azizka
commented
5 years ago Hi,
I couldn't reproduce your error, but when loading your example, there was a problem with non-numeric and missing coordinates. The following works for me using the latest version of CoordinateCleaner, dat being your example data:
dat$Longitude <- as.numeric(dat$Longitude)
dat$Latitude <- as.numeric(dat$Latitude)
dat <- dat[!is.na(dat$Longitude),]
cc_outl(x = dat, species = "Species_TNRS",
lon = "Longitude", lat = "Latitude",
value = "flagged", min_occs = 7)Does that help?
Hi !
I have a problem running cc_outl, it send me an error: Testing geographic outliers Flagged NA records.
When I run it with clean_coordinates, it send me another error but always for geographic outliers: Error in
$<-.data.frame(*tmp*, "otl", value = c(FALSE, TRUE, TRUE, : replacement has 7583 rows, data has 7153I give you my code and the species I used:
Abeliophyllum distichum (data from GBIF, ALA4R and BIEN are used) occreduced Abeliophyllum distichum .xlsx
TEST3=clean_coordinates(TEST2, lon = "Longitude", lat = "Latitude", species = "Species_TNRS", countries = NULL, tests = c("capitals","centroids", "equal", "gbif", "institutions", "outliers", "seas","zeros"), capitals_rad = 10000, centroids_rad = 1000, centroids_detail = "both", inst_rad = 100, outliers_method = "quantile", outliers_mtp = 5, outliers_td = 1000, outliers_size = 7, range_rad = 0, zeros_rad = 0.5, capitals_ref = NULL, centroids_ref = NULL, country_ref = NULL, inst_ref = NULL, range_ref = NULL, seas_ref = NULL, seas_scale = 50, urban_ref = NULL, value = "clean", verbose = TRUE)
or
TEST10=cc_outl(TEST9, lon = "Longitude", lat = "Latitude", species = "Species_TNRS", value = "flagged", min_occs = 7)
It would be greatful if you could help me solving this problem. Thanks a lot for your answer and for the package itself !