Last updated on 2026-08-01 12:50:57 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 | 2.36 | 235.21 | 237.57 | 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 | 1.15.4 | 142.34 | 69.33 | 211.67 | NOTE | |
| 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 | 42.00 | 43.00 | 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, r-release-linux-x86_64
Version: 2.0.1
Check: for new files in some other directories
Result: NOTE
Found the following files/directories:
‘~/tmp/scratch/Rtmp07svct’ ‘~/tmp/scratch/Rtmp36Rurv’
‘~/tmp/scratch/Rtmp3fUpeh’ ‘~/tmp/scratch/Rtmp3jVFNo’
‘~/tmp/scratch/Rtmp4LSQJx’ ‘~/tmp/scratch/Rtmp4OoPjg’
‘~/tmp/scratch/Rtmp4gnUOT’ ‘~/tmp/scratch/Rtmp51cHfh’
‘~/tmp/scratch/Rtmp5z6MfT’ ‘~/tmp/scratch/Rtmp66HHYr’
‘~/tmp/scratch/Rtmp6BZzY9’ ‘~/tmp/scratch/Rtmp8Xj2IO’
‘~/tmp/scratch/Rtmp8jdcvX’ ‘~/tmp/scratch/Rtmp9O06tk’
‘~/tmp/scratch/Rtmp9mSMlp’ ‘~/tmp/scratch/Rtmp9n49kY’
‘~/tmp/scratch/Rtmp9rOs3X’ ‘~/tmp/scratch/RtmpAHmf97’
‘~/tmp/scratch/RtmpAOA05P’ ‘~/tmp/scratch/RtmpAjGCpl’
‘~/tmp/scratch/RtmpAzuQpl’ ‘~/tmp/scratch/RtmpBBViS4’
‘~/tmp/scratch/RtmpBWCo8D’ ‘~/tmp/scratch/RtmpBmnRh1’
‘~/tmp/scratch/RtmpC76Rjz’ ‘~/tmp/scratch/RtmpCR6Hx7’
‘~/tmp/scratch/RtmpCy0glI’ ‘~/tmp/scratch/RtmpDOLvqC’
‘~/tmp/scratch/RtmpE5PP6d’ ‘~/tmp/scratch/RtmpEnlbuU’
‘~/tmp/scratch/RtmpG4gfF5’ ‘~/tmp/scratch/RtmpGuAvYz’
‘~/tmp/scratch/RtmpH1sAvh’ ‘~/tmp/scratch/RtmpI7KNPC’
‘~/tmp/scratch/RtmpIIgbjc’ ‘~/tmp/scratch/RtmpIJvc4F’
‘~/tmp/scratch/RtmpISEHvA’ ‘~/tmp/scratch/RtmpIiEvk3’
‘~/tmp/scratch/RtmpIkg9o0’ ‘~/tmp/scratch/RtmpJcjIhx’
‘~/tmp/scratch/RtmpK0esL8’ ‘~/tmp/scratch/RtmpK75zBG’
‘~/tmp/scratch/RtmpKMKFQP’ ‘~/tmp/scratch/RtmpKZ9LEv’
‘~/tmp/scratch/RtmpKbxRCh’ ‘~/tmp/scratch/RtmpKiGiFL’
‘~/tmp/scratch/RtmpL2p3Ei’ ‘~/tmp/scratch/RtmpL4ezOS’
‘~/tmp/scratch/RtmpLCFbdR’ ‘~/tmp/scratch/RtmpLilAee’
‘~/tmp/scratch/RtmpLy3SuM’ ‘~/tmp/scratch/RtmpMSfG0X’
‘~/tmp/scratch/RtmpMUZnNQ’ ‘~/tmp/scratch/RtmpMZv2Hj’
‘~/tmp/scratch/RtmpN9VIt9’ ‘~/tmp/scratch/RtmpNH0Yrf’
‘~/tmp/scratch/RtmpNqeEoC’ ‘~/tmp/scratch/RtmpNwDRA7’
‘~/tmp/scratch/RtmpOAGZMK’ ‘~/tmp/scratch/RtmpOT0zzZ’
‘~/tmp/scratch/RtmpOgbN44’ ‘~/tmp/scratch/RtmpOprGc8’
‘~/tmp/scratch/RtmpQ7FcVy’ ‘~/tmp/scratch/RtmpQFSGKk’
‘~/tmp/scratch/RtmpRFRa7B’ ‘~/tmp/scratch/RtmpRanYSS’
‘~/tmp/scratch/RtmpRfc7hd’ ‘~/tmp/scratch/RtmpRyBldN’
‘~/tmp/scratch/RtmpS4AAte’ ‘~/tmp/scratch/RtmpStDTmG’
‘~/tmp/scratch/RtmpSy56jV’ ‘~/tmp/scratch/RtmpSyTZqU’
‘~/tmp/scratch/RtmpT2qIC8’ ‘~/tmp/scratch/RtmpTGQOB5’
‘~/tmp/scratch/RtmpTzmne7’ ‘~/tmp/scratch/RtmpUL54K7’
‘~/tmp/scratch/RtmpURUiXN’ ‘~/tmp/scratch/RtmpUaWpCO’
‘~/tmp/scratch/RtmpUz62HC’ ‘~/tmp/scratch/RtmpVAGgB1’
‘~/tmp/scratch/RtmpVtyQ2M’ ‘~/tmp/scratch/RtmpW2PJTO’
‘~/tmp/scratch/RtmpWKKbuD’ ‘~/tmp/scratch/RtmpWTLkGM’
‘~/tmp/scratch/RtmpWuqTlc’ ‘~/tmp/scratch/RtmpY1lqGy’
‘~/tmp/scratch/RtmpYfessv’ ‘~/tmp/scratch/RtmpZ4NuIV’
‘~/tmp/scratch/RtmpZJ7lBt’ ‘~/tmp/scratch/RtmpZsTS8Q’
‘~/tmp/scratch/Rtmpa6BhBj’ ‘~/tmp/scratch/RtmpaeLhnO’
‘~/tmp/scratch/RtmpbZ1oUt’ ‘~/tmp/scratch/RtmpbghYlp’
‘~/tmp/scratch/RtmpcAxBcG’ ‘~/tmp/scratch/RtmpdkyyyV’
‘~/tmp/scratch/RtmpdnTtXG’ ‘~/tmp/scratch/RtmpdzkVog’
‘~/tmp/scratch/RtmpeVAnRD’ ‘~/tmp/scratch/RtmpeqQx6J’
‘~/tmp/scratch/RtmpfyipGj’ ‘~/tmp/scratch/RtmpgCQfFF’
‘~/tmp/scratch/RtmpgJdE2w’ ‘~/tmp/scratch/RtmpgcKUk8’
‘~/tmp/scratch/RtmpgojheX’ ‘~/tmp/scratch/Rtmph2qiA3’
‘~/tmp/scratch/RtmphUGW2d’ ‘~/tmp/scratch/RtmphfIXcC’
‘~/tmp/scratch/RtmphrFqy4’ ‘~/tmp/scratch/RtmphrPgv8’
‘~/tmp/scratch/RtmphxKU7m’ ‘~/tmp/scratch/Rtmpi4TiBI’
‘~/tmp/scratch/RtmpiK07Og’ ‘~/tmp/scratch/Rtmpih3jEf’
‘~/tmp/scratch/RtmpjeU1Qv’ ‘~/tmp/scratch/RtmpjkbNxz’
‘~/tmp/scratch/RtmpjlEYmh’ ‘~/tmp/scratch/RtmplRuX9E’
‘~/tmp/scratch/RtmplXrLbG’ ‘~/tmp/scratch/RtmplmvSFt’
‘~/tmp/scratch/Rtmplv09ju’ ‘~/tmp/scratch/RtmpmLtarS’
‘~/tmp/scratch/Rtmpn8BBs7’ ‘~/tmp/scratch/Rtmpo8TFaV’
‘~/tmp/scratch/RtmpoLGzfs’ ‘~/tmp/scratch/RtmposorVN’
‘~/tmp/scratch/Rtmpp1c743’ ‘~/tmp/scratch/Rtmpp6wW9k’
‘~/tmp/scratch/RtmppNd98m’ ‘~/tmp/scratch/RtmppcWsYn’
‘~/tmp/scratch/Rtmpq4f4Sq’ ‘~/tmp/scratch/RtmpqAMUnC’
‘~/tmp/scratch/RtmpsIXtLH’ ‘~/tmp/scratch/Rtmpss9RVA’
‘~/tmp/scratch/Rtmpssrdrq’ ‘~/tmp/scratch/Rtmpsu05Ez’
‘~/tmp/scratch/RtmpsuTLsh’ ‘~/tmp/scratch/Rtmpt8UjK4’
‘~/tmp/scratch/RtmptCL6yx’ ‘~/tmp/scratch/RtmptTEkf3’
‘~/tmp/scratch/RtmptWlTuY’ ‘~/tmp/scratch/RtmptbhGlX’
‘~/tmp/scratch/Rtmptzrzdx’ ‘~/tmp/scratch/Rtmpu1VfxQ’
‘~/tmp/scratch/RtmpuBsbdz’ ‘~/tmp/scratch/RtmpuCaPqV’
‘~/tmp/scratch/RtmpuqTViq’ ‘~/tmp/scratch/Rtmpuv5Ye5’
‘~/tmp/scratch/RtmpuvAJHg’ ‘~/tmp/scratch/RtmpvSU54v’
‘~/tmp/scratch/RtmpvgE2sr’ ‘~/tmp/scratch/RtmpwEA6zC’
‘~/tmp/scratch/RtmpwMK14v’ ‘~/tmp/scratch/RtmpwXrMDr’
‘~/tmp/scratch/RtmpyQMTLA’ ‘~/tmp/scratch/RtmpyUBVgq’
‘~/tmp/scratch/RtmpztIfF4’ ‘~/tmp/scratch/RtmpzzB3kc’
‘~/tmp/scratch/ccEbLwad.s’ ‘~/tmp/scratch/xvfb-run.1O9ooI’
‘~/tmp/scratch/xvfb-run.2ZqdZd’ ‘~/tmp/scratch/xvfb-run.3n2jr5’
‘~/tmp/scratch/xvfb-run.3r5BjP’ ‘~/tmp/scratch/xvfb-run.3yoNXO’
‘~/tmp/scratch/xvfb-run.4AtJSX’ ‘~/tmp/scratch/xvfb-run.6icTfH’
‘~/tmp/scratch/xvfb-run.8EQ76U’ ‘~/tmp/scratch/xvfb-run.8aNfzG’
‘~/tmp/scratch/xvfb-run.8mSKc1’ ‘~/tmp/scratch/xvfb-run.9qb5o2’
‘~/tmp/scratch/xvfb-run.A1FIeK’ ‘~/tmp/scratch/xvfb-run.ATQSlK’
‘~/tmp/scratch/xvfb-run.BjusI3’ ‘~/tmp/scratch/xvfb-run.BnJn5c’
‘~/tmp/scratch/xvfb-run.Ci6z4X’ ‘~/tmp/scratch/xvfb-run.DKHrHL’
‘~/tmp/scratch/xvfb-run.FtO17e’ ‘~/tmp/scratch/xvfb-run.GKskbL’
‘~/tmp/scratch/xvfb-run.HFXfMb’ ‘~/tmp/scratch/xvfb-run.HZMmWv’
‘~/tmp/scratch/xvfb-run.Jqs81J’ ‘~/tmp/scratch/xvfb-run.L78Oun’
‘~/tmp/scratch/xvfb-run.Lz3X0z’ ‘~/tmp/scratch/xvfb-run.MBjT4j’
‘~/tmp/scratch/xvfb-run.MC1Pa8’ ‘~/tmp/scratch/xvfb-run.NZJa0L’
‘~/tmp/scratch/xvfb-run.NfJTQM’ ‘~/tmp/scratch/xvfb-run.OxAKLE’
‘~/tmp/scratch/xvfb-run.PAyZid’ ‘~/tmp/scratch/xvfb-run.SFubeT’
‘~/tmp/scratch/xvfb-run.SQlp0B’ ‘~/tmp/scratch/xvfb-run.SclYA3’
‘~/tmp/scratch/xvfb-run.UGdwqR’ ‘~/tmp/scratch/xvfb-run.VOBDvp’
‘~/tmp/scratch/xvfb-run.Vhnc4k’ ‘~/tmp/scratch/xvfb-run.WC7vp7’
‘~/tmp/scratch/xvfb-run.WOCDQK’ ‘~/tmp/scratch/xvfb-run.Xp2U5u’
‘~/tmp/scratch/xvfb-run.YIZlJO’ ‘~/tmp/scratch/xvfb-run.aXYkRb’
‘~/tmp/scratch/xvfb-run.aY0NYI’ ‘~/tmp/scratch/xvfb-run.b8ee6j’
‘~/tmp/scratch/xvfb-run.bAv6lo’ ‘~/tmp/scratch/xvfb-run.bIOyyC’
‘~/tmp/scratch/xvfb-run.bTLRi3’ ‘~/tmp/scratch/xvfb-run.d0Eqn9’
‘~/tmp/scratch/xvfb-run.eAVb29’ ‘~/tmp/scratch/xvfb-run.f3gMLq’
‘~/tmp/scratch/xvfb-run.ifEw1e’ ‘~/tmp/scratch/xvfb-run.imEHv3’
‘~/tmp/scratch/xvfb-run.ipFeZa’ ‘~/tmp/scratch/xvfb-run.mSLk0U’
‘~/tmp/scratch/xvfb-run.nVOzDv’ ‘~/tmp/scratch/xvfb-run.ngMvQT’
‘~/tmp/scratch/xvfb-run.oFNNLH’ ‘~/tmp/scratch/xvfb-run.pb6ktZ’
‘~/tmp/scratch/xvfb-run.qFXGVS’ ‘~/tmp/scratch/xvfb-run.r0EBXP’
‘~/tmp/scratch/xvfb-run.rIxLdi’ ‘~/tmp/scratch/xvfb-run.rsOFVs’
‘~/tmp/scratch/xvfb-run.tVsBi1’ ‘~/tmp/scratch/xvfb-run.u4ekLx’
‘~/tmp/scratch/xvfb-run.usl54o’ ‘~/tmp/scratch/xvfb-run.vEfV66’
‘~/tmp/scratch/xvfb-run.vsiLtb’ ‘~/tmp/scratch/xvfb-run.wAX76F’
‘~/tmp/scratch/xvfb-run.wb2o5y’ ‘~/tmp/scratch/xvfb-run.x6Bc3h’
‘~/tmp/scratch/xvfb-run.xAS84D’ ‘~/tmp/scratch/xvfb-run.xcoiWG’
‘~/tmp/scratch/xvfb-run.xhBdj8’ ‘~/tmp/scratch/xvfb-run.xxLfDY’
‘~/tmp/scratch/xvfb-run.zwAUvm’
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
2026-08-01 19:59:59.111 R[41373:60455] 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$weave(file, quiet = quiet, encoding = enc)
54: doTryCatch(return(expr), name, parentenv, handler)
55: tryCatchOne(expr, names, parentenv, handlers[[1L]])
56: tryCatchList(expr, classes, parentenv, handlers)
57: tryCatch({ engine$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/Rtmp5Pgobs/file6a754cbc56de.rds")
An irrecoverable exception occurred. R is aborting now ...
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)
Traceback:
1: RowCumsum(valid)
2: FindNeighbors(embedding, lib_i, pred_i, knn, exclusionRadius = exclusionRadius, 43: block_exec(params)
44: call_block(x)
45: process_group(group)
Traceback:
1: RowCumsum(valid)46: withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { validLib = validLib, libOverlap = idx$libOverlap, backend = backend,
2: verbose = verbose) if (progress && is.function(pb$interrupt)) pb$interrupt()FindNeighbors(embedding, lib_i, pred_i, knn, exclusionRadius = exclusionRadius, validLib = validLib, libOverlap = idx$libOverlap, backend = backend, 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() verbose = verbose) if (is_R_CMD_build() || is_R_CMD_check())
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)$predictions)
6: 3: SMap(dataFrame, columns, target, lib, pred, E = E, Tp = Tp, knn = knn, tau = tau, theta = th, exclusionRadius = exclusionRadius, embedded = embedded, validLib = validLib, noTime = noTime, ignoreNan = ignoreNan, backend = backend)
error <<- format(e) }), list(rlang_trace_top_env = knit_global())), function(loc) { setwd(wd) write_utf8(res, output %n% stdout()) paste0("\nQuitting from ", loc, if (!is.null(error)) paste0("\n", rule(), error, "\n", rule()))}, if (labels[i] != "") sprintf(" [%s]", labels[i]), get_loc)
49: process_file(text, output)
50: knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet)
51: 4: ComputeError(predictions$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)
FUN(X[[i]], ...) 6: FUN(X[[i]], ...)
7: lapply(X = S, FUN = FUN, ...)
8: doTryCatch(return(expr), name, parentenv, handler)
9: rmarkdown::render(file, encoding = encoding, quiet = quiet, envir = globalenv(), output_dir = getwd(), ...)tryCatchOne(expr, names, parentenv, handlers[[1L]])
10: tryCatchList(expr, classes, parentenv, handlers)
52: vweave_rmarkdown(...)
53: engine$weave(file, quiet = quiet, encoding = enc)
54: doTryCatch(return(expr), name, parentenv, handler)
55: tryCatchOne(expr, names, parentenv, handlers[[1L]])
56: tryCatchList(expr, classes, parentenv, handlers)
57: 11: tryCatch({ engine$weave(file, quiet = quiet, encoding = enc) setwd(startdir) output <- find_vignette_product(name, by = "weave", engine = engine) if (!have.makefile && vignette_is_tex(output)) { 7: lapply(X = S, FUN = FUN, ...) texi2pdf(file = output, clean = FALSE, quiet = quiet) output <- find_vignette_product(name, by = "texi2pdf", engine = engine) } outputs <- c(outputs, output)}, error = function(e) { thisOK <<- FALSEtryCatch(expr, error = function(e) { fails <<- c(fails, file) message(gettextf("Error: processing vignette '%s' failed with diagnostics:\n%s",
8: doTryCatch(return(expr), name, parentenv, handler)
9: call <- conditionCall(e)tryCatchOne(expr, names, parentenv, handlers[[1L]])
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/Rtmp5Pgobs/file6a754cbc56de.rds")
An irrecoverable exception occurred. R is aborting now ...
if (!is.null(call)) { if (identical(call[[1L]], quote(doTryCatch))) call <- sys.call(-4L)10: tryCatchList(expr, classes, parentenv, handlers)
11: tryCatch(expr, error = function(e) { 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") call <- conditionCall(e) if (is.na(w)) w <- 14L + nchar(dcall, type = "b") + nchar(sm[1L], type = "b") if (w > LONG) prefix <- paste0(prefix, "\n ") } if (!is.null(call)) { if (identical(call[[1L]], quote(doTryCatch))) call <- sys.call(-4L) 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: dcall <- deparse(call, nlines = 1L)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)
prefix <- paste("Error in", dcall, ": ")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", 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 ") E = E, showPlot = TRUE)
24: eval(expr, envir)
25: eval(expr, envir)
26: withVisible(eval(expr, envir))
} else prefix <- "Error : " msg <- paste0(prefix, conditionMessage(e), "\n")27: withCallingHandlers(code, error = function (e) rlang::entrace(e), message = function (cnd) { watcher$capture_plot_and_output() if (on_message$capture) { watcher$push(cnd) } .Internal(seterrmessage(msg[1L])) if (!silent && isTRUE(getOption("show.error.messages"))) { cat(msg, file = outFile) .Internal(printDeferredWarnings()) } invisible(structure(msg, class = "try-error", condition = e))})
12: if (on_message$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$push(cnd) }try(lapply(X = S, FUN = FUN, ...), silent = TRUE)
13: sendMaster(try(lapply(X = S, FUN = FUN, ...), silent = TRUE))
14: FUN(X[[i]], ...)
15: lapply(seq_len(cores), inner.do)
16: parallel::mclapply(values, worker, mc.cores = cores, mc.preschedule = TRUE) if (on_warning$silence) { invokeRestart("muffleWarning") }}, error = function (cnd) {
17: doTryCatch(return(expr), name, parentenv, handler)
18: tryCatchOne(expr, names, parentenv, handlers[[1L]])
19: tryCatchList(expr, classes, parentenv, handlers)
20: 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)})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",
28: eval(call) 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()
29: eval(call)
30: }with_handlers({ for (expr in tle$exprs) { watcher$capture_plot_and_output() if (on_warning$capture) { cnd <- sanitize_call(cnd) watcher$push(cnd) ev <- withVisible(eval(expr, envir)) watcher$capture_plot_and_output() } if (on_warning$silence) { invokeRestart("muffleWarning") } watcher$print_value(ev$value, ev$visible, envir) } TRUE}, error = function (cnd) { watcher$capture_plot_and_output()}, handlers)
31: doWithOneRestart(return(expr), restart)
cnd <- sanitize_call(cnd) watcher$push(cnd) switch(on_error, continue = invokeRestart("eval_continue"), stop = invokeRestart("eval_stop"), error = NULL)})
28: eval(call)
29: 32: withOneRestart(expr, restarts[[1L]])
33: withRestartList(expr, restarts[-nr])
34: doWithOneRestart(return(expr), restart)
35: withOneRestart(withRestartList(expr, restarts[-nr]), restarts[[nr]])
36: eval(call)
30: with_handlers({ for (expr in tle$exprs) { ev <- withVisible(eval(expr, envir))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$visible, envir) } watcher$capture_plot_and_output() watcher$print_value(ev$value, ev$visible, envir) } TRUE TRUE}, handlers), eval_continue = function() TRUE, eval_stop = function() FALSE)
38: evaluate::evaluate(...)
39: }, handlers)
31: doWithOneRestart(return(expr), restart)
evaluate(code, envir = env, new_device = FALSE, keep_warning = if (is.numeric(options$warning)) TRUE else options$warning, keep_message = if (is.numeric(options$message)) TRUE else options$message, 32: withOneRestart(expr, restarts[[1L]])
33: withRestartList(expr, restarts[-nr])
34: doWithOneRestart(return(expr), restart)
35: withOneRestart(withRestartList(expr, restarts[-nr]), restarts[[nr]])
stop_on_error = if (is.numeric(options$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 {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$visible, envir) } TRUE}, handlers), eval_continue = function() TRUE, eval_stop = function() FALSE)
if (options$error && options$include) 0L else 2L }, output_handler = knit_handlers(options$render, options)))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$error else {42: eng_r(options)
43: block_exec(params)
44: call_block(x)
45: process_group(group)
46: if (options$error && options$include) withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$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$interrupt() if (is_R_CMD_build() || is_R_CMD_check()) error <<- format(e) }), list(rlang_trace_top_env = knit_global())) 0L else 2L
48: xfun:::handle_error(with_options(withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), }, output_handler = knit_handlers(options$render, options)))
42: 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()))eng_r(options)
43: }, if (labels[i] != "") sprintf(" [%s]", labels[i]), get_loc)
49: block_exec(params)
44: call_block(x)
45: process_group(group)
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$weave(file, quiet = quiet, encoding = enc)
46: withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$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$interrupt() if (is_R_CMD_build() || is_R_CMD_check()) 54: doTryCatch(return(expr), name, parentenv, handler)
error <<- format(e) }), list(rlang_trace_top_env = knit_global()))
48: xfun:::handle_error(with_options(withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) {55: tryCatchOne(expr, names, parentenv, handlers[[1L]])
56: tryCatchList(expr, classes, parentenv, handlers)
57: tryCatch({ engine$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/Rtmp5Pgobs/file6a754cbc56de.rds")
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)An irrecoverable exception occurred. R is aborting now ...
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/Rtmp5Pgobs/file6a754cbc56de.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