combined_file_system: Combine train and test filesystem into single folder

In MIC: Analysis of Antimicrobial Minimum Inhibitory Concentration Data

Combine train and test filesystem into single folder

Description

This function reorganises files that have been split into train and test directories using train_test_filesystem() back into a single directory. This is a convenience function to reverse the effects of train_test_filesystem().

Usage

combined_file_system(
  path_to_folders,
  file_ext,
  train_folder = "train",
  test_folder = "test",
  overwrite = FALSE
)

Arguments

path_to_folders	path containing test and train folders; files will be moved here
file_ext	file extension to filter
train_folder	train folder subdirectory name
test_folder	test folder subdirectory name
overwrite	force overwrite of files that already exist

Value

Logical vector, indicated success or failure for each file

Examples

set.seed(123)
# create 10 random DNA files
tmp_dir <- tempdir()
# remove any existing .fna files
file.remove(
 list.files(tmp_dir, pattern = "*.fna", full.names = TRUE)
)
for (i in 1:10) {
writeLines(paste0(">", i, "\n", paste0(sample(c("A", "T", "C", "G"),
  100, replace = TRUE), collapse = "")), file.path(tmp_dir, paste0(i, ".fna")))
}

# split files into train and test directories
paths <- train_test_filesystem(tmp_dir,
                               file_ext = "fna",
                               split = 0.8,
                               shuffle = TRUE,
                               overwrite = TRUE)
# combine files back into a single directory
combined_file_system(tmp_dir, "fna")
list.files(tmp_dir)

MIC documentation built on April 12, 2025, 2:26 a.m.