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library(testthat)
library(pfm)
context("Create PELMO runs from psm files and execute them")
PELMO_base <- system.file("FOCUSPELMO.553", package = "PELMO.installeR")
test_archive <- system.file("testdata/FOCUS_PELMO.tar.bz2", package = "pfm")
test_dir <- tempdir()
untar(test_archive, exdir = test_dir, compressed = "bzip2")
runs <- list(
list(
psm = "Pesticide_D",
fbe = c("Por"),
vbe = c("Por")),
list(
psm = "Pesticide_D_1_day_pre_em_every_third_year",
pot = c("Cha", "Ham")),
list(
psm = "Pesticide_D_1_May_every_other_year_mets",
mai = c("Cha")))
test_that("PELMO paths are correctly created", {
psm_paths = c(
PELMO_path(runs[[1]]$psm, "fbe", "Por"),
PELMO_path(runs[[2]]$psm, "pot", "Ham"),
PELMO_path(runs[[3]]$psm, "mai", "Cha"))
# Check for psm files and put them into PELMO_base
psm_new_locations <- character(0)
for (i in seq_along(psm_paths)) {
psm_file <- file.path(test_dir, psm_paths[i], paste0(runs[[i]]$psm, ".psm"))
expect_true(file.exists(psm_file))
psm_new_location <- file.path(PELMO_base, basename(psm_file))
psm_new_locations[i] <- psm_new_location
file.copy(psm_file, psm_new_location)
}
})
test_that("PELMO runs are correctly set up", {
# Prepare runs in analogy to the test archive
PELMO_runs(runs, psm_dir = PELMO_base, execute = FALSE, overwrite = TRUE)
# Check that input files are correctly generated in the right location
for (run in runs) {
psm <- run$psm
# message(psm)
crops <- setdiff(names(run), "psm")
for (crop in crops) {
# message(crop)
for (scenario in run[[crop]]) {
# message(scenario)
pp <- PELMO_path(psm, crop, scenario)
input_new <- readLines(file.path(PELMO_base, "FOCUS", pp, "pelmo.inp"))
input_test <- readLines(file.path(test_dir, pp, "pelmo.inp"))
# Check if the input files are correctly reproduced
expect_identical(input_new, input_test)
}
}
}
})
test_that("PELMO runs can be run and give the expected result files", {
run_PELMO(runs, cores = 5)
plm_files <- c("CHEM.PLM", "ECHO.PLM",
"KONZCHEM.PLM", "KONZC_A1", "KONZC_B1",
"PLNTPEST.plm", "PLOT.PLM", "WASSER.PLM")
# Check that if output is the same as in the test archive
for (run in runs) {
psm <- run$psm
crops <- setdiff(names(run), "psm")
for (crop in crops) {
# message(crop)
for (scenario in run[[crop]]) {
# message(scenario)
pp <- PELMO_path(psm, crop, scenario)
for (plm in plm_files) {
if (file.exists(file.path(test_dir, pp, plm))) {
new <- readLines(file.path(PELMO_base, "FOCUS", pp, plm))
test <- readLines(file.path(test_dir, pp, plm))
# Check if the ouput files are correctly reproduced
expect_identical(new, test)
}
}
}
}
}
})
test_that("PELMO runs are correctly evaluated", {
evaluate_PELMO(runs, psm_dir = PELMO_base)
})
# Clean up
unlink(psm_new_locations)
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