Last updated on 2026-08-04 14:52:26 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.9 | 170.94 | 325.47 | 496.41 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.9 | 127.79 | 223.75 | 351.54 | NOTE | |
| r-devel-linux-x86_64-fedora-clang | 1.9 | 234.00 | 497.68 | 731.68 | OK | |
| r-devel-linux-x86_64-fedora-gcc | 1.9 | 148.00 | 218.43 | 366.43 | OK | |
| r-devel-windows-x86_64 | 1.9 | 187.00 | 298.00 | 485.00 | OK | |
| r-patched-linux-x86_64 | 1.9 | 178.93 | 284.18 | 463.11 | OK | |
| r-release-linux-x86_64 | 1.9 | 168.60 | 285.30 | 453.90 | 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 | 184.00 | 284.00 | 468.00 | OK | |
| r-oldrel-macos-arm64 | 1.9 | 31.00 | 68.00 | 99.00 | ERROR | |
| r-oldrel-macos-x86_64 | 1.9 | 105.00 | 245.00 | 350.00 | OK | |
| r-oldrel-windows-x86_64 | 1.9 | 233.00 | 391.00 | 624.00 | OK |
Version: 1.9
Check: for new files in some other directories
Result: NOTE
Found the following files/directories:
‘~/tmp/scratch/Rtmp0lwa56’ ‘~/tmp/scratch/Rtmp12rNlh’
‘~/tmp/scratch/Rtmp1W6lC3’ ‘~/tmp/scratch/Rtmp1ZMvoN’
‘~/tmp/scratch/Rtmp1ZQac3’ ‘~/tmp/scratch/Rtmp1a6d6T’
‘~/tmp/scratch/Rtmp279UVE’ ‘~/tmp/scratch/Rtmp2P2vaD’
‘~/tmp/scratch/Rtmp2PMDJj’ ‘~/tmp/scratch/Rtmp2tei5X’
‘~/tmp/scratch/Rtmp3OClGO’ ‘~/tmp/scratch/Rtmp3e3CoU’
‘~/tmp/scratch/Rtmp3g8S7f’ ‘~/tmp/scratch/Rtmp3wRNHQ’
‘~/tmp/scratch/Rtmp40COc0’ ‘~/tmp/scratch/Rtmp41PEwE’
‘~/tmp/scratch/Rtmp4F0KZx’ ‘~/tmp/scratch/Rtmp4ZHTf1’
‘~/tmp/scratch/Rtmp4olj63’ ‘~/tmp/scratch/Rtmp4ysZfr’
‘~/tmp/scratch/Rtmp5ZOrWi’ ‘~/tmp/scratch/Rtmp5zHJpa’
‘~/tmp/scratch/Rtmp7JamC0’ ‘~/tmp/scratch/Rtmp7rQemh’
‘~/tmp/scratch/Rtmp7xpA1C’ ‘~/tmp/scratch/Rtmp9UU5Zu’
‘~/tmp/scratch/Rtmp9j9Fgt’ ‘~/tmp/scratch/RtmpAF0xuf’
‘~/tmp/scratch/RtmpAaspS4’ ‘~/tmp/scratch/RtmpAqZNpR’
‘~/tmp/scratch/RtmpCNI64d’ ‘~/tmp/scratch/RtmpCpcFPW’
‘~/tmp/scratch/RtmpD7kaBE’ ‘~/tmp/scratch/RtmpDSohZl’
‘~/tmp/scratch/RtmpDW3Nvm’ ‘~/tmp/scratch/RtmpDlFLz6’
‘~/tmp/scratch/RtmpDmHwhx’ ‘~/tmp/scratch/RtmpF6Saoc’
‘~/tmp/scratch/RtmpFGf5G9’ ‘~/tmp/scratch/RtmpFJcMG1’
‘~/tmp/scratch/RtmpFZvov8’ ‘~/tmp/scratch/RtmpFcnFbI’
‘~/tmp/scratch/RtmpG4QtAF’ ‘~/tmp/scratch/RtmpH9MxyR’
‘~/tmp/scratch/RtmpHE1q40’ ‘~/tmp/scratch/RtmpHG7SrY’
‘~/tmp/scratch/RtmpHXn422’ ‘~/tmp/scratch/RtmpIGoHta’
‘~/tmp/scratch/RtmpIfG4WA’ ‘~/tmp/scratch/RtmpIqLfpp’
‘~/tmp/scratch/RtmpIsapTu’ ‘~/tmp/scratch/RtmpJecpUS’
‘~/tmp/scratch/RtmpJuyExS’ ‘~/tmp/scratch/RtmpKF2uOm’
‘~/tmp/scratch/RtmpL3EVto’ ‘~/tmp/scratch/RtmpL4UMUg’
‘~/tmp/scratch/RtmpLGjsZ8’ ‘~/tmp/scratch/RtmpLQ8E5d’
‘~/tmp/scratch/RtmpMMUAWK’ ‘~/tmp/scratch/RtmpMQdATs’
‘~/tmp/scratch/RtmpMUhoWa’ ‘~/tmp/scratch/RtmpMhAV1V’
‘~/tmp/scratch/RtmpN1Udv9’ ‘~/tmp/scratch/RtmpO4Sttm’
‘~/tmp/scratch/RtmpOSCvFn’ ‘~/tmp/scratch/RtmpOpjGnW’
‘~/tmp/scratch/RtmpPHPF9X’ ‘~/tmp/scratch/RtmpQZJOPx’
‘~/tmp/scratch/RtmpQnE8t3’ ‘~/tmp/scratch/RtmpR9GLFe’
‘~/tmp/scratch/RtmpS57QnO’ ‘~/tmp/scratch/RtmpSWJGtX’
‘~/tmp/scratch/RtmpTnzKdH’ ‘~/tmp/scratch/RtmpTzw11V’
‘~/tmp/scratch/RtmpU6RGxF’ ‘~/tmp/scratch/RtmpUJEsbf’
‘~/tmp/scratch/RtmpUcE34Q’ ‘~/tmp/scratch/RtmpUgUZWr’
‘~/tmp/scratch/RtmpV8ux0O’ ‘~/tmp/scratch/RtmpVWfDyz’
‘~/tmp/scratch/RtmpVnJtmA’ ‘~/tmp/scratch/RtmpW9rSSY’
‘~/tmp/scratch/RtmpXJxe5p’ ‘~/tmp/scratch/RtmpXez4TD’
‘~/tmp/scratch/RtmpYQwpEW’ ‘~/tmp/scratch/RtmpYj3lOO’
‘~/tmp/scratch/RtmpZeCih0’ ‘~/tmp/scratch/RtmpaOesyj’
‘~/tmp/scratch/RtmpabeSpj’ ‘~/tmp/scratch/RtmpbbGoUz’
‘~/tmp/scratch/RtmpbfnWBz’ ‘~/tmp/scratch/Rtmpc0dacj’
‘~/tmp/scratch/RtmpdY6VBs’ ‘~/tmp/scratch/RtmpdoJasW’
‘~/tmp/scratch/RtmpdqGJ8Z’ ‘~/tmp/scratch/Rtmpe0Q16C’
‘~/tmp/scratch/RtmpfDx6vu’ ‘~/tmp/scratch/RtmpfOD7Qk’
‘~/tmp/scratch/Rtmpffn9eC’ ‘~/tmp/scratch/RtmpgGG2Vt’
‘~/tmp/scratch/RtmpgIWBcC’ ‘~/tmp/scratch/RtmpgP7Wif’
‘~/tmp/scratch/Rtmpgc0SPK’ ‘~/tmp/scratch/RtmpgcR1A7’
‘~/tmp/scratch/Rtmph1mEvM’ ‘~/tmp/scratch/Rtmph23QFX’
‘~/tmp/scratch/RtmphMwdmd’ ‘~/tmp/scratch/Rtmphchxmi’
‘~/tmp/scratch/RtmphwyFPd’ ‘~/tmp/scratch/RtmpiYmNpx’
‘~/tmp/scratch/RtmpiiG6AI’ ‘~/tmp/scratch/RtmpivoUzg’
‘~/tmp/scratch/Rtmpj3S9ew’ ‘~/tmp/scratch/Rtmpj6zHB2’
‘~/tmp/scratch/Rtmpjk7Kk4’ ‘~/tmp/scratch/RtmpkW20H3’
‘~/tmp/scratch/RtmpkbwHWX’ ‘~/tmp/scratch/Rtmpl6ss8H’
‘~/tmp/scratch/RtmplkL4Qt’ ‘~/tmp/scratch/Rtmpm5Ai5D’
‘~/tmp/scratch/Rtmpm85YxF’ ‘~/tmp/scratch/RtmpnJOaqC’
‘~/tmp/scratch/RtmpnMXk9z’ ‘~/tmp/scratch/RtmpnZTYl2’
‘~/tmp/scratch/Rtmpo0sz8s’ ‘~/tmp/scratch/RtmppPM8U2’
‘~/tmp/scratch/RtmpqLuyBP’ ‘~/tmp/scratch/Rtmpqe3RY0’
‘~/tmp/scratch/Rtmpqeu594’ ‘~/tmp/scratch/Rtmpr9GgtD’
‘~/tmp/scratch/RtmprKlekg’ ‘~/tmp/scratch/RtmprfofgX’
‘~/tmp/scratch/Rtmps9WCTc’ ‘~/tmp/scratch/RtmpsVVpTy’
‘~/tmp/scratch/RtmptCSvxO’ ‘~/tmp/scratch/RtmptJ3CFQ’
‘~/tmp/scratch/RtmptNAxJD’ ‘~/tmp/scratch/Rtmptmj83j’
‘~/tmp/scratch/Rtmptr1eK0’ ‘~/tmp/scratch/RtmpuTWy6B’
‘~/tmp/scratch/RtmpvCU1uF’ ‘~/tmp/scratch/RtmpvU5ALt’
‘~/tmp/scratch/RtmpvWg9Vl’ ‘~/tmp/scratch/RtmpvcSDgO’
‘~/tmp/scratch/RtmpwIAvv4’ ‘~/tmp/scratch/RtmpwW1tgt’
‘~/tmp/scratch/Rtmpwpyz1Q’ ‘~/tmp/scratch/RtmpxU1clc’
‘~/tmp/scratch/RtmpxUK1vV’ ‘~/tmp/scratch/RtmpxasaQe’
‘~/tmp/scratch/Rtmpxh8plR’ ‘~/tmp/scratch/RtmpxiwT9V’
‘~/tmp/scratch/Rtmpz6wMBf’ ‘~/tmp/scratch/RtmpzTFmgr’
‘~/tmp/scratch/RtmpzhXCcg’ ‘~/tmp/scratch/ar5ZghKj’
‘~/tmp/scratch/xvfb-run.0p9KdQ’ ‘~/tmp/scratch/xvfb-run.1W46Er’
‘~/tmp/scratch/xvfb-run.1wj3BQ’ ‘~/tmp/scratch/xvfb-run.39PQrT’
‘~/tmp/scratch/xvfb-run.3kOIAI’ ‘~/tmp/scratch/xvfb-run.4LEJBP’
‘~/tmp/scratch/xvfb-run.5PrrE0’ ‘~/tmp/scratch/xvfb-run.6pqlPg’
‘~/tmp/scratch/xvfb-run.71KUVr’ ‘~/tmp/scratch/xvfb-run.9j9tSU’
‘~/tmp/scratch/xvfb-run.AW85rR’ ‘~/tmp/scratch/xvfb-run.AbAm9H’
‘~/tmp/scratch/xvfb-run.AmYBdW’ ‘~/tmp/scratch/xvfb-run.Capr1N’
‘~/tmp/scratch/xvfb-run.DqCOZb’ ‘~/tmp/scratch/xvfb-run.DvXzhW’
‘~/tmp/scratch/xvfb-run.E5osNw’ ‘~/tmp/scratch/xvfb-run.EBOENK’
‘~/tmp/scratch/xvfb-run.FQm32z’ ‘~/tmp/scratch/xvfb-run.Fwn5Og’
‘~/tmp/scratch/xvfb-run.G8HC7K’ ‘~/tmp/scratch/xvfb-run.GOmU6u’
‘~/tmp/scratch/xvfb-run.GbWwyG’ ‘~/tmp/scratch/xvfb-run.GmU9dh’
‘~/tmp/scratch/xvfb-run.JQr7vr’ ‘~/tmp/scratch/xvfb-run.K5KcCA’
‘~/tmp/scratch/xvfb-run.Luc5yy’ ‘~/tmp/scratch/xvfb-run.MOUp07’
‘~/tmp/scratch/xvfb-run.NMBdLH’ ‘~/tmp/scratch/xvfb-run.O5xLUi’
‘~/tmp/scratch/xvfb-run.Oyd71L’ ‘~/tmp/scratch/xvfb-run.QB5zZi’
‘~/tmp/scratch/xvfb-run.R00fN6’ ‘~/tmp/scratch/xvfb-run.RbcKH0’
‘~/tmp/scratch/xvfb-run.T7cfhH’ ‘~/tmp/scratch/xvfb-run.UREmt2’
‘~/tmp/scratch/xvfb-run.UhjJ8D’ ‘~/tmp/scratch/xvfb-run.VkwTpR’
‘~/tmp/scratch/xvfb-run.WXc9my’ ‘~/tmp/scratch/xvfb-run.XsXveJ’
‘~/tmp/scratch/xvfb-run.YNOuSF’ ‘~/tmp/scratch/xvfb-run.YmXB1w’
‘~/tmp/scratch/xvfb-run.YpSBS6’ ‘~/tmp/scratch/xvfb-run.Zls7YR’
‘~/tmp/scratch/xvfb-run.bSYa9f’ ‘~/tmp/scratch/xvfb-run.blZAcp’
‘~/tmp/scratch/xvfb-run.c0go2u’ ‘~/tmp/scratch/xvfb-run.ddjrRQ’
‘~/tmp/scratch/xvfb-run.e4RRa7’ ‘~/tmp/scratch/xvfb-run.fQ9Hdl’
‘~/tmp/scratch/xvfb-run.fmw96L’ ‘~/tmp/scratch/xvfb-run.gGIGy6’
‘~/tmp/scratch/xvfb-run.gJwCd0’ ‘~/tmp/scratch/xvfb-run.hjsKw2’
‘~/tmp/scratch/xvfb-run.ihxIJU’ ‘~/tmp/scratch/xvfb-run.j3tFt8’
‘~/tmp/scratch/xvfb-run.k1Xoif’ ‘~/tmp/scratch/xvfb-run.kiqlDx’
‘~/tmp/scratch/xvfb-run.mFK4Xw’ ‘~/tmp/scratch/xvfb-run.mv851g’
‘~/tmp/scratch/xvfb-run.oa3y7v’ ‘~/tmp/scratch/xvfb-run.p5HsRv’
‘~/tmp/scratch/xvfb-run.pQLR6I’ ‘~/tmp/scratch/xvfb-run.qfemCm’
‘~/tmp/scratch/xvfb-run.qfvHep’ ‘~/tmp/scratch/xvfb-run.rOvEKT’
‘~/tmp/scratch/xvfb-run.rilyDu’ ‘~/tmp/scratch/xvfb-run.sBzO0I’
‘~/tmp/scratch/xvfb-run.uYOC2N’ ‘~/tmp/scratch/xvfb-run.ua5USH’
‘~/tmp/scratch/xvfb-run.vnp0lK’ ‘~/tmp/scratch/xvfb-run.wWVjCK’
‘~/tmp/scratch/xvfb-run.yAm7CV’ ‘~/tmp/scratch/xvfb-run.yvx7FL’
‘~/tmp/scratch/xvfb-run.z2sHvI’ ‘~/tmp/scratch/xvfb-run.zFvJSu’
Flavor: r-devel-linux-x86_64-debian-gcc
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: 0x6000011fb9e0>, dll = list(name = "purrr", path = "/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/purrr/libs/purrr.so", dynamicLookup = FALSE, handle = <pointer: 0x95566170>, info = <pointer: 0x6000035ea340>, 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'
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: 0x6000011fb9e0>, dll = list(name = "purrr", path = "/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/purrr/libs/purrr.so", dynamicLookup = FALSE, handle = <pointer: 0x95566170>, info = <pointer: 0x6000035ea340>, 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 = 2L, .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 ...
Warning in file(file, open = "r") :
cannot open file '/Volumes/Temp/tmp/RtmpGJZebv/file10a6f641bf1a6.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