#' Internal function
#'
#' Creates the RLN clock model's XML for the tracelog section
#' @inheritParams default_params_doc
#' @return a character vector of XML strings
#' @examples
#' check_empty_beautier_folder()
#'
#' # <logger id="tracelog" ...>
#' #' # Here
#' # </logger>
#'
#' check_empty_beautier_folder()
#' @author Richèl J.C. Bilderbeek
#' @export
rln_clock_model_to_xml_tracelog <- function( # nolint indeed a long internal function name
inference_model
) {
check_true(
is_rln_clock_model(inference_model$clock_model)
)
id <- inference_model$clock_model$id
check_true(is_id(id))
text <- NULL
if (has_mrca_prior_with_distr(inference_model) ||
has_tip_dating(inference_model)
) {
text <- c(text, paste0("<log idref=\"ucldMean.c:", id, "\"/>")) # nolint this is no absolute path
}
text <- c(text, paste0("<log idref=\"ucldStdev.c:", id, "\"/>")) # nolint this is no absolute path
text <- c(
text,
paste0(
"<log id=\"rate.c:", id, "\" ",
"spec=\"beast.evolution.branchratemodel.RateStatistic\" ",
"branchratemodel=\"@RelaxedClock.c:", id, "\" ",
"tree=\"@Tree.t:", id, "\"/>"
)
)
text
}
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.