## ----setup, include = FALSE---------------------------------------------------
knitr::opts_chunk$set(
collapse = TRUE,
comment = ""
)
beautier::remove_beautier_folder()
beautier::check_empty_beautier_folder()
## ----load_beautier------------------------------------------------------------
library(beautier)
## ----get_fasta_filename-------------------------------------------------------
fasta_filename <- get_beautier_path("test_output_0.fas")
## ----show_alignment-----------------------------------------------------------
image(ape::read.FASTA(fasta_filename))
## ----create_output_filename---------------------------------------------------
output_filename <- get_beautier_tempfilename()
output_filename
## ----create_beast2_input_file-------------------------------------------------
create_beast2_input_file(
fasta_filename,
output_filename
)
## ----show_beast2_input_file---------------------------------------------------
readLines(output_filename)
## ----cleanup------------------------------------------------------------------
file.remove(output_filename)
beautier::remove_beautier_folder()
beautier::check_empty_beautier_folder()
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