#' Collects the number of taxa of all phylogenies belonging to a
#' multiple parameter file in the melted/uncast/long form
#' @param filenames names of the parameter file
#' @return A dataframe with all number of taxa of all files
#' @examples
#' filenames <- c(
#' find_path("toy_example_1.RDa"),
#' find_path("toy_example_2.RDa")
#' )
#' df <- collect_files_n_taxa(filenames)
#' testit::assert(names(df) == c("filename", "n_taxa"))
#' testit::assert(nrow(df) == length(filenames))
#' @export
collect_files_n_taxa <- function(filenames) {
if (length(filenames) < 1) {
stop("there must be at least one filename supplied")
}
# Species trees
n_taxa <- NULL
for (filename in filenames) {
gc() # Yes, need to do this manually :-(
this_n_taxa <- NULL
tryCatch(
this_n_taxa <- collect_species_tree_n_taxa(
filename = filename
),
error = function(msg) {} # nolint
)
if (is.null(this_n_taxa)) {
this_n_taxa <- data.frame(
n_taxa = NA
)
}
if (!is.null(n_taxa)) {
n_taxa <- rbind(n_taxa, this_n_taxa)
} else {
n_taxa <- this_n_taxa
}
}
df <- data.frame(
filename = basename(filenames),
n_taxa = n_taxa$n_taxa
)
testit::assert(nrow(df) == length(filenames))
testit::assert(names(df) == c("filename", "n_taxa"))
return(df)
}
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