA, NA, "FEMALE", "American Museum of Natural History", NA, NA, NA, NA, NA, TRUE, FALSE, NA, NA, NA, "GBIF_Apidae", TRUE, TRUE, TRUE, TRUE, TRUE, "Dare Co.", TRUE, NA, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_58897", "Xylocopa virginica (Linnaeus, 1771)", "Apidae", "Xylocopinae", "Xylocopa", NA, "Xylocopa virginica", "virginica", NA, NA, "(Linnaeus, 1771)", NA, NA, NA, NA, NA, "15734", "2014", NA, NA, NA, NA, NA, "North Carolina", "United States of America", NA, "Havelock", "Craven", NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, 4L, 9L, "PreservedSpecimen", NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, "X0408943", NA, NA, "TAMU", NA, NA, "e81ba7ce-2187-465f-86fa-797cf6af17fd", NA, NA, "urn:uuid:cbb99381-6856-4a89-b44e-8a6877e6ca86", NA, NA, "Xylocopa virginica", "10/27/2015 11:56", NA, NA, NA, NA, NA, NA, NA, NA, "https://scan-bugs.org:443/portal/collections/individual/index.php?occid=48867181", NA, NA, NA, 48867181L, NA, NA, "SCAN_Apidae", TRUE, FALSE, TRUE, TRUE, TRUE, "Craven", TRUE, NA, TRUE, TRUE, TRUE, TRUE, FALSE, NA, NA, NA, NA, NA, NA, NA, FALSE, TRUE, TRUE, TRUE, TRUE, NA,
"NC_checklist_3249", "Colletes Latreille, 1802", "Colletidae", NA, "Colletes", NA, NA, NA, NA, "GENUS", NA, NA, NA, NA, NA, NA, "Wiley, J. R. (James R.)", "2002-01-01T00:00:00", 34.69572, -76.68854, NA, NA, NA, "North Carolina", NA, "NORTH_AMERICA", "Fort Macon State Park, Carteret Co., NC, Carteret, North Carolina, United States", "Carteret", NA, "US", "USA", "United States", "USA.34_1", "North Carolina", "CC_BY_4_0", "GEODETIC_DATUM_ASSUMED_WGS84;CONTINENT_DERIVED_FROM_COORDINATES;TAXON_MATCH_SCIENTIFIC_NAME_ID_IGNORED;OCCURRENCE_STATUS_INFERRED_FROM_INDIVIDUAL_COUNT;INSTITUTION_MATCH_FUZZY;COLLECTION_MATCH_FUZZY", NA, NA, NA, NA, NA, NA, NA, "PRESERVED_SPECIMEN", NA, "PRESENT", NA, "Newman, R.", NA, "sweeping", NA, 1L, NA, NA, "FSCA 00106813", NA, NA, "FSCA", NA, NA, "http://mbd-db.osu.edu/hol/collecting_units/305d11e2-be34-4bd1-abce-0eb2cab04092", 1348504L, NA, NA, NA, NA, "Colletes", NA, NA, NA, "[N CAROLINA: Carteret Co. Fort Macon State Park Sweep Netting 20-X-2005 Coll: Randy Newman]", NA, NA, NA, NA, NA, "http://mbd-db.osu.edu/hol/collecting_units/305d11e2-be34-4bd1-abce-0eb2cab04092", NA, TRUE, FALSE, NA, NA, NA, "GBIF_Colletidae", TRUE, TRUE, TRUE, TRUE, TRUE, "Carteret", TRUE, NA, TRUE, TRUE, TRUE, FALSE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, TRUE, NA, TRUE, TRUE, TRUE, TRUE, NA
) %>%
dplyr::select(database_id, eventDate, fieldNotes, locationRemarks, verbatimEventDate, locality,
day, month, year)
testOut2 <- BeeBDC::dateFindR(data = troubleRows,
# Years above this are removed (from the recovered dates only)
maxYear = lubridate::year(Sys.Date()),
# Years below this are removed (from the recovered dates only)
minYear = 1700) %>%
dplyr::arrange(desc(database_id))
# Test the expected results
testthat::test_that("dateFindR results successfuly matched", {
testthat::expect_equal(sum(complete.cases(testOut2$eventDate) ), 18)
})
testthat::test_that("dateFindR results unsuccessfuly matched", {
testthat::expect_equal(sum(is.na(testOut2$eventDate) ), 1)
})
testthat::test_that("dateFindR output dates match", {
testthat::expect_equal(testOut2$eventDate %>% as.character(),
c("2010-04-14", "2015-10-27", "1956-06-01", "1970-08-13", "2018-07-31",
"1971-08-24", "1970-08-17", "1970-08-13", "1835-08-01",
"2003-06-27", "2023-10-01", "2004-07-14", "2005-10-20", "1906-06-20",
"2011-07-30", "1918-06-13", "1921-04-01", "1921-09-01",
NA))
})
# Test classes
testthat::test_that("dateFindR expected class", {
testthat::expect_type(testOut2, "list")
})
testthat::test_that("dateFindR expected class", {
testthat::expect_equal(attributes(testOut2)$class, c("tbl_df","tbl" ,"data.frame"))
})
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