test_that("packages are actually loaded", { # Needs sge_clustermq.tmpl (in current directory). skip_on_cran() skip_on_os("windows") skip_if_not_installed("clustermq") tar_destroy() on.exit(tar_destroy(), add = TRUE) tar_script({ options( clustermq.scheduler = "sge", clustermq.template = "sge_clustermq.tmpl" ) tar_target( x, tibble(x = "x"), packages = "tibble" ) }) tar_make_clustermq() expect_equal(tar_read(x), tibble::tibble(x = "x")) }) test_that("nontrivial common data with custom environment", { skip_on_cran() skip_if_not_installed("clustermq") tar_destroy() on.exit(tar_destroy()) tar_script({ options( clustermq.scheduler = "sge", clustermq.template = "sge_clustermq.tmpl" ) envir <- new.env(parent = globalenv()) evalq({ f <- function(x) { g(x) + 1L } g <- function(x) { x + 1L } }, envir = envir) tar_option_set(envir = envir) list( tar_target(x, 1), tar_target(y, f(x)) ) }) tar_make_clustermq() expect_equal(tar_read(y), 3L) }) test_that("nontrivial globals with global environment", { skip_on_cran() skip_if_not_installed("clustermq") tar_destroy() on.exit(tar_destroy()) tar_script({ options( clustermq.scheduler = "sge", clustermq.template = "sge_clustermq.tmpl" ) f <- function(x) { g(x) + 1L } g <- function(x) { x + 1L } list( tar_target(x, 1), tar_target(y, f(x)) ) }) tar_make_clustermq() expect_equal(tar_read(y), 3L) }) test_that("branching plan on SGE", { # Needs sge_clustermq.tmpl (in current directory). skip_on_cran() skip_if_not_installed("clustermq") tar_runtime$fun <- "tar_make_clustermq" on.exit(tar_runtime$fun <- NULL) unlink("_targets", recursive = TRUE) on.exit(unlink("_targets", recursive = TRUE), add = TRUE) skip_on_os("windows") skip_if_not_installed("clustermq") old_schd <- getOption("clustermq.scheduler") old_tmpl <- getOption("clustermq.template") options( clustermq.scheduler = "sge", clustermq.template = "sge_clustermq.tmpl" ) on.exit( options( clustermq.scheduler = old_schd, clustermq.template = old_tmpl ), add = TRUE ) pipeline <- pipeline_map() out <- clustermq_init(pipeline, workers = 4L) out$run() skipped <- names(out$scheduler$progress$skipped$envir) expect_equal(skipped, character(0)) out2 <- clustermq_init(pipeline_map(), workers = 2L) out2$run() completed <- names(out2$scheduler$progress$completed$envir) expect_equal(completed, character(0)) value <- function(name) { target_read_value(pipeline_get_target(pipeline, name))$object } expect_equal(value("data0"), 2L) expect_equal(value("data1"), seq_len(3L)) expect_equal(value("data2"), seq_len(3L) + 3L) branches <- target_get_children(pipeline_get_target(pipeline, "map1")) for (index in seq_along(branches)) { expect_equal(value(branches[index]), index + 2L) } branches <- target_get_children(pipeline_get_target(pipeline, "map2")) for (index in seq_along(branches)) { expect_equal(value(branches[index]), 2L * index + 3L) } branches <- target_get_children(pipeline_get_target(pipeline, "map3")) for (index in seq_along(branches)) { expect_equal(value(branches[index]), index + 3L) } branches <- target_get_children(pipeline_get_target(pipeline, "map4")) for (index in seq_along(branches)) { expect_equal(value(branches[index]), 3L * index + 5L) } branches <- target_get_children(pipeline_get_target(pipeline, "map5")) for (index in seq_along(branches)) { expect_equal(value(branches[index]), 2L * index + 5L) } branches <- target_get_children(pipeline_get_target(pipeline, "map6")) for (index in seq_along(branches)) { expect_equal(value(branches[index]), index + 15L) } }) test_that("Same with worker-side storage", { # Needs sge_clustermq.tmpl (in current directory). skip_on_cran() skip_if_not_installed("clustermq") tar_runtime$fun <- "tar_make_clustermq" on.exit(tar_runtime$fun <- NULL) unlink("_targets", recursive = TRUE) on.exit(unlink("_targets", recursive = TRUE), add = TRUE) skip_on_os("windows") skip_if_not_installed("clustermq") old_schd <- getOption("clustermq.scheduler") old_tmpl <- getOption("clustermq.template") options( clustermq.scheduler = "sge", clustermq.template = "sge_clustermq.tmpl" ) on.exit( options( clustermq.scheduler = old_schd, clustermq.template = old_tmpl ), add = TRUE ) pipeline <- pipeline_map(storage = "worker") out <- clustermq_init(pipeline, workers = 4L) out$run() skipped <- names(out$scheduler$progress$skipped$envir) expect_equal(skipped, character(0)) value <- function(name) { target_read_value(pipeline_get_target(pipeline, name))$object } expect_equal(value("data0"), 2L) expect_equal(value("data1"), seq_len(3L)) expect_equal(value("data2"), seq_len(3L) + 3L) branches <- target_get_children(pipeline_get_target(pipeline, "map1")) for (index in seq_along(branches)) { expect_equal(value(branches[index]), index + 2L) } branches <- target_get_children(pipeline_get_target(pipeline, "map2")) for (index in seq_along(branches)) { expect_equal(value(branches[index]), 2L * index + 3L) } branches <- target_get_children(pipeline_get_target(pipeline, "map3")) for (index in seq_along(branches)) { expect_equal(value(branches[index]), index + 3L) } branches <- target_get_children(pipeline_get_target(pipeline, "map4")) for (index in seq_along(branches)) { expect_equal(value(branches[index]), 3L * index + 5L) } branches <- target_get_children(pipeline_get_target(pipeline, "map5")) for (index in seq_along(branches)) { expect_equal(value(branches[index]), 2L * index + 5L) } branches <- target_get_children(pipeline_get_target(pipeline, "map6")) for (index in seq_along(branches)) { expect_equal(value(branches[index]), index + 15L) } }) test_that("clustermq with a dynamic file", { # Needs sge_clustermq.tmpl (in current directory). skip_on_cran() skip_if_not_installed("clustermq") tar_runtime$fun <- "tar_make_clustermq" on.exit(tar_runtime$fun <- NULL) unlink("_targets", recursive = TRUE) on.exit(unlink(c("saved.out", "_targets"), recursive = TRUE), add = TRUE) skip_on_os("windows") skip_if_not_installed("clustermq") old_schd <- getOption("clustermq.scheduler") old_tmpl <- getOption("clustermq.template") options( clustermq.scheduler = "sge", clustermq.template = "sge_clustermq.tmpl" ) on.exit( options( clustermq.scheduler = old_schd, clustermq.template = old_tmpl ), add = TRUE ) old_envir <- tar_option_get("envir") on.exit(tar_option_set(envir = old_envir), add = TRUE) envir <- new.env(parent = globalenv()) tar_option_set(envir = envir) evalq({ save1 <- function() { file <- "saved.out" saveRDS(1L, file) file } }, envir = envir) x <- tar_target_raw("x", quote(save1()), format = "file") pipeline <- pipeline_init(list(x)) cmq <- clustermq_init(pipeline) cmq$run() out <- names(cmq$scheduler$progress$completed$envir) expect_equal(out, "x") saveRDS(2L, pipeline_get_target(pipeline, "x")$file$path) x <- tar_target_raw("x", quote(save1()), format = "file") pipeline <- pipeline_init(list(x)) cmq <- clustermq_init(pipeline) cmq$run() out <- names(cmq$scheduler$progress$completed$envir) expect_equal(out, "x") }) test_that("2 cores", { skip_on_cran() skip_if_not_installed("clustermq") tar_destroy() on.exit(tar_destroy()) tar_script({ options( clustermq.scheduler = "sge", clustermq.template = "sge_clustermq.tmpl" ) resources <- tar_resources( clustermq = tar_resources_clustermq( template = list(cores = 2) ) ) tar_option_set(resources = resources) tar_target(x, { Sys.sleep(5) "y" }) }) tar_make_clustermq() expect_equal(tar_read(x), "y") }) test_that("2 cores (unstructured resources)", { skip_on_cran() skip_if_not_installed("clustermq") tar_destroy() on.exit(tar_destroy()) tar_script({ options( clustermq.scheduler = "sge", clustermq.template = "sge_clustermq.tmpl" ) resources <- tar_resources( clustermq = tar_resources_clustermq(template = list(cores = 2)) ) suppressWarnings(tar_option_set(resources = resources)) suppressWarnings( tar_target(x, { Sys.sleep(5) "y" }) ) }) suppressWarnings(tar_make_clustermq()) expect_equal(tar_read(x), "y") })