CRAN Package Check Results for Package ProFAST

Last updated on 2026-07-24 23:51:03 CEST.

Flavor	Version	Tinstall	Tcheck	Ttotal	Status	Flags
r-devel-linux-x86_64-debian-clang	1.9	168.15	318.86	487.01	OK
r-devel-linux-x86_64-debian-gcc	1.9	132.15	224.03	356.18	OK
r-devel-linux-x86_64-fedora-clang	1.9	240.00	500.89	740.89	OK
r-devel-linux-x86_64-fedora-gcc	1.9	149.00	214.41	363.41	OK
r-devel-windows-x86_64	1.9	194.00	294.00	488.00	OK
r-patched-linux-x86_64	1.9	174.39	282.88	457.27	OK
r-release-linux-x86_64	1.9	161.51	276.79	438.30	OK
r-release-macos-arm64	1.9	36.00	60.00	96.00	OK
r-release-macos-x86_64	1.9	109.00	234.00	343.00	OK
r-release-windows-x86_64	1.9	193.00	280.00	473.00	OK
r-oldrel-macos-arm64	1.9	34.00	61.00	95.00	ERROR
r-oldrel-macos-x86_64	1.9	105.00	245.00	350.00	OK
r-oldrel-windows-x86_64	1.9	237.00	381.00	618.00	OK

Check Details

Version: 1.9
Check: examples
Result: ERROR Running examples in ‘ProFAST-Ex.R’ failed The error most likely occurred in: > ### Name: diagnostic.cor.eigs > ### Title: Determine the dimension of low dimensional embedding > ### Aliases: diagnostic.cor.eigs diagnostic.cor.eigs.default > ### diagnostic.cor.eigs.Seurat > > ### ** Examples > > n <- 100 > p <- 50 > d <- 15 > object <- matrix(rnorm(n*d), n, d) %*% matrix(rnorm(d*p), d, p) > diagnostic.cor.eigs(object, n.sims=2) Warning in diagnostic.cor.eigs.default(object, n.sims = 2) : q_max is not less than the number of columns of X. Set it as ncol(X) - 1 Warning in irlba::irlba(A = Y/sqrt(n), nv = q_max) : You're computing too large a percentage of total singular values, use a standard svd instead. *** caught segfault *** address 0x110, cause 'invalid permissions' Traceback: 1: irlba::irlba(A = X1/sqrt(n), nv = q_max) 2: ...furrr_fn(...) 3: .f(.x[[i]], ...) 4: .Primitive(".Call")(list(name = "map_impl", address = <pointer: 0x600001e81020>, dll = list(name = "purrr", path = "/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/purrr/libs/purrr.so", dynamicLookup = FALSE, handle = <pointer: 0x83082170>, info = <pointer: 0x600003aa0ae0>, forceSymbols = FALSE), numParameters = 6L), <environment>, "list", FALSE, 1L, NULL, 1L) 5: call_with_cleanup(map_impl, environment(), .type, .progress, n, names, i) 6: withCallingHandlers(expr, error = function(cnd) { if (i == 0L) { } else { message <- c(i = "In index: {i}.") if (!is.null(names) && !is.na(names[[i]]) && names[[i]] != "") { name <- names[[i]] message <- c(message, i = "With name: {name}.") } else { name <- NULL } cli::cli_abort(message, location = i, name = name, parent = cnd, call = error_call, class = "purrr_error_indexed") }}) 7: with_indexed_errors(i = i, names = names, error_call = .purrr_error_call, call_with_cleanup(map_impl, environment(), .type, .progress, n, names, i)) 8: map_("list", .x, .f, ..., .progress = .progress) 9: (function (.x, .f, ..., .progress = FALSE) { map_("list", .x, .f, ..., .progress = .progress)})(.x = 1L, .f = function (...) { { ...furrr_chunk_seeds_i <- ...furrr_chunk_seeds_env[["i"]] ...furrr_chunk_seeds_env[["i"]] <- ...furrr_chunk_seeds_i + 1L assign(x = ".Random.seed", value = ...furrr_chunk_seeds[[...furrr_chunk_seeds_i]], envir = globalenv(), inherits = FALSE) } { if (...furrr_progress) { try(expr = { cat("+", file = ...furrr_progress_con, sep = "") }, silent = TRUE) } } ...furrr_out <- ...furrr_fn(...) ...furrr_out}, n = 100L, p = 50L) 10: do.call(...furrr_purrr_fn, args) 11: eval(quote({ { future_globals_max_size <- getOption("future.globals.maxSize") if (!identical(future_globals_max_size, ...furrr_globals_max_size)) { options(future.globals.maxSize = ...furrr_globals_max_size) on.exit(options(future.globals.maxSize = future_globals_max_size), add = TRUE) } { ...furrr_chunk_x <- ...furrr_chunk_args { ...furrr_chunk_seeds_env <- environment() ...furrr_chunk_seeds_env[["i"]] <- 1L } { ...furrr_progress <- TRUE tryCatch(expr = { ...furrr_progress_con <- file(...furrr_progress_file, open = "a") on.exit(close(...furrr_progress_con), add = TRUE) }, error = function(cnd) { ...furrr_progress <<- FALSE }) } ...furrr_fn_wrapper <- function(...) { { ...furrr_chunk_seeds_i <- ...furrr_chunk_seeds_env[["i"]] ...furrr_chunk_seeds_env[["i"]] <- ...furrr_chunk_seeds_i + 1L assign(x = ".Random.seed", value = ...furrr_chunk_seeds[[...furrr_chunk_seeds_i]], envir = globalenv(), inherits = FALSE) } { if (...furrr_progress) { try(expr = { cat("+", file = ...furrr_progress_con, sep = "") }, silent = TRUE) } } ...furrr_out <- ...furrr_fn(...) ...furrr_out } ...furrr_purrr_fn <- get("map", envir = asNamespace("purrr"), mode = "function", inherits = FALSE) args <- list(.x = ...furrr_chunk_x, .f = ...furrr_fn_wrapper) args <- c(args, ...furrr_dots) do.call(...furrr_purrr_fn, args) } }}), new.env()) 12: eval(quote({ { future_globals_max_size <- getOption("future.globals.maxSize") if (!identical(future_globals_max_size, ...furrr_globals_max_size)) { options(future.globals.maxSize = ...furrr_globals_max_size) on.exit(options(future.globals.maxSize = future_globals_max_size), add = TRUE) } { ...furrr_chunk_x <- ...furrr_chunk_args { ...furrr_chunk_seeds_env <- environment() ...furrr_chunk_seeds_env[["i"]] <- 1L } { ...furrr_progress <- TRUE tryCatch(expr = { ...furrr_progress_con <- file(...furrr_progress_file, open = "a") on.exit(close(...furrr_progress_con), add = TRUE) }, error = function(cnd) { ...furrr_progress <<- FALSE }) } ...furrr_fn_wrapper <- function(...) { { ...furrr_chunk_seeds_i <- ...furrr_chunk_seeds_env[["i"]] ...furrr_chunk_seeds_env[["i"]] <- ...furrr_chunk_seeds_i + 1L assign(x = ".Random.seed", value = ...furrr_chunk_seeds[[...furrr_chunk_seeds_i]], envir = globalenv(), inherits = FALSE) } { if (...furrr_progress) { try(expr = { cat("+", file = ...furrr_progress_con, sep = "") }, silent = TRUE) } } ...furrr_out <- ...furrr_fn(...) ...furrr_out } ...furrr_purrr_fn <- get("map", envir = asNamespace("purrr"), mode = "function", inherits = FALSE) args <- list(.x = ...furrr_chunk_x, .f = ...furrr_fn_wrapper) args <- c(args, ...furrr_dots) do.call(...furrr_purrr_fn, args) } }}), new.env()) 13: eval(expr, p) 14: eval(expr, p) 15: eval.parent(substitute(eval(quote(expr), envir))) 16: local({ { future_globals_max_size <- getOption("future.globals.maxSize") if (!identical(future_globals_max_size, ...furrr_globals_max_size)) { options(future.globals.maxSize = ...furrr_globals_max_size) on.exit(options(future.globals.maxSize = future_globals_max_size), add = TRUE) } { ...furrr_chunk_x <- ...furrr_chunk_args { ...furrr_chunk_seeds_env <- environment() ...furrr_chunk_seeds_env[["i"]] <- 1L } { ...furrr_progress <- TRUE tryCatch(expr = { ...furrr_progress_con <- file(...furrr_progress_file, open = "a") on.exit(close(...furrr_progress_con), add = TRUE) }, error = function(cnd) { ...furrr_progress <<- FALSE }) } ...furrr_fn_wrapper <- function(...) { { ...furrr_chunk_seeds_i <- ...furrr_chunk_seeds_env[["i"]] ...furrr_chunk_seeds_env[["i"]] <- ...furrr_chunk_seeds_i + 1L assign(x = ".Random.seed", value = ...furrr_chunk_seeds[[...furrr_chunk_seeds_i]], envir = globalenv(), inherits = FALSE) } { if (...furrr_progress) { try(expr = { cat("+", file = ...furrr_progress_con, sep = "") }, silent = TRUE) } } ...furrr_out <- ...furrr_fn(...) ...furrr_out } ...furrr_purrr_fn <- get("map", envir = asNamespace("purrr"), mode = "function", inherits = FALSE) args <- list(.x = ...furrr_chunk_x, .f = ...furrr_fn_wrapper) args <- c(args, ...furrr_dots) do.call(...furrr_purrr_fn, args) } }}) 17: eval(expr, envir = globalenv()) 18: eval(expr, envir = globalenv()) 19: withVisible({ eval(expr, envir = globalenv())}) 20: withCallingHandlers({ ...future.value <- withVisible({ eval(expr, envir = globalenv()) }) seed <- globalenv()[[".Random.seed"]] FutureResult(value = ...future.value[["value"]], visible = ...future.value[["visible"]], conditions = ...future.conditions, rng = !identical(seed, ...future.rng), seed = seed, uuid = uuid, misuseGlobalEnv = if (checkGlobalenv) list(added = diff_globalenv(...future.globalenv.names)) else NULL, misuseConnections = if (checkConnections) diff_connections(get_connections(details = isTRUE(attr(checkConnections, "details", exact = TRUE))), ...future.connections) else NULL, misuseDevices = if (checkDevices) diff_devices(...future.devices, base::.Devices) else NULL, misuseDefaultDevice = ...future.option.defaultDevice, started = ...future.startTime)}, condition = onEvalCondition) 21: tryCatchList(expr, classes, parentenv, handlers) 22: tryCatch({ withCallingHandlers({ ...future.value <- withVisible({ eval(expr, envir = globalenv()) }) seed <- globalenv()[[".Random.seed"]] FutureResult(value = ...future.value[["value"]], visible = ...future.value[["visible"]], conditions = ...future.conditions, rng = !identical(seed, ...future.rng), seed = seed, uuid = uuid, misuseGlobalEnv = if (checkGlobalenv) list(added = diff_globalenv(...future.globalenv.names)) else NULL, misuseConnections = if (checkConnections) diff_connections(get_connections(details = isTRUE(attr(checkConnections, "details", exact = TRUE))), ...future.connections) else NULL, misuseDevices = if (checkDevices) diff_devices(...future.devices, base::.Devices) else NULL, misuseDefaultDevice = ...future.option.defaultDevice, started = ...future.startTime) }, condition = onEvalCondition)}, finally = { setTimeLimit(cpu = Inf, elapsed = Inf, transient = FALSE)}) 23: doTryCatch(return(expr), name, parentenv, handler) 24: tryCatchOne(expr, names, parentenv, handlers[[1L]]) 25: tryCatchList(expr, names[-nh], parentenv, handlers[-nh]) 26: doTryCatch(return(expr), name, parentenv, handler) 27: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]), names[nh], parentenv, handlers[[nh]]) 28: tryCatchList(expr, classes, parentenv, handlers) 29: tryCatch({ tryCatch({ withCallingHandlers({ ...future.value <- withVisible({ eval(expr, envir = globalenv()) }) seed <- globalenv()[[".Random.seed"]] FutureResult(value = ...future.value[["value"]], visible = ...future.value[["visible"]], conditions = ...future.conditions, rng = !identical(seed, ...future.rng), seed = seed, uuid = uuid, misuseGlobalEnv = if (checkGlobalenv) list(added = diff_globalenv(...future.globalenv.names)) else NULL, misuseConnections = if (checkConnections) diff_connections(get_connections(details = isTRUE(attr(checkConnections, "details", exact = TRUE))), ...future.connections) else NULL, misuseDevices = if (checkDevices) diff_devices(...future.devices, base::.Devices) else NULL, misuseDefaultDevice = ...future.option.defaultDevice, started = ...future.startTime) }, condition = onEvalCondition) }, finally = { setTimeLimit(cpu = Inf, elapsed = Inf, transient = FALSE) })}, interrupt = onEvalErrorOrInterrupt, error = onEvalErrorOrInterrupt) 30: evalFutureInternal(data) 31: doTryCatch(return(expr), name, parentenv, handler) 32: tryCatchOne(expr, names, parentenv, handlers[[1L]]) 33: tryCatchList(expr, classes, parentenv, handlers) 34: tryCatch({ evalFutureInternal(data)}, error = function(ex) { msg <- sprintf("future::evalFuture() failed on %s (pid %s) at %s", Sys.info()[["nodename"]], Sys.getpid(), format(Sys.time(), "%FT%T")) if (!requireNamespace("future")) { msg <- sprintf("%s. Package 'future' is not available (worker library path: %s)", msg, paste(sQuote(.libPaths()), collapse = ", ")) } else { ns <- getNamespace("future") if (!exists("evalFutureInternal", mode = "function", envir = ns, inherits = FALSE)) { msg <- sprintf("%s. Package 'future' version %s is too old. Please update and retry", msg, packageVersion("future")) } else { msg <- sprintf("%s. Using package 'future' v%s", msg, packageVersion("future")) } } msg <- sprintf("%s. Possible other reasons: %s", msg, conditionMessage(ex)) call <- conditionCall(ex) if (!is.null(call)) { call <- deparse(call, width.cutoff = 500L) call <- paste(call, collapse = " -> ") msg <- sprintf("%s [in %s]", msg, call) } ex <- simpleError(msg) class(ex) <- c("FutureLaunchError", "FutureError", class(ex)) ex}) 35: evalFuture(data) 36: eval(expr, env) 37: doTryCatch(return(expr), name, parentenv, handler) 38: tryCatchOne(expr, names, parentenv, handlers[[1L]]) 39: tryCatchList(expr, classes, parentenv, handlers) 40: tryCatch(expr, error = function(e) { call <- conditionCall(e) if (!is.null(call)) { if (identical(call[[1L]], quote(doTryCatch))) call <- sys.call(-4L) dcall <- deparse(call, nlines = 1L) prefix <- paste("Error in", dcall, ": ") LONG <- 75L sm <- strsplit(conditionMessage(e), "\n")[[1L]] w <- 14L + nchar(dcall, type = "w") + nchar(sm[1L], type = "w") if (is.na(w)) w <- 14L + nchar(dcall, type = "b") + nchar(sm[1L], type = "b") if (w > LONG) prefix <- paste0(prefix, "\n ") } else prefix <- "Error : " msg <- paste0(prefix, conditionMessage(e), "\n") .Internal(seterrmessage(msg[1L])) if (!silent && isTRUE(getOption("show.error.messages"))) { cat(msg, file = outFile) .Internal(printDeferredWarnings()) } invisible(structure(msg, class = "try-error", condition = e))}) 41: try(eval(expr, env), silent = TRUE) 42: serialize(what, NULL, xdr = FALSE) 43: sendMaster(try(eval(expr, env), silent = TRUE), FALSE) 44: mcparallel(evalFuture(data)) 45: (function() { oopts <- options(mc.cores = NULL) on.exit(options(oopts)) mcparallel(evalFuture(data))})() 46: launchFuture.MulticoreFutureBackend(backend, future = future) 47: launchFuture(backend, future = future) 48: doTryCatch(return(expr), name, parentenv, handler) 49: tryCatchOne(expr, names, parentenv, handlers[[1L]]) 50: tryCatchList(expr, names[-nh], parentenv, handlers[-nh]) 51: doTryCatch(return(expr), name, parentenv, handler) 52: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]), names[nh], parentenv, handlers[[nh]]) 53: tryCatchList(expr, classes, parentenv, handlers) 54: tryCatch({ launchFuture(backend, future = future)}, FutureError = function(ex) { future[["state"]] <- "failed" stop(ex)}, error = function(ex) { msg <- conditionMessage(ex) label <- sQuoteLabel(future) msg <- sprintf("Caught an unexpected error of class %s when trying to launch future (%s) on backend of class %s. The reason was: %s", class(ex)[1], label, class(backend)[1], msg) future[["state"]] <- "failed" stop(FutureLaunchError(msg, future = future))}) 55: run.Future(future) 56: run(future) 57: future::future(expr, substitute = FALSE, envir = env_globals, stdout = options$stdout, conditions = options$conditions, globals = chunk_globals, packages = chunk_packages, seed = options$seed, label = labels[[i]]) 58: furrr_template(args = x, fn = fn, dots = dots, n = n, options = options, progress = progress, type = type, names = names, env_globals = env_globals, expr = expr, extract = furrr_map_extract) 59: furrr_map_template(x = .x, fn = .f, dots = list(...), options = .options, progress = .progress, type = "list", purrr_fn_name = "map", env_globals = .env_globals) 60: furrr::future_map(1:n.sims, corr_fun, n = n, p = p, .progress = TRUE, .options = furrr::furrr_options(seed = seed)) 61: diagnostic.cor.eigs.default(object, n.sims = 2) 62: diagnostic.cor.eigs(object, n.sims = 2) An irrecoverable exception occurred. R is aborting now ... *** caught segfault *** address 0x110, cause 'invalid permissions' Warning in file(file, open = "r") : cannot open file '/Volumes/Temp/tmp/RtmpWmxhpN/filed99545bfc6d6.txt': No such file or directory Error in file(file, open = "r") : cannot open the connection Calls: diagnostic.cor.eigs ... furrr_map_template -> furrr_template -> poll_progress -> file Execution halted Flavor: r-oldrel-macos-arm64