Last updated on 2026-08-02 05:50:57 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.15.4 | 129.92 | 73.48 | 203.40 | NOTE | |
| r-devel-linux-x86_64-debian-gcc | 2.0.1 | 2.55 | 237.40 | 239.95 | NOTE | |
| r-devel-linux-x86_64-fedora-clang | 2.0.1 | 358.17 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 2.0.1 | 186.14 | OK | |||
| r-devel-windows-x86_64 | 1.15.4 | 152.00 | 194.00 | 346.00 | NOTE | |
| r-patched-linux-x86_64 | 1.15.4 | 136.52 | 67.86 | 204.38 | NOTE | |
| r-release-linux-x86_64 | 2.0.1 | 3.33 | 205.22 | 208.55 | OK | |
| r-release-macos-arm64 | 2.0.1 | 1.00 | 67.00 | 68.00 | OK | |
| r-release-macos-x86_64 | 2.0.1 | 3.00 | 195.00 | 198.00 | OK | |
| r-release-windows-x86_64 | 2.0.1 | 7.00 | 129.00 | 136.00 | OK | |
| r-oldrel-macos-arm64 | 2.0.1 | 1.00 | 43.00 | 44.00 | ERROR | |
| r-oldrel-macos-x86_64 | 2.0.1 | 3.00 | 199.00 | 202.00 | OK | |
| r-oldrel-windows-x86_64 | 2.0.1 | 8.00 | 166.00 | 174.00 | OK |
Version: 1.15.4
Check: compiled code
Result: NOTE
File ‘rEDM/libs/rEDM.so’:
Found ‘_ZSt4cout’, possibly from ‘std::cout’ (C++)
Objects: ‘cppEDM/lib/libEDM.a’, ‘cppEDM/src/libEDM.a’
Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor use Fortran I/O
nor system RNGs nor [v]sprintf.
See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Flavors: r-devel-linux-x86_64-debian-clang, r-patched-linux-x86_64
Version: 2.0.1
Check: for new files in some other directories
Result: NOTE
Found the following files/directories:
‘~/tmp/scratch/Rtmp0ALisL’ ‘~/tmp/scratch/Rtmp0DToFM’
‘~/tmp/scratch/Rtmp0OQtbd’ ‘~/tmp/scratch/Rtmp0bTvaF’
‘~/tmp/scratch/Rtmp12eInU’ ‘~/tmp/scratch/Rtmp17LgBI’
‘~/tmp/scratch/Rtmp1HjA5x’ ‘~/tmp/scratch/Rtmp1f9f9b’
‘~/tmp/scratch/Rtmp1k6DXz’ ‘~/tmp/scratch/Rtmp1oY9N3’
‘~/tmp/scratch/Rtmp2Wl5mT’ ‘~/tmp/scratch/Rtmp2oqKAo’
‘~/tmp/scratch/Rtmp3AbpRK’ ‘~/tmp/scratch/Rtmp3Au1Pr’
‘~/tmp/scratch/Rtmp48pgHC’ ‘~/tmp/scratch/Rtmp4KjnPi’
‘~/tmp/scratch/Rtmp4UivaB’ ‘~/tmp/scratch/Rtmp4Ve20w’
‘~/tmp/scratch/Rtmp4sPNSH’ ‘~/tmp/scratch/Rtmp5dhNTq’
‘~/tmp/scratch/Rtmp7I1b2s’ ‘~/tmp/scratch/Rtmp7Nd290’
‘~/tmp/scratch/Rtmp7R6zyl’ ‘~/tmp/scratch/Rtmp8KwG7m’
‘~/tmp/scratch/Rtmp8qicgq’ ‘~/tmp/scratch/Rtmp8v8vFd’
‘~/tmp/scratch/Rtmp8w2TMV’ ‘~/tmp/scratch/Rtmp94XuJ4’
‘~/tmp/scratch/Rtmp9MdIOY’ ‘~/tmp/scratch/Rtmp9Zttun’
‘~/tmp/scratch/Rtmp9cNfAH’ ‘~/tmp/scratch/RtmpA2YZM2’
‘~/tmp/scratch/RtmpAavdMO’ ‘~/tmp/scratch/RtmpAou1Et’
‘~/tmp/scratch/RtmpB2mf4D’ ‘~/tmp/scratch/RtmpBr3nT8’
‘~/tmp/scratch/RtmpBvoQqO’ ‘~/tmp/scratch/RtmpCOcF55’
‘~/tmp/scratch/RtmpDUYO7A’ ‘~/tmp/scratch/RtmpDkwPtZ’
‘~/tmp/scratch/RtmpDlHsUr’ ‘~/tmp/scratch/RtmpDqBB8y’
‘~/tmp/scratch/RtmpDuI3WC’ ‘~/tmp/scratch/RtmpE8H5a3’
‘~/tmp/scratch/RtmpEIhdCw’ ‘~/tmp/scratch/RtmpEbrHSb’
‘~/tmp/scratch/RtmpF1dkQK’ ‘~/tmp/scratch/RtmpFA2SaJ’
‘~/tmp/scratch/RtmpFSfowD’ ‘~/tmp/scratch/RtmpFnq2SE’
‘~/tmp/scratch/RtmpGQJabM’ ‘~/tmp/scratch/RtmpGYj3uR’
‘~/tmp/scratch/RtmpGc70Mp’ ‘~/tmp/scratch/RtmpHHVj1x’
‘~/tmp/scratch/RtmpIKlOyC’ ‘~/tmp/scratch/RtmpITC5Sy’
‘~/tmp/scratch/RtmpIV0N7J’ ‘~/tmp/scratch/RtmpIgLqoz’
‘~/tmp/scratch/RtmpJdZVM6’ ‘~/tmp/scratch/RtmpJuGhbr’
‘~/tmp/scratch/RtmpKfl3oA’ ‘~/tmp/scratch/RtmpLRMBnq’
‘~/tmp/scratch/RtmpLhShgB’ ‘~/tmp/scratch/RtmpLrN33E’
‘~/tmp/scratch/RtmpMtJLmZ’ ‘~/tmp/scratch/RtmpMxtSxr’
‘~/tmp/scratch/RtmpNFJk5c’ ‘~/tmp/scratch/RtmpNO0wOa’
‘~/tmp/scratch/RtmpNq3kCH’ ‘~/tmp/scratch/RtmpOKIhvD’
‘~/tmp/scratch/RtmpObB4m5’ ‘~/tmp/scratch/RtmpOjgaOZ’
‘~/tmp/scratch/RtmpOxTEK6’ ‘~/tmp/scratch/RtmpP4sfOa’
‘~/tmp/scratch/RtmpPMmPdd’ ‘~/tmp/scratch/RtmpPrpetK’
‘~/tmp/scratch/RtmpQ3QB0e’ ‘~/tmp/scratch/RtmpQygBJr’
‘~/tmp/scratch/RtmpQyyjRc’ ‘~/tmp/scratch/RtmpRiq7R3’
‘~/tmp/scratch/RtmpSLxYqn’ ‘~/tmp/scratch/RtmpStQaPJ’
‘~/tmp/scratch/RtmpT4QdaV’ ‘~/tmp/scratch/RtmpUKLaQK’
‘~/tmp/scratch/RtmpUPu8Mq’ ‘~/tmp/scratch/RtmpUeVpQK’
‘~/tmp/scratch/RtmpV1lHpS’ ‘~/tmp/scratch/RtmpVPfyKc’
‘~/tmp/scratch/RtmpVYcZAR’ ‘~/tmp/scratch/RtmpWPmWTN’
‘~/tmp/scratch/RtmpWQjRuu’ ‘~/tmp/scratch/RtmpWuUbjG’
‘~/tmp/scratch/RtmpWwoYpF’ ‘~/tmp/scratch/RtmpWxbuwZ’
‘~/tmp/scratch/RtmpXrrTgq’ ‘~/tmp/scratch/RtmpY8OCWM’
‘~/tmp/scratch/RtmpYCgdkZ’ ‘~/tmp/scratch/RtmpYt2ZFG’
‘~/tmp/scratch/RtmpZHbXpH’ ‘~/tmp/scratch/Rtmpa3kv7R’
‘~/tmp/scratch/RtmpaIyo4G’ ‘~/tmp/scratch/RtmpaaGQgX’
‘~/tmp/scratch/RtmpafoLhv’ ‘~/tmp/scratch/Rtmpdh0Eu9’
‘~/tmp/scratch/Rtmpe1Fl2f’ ‘~/tmp/scratch/RtmpeBiASH’
‘~/tmp/scratch/RtmpeUPOOL’ ‘~/tmp/scratch/RtmpeVKBhW’
‘~/tmp/scratch/Rtmpeq6F2g’ ‘~/tmp/scratch/RtmpesigiG’
‘~/tmp/scratch/Rtmpfj3y66’ ‘~/tmp/scratch/RtmpgEe76p’
‘~/tmp/scratch/Rtmpgff5BO’ ‘~/tmp/scratch/Rtmph6pFJV’
‘~/tmp/scratch/RtmphJBIpS’ ‘~/tmp/scratch/RtmphXwxBV’
‘~/tmp/scratch/RtmphdXZKm’ ‘~/tmp/scratch/RtmpiPhlyg’
‘~/tmp/scratch/RtmpiQDYaO’ ‘~/tmp/scratch/RtmpiW0X5p’
‘~/tmp/scratch/RtmpidbwxN’ ‘~/tmp/scratch/Rtmpj1m6GR’
‘~/tmp/scratch/Rtmpjb10el’ ‘~/tmp/scratch/RtmpkGW77x’
‘~/tmp/scratch/RtmpkGtA5o’ ‘~/tmp/scratch/RtmpkNobCW’
‘~/tmp/scratch/Rtmpl2uudb’ ‘~/tmp/scratch/RtmplN8gNW’
‘~/tmp/scratch/Rtmpne0C6x’ ‘~/tmp/scratch/Rtmpnmd6ZG’
‘~/tmp/scratch/RtmpnmoRu8’ ‘~/tmp/scratch/Rtmpo4ZQGK’
‘~/tmp/scratch/RtmpoaYPu5’ ‘~/tmp/scratch/RtmppY7sdH’
‘~/tmp/scratch/Rtmppcy6B6’ ‘~/tmp/scratch/RtmppfECgN’
‘~/tmp/scratch/Rtmppldgaa’ ‘~/tmp/scratch/RtmpqhQtHt’
‘~/tmp/scratch/RtmpqnHz49’ ‘~/tmp/scratch/RtmpqqXi15’
‘~/tmp/scratch/RtmpqsQp36’ ‘~/tmp/scratch/Rtmpr1dA87’
‘~/tmp/scratch/RtmprHCDP7’ ‘~/tmp/scratch/RtmprNcBEs’
‘~/tmp/scratch/Rtmpt45LT8’ ‘~/tmp/scratch/RtmptQwxyS’
‘~/tmp/scratch/RtmptoY3sY’ ‘~/tmp/scratch/RtmpuSGrno’
‘~/tmp/scratch/RtmpunVyEd’ ‘~/tmp/scratch/RtmpvBeWW8’
‘~/tmp/scratch/RtmpvPYvoy’ ‘~/tmp/scratch/RtmpvT9ZOb’
‘~/tmp/scratch/RtmpvTinYh’ ‘~/tmp/scratch/Rtmpvd4MJg’
‘~/tmp/scratch/Rtmpvwjyw9’ ‘~/tmp/scratch/Rtmpw1xOLu’
‘~/tmp/scratch/RtmpwDnoaU’ ‘~/tmp/scratch/RtmpwEgSRS’
‘~/tmp/scratch/RtmpwgxnxM’ ‘~/tmp/scratch/Rtmpx08FKy’
‘~/tmp/scratch/RtmpxgAfEA’ ‘~/tmp/scratch/RtmpyPPMQs’
‘~/tmp/scratch/Rtmpycsvmd’ ‘~/tmp/scratch/Rtmpywvz0E’
‘~/tmp/scratch/RtmpzVpe8j’ ‘~/tmp/scratch/RtmpzWngZW’
‘~/tmp/scratch/ccSvWrDw.s’ ‘~/tmp/scratch/xvfb-run.07NUDB’
‘~/tmp/scratch/xvfb-run.082dwe’ ‘~/tmp/scratch/xvfb-run.0F9JxZ’
‘~/tmp/scratch/xvfb-run.0FbIyO’ ‘~/tmp/scratch/xvfb-run.0W2BDu’
‘~/tmp/scratch/xvfb-run.3AShvT’ ‘~/tmp/scratch/xvfb-run.4cVaRI’
‘~/tmp/scratch/xvfb-run.5kElT4’ ‘~/tmp/scratch/xvfb-run.67bbHX’
‘~/tmp/scratch/xvfb-run.6gJZ2w’ ‘~/tmp/scratch/xvfb-run.74eFvF’
‘~/tmp/scratch/xvfb-run.7F0aXb’ ‘~/tmp/scratch/xvfb-run.7dri4r’
‘~/tmp/scratch/xvfb-run.7umORB’ ‘~/tmp/scratch/xvfb-run.8Tz0DW’
‘~/tmp/scratch/xvfb-run.8fbdf0’ ‘~/tmp/scratch/xvfb-run.8uxumO’
‘~/tmp/scratch/xvfb-run.9mhpx9’ ‘~/tmp/scratch/xvfb-run.9xt7lS’
‘~/tmp/scratch/xvfb-run.C80LU0’ ‘~/tmp/scratch/xvfb-run.CIfibH’
‘~/tmp/scratch/xvfb-run.CjdR9K’ ‘~/tmp/scratch/xvfb-run.E5sUmL’
‘~/tmp/scratch/xvfb-run.EOCrjd’ ‘~/tmp/scratch/xvfb-run.EnXxmT’
‘~/tmp/scratch/xvfb-run.FEKyI2’ ‘~/tmp/scratch/xvfb-run.FPe5HJ’
‘~/tmp/scratch/xvfb-run.FSOd1Z’ ‘~/tmp/scratch/xvfb-run.GPxBMB’
‘~/tmp/scratch/xvfb-run.GuBA60’ ‘~/tmp/scratch/xvfb-run.HH3PQQ’
‘~/tmp/scratch/xvfb-run.HibnhP’ ‘~/tmp/scratch/xvfb-run.I2YPRC’
‘~/tmp/scratch/xvfb-run.MZXXYs’ ‘~/tmp/scratch/xvfb-run.MgjBkj’
‘~/tmp/scratch/xvfb-run.NZ0YoS’ ‘~/tmp/scratch/xvfb-run.OhbIVI’
‘~/tmp/scratch/xvfb-run.Ortn8A’ ‘~/tmp/scratch/xvfb-run.QbaVGd’
‘~/tmp/scratch/xvfb-run.R2ah6O’ ‘~/tmp/scratch/xvfb-run.RGJG1n’
‘~/tmp/scratch/xvfb-run.RTmOti’ ‘~/tmp/scratch/xvfb-run.Ugf62n’
‘~/tmp/scratch/xvfb-run.W0ceBu’ ‘~/tmp/scratch/xvfb-run.W7vqUr’
‘~/tmp/scratch/xvfb-run.WTsCQR’ ‘~/tmp/scratch/xvfb-run.YJedNu’
‘~/tmp/scratch/xvfb-run.Z9fMEB’ ‘~/tmp/scratch/xvfb-run.ZhjMr6’
‘~/tmp/scratch/xvfb-run.anhpFE’ ‘~/tmp/scratch/xvfb-run.bzCg01’
‘~/tmp/scratch/xvfb-run.cH1HSg’ ‘~/tmp/scratch/xvfb-run.eX5tnX’
‘~/tmp/scratch/xvfb-run.f5ItsO’ ‘~/tmp/scratch/xvfb-run.fXMnA3’
‘~/tmp/scratch/xvfb-run.fwZjyf’ ‘~/tmp/scratch/xvfb-run.g0jEff’
‘~/tmp/scratch/xvfb-run.gUJgOU’ ‘~/tmp/scratch/xvfb-run.hUzt35’
‘~/tmp/scratch/xvfb-run.kA7Lrv’ ‘~/tmp/scratch/xvfb-run.m40CGf’
‘~/tmp/scratch/xvfb-run.mmzYOr’ ‘~/tmp/scratch/xvfb-run.nCijUM’
‘~/tmp/scratch/xvfb-run.nQLmmR’ ‘~/tmp/scratch/xvfb-run.nTY9Xy’
‘~/tmp/scratch/xvfb-run.nbFNIk’ ‘~/tmp/scratch/xvfb-run.nzNVuE’
‘~/tmp/scratch/xvfb-run.p4lHk0’ ‘~/tmp/scratch/xvfb-run.r3yWIA’
‘~/tmp/scratch/xvfb-run.rGKNsF’ ‘~/tmp/scratch/xvfb-run.szuJvT’
‘~/tmp/scratch/xvfb-run.tSY1s4’ ‘~/tmp/scratch/xvfb-run.uNJirI’
‘~/tmp/scratch/xvfb-run.uhRQ2g’ ‘~/tmp/scratch/xvfb-run.vYo0US’
‘~/tmp/scratch/xvfb-run.yVXwe5’ ‘~/tmp/scratch/xvfb-run.yZVaCi’
‘~/tmp/scratch/xvfb-run.z2oOrH’
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 1.15.4
Check: compiled code
Result: NOTE
File 'rEDM/libs/x64/rEDM.dll':
Found '_ZSt4cout', possibly from 'std::cout' (C++)
Objects: 'cppEDM/lib/libEDM.a', 'cppEDM/src/libEDM.a'
Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor use Fortran I/O
nor system RNGs nor [v]sprintf.
See 'Writing portable packages' in the 'Writing R Extensions' manual.
Flavor: r-devel-windows-x86_64
Version: 2.0.1
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘rEDM-tutorial.Rmd’ using rmarkdown
2026-08-02 10:32:26.622 R[41099:60064] XType: Using static font registry.
*** caught segfault ***
address 0x110, cause 'invalid permissions'
*** caught segfault ***
address 0x110, cause 'invalid permissions'
*** caught segfault ***
address 0x110, cause 'invalid permissions'
*** caught segfault ***
address 0x110, cause 'invalid permissions'
Traceback:
1: RowCumsum(valid)
2: FindNeighbors(embedding, lib_i, pred_i, knn, exclusionRadius = exclusionRadius, validLib = validLib, libOverlap = idx$libOverlap, backend = backend, verbose = verbose)
3: SMap(dataFrame, columns, target, lib, pred, E = E, Tp = Tp, knn = knn, tau = tau, theta = th, exclusionRadius = exclusionRadius, embedded = embedded, validLib = validLib, noTime = noTime, ignoreNan = ignoreNan, backend = backend)
4: ComputeError(predictions$Observations, predictions$Predictions)
5: SweepRho(SMap(dataFrame, columns, target, lib, pred, E = E, Tp = Tp, knn = knn, tau = tau, theta = th, exclusionRadius = exclusionRadius, embedded = embedded, validLib = validLib, noTime = noTime, ignoreNan = ignoreNan, backend = backend)$predictions)
6: FUN(X[[i]], ...)
7: lapply(X = S, FUN = FUN, ...)
8: doTryCatch(return(expr), name, parentenv, handler)
9: tryCatchOne(expr, names, parentenv, handlers[[1L]])
10: tryCatchList(expr, classes, parentenv, handlers)
11: 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))})
12: try(lapply(X = S, FUN = FUN, ...), silent = TRUE)
13: sendMaster(try(lapply(X = S, FUN = FUN, ...), silent = TRUE))
14: FUN(X[[i]], ...)
15: lapply(seq_len(cores), inner.do)
16: parallel::mclapply(values, worker, mc.cores = cores, mc.preschedule = TRUE)
17: doTryCatch(return(expr), name, parentenv, handler)
18: tryCatchOne(expr, names, parentenv, handlers[[1L]])
19: tryCatchList(expr, classes, parentenv, handlers)
20: tryCatch(parallel::mclapply(values, worker, mc.cores = cores, mc.preschedule = TRUE), error = function(e) NULL)
21: SweepApply(theta, worker, numProcess)
22: unlist(SweepApply(theta, worker, numProcess))
23: PredictNonlinear(dataFrame = Thrips, columns = "Thrips_imaginis", target = "Thrips_imaginis", lib = "1 73", pred = "1 73", E = E, showPlot = TRUE)
24: eval(expr, envir)
25: eval(expr, envir)
26: withVisible(eval(expr, envir))
27: withCallingHandlers(code, error = function (e) rlang::entrace(e), message = function (cnd) { watcher$capture_plot_and_output() if (on_message$capture) { watcher$push(cnd) } if (on_message$silence) { invokeRestart("muffleMessage") }}, warning = function (cnd) { if (getOption("warn") >= 2 || getOption("warn") < 0) { return() } watcher$capture_plot_and_output() if (on_warning$capture) { cnd <- sanitize_call(cnd) watcher$push(cnd) } if (on_warning$silence) { invokeRestart("muffleWarning") }}, error = function (cnd) { watcher$capture_plot_and_output() cnd <- sanitize_call(cnd) watcher$push(cnd) switch(on_error, continue = invokeRestart("eval_continue"), stop = invokeRestart("eval_stop"), error = NULL)})
28: eval(call)
29: eval(call)
30: with_handlers({ for (expr in tle$exprs) { ev <- withVisible(eval(expr, envir)) watcher$capture_plot_and_output() watcher$print_value(ev$value, ev$visible, envir) } TRUE}, handlers)
31: doWithOneRestart(return(expr), restart)
32: withOneRestart(expr, restarts[[1L]])
33: withRestartList(expr, restarts[-nr])
34: doWithOneRestart(return(expr), restart)
35: withOneRestart(withRestartList(expr, restarts[-nr]), restarts[[nr]])
36: withRestartList(expr, restarts)
37: withRestarts(with_handlers({ for (expr in tle$exprs) { ev <- withVisible(eval(expr, envir)) watcher$capture_plot_and_output() watcher$print_value(ev$value, ev$visible, envir) } TRUE}, handlers), eval_continue = function() TRUE, eval_stop = function() FALSE)
38: evaluate::evaluate(...)
39: evaluate(code, envir = env, new_device = FALSE, keep_warning = if (is.numeric(options$warning)) TRUE else options$warning, keep_message = if (is.numeric(options$message)) TRUE else options$message, stop_on_error = if (is.numeric(options$error)) options$error else { if (options$error && options$include) 0L else 2L }, output_handler = knit_handlers(options$render, options))
40: in_dir(input_dir(), expr)
41: in_input_dir(evaluate(code, envir = env, new_device = FALSE, keep_warning = if (is.numeric(options$warning)) TRUE else options$warning, keep_message = if (is.numeric(options$message)) TRUE else options$message, stop_on_error = if (is.numeric(options$error)) options$error else { if (options$error && options$include) 0L else 2L }, output_handler = knit_handlers(options$render, options)))
42: eng_r(options)
43: block_exec(params)
44: call_block(x)
45: process_group(group)
46: withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() if (is_R_CMD_build() || is_R_CMD_check()) error <<- format(e) })
47: with_options(withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() if (is_R_CMD_build() || is_R_CMD_check()) error <<- format(e) }), list(rlang_trace_top_env = knit_global()))
48: xfun:::handle_error(with_options(withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() if (is_R_CMD_build() || is_R_CMD_check()) error <<- format(e) }), list(rlang_trace_top_env = knit_global())), function(loc) { setwd(wd) write_utf8(res, output %n% stdout()) paste0("\nQuitting from ", loc, if (!is.null(error)) paste0("\n", rule(), error, "\n", rule()))}, if (labels[i] != "") sprintf(" [%s]", labels[i]), get_loc)
49: process_file(text, output)
50: knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet)
51: rmarkdown::render(file, encoding = encoding, quiet = quiet, envir = globalenv(), output_dir = getwd(), ...)
52: vweave_rmarkdown(...)
53: engine$weave(file, quiet = quiet, encoding = enc)
54: doTryCatch(return(expr), name, parentenv, handler)
55: tryCatchOne(expr, names, parentenv, handlers[[1L]])
56: tryCatchList(expr, classes, parentenv, handlers)
57:
Traceback:
1: RowCumsum(valid)
2: FindNeighbors(embedding, lib_i, pred_i, knn, exclusionRadius = exclusionRadius, validLib = validLib, libOverlap = idx$libOverlap, backend = backend, tryCatch({ engine$weave(file, quiet = quiet, encoding = enc) setwd(startdir) output <- find_vignette_product(name, by = "weave", engine = engine) if (!have.makefile && vignette_is_tex(output)) { texi2pdf(file = output, clean = FALSE, quiet = quiet) output <- find_vignette_product(name, by = "texi2pdf", engine = engine) } outputs <- c(outputs, output)}, error = function(e) { thisOK <<- FALSE fails <<- c(fails, file) message(gettextf("Error: processing vignette '%s' failed with diagnostics:\n%s", file, conditionMessage(e)))})
58: tools::buildVignettes(dir = "/Volumes/Builds/packages/big-sur-arm64/results/4.5/rEDM.Rcheck/vign_test/rEDM", verbose = verbose)
3: skip = TRUE, ser_elibs = "/Volumes/Temp/tmp/RtmpLBXk6U/file695b390a7387.rds")
An irrecoverable exception occurred. R is aborting now ...
SMap(dataFrame, columns, target, lib, pred, E = E, Tp = Tp, knn = knn, tau = tau, theta = th, exclusionRadius = exclusionRadius, embedded = embedded, validLib = validLib, noTime = noTime, ignoreNan = ignoreNan, backend = backend)
4: ComputeError(predictions$Observations, predictions$Predictions)
5: SweepRho(SMap(dataFrame, columns, target, lib, pred, E = E, Tp = Tp, knn = knn, tau = tau, theta = th, exclusionRadius = exclusionRadius, embedded = embedded, validLib = validLib, noTime = noTime, ignoreNan = ignoreNan, backend = backend)$predictions)
6: FUN(X[[i]], ...)
7: lapply(X = S, FUN = FUN, ...)
8: doTryCatch(return(expr), name, parentenv, handler)
9: tryCatchOne(expr, names, parentenv, handlers[[1L]])
10: tryCatchList(expr, classes, parentenv, handlers)
11: 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))})
12: try(lapply(X = S, FUN = FUN, ...), silent = TRUE)
13: sendMaster(try(lapply(X = S, FUN = FUN, ...), silent = TRUE))
14: FUN(X[[i]], ...)
15: lapply(seq_len(cores), inner.do)
16: parallel::mclapply(values, worker, mc.cores = cores, mc.preschedule = TRUE)
17: doTryCatch(return(expr), name, parentenv, handler)
18: tryCatchOne(expr, names, parentenv, handlers[[1L]])
Traceback:
1: RowCumsum(valid)
2: FindNeighbors(embedding, lib_i, pred_i, knn, exclusionRadius = exclusionRadius, validLib = validLib, libOverlap = idx$libOverlap, backend = backend, verbose = verbose)
3: SMap(dataFrame, columns, target, lib, pred, E = E, Tp = Tp, knn = knn, tau = tau, theta = th, exclusionRadius = exclusionRadius, embedded = embedded, validLib = validLib, noTime = noTime,
19: tryCatchList(expr, classes, parentenv, handlers)
20: tryCatch(parallel::mclapply(values, worker, mc.cores = cores, mc.preschedule = TRUE), error = function(e) NULL)
ignoreNan = ignoreNan, backend = backend)
4: ComputeError(predictions$Observations, predictions$Predictions)
5: 21: SweepApply(theta, worker, numProcess)
22: unlist(SweepApply(theta, worker, numProcess))
23: PredictNonlinear(dataFrame = Thrips, columns = "Thrips_imaginis", SweepRho(SMap(dataFrame, columns, target, lib, pred, E = E, Tp = Tp, knn = knn, tau = tau, theta = th, exclusionRadius = exclusionRadius, target = "Thrips_imaginis", lib = "1 73", pred = "1 73", E = E, showPlot = TRUE)
embedded = embedded, validLib = validLib, noTime = noTime, ignoreNan = ignoreNan, backend = backend)$predictions)
6: FUN(X[[i]], ...)
7: lapply(X = S, FUN = FUN, ...)
8: doTryCatch(return(expr), name, parentenv, handler)
9: tryCatchOne(expr, names, parentenv, handlers[[1L]])
10: tryCatchList(expr, classes, parentenv, handlers)
11: 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 ") }24: eval(expr, envir) else prefix <- "Error : " msg <- paste0(prefix, conditionMessage(e), "\n") .Internal(seterrmessage(msg[1L])) if (!silent && isTRUE(getOption("show.error.messages"))) {
25: eval(expr, envir)
26: cat(msg, file = outFile) .Internal(printDeferredWarnings()) } invisible(structure(msg, class = "try-error", condition = e))withVisible(eval(expr, envir))
27: withCallingHandlers(code, error = function (e) })
12: rlang::entrace(e), message = function (cnd) { watcher$capture_plot_and_output() if (on_message$capture) { watcher$push(cnd) } if (on_message$silence) { invokeRestart("muffleMessage") }}, warning = function (cnd) { if (getOption("warn") >= 2 || getOption("warn") < 0) { return() } watcher$capture_plot_and_output() if (on_warning$capture) { cnd <- sanitize_call(cnd) watcher$push(cnd) }try(lapply(X = S, FUN = FUN, ...), silent = TRUE) if (on_warning$silence) { invokeRestart("muffleWarning") }}, error = function (cnd) { watcher$capture_plot_and_output() cnd <- sanitize_call(cnd) watcher$push(cnd) switch(on_error, continue = invokeRestart("eval_continue"), stop = invokeRestart("eval_stop"), error = NULL)})
28: eval(call)
29: eval(call)
30:
13: with_handlers({ for (expr in tle$exprs) {sendMaster(try(lapply(X = S, FUN = FUN, ...), silent = TRUE))
14: FUN(X[[i]], ...)
ev <- withVisible(eval(expr, envir)) watcher$capture_plot_and_output() watcher$print_value(ev$value, ev$visible, envir) } TRUE15: lapply(seq_len(cores), inner.do)
16: parallel::mclapply(values, worker, mc.cores = cores, mc.preschedule = TRUE)
17: doTryCatch(return(expr), name, parentenv, handler)
18: }, handlers)
31: tryCatchOne(expr, names, parentenv, handlers[[1L]])
19: tryCatchList(expr, classes, parentenv, handlers)doWithOneRestart(return(expr), restart)
32: withOneRestart(expr, restarts[[1L]])
20: tryCatch(parallel::mclapply(values, worker, mc.cores = cores, mc.preschedule = TRUE), error = function(e) NULL)
21: SweepApply(theta, worker, numProcess)
22: unlist(SweepApply(theta, worker, numProcess))
23: PredictNonlinear(dataFrame = Thrips, columns = "Thrips_imaginis", target = "Thrips_imaginis", lib = "1 73", pred = "1 73", E = E, showPlot = TRUE)
24: 33: withRestartList(expr, restarts[-nr])
34: doWithOneRestart(return(expr), restart)
35: withOneRestart(withRestartList(expr, restarts[-nr]), restarts[[nr]])
36: withRestartList(expr, restarts)
37: withRestarts(with_handlers({ for (expr in tle$exprs) { ev <- withVisible(eval(expr, envir))eval(expr, envir)
25: eval(expr, envir) watcher$capture_plot_and_output() watcher$print_value(ev$value, ev$visible, envir) } TRUE}, handlers), eval_continue = function() TRUE, eval_stop = function() FALSE)
38: evaluate::evaluate(...)
39: 26: evaluate(code, envir = env, new_device = FALSE, keep_warning = if (is.numeric(options$warning)) TRUE else options$warning, withVisible(eval(expr, envir)) keep_message = if (is.numeric(options$message)) TRUE else options$message, stop_on_error = if (is.numeric(options$error)) options$error else { if (options$error && options$include) 0L else 2L }, output_handler = knit_handlers(options$render, options))
40:
27: withCallingHandlers(code, error = function (e) rlang::entrace(e), message = function (cnd) { watcher$capture_plot_and_output() if (on_message$capture) { watcher$push(cnd) } if (on_message$silence) { invokeRestart("muffleMessage") }}, warning = function (cnd) {in_dir(input_dir(), expr) if (getOption("warn") >= 2 || getOption("warn") < 0) { return() } watcher$capture_plot_and_output() if (on_warning$capture) { cnd <- sanitize_call(cnd)
41: in_input_dir(evaluate(code, envir = env, new_device = FALSE, keep_warning = if (is.numeric(options$warning)) TRUE else options$warning,
Traceback:
keep_message = if (is.numeric(options$message)) TRUE else options$message, 1: stop_on_error = if (is.numeric(options$error)) options$error else { watcher$push(cnd)RowCumsum(valid)
2: } if (options$error && options$include) 0L if (on_warning$silence) {FindNeighbors(embedding, lib_i, pred_i, knn, exclusionRadius = exclusionRadius, else 2L }, output_handler = knit_handlers(options$render, options)))
invokeRestart("muffleWarning") validLib = validLib, libOverlap = idx$libOverlap, backend = backend, 42: verbose = verbose)
3: SMap(dataFrame, columns, target, lib, pred, E = E, Tp = Tp, knn = knn, eng_r(options)
43: block_exec(params) tau = tau, theta = th, exclusionRadius = exclusionRadius, embedded = embedded, validLib = validLib, noTime = noTime, ignoreNan = ignoreNan, backend = backend)
4: ComputeError(predictions$Observations, predictions$Predictions)
5:
44: call_block(x)
45: }process_group(group)
46: SweepRho(SMap(dataFrame, columns, target, lib, pred, E = E, Tp = Tp, knn = knn, tau = tau, theta = th, exclusionRadius = exclusionRadius, embedded = embedded, validLib = validLib, noTime = noTime, ignoreNan = ignoreNan, backend = backend)$predictions)
6: FUN(X[[i]], ...)
7: lapply(X = S, FUN = FUN, ...)
8: doTryCatch(return(expr), name, parentenv, handler)
9: withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), }, error = function (cnd) tryCatchOne(expr, names, parentenv, handlers[[1L]]) error = function(e) {
if (progress && is.function(pb$interrupt)) { watcher$capture_plot_and_output() cnd <- sanitize_call(cnd) watcher$push(cnd) switch(on_error, continue = invokeRestart("eval_continue"), 10: pb$interrupt()tryCatchList(expr, classes, parentenv, handlers) if (is_R_CMD_build() || is_R_CMD_check()) error <<- format(e) })
47: with_options(withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) stop = invokeRestart("eval_stop"), error = NULL)})
28: eval(call)
29: eval(call)
30: with_handlers({ for (expr in tle$exprs) {
ev <- withVisible(eval(expr, envir)) watcher$capture_plot_and_output()11: watcher$print_value(ev$value, ev$visible, envir)tryCatch(expr, error = function(e) { } TRUE}, handlers)
31: doWithOneRestart(return(expr), restart)
pb$interrupt() if (is_R_CMD_build() || is_R_CMD_check()) 32: call <- conditionCall(e)withOneRestart(expr, restarts[[1L]]) error <<- format(e) if (!is.null(call)) {
33: withRestartList(expr, restarts[-nr]) if (identical(call[[1L]], quote(doTryCatch))) call <- sys.call(-4L) dcall <- deparse(call, nlines = 1L) prefix <- paste("Error in", dcall, ": ") LONG <- 75L sm <- strsplit(conditionMessage(e), "\n")[[1L]] w <- 14L + nchar(dcall, type = "w") + nchar(sm[1L], type = "w") if (is.na(w)) w <- 14L + nchar(dcall, type = "b") + nchar(sm[1L], }), list(rlang_trace_top_env = knit_global())) type = "b")
48: xfun:::handle_error(with_options(withCallingHandlers(if (tangle) process_tangle(group) else process_group(group),
error = function(e) { if (w > LONG) 34: if (progress && is.function(pb$interrupt)) pb$interrupt() if (is_R_CMD_build() || is_R_CMD_check()) error <<- format(e) }), list(rlang_trace_top_env = knit_global())), function(loc) { setwd(wd) write_utf8(res, output %n% stdout()) paste0("\nQuitting from ", loc, if (!is.null(error)) paste0("\n", rule(), error, "\n", rule()))}, if (labels[i] != "") sprintf(" [%s]", labels[i]), get_loc)
49: process_file(text, output)
50: knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet)
51: rmarkdown::render(file, encoding = encoding, quiet = quiet, envir = globalenv(), output_dir = getwd(), ...)
52: vweave_rmarkdown(...)
53: engine$weave(file, quiet = quiet, encoding = enc)
54: doTryCatch(return(expr), name, parentenv, handler) prefix <- paste0(prefix, "\n ")
doWithOneRestart(return(expr), restart)
35: withOneRestart(withRestartList(expr, restarts[-nr]), restarts[[nr]])
36: withRestartList(expr, restarts)
55: 37: tryCatchOne(expr, names, parentenv, handlers[[1L]])withRestarts(with_handlers({ } 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()) } for (expr in tle$exprs) {
56: tryCatchList(expr, classes, parentenv, handlers)
ev <- withVisible(eval(expr, envir)) invisible(structure(msg, class = "try-error", condition = e))})
12: try(lapply(X = S, FUN = FUN, ...), silent = TRUE)
13: sendMaster(try(lapply(X = S, FUN = FUN, ...), silent = TRUE))
14: FUN(X[[i]], ...)
15: lapply(seq_len(cores), inner.do)
16: parallel::mclapply(values, worker, mc.cores = cores, mc.preschedule = TRUE)
17: doTryCatch(return(expr), name, parentenv, handler)
18: tryCatchOne(expr, names, parentenv, handlers[[1L]])
19: tryCatchList(expr, classes, parentenv, handlers)
20: tryCatch(parallel::mclapply(values, worker, mc.cores = cores, mc.preschedule = TRUE), error = function(e) NULL)
21: SweepApply(theta, worker, numProcess) watcher$capture_plot_and_output()
57: watcher$print_value(ev$value, ev$visible, envir)tryCatch({22: engine$weave(file, quiet = quiet, encoding = enc) setwd(startdir) output <- find_vignette_product(name, by = "weave", engine = engine) if (!have.makefile && vignette_is_tex(output)) { texi2pdf(file = output, clean = FALSE, quiet = quiet) }unlist(SweepApply(theta, worker, numProcess))
output <- find_vignette_product(name, by = "texi2pdf", engine = engine) } outputs <- c(outputs, output)}, error = function(e) { thisOK <<- FALSE fails <<- c(fails, file) message(gettextf("Error: processing vignette '%s' failed with diagnostics:\n%s", file, conditionMessage(e)))})
58: tools::buildVignettes(dir = "/Volumes/Builds/packages/big-sur-arm64/results/4.5/rEDM.Rcheck/vign_test/rEDM", skip = TRUE, ser_elibs = "/Volumes/Temp/tmp/RtmpLBXk6U/file695b390a7387.rds")
An irrecoverable exception occurred. R is aborting now ...
23: PredictNonlinear(dataFrame = Thrips, columns = "Thrips_imaginis", target = "Thrips_imaginis", lib = "1 73", pred = "1 73", E = E, showPlot = TRUE)
24: eval(expr, envir)
25: eval(expr, envir) TRUE}, handlers), eval_continue = function() TRUE, eval_stop = function() FALSE)
38: evaluate::evaluate(...)
39: evaluate(code, envir = env, new_device = FALSE, keep_warning = if (is.numeric(options$warning)) TRUE else options$warning,
26: withVisible(eval(expr, envir))
27: withCallingHandlers(code, error = function (e) rlang::entrace(e), message = function (cnd) { keep_message = if (is.numeric(options$message)) TRUE else options$message, stop_on_error = if (is.numeric(options$error)) options$error else { if (options$error && options$include) 0L else 2L }, output_handler = knit_handlers(options$render, options))
watcher$capture_plot_and_output() if (on_message$capture) { watcher$push(cnd) } if (on_message$silence) { invokeRestart("muffleMessage") }}, warning = function (cnd) { if (getOption("warn") >= 2 || getOption("warn") < 0) { return() } watcher$capture_plot_and_output() if (on_warning$capture) {40: in_dir(input_dir(), expr)
cnd <- sanitize_call(cnd) watcher$push(cnd) } if (on_warning$silence) { invokeRestart("muffleWarning") }}, error = function (cnd) { watcher$capture_plot_and_output() cnd <- sanitize_call(cnd) watcher$push(cnd)41: switch(on_error, continue = invokeRestart("eval_continue"), stop = invokeRestart("eval_stop"), error = NULL)})in_input_dir(evaluate(code, envir = env, new_device = FALSE, keep_warning = if (is.numeric(options$warning)) TRUE else options$warning, keep_message = if (is.numeric(options$message)) TRUE else options$message, stop_on_error = if (is.numeric(options$error)) options$error else { if (options$error && options$include) 0L else 2L }, output_handler = knit_handlers(options$render, options)))
28: eval(call)
29: 42: eng_r(options)
43: block_exec(params)eval(call)
30: with_handlers({ for (expr in tle$exprs) { ev <- withVisible(eval(expr, envir))
44: call_block(x)
45: watcher$capture_plot_and_output() watcher$print_value(ev$value, ev$visible, envir) } TRUE}, handlers)
process_group(group)
46: withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() if (is_R_CMD_build() || is_R_CMD_check()) error <<- format(e)31: doWithOneRestart(return(expr), restart)
32: })
47: with_options(withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() if (is_R_CMD_build() || is_R_CMD_check()) error <<- format(e) }), list(rlang_trace_top_env = knit_global()))
48: xfun:::handle_error(with_options(withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() if (is_R_CMD_build() || is_R_CMD_check()) error <<- format(e) }), list(rlang_trace_top_env = knit_global())), function(loc) { setwd(wd) write_utf8(res, output %n% stdout()) paste0("\nQuitting from ", loc, if (!is.null(error)) paste0("\n", rule(), error, "\n", rule()))}, if (labels[i] != "") sprintf(" [%s]", labels[i]), get_loc)
49: process_file(text, output)
50: withOneRestart(expr, restarts[[1L]])
33: withRestartList(expr, restarts[-nr])
34: doWithOneRestart(return(expr), restart)knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet)
51: rmarkdown::render(file, encoding = encoding, quiet = quiet, envir = globalenv(), output_dir = getwd(), ...)
35: withOneRestart(withRestartList(expr, restarts[-nr]), restarts[[nr]])
52: vweave_rmarkdown(...)
53: engine$weave(file, quiet = quiet, encoding = enc)
54: doTryCatch(return(expr), name, parentenv, handler)
55: tryCatchOne(expr, names, parentenv, handlers[[1L]])36:
56: tryCatchList(expr, classes, parentenv, handlers)
57: tryCatch({ engine$weave(file, quiet = quiet, encoding = enc) setwd(startdir) output <- find_vignette_product(name, by = "weave", engine = engine) if (!have.makefile && vignette_is_tex(output)) { texi2pdf(file = output, clean = FALSE, quiet = quiet) output <- find_vignette_product(name, by = "texi2pdf", withRestartList(expr, restarts)
37: withRestarts(with_handlers({ for (expr in tle$exprs) { ev <- withVisible(eval(expr, envir)) watcher$capture_plot_and_output() watcher$print_value(ev$value, ev$visible, envir) } TRUE}, handlers), eval_continue = function() TRUE, eval_stop = function() FALSE)
38: evaluate::evaluate(...)
39: evaluate(code, envir = env, new_device = FALSE, keep_warning = if (is.numeric(options$warning)) TRUE else options$warning, keep_message = if (is.numeric(options$message)) TRUE else options$message, stop_on_error = if (is.numeric(options$error)) options$error else { if (options$error && options$include) engine = engine) } 0L else 2L }, output_handler = knit_handlers(options$render, options))
40: in_dir(input_dir(), expr) outputs <- c(outputs, output)}, error = function(e) { thisOK <<- FALSE fails <<- c(fails, file) message(gettextf("Error: processing vignette '%s' failed with diagnostics:\n%s",
41: in_input_dir(evaluate(code, envir = env, new_device = FALSE, keep_warning = if (is.numeric(options$warning)) TRUE else options$warning, keep_message = if (is.numeric(options$message)) TRUE else options$message, stop_on_error = if (is.numeric(options$error)) options$error else { if (options$error && options$include) 0L else 2L }, output_handler = knit_handlers(options$render, options)))
42: eng_r(options)
43: block_exec(params)
44: call_block(x)
45: process_group(group)
46: withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() if (is_R_CMD_build() || is_R_CMD_check()) error <<- format(e) })
47: with_options(withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() if (is_R_CMD_build() || is_R_CMD_check()) error <<- format(e) }), list(rlang_trace_top_env = knit_global()))
48: xfun:::handle_error(with_options(withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() file, conditionMessage(e)))})
58: tools::buildVignettes(dir = "/Volumes/Builds/packages/big-sur-arm64/results/4.5/rEDM.Rcheck/vign_test/rEDM", if (is_R_CMD_build() || is_R_CMD_check()) error <<- format(e) }), list(rlang_trace_top_env = knit_global())), function(loc) { skip = TRUE, ser_elibs = "/Volumes/Temp/tmp/RtmpLBXk6U/file695b390a7387.rds")
An irrecoverable exception occurred. R is aborting now ...
setwd(wd) write_utf8(res, output %n% stdout()) paste0("\nQuitting from ", loc, if (!is.null(error)) paste0("\n", rule(), error, "\n", rule()))}, if (labels[i] != "") sprintf(" [%s]", labels[i]), get_loc)
49: process_file(text, output)
50: knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet)
51: rmarkdown::render(file, encoding = encoding, quiet = quiet, envir = globalenv(), output_dir = getwd(), ...)
52: vweave_rmarkdown(...)
53: engine$weave(file, quiet = quiet, encoding = enc)
54: doTryCatch(return(expr), name, parentenv, handler)
55: tryCatchOne(expr, names, parentenv, handlers[[1L]])
56: tryCatchList(expr, classes, parentenv, handlers)
57: tryCatch({ engine$weave(file, quiet = quiet, encoding = enc) setwd(startdir) output <- find_vignette_product(name, by = "weave", engine = engine) if (!have.makefile && vignette_is_tex(output)) { texi2pdf(file = output, clean = FALSE, quiet = quiet) output <- find_vignette_product(name, by = "texi2pdf", engine = engine) } outputs <- c(outputs, output)}, error = function(e) { thisOK <<- FALSE fails <<- c(fails, file) message(gettextf("Error: processing vignette '%s' failed with diagnostics:\n%s", file, conditionMessage(e)))})
58: tools::buildVignettes(dir = "/Volumes/Builds/packages/big-sur-arm64/results/4.5/rEDM.Rcheck/vign_test/rEDM", skip = TRUE, ser_elibs = "/Volumes/Temp/tmp/RtmpLBXk6U/file695b390a7387.rds")
An irrecoverable exception occurred. R is aborting now ...
Quitting from rEDM-tutorial.Rmd:466-469 [smap_thrips]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `data.frame()`:
! arguments imply differing number of rows: 15, 0
---
Backtrace:
▆
1. └─rEDM::PredictNonlinear(...)
2. └─base::data.frame(Theta = theta, rho = rho)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'rEDM-tutorial.Rmd' failed with diagnostics:
arguments imply differing number of rows: 15, 0
--- failed re-building ‘rEDM-tutorial.Rmd’
SUMMARY: processing the following file failed:
‘rEDM-tutorial.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-oldrel-macos-arm64