Last updated on 2025-12-20 11:50:34 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.6.2 | 13.02 | 92.00 | 105.02 | ERROR | |
| r-devel-linux-x86_64-debian-gcc | 0.6.2 | 7.79 | 62.33 | 70.12 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 0.6.2 | 21.00 | 148.30 | 169.30 | ERROR | |
| r-devel-linux-x86_64-fedora-gcc | 0.6.2 | 20.00 | 168.60 | 188.60 | ERROR | |
| r-devel-windows-x86_64 | 0.6.2 | 13.00 | 216.00 | 229.00 | OK | |
| r-patched-linux-x86_64 | 0.6.2 | 12.72 | 100.04 | 112.76 | OK | |
| r-release-linux-x86_64 | 0.6.2 | 10.75 | 100.22 | 110.97 | OK | |
| r-release-macos-arm64 | 0.6.2 | OK | ||||
| r-release-macos-x86_64 | 0.6.2 | 8.00 | 120.00 | 128.00 | OK | |
| r-release-windows-x86_64 | 0.6.2 | 13.00 | 207.00 | 220.00 | OK | |
| r-oldrel-macos-arm64 | 0.6.2 | OK | ||||
| r-oldrel-macos-x86_64 | 0.6.2 | 9.00 | 123.00 | 132.00 | OK | |
| r-oldrel-windows-x86_64 | 0.6.2 | 17.00 | 276.00 | 293.00 | OK |
Version: 0.6.2
Check: examples
Result: ERROR
Running examples in ‘report-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: report.default
> ### Title: Template to add report support for new objects
> ### Aliases: report.default report_effectsize.default report_table.default
> ### report_statistics.default report_parameters.default
> ### report_intercept.default report_model.default report_random.default
> ### report_priors.default report_performance.default report_info.default
> ### report_text.default
>
> ### ** Examples
>
> library(report)
>
> # Add a reproducible example instead of the following
> model <- lm(Sepal.Length ~ Petal.Length * Species, data = iris)
> r <- report(model)
*** caught segfault ***
address 0x36, cause 'memory not mapped'
Traceback:
1: `[.data.frame`(params_table, !is.na(params_table$Parameter), )
2: params_table[!is.na(params_table$Parameter), ]
3: .remove_performance(params_table)
4: report_statistics.lm(x, table = table, include_effectsize = include_effectsize, ...)
5: report_statistics(x, table = table, include_effectsize = include_effectsize, ...)
6: report_parameters.lm(x, table = table, include_intercept = FALSE, ...)
7: report_parameters(x, table = table, include_intercept = FALSE, ...)
8: report_text.lm(x, table = result_table, ...)
9: report_text(x, table = result_table, ...)
10: report.lm(model)
11: report(model)
An irrecoverable exception occurred. R is aborting now ...
Segmentation fault
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc
Version: 0.6.2
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘cite_packages.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘cite_packages.Rmd’
--- re-building ‘new_models.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘new_models.Rmd’
--- re-building ‘report.Rmd’ using rmarkdown
*** caught segfault ***
address 0x33, cause 'memory not mapped'
Traceback:
1: `[.data.frame`(params_table, !is.na(params_table$Parameter), )
2: params_table[!is.na(params_table$Parameter), ]
3: .remove_performance(params_table)
4: report_statistics.lm(x, table = table, include_effectsize = include_effectsize, ...)
5: report_statistics(x, table = table, include_effectsize = include_effectsize, ...)
6: report_parameters.lm(x, table = table, include_intercept = FALSE, ...)
7: report_parameters(x, table = table, include_intercept = FALSE, ...)
8: report_text.lm(x, table = result_table, ...)
9: report_text(x, table = result_table, ...)
10: report.lm(model)
11: report(model)
12: eval(expr, envir)
13: eval(expr, envir)
14: withVisible(eval(expr, envir))
15: withCallingHandlers(code, 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)})
16: eval(call)
17: eval(call)
18: with_handlers({ for (expr in tle$exprs) { ev <- withVisible(eval(expr, envir)) watcher$capture_plot_and_output() watcher$print_value(ev$value, ev$visible, envir) } TRUE}, handlers)
19: doWithOneRestart(return(expr), restart)
20: withOneRestart(expr, restarts[[1L]])
21: withRestartList(expr, restarts[-nr])
22: doWithOneRestart(return(expr), restart)
23: withOneRestart(withRestartList(expr, restarts[-nr]), restarts[[nr]])
24: withRestartList(expr, restarts)
25: withRestarts(with_handlers({ for (expr in tle$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)
26: evaluate::evaluate(...)
27: 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$render, options))
28: in_dir(input_dir(), expr)
29: in_input_dir(evaluate(code, envir = env, new_device = FALSE, keep_warning = if (is.numeric(options$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)))
30: eng_r(options)
31: block_exec(params)
32: call_block(x)
33: process_group(group)
34: withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() if (xfun::pkg_available("rlang", "1.0.0")) { if (is_R_CMD_build() || is_R_CMD_check()) { cnd = tryCatch(rlang::entrace(e), error = identity) error <<- format(cnd) } else { rlang::entrace(e) } } })
35: xfun:::handle_error(withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() if (xfun::pkg_available("rlang", "1.0.0")) { if (is_R_CMD_build() || is_R_CMD_check()) { cnd = tryCatch(rlang::entrace(e), error = identity) error <<- format(cnd) } else { rlang::entrace(e) } } }), 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)
36: process_file(text, output)
37: knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet)
38: rmarkdown::render(file, encoding = encoding, quiet = quiet, envir = globalenv(), output_dir = getwd(), ...)
39: vweave_rmarkdown(...)
40: engine$weave(file, quiet = quiet, encoding = enc)
41: doTryCatch(return(expr), name, parentenv, handler)
42: tryCatchOne(expr, names, parentenv, handlers[[1L]])
43: tryCatchList(expr, classes, parentenv, handlers)
44: tryCatch({ engine$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)))})
45: tools:::.buildOneVignette("report.Rmd", "/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/report.Rcheck/vign_test/report", TRUE, FALSE, "report", "UTF-8", "/home/hornik/tmp/scratch/Rtmp9dBoP8/file39915f67bfda53.rds")
An irrecoverable exception occurred. R is aborting now ...
Segmentation fault
--- re-building ‘report_table.Rmd’ using rmarkdown
*** caught segfault ***
address 0x36, cause 'memory not mapped'
Traceback:
1: .check_caption_attr_name(x)
2: insight::export_table(format(x, ...), caption = caption, footer = footer, ...)
3: cat(insight::export_table(format(x, ...), caption = caption, footer = footer, ...))
4: print.report_table(x)
5: context$df_print(x)
6: knit_print.data.frame(x, ...)
7: knit_print(x, ...)
8: withVisible(knit_print(x, ...))
9: fun(x, options = options)
10: handler$value(value, visible)
11: handle_value(handler, value, visible, envir)
12: withVisible(handle_value(handler, value, visible, envir))
13: watcher$print_value(ev$value, ev$visible, envir)
14: withCallingHandlers(code, message = function (cnd) { watcher$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$push(cnd) switch(on_error, continue = invokeRestart("eval_continue"), stop = invokeRestart("eval_stop"), error = NULL)})
15: eval(call)
16: eval(call)
17: with_handlers({ for (expr in tle$exprs) { ev <- withVisible(eval(expr, envir)) watcher$capture_plot_and_output() watcher$print_value(ev$value, ev$visible, envir) } TRUE}, handlers)
18: doWithOneRestart(return(expr), restart)
19: withOneRestart(expr, restarts[[1L]])
20: withRestartList(expr, restarts[-nr])
21: doWithOneRestart(return(expr), restart)
22: withOneRestart(withRestartList(expr, restarts[-nr]), restarts[[nr]])
23: withRestartList(expr, restarts)
24: withRestarts(with_handlers({ for (expr in tle$exprs) { ev <- withVisible(eval(expr, envir)) watcher$capture_plot_and_output() watcher$print_value(ev$value, ev$visible, envir) } TRUE}, handlers), eval_continue = function() TRUE, eval_stop = function() FALSE)
25: evaluate::evaluate(...)
26: evaluate(code, envir = env, new_device = FALSE, keep_warning = if (is.numeric(options$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))
27: in_dir(input_dir(), expr)
28: 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$render, options)))
29: eng_r(options)
30: block_exec(params)
31: call_block(x)
32: process_group(group)
33: withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() if (xfun::pkg_available("rlang", "1.0.0")) { if (is_R_CMD_build() || is_R_CMD_check()) { cnd = tryCatch(rlang::entrace(e), error = identity) error <<- format(cnd) } else { rlang::entrace(e) } } })
34: xfun:::handle_error(withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() if (xfun::pkg_available("rlang", "1.0.0")) { if (is_R_CMD_build() || is_R_CMD_check()) { cnd = tryCatch(rlang::entrace(e), error = identity) error <<- format(cnd) } else { rlang::entrace(e) } } }), function(loc) { setwd(wd) write_utf8(res, output %n% stdout()) paste0("\nQuitting from ", loc, if (!is.null(error)) paste0("\n", rule(), error, "\n", rule()))}, if (labels[i] != "") sprintf(" [%s]", labels[i]), get_loc)
35: process_file(text, output)
36: knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet)
37: rmarkdown::render(file, encoding = encoding, quiet = quiet, envir = globalenv(), output_dir = getwd(), ...)
38: vweave_rmarkdown(...)
39: engine$weave(file, quiet = quiet, encoding = enc)
40: doTryCatch(return(expr), name, parentenv, handler)
41: tryCatchOne(expr, names, parentenv, handlers[[1L]])
42: tryCatchList(expr, classes, parentenv, handlers)
43: tryCatch({ engine$weave(file, quiet = quiet, encoding = enc) setwd(startdir) output <- find_vignette_product(name, by = "weave", engine = engine) if (!have.makefile && vignette_is_tex(output)) { texi2pdf(file = output, clean = FALSE, quiet = quiet) output <- find_vignette_product(name, by = "texi2pdf", engine = engine) }}, error = function(e) { OK <<- FALSE message(gettextf("Error: processing vignette '%s' failed with diagnostics:\n%s", file, conditionMessage(e)))})
44: tools:::.buildOneVignette("report_table.Rmd", "/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/report.Rcheck/vign_test/report", TRUE, FALSE, "report_table", "UTF-8", "/home/hornik/tmp/scratch/Rtmp9dBoP8/file39915f647263b7.rds")
An irrecoverable exception occurred. R is aborting now ...
Segmentation fault
SUMMARY: processing the following files failed:
‘report.Rmd’ ‘report_table.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 0.6.2
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘cite_packages.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘cite_packages.Rmd’
--- re-building ‘new_models.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘new_models.Rmd’
--- re-building ‘report.Rmd’ using rmarkdown
*** caught segfault ***
address 0x33, cause 'memory not mapped'
Traceback:
1: `[.data.frame`(params_table, !is.na(params_table$Parameter), )
2: params_table[!is.na(params_table$Parameter), ]
3: .remove_performance(params_table)
4: report_statistics.lm(x, table = table, include_effectsize = include_effectsize, ...)
5: report_statistics(x, table = table, include_effectsize = include_effectsize, ...)
6: report_parameters.lm(x, table = table, include_intercept = FALSE, ...)
7: report_parameters(x, table = table, include_intercept = FALSE, ...)
8: report_text.lm(x, table = result_table, ...)
9: report_text(x, table = result_table, ...)
10: report.lm(model)
11: report(model)
12: eval(expr, envir)
13: eval(expr, envir)
14: withVisible(eval(expr, envir))
15: withCallingHandlers(code, message = function (cnd) { watcher$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$push(cnd) switch(on_error, continue = invokeRestart("eval_continue"), stop = invokeRestart("eval_stop"), error = NULL)})
16: eval(call)
17: eval(call)
18: with_handlers({ for (expr in tle$exprs) { ev <- withVisible(eval(expr, envir)) watcher$capture_plot_and_output() watcher$print_value(ev$value, ev$visible, envir) } TRUE}, handlers)
19: doWithOneRestart(return(expr), restart)
20: withOneRestart(expr, restarts[[1L]])
21: withRestartList(expr, restarts[-nr])
22: doWithOneRestart(return(expr), restart)
23: withOneRestart(withRestartList(expr, restarts[-nr]), restarts[[nr]])
24: withRestartList(expr, restarts)
25: withRestarts(with_handlers({ for (expr in tle$exprs) { ev <- withVisible(eval(expr, envir)) watcher$capture_plot_and_output() watcher$print_value(ev$value, ev$visible, envir) } TRUE}, handlers), eval_continue = function() TRUE, eval_stop = function() FALSE)
26: evaluate::evaluate(...)
27: evaluate(code, envir = env, new_device = FALSE, keep_warning = if (is.numeric(options$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: in_dir(input_dir(), expr)
29: 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$render, options)))
30: eng_r(options)
31: block_exec(params)
32: call_block(x)
33: process_group(group)
34: withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() if (xfun::pkg_available("rlang", "1.0.0")) { if (is_R_CMD_build() || is_R_CMD_check()) { cnd = tryCatch(rlang::entrace(e), error = identity) error <<- format(cnd) } else { rlang::entrace(e) } } })
35: xfun:::handle_error(withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() if (xfun::pkg_available("rlang", "1.0.0")) { if (is_R_CMD_build() || is_R_CMD_check()) { cnd = tryCatch(rlang::entrace(e), error = identity) error <<- format(cnd) } else { rlang::entrace(e) } } }), function(loc) { setwd(wd) write_utf8(res, output %n% stdout()) paste0("\nQuitting from ", loc, if (!is.null(error)) paste0("\n", rule(), error, "\n", rule()))}, if (labels[i] != "") sprintf(" [%s]", labels[i]), get_loc)
36: process_file(text, output)
37: knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet)
38: rmarkdown::render(file, encoding = encoding, quiet = quiet, envir = globalenv(), output_dir = getwd(), ...)
39: vweave_rmarkdown(...)
40: engine$weave(file, quiet = quiet, encoding = enc)
41: doTryCatch(return(expr), name, parentenv, handler)
42: tryCatchOne(expr, names, parentenv, handlers[[1L]])
43: tryCatchList(expr, classes, parentenv, handlers)
44: tryCatch({ engine$weave(file, quiet = quiet, encoding = enc) setwd(startdir) output <- find_vignette_product(name, by = "weave", engine = engine) if (!have.makefile && vignette_is_tex(output)) { texi2pdf(file = output, clean = FALSE, quiet = quiet) output <- find_vignette_product(name, by = "texi2pdf", engine = engine) }}, error = function(e) { OK <<- FALSE message(gettextf("Error: processing vignette '%s' failed with diagnostics:\n%s", file, conditionMessage(e)))})
45: tools:::.buildOneVignette("report.Rmd", "/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/report.Rcheck/vign_test/report", TRUE, FALSE, "report", "UTF-8", "/tmp/Rtmpue1tcP/file3e847c5ff1dce6.rds")
An irrecoverable exception occurred. R is aborting now ...
Segmentation fault
--- re-building ‘report_table.Rmd’ using rmarkdown
*** caught segfault ***
address 0x36, cause 'memory not mapped'
Traceback:
1: .check_caption_attr_name(x)
2: insight::export_table(format(x, ...), caption = caption, footer = footer, ...)
3: cat(insight::export_table(format(x, ...), caption = caption, footer = footer, ...))
4: print.report_table(x)
5: context$df_print(x)
6: knit_print.data.frame(x, ...)
7: knit_print(x, ...)
8: withVisible(knit_print(x, ...))
9: fun(x, options = options)
10: handler$value(value, visible)
11: handle_value(handler, value, visible, envir)
12: withVisible(handle_value(handler, value, visible, envir))
13: watcher$print_value(ev$value, ev$visible, envir)
14: withCallingHandlers(code, 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)})
15: eval(call)
16: eval(call)
17: with_handlers({ for (expr in tle$exprs) { ev <- withVisible(eval(expr, envir)) watcher$capture_plot_and_output() watcher$print_value(ev$value, ev$visible, envir) } TRUE}, handlers)
18: doWithOneRestart(return(expr), restart)
19: withOneRestart(expr, restarts[[1L]])
20: withRestartList(expr, restarts[-nr])
21: doWithOneRestart(return(expr), restart)
22: withOneRestart(withRestartList(expr, restarts[-nr]), restarts[[nr]])
23: withRestartList(expr, restarts)
24: withRestarts(with_handlers({ for (expr in tle$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)
25: evaluate::evaluate(...)
26: 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$render, options))
27: in_dir(input_dir(), expr)
28: in_input_dir(evaluate(code, envir = env, new_device = FALSE, keep_warning = if (is.numeric(options$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)))
29: eng_r(options)
30: block_exec(params)
31: call_block(x)
32: process_group(group)
33: withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() if (xfun::pkg_available("rlang", "1.0.0")) { if (is_R_CMD_build() || is_R_CMD_check()) { cnd = tryCatch(rlang::entrace(e), error = identity) error <<- format(cnd) } else { rlang::entrace(e) } } })
34: xfun:::handle_error(withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() if (xfun::pkg_available("rlang", "1.0.0")) { if (is_R_CMD_build() || is_R_CMD_check()) { cnd = tryCatch(rlang::entrace(e), error = identity) error <<- format(cnd) } else { rlang::entrace(e) } } }), 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)
35: process_file(text, output)
36: knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet)
37: rmarkdown::render(file, encoding = encoding, quiet = quiet, envir = globalenv(), output_dir = getwd(), ...)
38: vweave_rmarkdown(...)
39: engine$weave(file, quiet = quiet, encoding = enc)
40: doTryCatch(return(expr), name, parentenv, handler)
41: tryCatchOne(expr, names, parentenv, handlers[[1L]])
42: tryCatchList(expr, classes, parentenv, handlers)
43: tryCatch({ engine$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)))})
44: tools:::.buildOneVignette("report_table.Rmd", "/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/report.Rcheck/vign_test/report", TRUE, FALSE, "report_table", "UTF-8", "/tmp/Rtmpue1tcP/file3e847cccd6a34.rds")
An irrecoverable exception occurred. R is aborting now ...
Segmentation fault
SUMMARY: processing the following files failed:
‘report.Rmd’ ‘report_table.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 0.6.2
Check: examples
Result: ERROR
Running examples in ‘report-Ex.R’ failed
The error most likely occurred in:
> ### Name: report.default
> ### Title: Template to add report support for new objects
> ### Aliases: report.default report_effectsize.default report_table.default
> ### report_statistics.default report_parameters.default
> ### report_intercept.default report_model.default report_random.default
> ### report_priors.default report_performance.default report_info.default
> ### report_text.default
>
> ### ** Examples
>
> library(report)
>
> # Add a reproducible example instead of the following
> model <- lm(Sepal.Length ~ Petal.Length * Species, data = iris)
> r <- report(model)
Error in attr(out, paste0(names(attributes(effsize)$ci))) <- attributes(effsize)$ci :
'name' must be a scalar string
Calls: report -> report.lm -> report_table -> report_table.lm
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 0.6.2
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘cite_packages.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘cite_packages.Rmd’
--- re-building ‘new_models.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘new_models.Rmd’
--- re-building ‘report.Rmd’ using rmarkdown
Quitting from report.Rmd:110-114 [unnamed-chunk-8]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `attr(out, paste0(names(attributes(effsize)$ci))) <-
attributes(effsize)$ci`:
! 'name' must be a scalar string
---
Backtrace:
▆
1. ├─report::report(model)
2. └─report:::report.lm(model)
3. ├─report::report_table(...)
4. └─report:::report_table.lm(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'report.Rmd' failed with diagnostics:
'name' must be a scalar string
--- failed re-building ‘report.Rmd’
--- re-building ‘report_table.Rmd’ using rmarkdown
Quitting from report_table.Rmd:121-125 [unnamed-chunk-11]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `attr(out, paste0(names(attributes(effsize)$ci))) <-
attributes(effsize)$ci`:
! 'name' must be a scalar string
---
Backtrace:
▆
1. ├─report::report_table(model)
2. └─report:::report_table.lm(model)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'report_table.Rmd' failed with diagnostics:
'name' must be a scalar string
--- failed re-building ‘report_table.Rmd’
SUMMARY: processing the following files failed:
‘report.Rmd’ ‘report_table.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 0.6.2
Check: examples
Result: ERROR
Running examples in ‘report-Ex.R’ failed
The error most likely occurred in:
> ### Name: report.default
> ### Title: Template to add report support for new objects
> ### Aliases: report.default report_effectsize.default report_table.default
> ### report_statistics.default report_parameters.default
> ### report_intercept.default report_model.default report_random.default
> ### report_priors.default report_performance.default report_info.default
> ### report_text.default
>
> ### ** Examples
>
> library(report)
>
> # Add a reproducible example instead of the following
> model <- lm(Sepal.Length ~ Petal.Length * Species, data = iris)
> r <- report(model)
*** caught segfault ***
address 0x30, cause 'memory not mapped'
Traceback:
1: `[.data.frame`(params_table, !is.na(params_table$Parameter), )
2: params_table[!is.na(params_table$Parameter), ]
3: .remove_performance(params_table)
4: report_statistics.lm(x, table = table, include_effectsize = include_effectsize, ...)
5: report_statistics(x, table = table, include_effectsize = include_effectsize, ...)
6: report_parameters.lm(x, table = table, include_intercept = FALSE, ...)
7: report_parameters(x, table = table, include_intercept = FALSE, ...)
8: report_text.lm(x, table = result_table, ...)
9: report_text(x, table = result_table, ...)
10: report.lm(model)
11: report(model)
An irrecoverable exception occurred. R is aborting now ...
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 0.6.2
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘cite_packages.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘cite_packages.Rmd’
--- re-building ‘new_models.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘new_models.Rmd’
--- re-building ‘report.Rmd’ using rmarkdown
*** caught segfault ***
address 0x30, cause 'memory not mapped'
Traceback:
1: `[.data.frame`(params_table, !is.na(params_table$Parameter), )
2: params_table[!is.na(params_table$Parameter), ]
3: .remove_performance(params_table)
4: report_statistics.lm(x, table = table, include_effectsize = include_effectsize, ...)
5: report_statistics(x, table = table, include_effectsize = include_effectsize, ...)
6: report_parameters.lm(x, table = table, include_intercept = FALSE, ...)
7: report_parameters(x, table = table, include_intercept = FALSE, ...)
8: report_text.lm(x, table = result_table, ...)
9: report_text(x, table = result_table, ...)
10: report.lm(model)
11: report(model)
12: eval(expr, envir)
13: eval(expr, envir)
14: withVisible(eval(expr, envir))
15: withCallingHandlers(code, 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)})
16: eval(call)
17: eval(call)
18: with_handlers({ for (expr in tle$exprs) { ev <- withVisible(eval(expr, envir)) watcher$capture_plot_and_output() watcher$print_value(ev$value, ev$visible, envir) } TRUE}, handlers)
19: doWithOneRestart(return(expr), restart)
20: withOneRestart(expr, restarts[[1L]])
21: withRestartList(expr, restarts[-nr])
22: doWithOneRestart(return(expr), restart)
23: withOneRestart(withRestartList(expr, restarts[-nr]), restarts[[nr]])
24: withRestartList(expr, restarts)
25: withRestarts(with_handlers({ for (expr in tle$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)
26: evaluate::evaluate(...)
27: 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$render, options))
28: in_dir(input_dir(), expr)
29: in_input_dir(evaluate(code, envir = env, new_device = FALSE, keep_warning = if (is.numeric(options$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)))
30: eng_r(options)
31: block_exec(params)
32: call_block(x)
33: process_group(group)
34: withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() if (xfun::pkg_available("rlang", "1.0.0")) { if (is_R_CMD_build() || is_R_CMD_check()) { cnd = tryCatch(rlang::entrace(e), error = identity) error <<- format(cnd) } else { rlang::entrace(e) } } })
35: xfun:::handle_error(withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() if (xfun::pkg_available("rlang", "1.0.0")) { if (is_R_CMD_build() || is_R_CMD_check()) { cnd = tryCatch(rlang::entrace(e), error = identity) error <<- format(cnd) } else { rlang::entrace(e) } } }), 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)
36: process_file(text, output)
37: knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet)
38: rmarkdown::render(file, encoding = encoding, quiet = quiet, envir = globalenv(), output_dir = getwd(), ...)
39: vweave_rmarkdown(...)
40: engine$weave(file, quiet = quiet, encoding = enc)
41: doTryCatch(return(expr), name, parentenv, handler)
42: tryCatchOne(expr, names, parentenv, handlers[[1L]])
43: tryCatchList(expr, classes, parentenv, handlers)
44: tryCatch({ engine$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)))})
45: tools:::.buildOneVignette("report.Rmd", "/data/gannet/ripley/R/packages/tests-devel/report.Rcheck/vign_test/report", TRUE, FALSE, "report", "UTF-8", "/tmp/Rtmpi4GWJE/working_dir/RtmphbY4kb/file3ac7b2951dda7.rds")
An irrecoverable exception occurred. R is aborting now ...
--- re-building ‘report_table.Rmd’ using rmarkdown
*** caught segfault ***
address 0x30, cause 'memory not mapped'
Traceback:
1: .check_caption_attr_name(x)
2: insight::export_table(format(x, ...), caption = caption, footer = footer, ...)
3: cat(insight::export_table(format(x, ...), caption = caption, footer = footer, ...))
4: print.report_table(x)
5: context$df_print(x)
6: knit_print.data.frame(x, ...)
7: knit_print(x, ...)
8: withVisible(knit_print(x, ...))
9: fun(x, options = options)
10: handler$value(value, visible)
11: handle_value(handler, value, visible, envir)
12: withVisible(handle_value(handler, value, visible, envir))
13: watcher$print_value(ev$value, ev$visible, envir)
14: withCallingHandlers(code, message = function (cnd) { watcher$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$push(cnd) switch(on_error, continue = invokeRestart("eval_continue"), stop = invokeRestart("eval_stop"), error = NULL)})
15: eval(call)
16: eval(call)
17: with_handlers({ for (expr in tle$exprs) { ev <- withVisible(eval(expr, envir)) watcher$capture_plot_and_output() watcher$print_value(ev$value, ev$visible, envir) } TRUE}, handlers)
18: doWithOneRestart(return(expr), restart)
19: withOneRestart(expr, restarts[[1L]])
20: withRestartList(expr, restarts[-nr])
21: doWithOneRestart(return(expr), restart)
22: withOneRestart(withRestartList(expr, restarts[-nr]), restarts[[nr]])
23: withRestartList(expr, restarts)
24: withRestarts(with_handlers({ for (expr in tle$exprs) { ev <- withVisible(eval(expr, envir)) watcher$capture_plot_and_output() watcher$print_value(ev$value, ev$visible, envir) } TRUE}, handlers), eval_continue = function() TRUE, eval_stop = function() FALSE)
25: evaluate::evaluate(...)
26: evaluate(code, envir = env, new_device = FALSE, keep_warning = if (is.numeric(options$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))
27: in_dir(input_dir(), expr)
28: 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$render, options)))
29: eng_r(options)
30: block_exec(params)
31: call_block(x)
32: process_group(group)
33: withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() if (xfun::pkg_available("rlang", "1.0.0")) { if (is_R_CMD_build() || is_R_CMD_check()) { cnd = tryCatch(rlang::entrace(e), error = identity) error <<- format(cnd) } else { rlang::entrace(e) } } })
34: xfun:::handle_error(withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() if (xfun::pkg_available("rlang", "1.0.0")) { if (is_R_CMD_build() || is_R_CMD_check()) { cnd = tryCatch(rlang::entrace(e), error = identity) error <<- format(cnd) } else { rlang::entrace(e) } } }), function(loc) { setwd(wd) write_utf8(res, output %n% stdout()) paste0("\nQuitting from ", loc, if (!is.null(error)) paste0("\n", rule(), error, "\n", rule()))}, if (labels[i] != "") sprintf(" [%s]", labels[i]), get_loc)
35: process_file(text, output)
36: knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet)
37: rmarkdown::render(file, encoding = encoding, quiet = quiet, envir = globalenv(), output_dir = getwd(), ...)
38: vweave_rmarkdown(...)
39: engine$weave(file, quiet = quiet, encoding = enc)
40: doTryCatch(return(expr), name, parentenv, handler)
41: tryCatchOne(expr, names, parentenv, handlers[[1L]])
42: tryCatchList(expr, classes, parentenv, handlers)
43: 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)))})
44: tools:::.buildOneVignette("report_table.Rmd", "/data/gannet/ripley/R/packages/tests-devel/report.Rcheck/vign_test/report", TRUE, FALSE, "report_table", "UTF-8", "/tmp/Rtmpi4GWJE/working_dir/RtmphbY4kb/file3ac7b55bf2d15.rds")
An irrecoverable exception occurred. R is aborting now ...
SUMMARY: processing the following files failed:
‘report.Rmd’ ‘report_table.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc