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new tibble export

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dr. M.S. (Matthijs) Berends
2022-08-27 20:49:37 +02:00
parent 164886f50b
commit 303d61b473
115 changed files with 836 additions and 996 deletions
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4
R/mo_property.R
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@ -601,7 +601,7 @@ mo_synonyms <- function(x, language = get_AMR_locale(), ...) {
IDs <- mo_name(x = x, language = NULL)
syns <- lapply(IDs, function(newname) {
res <- sort(microorganisms.old[which(microorganisms.old$fullname_new == newname), "fullname"])
res <- sort(microorganisms.old[which(microorganisms.old$fullname_new == newname), "fullname", drop = TRUE])
if (length(res) == 0) {
NULL
} else {
@ -664,7 +664,7 @@ mo_url <- function(x, open = FALSE, language = get_AMR_locale(), ...) {
x.mo <- as.mo(x = x, language = language, ... = ...)
metadata <- get_mo_failures_uncertainties_renamed()
df <- microorganisms[match(x.mo, microorganisms$mo), c("mo", "fullname", "source", "kingdom", "rank")]
df <- microorganisms[match(x.mo, microorganisms$mo), c("mo", "fullname", "source", "kingdom", "rank"), drop = FALSE]
df$url <- ifelse(df$source == "LPSN",
paste0(CATALOGUE_OF_LIFE$url_LPSN, "/species/", gsub(" ", "-", tolower(df$fullname), fixed = TRUE)),
paste0(CATALOGUE_OF_LIFE$url_CoL, "/data/search?type=EXACT&q=", gsub(" ", "%20", df$fullname, fixed = TRUE)))