Last updated on 2026-08-01 05:55:31 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.1.4 | 15.31 | 132.36 | 147.67 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.1.4 | 8.60 | 98.22 | 106.82 | NOTE | |
| r-devel-linux-x86_64-fedora-clang | 1.1.4 | 20.00 | 209.71 | 229.71 | OK | |
| r-devel-linux-x86_64-fedora-gcc | 1.1.4 | 9.00 | 91.13 | 100.13 | OK | |
| r-devel-windows-x86_64 | 1.1.4 | 19.00 | 183.00 | 202.00 | OK | |
| r-patched-linux-x86_64 | 1.1.4 | 13.60 | 123.42 | 137.02 | OK | |
| r-release-linux-x86_64 | 1.1.4 | 13.32 | 124.66 | 137.98 | OK | |
| r-release-macos-arm64 | 1.1.4 | 4.00 | 43.00 | 47.00 | OK | |
| r-release-macos-x86_64 | 1.1.4 | 12.00 | 228.00 | 240.00 | OK | |
| r-release-windows-x86_64 | 1.1.4 | 20.00 | 189.00 | 209.00 | OK | |
| r-oldrel-macos-arm64 | 1.1.4 | 3.00 | 39.00 | 42.00 | ERROR | |
| r-oldrel-macos-x86_64 | 1.1.4 | 11.00 | 137.00 | 148.00 | OK | |
| r-oldrel-windows-x86_64 | 1.1.4 | 23.00 | 211.00 | 234.00 | OK |
Version: 1.1.4
Check: for new files in some other directories
Result: NOTE
Found the following files/directories:
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Flavor: r-devel-linux-x86_64-debian-gcc
Version: 1.1.4
Check: examples
Result: ERROR
Running examples in ‘cxreg-Ex.R’ failed
The error most likely occurred in:
> ### Name: cglasso
> ### Title: fit a complex-valued graphical lasso
> ### Aliases: cglasso
> ### Keywords: complex-valued matrix models precision
>
> ### ** Examples
>
> p <- 30
> n <- 500
> C <- diag(0.7, p)
> C[row(C) == col(C) + 1] <- 0.3
> C[row(C) == col(C) - 1] <- 0.3
> Sigma <- solve(C)
> set.seed(1010)
> m <- floor(sqrt(n)); j <- 1
> X_t <- mvtnorm::rmvnorm(n = n, mean = rep(0, p), sigma = Sigma)
> d_j <- dft.j(X_t,j,m)
> f_j_hat <- t(d_j) %*% Conj(d_j) / (2*m+1)
> fit <- cglasso(S=f_j_hat, m=floor(sqrt(n)))
*** caught segfault ***
address 0x6, cause 'invalid permissions'
Traceback:
1: eigen(Theta_hat)
2: EBIC_G_trimmed(S, Theta_hat, m, g = 0.5)
3: cglasso.path(S, D, type, m, lambda, nlambda, lambda.min.ratio, W.init, stopping_rule, stop_criterion, maxit = maxit, thresh = thresh, trace.it = trace.it)
4: cglasso(S = f_j_hat, m = floor(sqrt(n)))
An irrecoverable exception occurred. R is aborting now ...
Flavor: r-oldrel-macos-arm64
Version: 1.1.4
Check: tests
Result: ERROR
Running ‘testthat.R’ [1s/1s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(cxreg)
>
> test_check("cxreg")
*** caught segfault ***
address 0x27, cause 'invalid permissions'
Traceback:
1: eigen(Theta_hat)
2: AIC(S, Theta_hat, m)
3: cglasso.path(S, D, type, m, lambda, nlambda, lambda.min.ratio, W.init, stopping_rule, stop_criterion, maxit = maxit, thresh = thresh, trace.it = trace.it)
4: cglasso(S = f_j_hat, m = m, nlambda = 20, stop_criterion = "AIC", stopping_rule = FALSE)
5: eval(code, test_env)
6: eval(code, test_env)
7: withCallingHandlers({ eval(code, test_env) new_expectations <- the$test_expectations > starting_expectations if (snapshot_skipped) { skip("On CRAN") } else if (!new_expectations && skip_on_empty) { skip_empty() }}, expectation = handle_expectation, packageNotFoundError = function(e) { if (on_cran()) { skip(paste0("{", e$package, "} is not installed.")) }}, snapshot_on_cran = function(cnd) { snapshot_skipped <<- TRUE invokeRestart("muffle_cran_snapshot")}, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error, interrupt = handle_interrupt)
8: doTryCatch(return(expr), name, parentenv, handler)
9: tryCatchOne(expr, names, parentenv, handlers[[1L]])
10: tryCatchList(expr, classes, parentenv, handlers)
11: tryCatch(withCallingHandlers({ eval(code, test_env) new_expectations <- the$test_expectations > starting_expectations if (snapshot_skipped) { skip("On CRAN") } else if (!new_expectations && skip_on_empty) { skip_empty() }}, expectation = handle_expectation, packageNotFoundError = function(e) { if (on_cran()) { skip(paste0("{", e$package, "} is not installed.")) }}, snapshot_on_cran = function(cnd) { snapshot_skipped <<- TRUE invokeRestart("muffle_cran_snapshot")}, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error, interrupt = handle_interrupt), error = handle_fatal)
12: doWithOneRestart(return(expr), restart)
13: withOneRestart(expr, restarts[[1L]])
14: withRestarts(tryCatch(withCallingHandlers({ eval(code, test_env) new_expectations <- the$test_expectations > starting_expectations if (snapshot_skipped) { skip("On CRAN") } else if (!new_expectations && skip_on_empty) { skip_empty() }}, expectation = handle_expectation, packageNotFoundError = function(e) { if (on_cran()) { skip(paste0("{", e$package, "} is not installed.")) }}, snapshot_on_cran = function(cnd) { snapshot_skipped <<- TRUE invokeRestart("muffle_cran_snapshot")}, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error, interrupt = handle_interrupt), error = handle_fatal), end_test = function() { })
15: test_code(code, parent.frame())
16: test_that("cglasso works", { rmvnorm_manual <- function(n, p, Sigma) { D <- chol(Sigma) return(matrix(rnorm(n * p), ncol = p) %*% D) } p <- 40 n <- 500 C <- diag(0.8, p) C[row(C) == col(C) + 1] <- -0.2 C[row(C) == col(C) - 1] <- -0.2 Sigma <- solve(C) set.seed(1234) X_t <- rmvnorm_manual(n, p, Sigma) m <- floor(sqrt(n)) j <- 1 d_j <- dft.j(X_t, j, m) f_j_hat <- t(d_j) %*% Conj(d_j)/(2 * m + 1) fit <- cglasso(S = f_j_hat, m = m, nlambda = 20, stop_criterion = "AIC", stopping_rule = FALSE) expect_length(fit$stop_arr, 20) expect_equal(fit$stop_criterion, "AIC") expect_true(is.numeric(fit$min_index)) expect_length(fit$lambda_grid, 20) expect_true(is.list(fit$Theta_list)) expect_equal(fit$type, "I") expect_true(is.matrix(fit$D))})
17: eval(code, test_env)
18: eval(code, test_env)
19: withCallingHandlers({ eval(code, test_env) new_expectations <- the$test_expectations > starting_expectations if (snapshot_skipped) { skip("On CRAN") } else if (!new_expectations && skip_on_empty) { skip_empty() }}, expectation = handle_expectation, packageNotFoundError = function(e) { if (on_cran()) { skip(paste0("{", e$package, "} is not installed.")) }}, snapshot_on_cran = function(cnd) { snapshot_skipped <<- TRUE invokeRestart("muffle_cran_snapshot")}, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error, interrupt = handle_interrupt)
20: doTryCatch(return(expr), name, parentenv, handler)
21: tryCatchOne(expr, names, parentenv, handlers[[1L]])
22: tryCatchList(expr, classes, parentenv, handlers)
23: tryCatch(withCallingHandlers({ eval(code, test_env) new_expectations <- the$test_expectations > starting_expectations if (snapshot_skipped) { skip("On CRAN") } else if (!new_expectations && skip_on_empty) { skip_empty() }}, expectation = handle_expectation, packageNotFoundError = function(e) { if (on_cran()) { skip(paste0("{", e$package, "} is not installed.")) }}, snapshot_on_cran = function(cnd) { snapshot_skipped <<- TRUE invokeRestart("muffle_cran_snapshot")}, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error, interrupt = handle_interrupt), error = handle_fatal)
24: doWithOneRestart(return(expr), restart)
25: withOneRestart(expr, restarts[[1L]])
26: withRestarts(tryCatch(withCallingHandlers({ eval(code, test_env) new_expectations <- the$test_expectations > starting_expectations if (snapshot_skipped) { skip("On CRAN") } else if (!new_expectations && skip_on_empty) { skip_empty() }}, expectation = handle_expectation, packageNotFoundError = function(e) { if (on_cran()) { skip(paste0("{", e$package, "} is not installed.")) }}, snapshot_on_cran = function(cnd) { snapshot_skipped <<- TRUE invokeRestart("muffle_cran_snapshot")}, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error, interrupt = handle_interrupt), error = handle_fatal), end_test = function() { })
27: test_code(code = exprs, env = env, reporter = get_reporter() %||% StopReporter$new())
28: source_file(path, env = env(env), desc = desc, shuffle = shuffle, error_call = error_call)
29: FUN(X[[i]], ...)
30: lapply(test_paths, test_one_file, env = env, desc = desc, shuffle = shuffle, error_call = error_call)
31: doTryCatch(return(expr), name, parentenv, handler)
32: tryCatchOne(expr, names, parentenv, handlers[[1L]])
33: tryCatchList(expr, classes, parentenv, handlers)
34: tryCatch(code, testthat_abort_reporter = function(cnd) { cat(conditionMessage(cnd), "\n") NULL})
35: with_reporter(reporters$multi, lapply(test_paths, test_one_file, env = env, desc = desc, shuffle = shuffle, error_call = error_call))
36: test_files_serial(test_dir = test_dir, test_package = test_package, test_paths = test_paths, load_helpers = load_helpers, reporter = reporter, env = env, stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning, desc = desc, load_package = load_package, shuffle = shuffle, error_call = error_call)
37: test_files(test_dir = path, test_paths = test_paths, test_package = package, reporter = reporter, load_helpers = load_helpers, env = env, stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning, load_package = load_package, parallel = parallel, shuffle = shuffle)
38: test_dir("testthat", package = package, reporter = reporter, ..., load_package = "installed")
39: test_check("cxreg")
An irrecoverable exception occurred. R is aborting now ...
Flavor: r-oldrel-macos-arm64
Version: 1.1.4
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
sh: line 1: 10522 Segmentation fault: 11 '/Library/Frameworks/R.framework/Resources/bin/R' --vanilla --no-echo > '/Volumes/Temp/tmp/RtmpSI3gYr/file285169a30744' 2>&1 < '/Volumes/Temp/tmp/RtmpSI3gYr/file28514e32378a'
--- re-building ‘cxreg-inference.Rmd’ using rmarkdown
*** caught segfault ***
address 0x4, cause 'invalid permissions'
Traceback:
1: eigen(Theta_hat)
2: EBIC_G_trimmed(S, Theta_hat, m, g = 0.5)
3: cglasso.path(S, D, type, m, lambda, nlambda, lambda.min.ratio, W.init, stopping_rule, stop_criterion, maxit = maxit, thresh = thresh, trace.it = trace.it)
4: cglasso(S = fhat, m = m, type = "II")
5: eval(expr, envir)
6: eval(expr, envir)
7: withVisible(eval(expr, envir))
8: withCallingHandlers(code, error = function (e) rlang::entrace(e), message = function (cnd) { watcher$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$push(cnd) switch(on_error, continue = invokeRestart("eval_continue"), stop = invokeRestart("eval_stop"), error = NULL)})
9: eval(call)
10: eval(call)
11: with_handlers({ for (expr in tle$exprs) { ev <- withVisible(eval(expr, envir)) watcher$capture_plot_and_output() watcher$print_value(ev$value, ev$visible, envir) } TRUE}, handlers)
12: doWithOneRestart(return(expr), restart)
13: withOneRestart(expr, restarts[[1L]])
14: withRestartList(expr, restarts[-nr])
15: doWithOneRestart(return(expr), restart)
16: withOneRestart(withRestartList(expr, restarts[-nr]), restarts[[nr]])
17: withRestartList(expr, restarts)
18: withRestarts(with_handlers({ for (expr in tle$exprs) { ev <- withVisible(eval(expr, envir)) watcher$capture_plot_and_output() watcher$print_value(ev$value, ev$visible, envir) } TRUE}, handlers), eval_continue = function() TRUE, eval_stop = function() FALSE)
19: evaluate::evaluate(...)
20: evaluate(code, envir = env, new_device = FALSE, keep_warning = if (is.numeric(options$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))
21: in_dir(input_dir(), expr)
22: 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$render, options)))
23: eng_r(options)
24: block_exec(params)
25: call_block(x)
26: process_group(group)
27: withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() if (is_R_CMD_build() || is_R_CMD_check()) error <<- format(e) })
28: with_options(withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() if (is_R_CMD_build() || is_R_CMD_check()) error <<- format(e) }), list(rlang_trace_top_env = knit_global()))
29: xfun:::handle_error(with_options(withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() if (is_R_CMD_build() || is_R_CMD_check()) error <<- format(e) }), list(rlang_trace_top_env = knit_global())), function(loc) { setwd(wd) write_utf8(res, output %n% stdout()) paste0("\nQuitting from ", loc, if (!is.null(error)) paste0("\n", rule(), error, "\n", rule()))}, if (labels[i] != "") sprintf(" [%s]", labels[i]), get_loc)
30: process_file(text, output)
31: knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet)
32: rmarkdown::render(file, encoding = encoding, quiet = quiet, envir = globalenv(), output_dir = getwd(), ...)
33: vweave_rmarkdown(...)
34: engine$weave(file, quiet = quiet, encoding = enc)
35: doTryCatch(return(expr), name, parentenv, handler)
36: tryCatchOne(expr, names, parentenv, handlers[[1L]])
37: tryCatchList(expr, classes, parentenv, handlers)
38: tryCatch({ engine$weave(file, quiet = quiet, encoding = enc) setwd(startdir) output <- find_vignette_product(name, by = "weave", engine = engine) if (!have.makefile && vignette_is_tex(output)) { texi2pdf(file = output, clean = FALSE, quiet = quiet) output <- find_vignette_product(name, by = "texi2pdf", engine = engine) }}, error = function(e) { OK <<- FALSE message(gettextf("Error: processing vignette '%s' failed with diagnostics:\n%s", file, conditionMessage(e)))})
39: tools:::.buildOneVignette("cxreg-inference.Rmd", "/Volumes/Builds/packages/big-sur-arm64/results/4.5/cxreg.Rcheck/vign_test/cxreg", TRUE, FALSE, "cxreg-inference", "UTF-8", "/Volumes/Temp/tmp/RtmpSI3gYr/file28512eb10c5e.rds")
An irrecoverable exception occurred. R is aborting now ...
sh: line 1: 10577 Segmentation fault: 11 '/Library/Frameworks/R.framework/Resources/bin/R' --vanilla --no-echo > '/Volumes/Temp/tmp/RtmpSI3gYr/file28511580b3d2' 2>&1 < '/Volumes/Temp/tmp/RtmpSI3gYr/file2851349dab05'
--- re-building ‘cxreg.Rmd’ using rmarkdown
*** caught segfault ***
address 0x6, cause 'invalid permissions'
Traceback:
1: eigen(Theta_hat)
2: EBIC_G_trimmed(S, Theta_hat, m, g = 0.5)
3: cglasso.path(S, D, type, m, lambda, nlambda, lambda.min.ratio, W.init, stopping_rule, stop_criterion, maxit = maxit, thresh = thresh, trace.it = trace.it)
4: cglasso(S = f_hat, m = m, type = "I")
5: eval(expr, envir)
6: eval(expr, envir)
7: withVisible(eval(expr, envir))
8: withCallingHandlers(code, error = function (e) rlang::entrace(e), message = function (cnd) { watcher$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$push(cnd) switch(on_error, continue = invokeRestart("eval_continue"), stop = invokeRestart("eval_stop"), error = NULL)})
9: eval(call)
10: eval(call)
11: with_handlers({ for (expr in tle$exprs) { ev <- withVisible(eval(expr, envir)) watcher$capture_plot_and_output() watcher$print_value(ev$value, ev$visible, envir) } TRUE}, handlers)
12: doWithOneRestart(return(expr), restart)
13: withOneRestart(expr, restarts[[1L]])
14: withRestartList(expr, restarts[-nr])
15: doWithOneRestart(return(expr), restart)
16: withOneRestart(withRestartList(expr, restarts[-nr]), restarts[[nr]])
17: withRestartList(expr, restarts)
18: withRestarts(with_handlers({ for (expr in tle$exprs) { ev <- withVisible(eval(expr, envir)) watcher$capture_plot_and_output() watcher$print_value(ev$value, ev$visible, envir) } TRUE}, handlers), eval_continue = function() TRUE, eval_stop = function() FALSE)
19: evaluate::evaluate(...)
20: evaluate(code, envir = env, new_device = FALSE, keep_warning = if (is.numeric(options$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))
21: in_dir(input_dir(), expr)
22: 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$render, options)))
23: eng_r(options)
24: block_exec(params)
25: call_block(x)
26: process_group(group)
27: withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() if (is_R_CMD_build() || is_R_CMD_check()) error <<- format(e) })
28: with_options(withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() if (is_R_CMD_build() || is_R_CMD_check()) error <<- format(e) }), list(rlang_trace_top_env = knit_global()))
29: xfun:::handle_error(with_options(withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() if (is_R_CMD_build() || is_R_CMD_check()) error <<- format(e) }), list(rlang_trace_top_env = knit_global())), function(loc) { setwd(wd) write_utf8(res, output %n% stdout()) paste0("\nQuitting from ", loc, if (!is.null(error)) paste0("\n", rule(), error, "\n", rule()))}, if (labels[i] != "") sprintf(" [%s]", labels[i]), get_loc)
30: process_file(text, output)
31: knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet)
32: rmarkdown::render(file, encoding = encoding, quiet = quiet, envir = globalenv(), output_dir = getwd(), ...)
33: vweave_rmarkdown(...)
34: engine$weave(file, quiet = quiet, encoding = enc)
35: doTryCatch(return(expr), name, parentenv, handler)
36: tryCatchOne(expr, names, parentenv, handlers[[1L]])
37: tryCatchList(expr, classes, parentenv, handlers)
38: 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) }}, error = function(e) { OK <<- FALSE message(gettextf("Error: processing vignette '%s' failed with diagnostics:\n%s", file, conditionMessage(e)))})
39: tools:::.buildOneVignette("cxreg.Rmd", "/Volumes/Builds/packages/big-sur-arm64/results/4.5/cxreg.Rcheck/vign_test/cxreg", TRUE, FALSE, "cxreg", "UTF-8", "/Volumes/Temp/tmp/RtmpSI3gYr/file285142dc6d21.rds")
An irrecoverable exception occurred. R is aborting now ...
SUMMARY: processing the following files failed:
‘cxreg-inference.Rmd’ ‘cxreg.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-oldrel-macos-arm64