• using R Under development (unstable) (2026-04-10 r89852)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     clang version 22.1.3 (https://github.com/llvm/llvm-project e9846648fd6183ee6d8cbdb4502213fcf902a211)     flang version 22.1.3 (https://github.com/llvm/llvm-project e9846648fd6183ee6d8cbdb4502213fcf902a211)
• running under: Fedora Linux 42 (Workstation Edition)
• using session charset: UTF-8 * current time: 2026-04-13 00:27:45 UTC
• using option ‘--no-stop-on-test-error’
• checking for file ‘readxl/DESCRIPTION’ ... OK
• this is package ‘readxl’ version ‘1.4.5’
• package encoding: UTF-8
• checking package namespace information ... OK
• checking package dependencies ... OK
• checking if this is a source package ... OK
• checking if there is a namespace ... OK
• checking for executable files ... OK
• checking for hidden files and directories ... OK
• checking for portable file names ... OK
• checking for sufficient/correct file permissions ... OK
• checking whether package ‘readxl’ can be installed ... [36s/29s] OK See the install log for details.
• used C compiler: ‘clang version 22.1.3 (https://github.com/llvm/llvm-project e9846648fd6183ee6d8cbdb4502213fcf902a211)’
• used C++ compiler: ‘clang version 22.1.3 (https://github.com/llvm/llvm-project e9846648fd6183ee6d8cbdb4502213fcf902a211)’
• checking installed package size ... OK
• checking package directory ... OK
• checking ‘build’ directory ... OK
• checking DESCRIPTION meta-information ... OK
• checking top-level files ... OK
• checking for left-over files ... OK
• checking index information ... OK
• checking package subdirectories ... OK
• checking code files for non-ASCII characters ... OK
• checking R files for syntax errors ... OK
• checking whether the package can be loaded ... OK
• checking whether the package can be loaded with stated dependencies ... OK
• checking whether the package can be unloaded cleanly ... OK
• checking whether the namespace can be loaded with stated dependencies ... OK
• checking whether the namespace can be unloaded cleanly ... OK
• checking loading without being on the library search path ... OK
• checking use of S3 registration ... OK
• checking dependencies in R code ... OK
• checking S3 generic/method consistency ... OK
• checking replacement functions ... OK
• checking foreign function calls ... OK
• checking R code for possible problems ... OK
• checking Rd files ... OK
• checking Rd metadata ... OK
• checking Rd line widths ... OK
• checking Rd cross-references ... OK
• checking for missing documentation entries ... OK
• checking for code/documentation mismatches ... OK
• checking Rd \usage sections ... OK
• checking Rd contents ... OK
• checking for unstated dependencies in examples ... OK
• checking line endings in C/C++/Fortran sources/headers ... OK
• checking line endings in Makefiles ... OK
• checking compilation flags in Makevars ... OK
• checking for GNU extensions in Makefiles ... OK
• checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
• checking use of PKG_*FLAGS in Makefiles ... OK
• checking use of SHLIB_OPENMP_*FLAGS in Makefiles ... OK
• checking pragmas in C/C++ headers and code ... OK
• checking compilation flags used ... OK
• checking compiled code ... OK
• checking installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... OK
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... ERROR   Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. Complete output:   > library(testthat)   > library(readxl)   >   > test_check("readxl")       *** caught segfault ***   address (nil), cause 'memory not mapped'      Traceback:    1: read_fun(path = path, sheet_i = sheet, limits = limits, shim = shim, col_names = col_names, col_types = col_types, na = na, trim_ws = trim_ws, guess_max = guess_max, progress = progress)    2: tibble::as_tibble(l, .name_repair = .name_repair)    3: set_readxl_names(read_fun(path = path, sheet_i = sheet, limits = limits, shim = shim, col_names = col_names, col_types = col_types, na = na, trim_ws = trim_ws, guess_max = guess_max, progress = progress), .name_repair = .name_repair)    4: read_excel_(path = path, sheet = sheet, range = range, col_names = col_names, col_types = col_types, na = na, trim_ws = trim_ws, skip = skip, n_max = n_max, guess_max = guess_max, progress = progress, .name_repair = .name_repair, format = format)    5: read_excel(test_sheet("types.xls"), sheet = "logical_coercion", col_types = c("logical", "text"))    6: eval(expr, envir)    7: eval(expr, envir)    8: withVisible(eval(expr, envir))    9: withCallingHandlers(code, error = function (cnd) rlang::entrace(cnd), message = function (cnd) { watcher$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$push(cnd) switch(on_error, continue = invokeRestart("eval_continue"), stop = invokeRestart("eval_stop"), error = NULL)})   10: eval(call)   11: eval(call)   12: with_handlers({ for (expr in tle$exprs) { ev <- withVisible(eval(expr, envir)) watcher$capture_plot_and_output() watcher$print_value(ev$value, ev$visible, envir) } TRUE}, handlers)   13: doWithOneRestart(return(expr), restart)   14: withOneRestart(expr, restarts[[1L]])   15: withRestartList(expr, restarts[-nr])   16: doWithOneRestart(return(expr), restart)   17: withOneRestart(withRestartList(expr, restarts[-nr]), restarts[[nr]])   18: withRestartList(expr, restarts)   19: withRestarts(with_handlers({ for (expr in tle$exprs) { ev <- withVisible(eval(expr, envir)) watcher$capture_plot_and_output() watcher$print_value(ev$value, ev$visible, envir) } TRUE}, handlers), eval_continue = function() TRUE, eval_stop = function() FALSE)   20: evaluate::evaluate(source, envir = env, new_device = FALSE, output_handler = handler)   21: verify_exec(quo_get_expr(x), quo_get_env(x), replay)   22: with_is_snapshotting(out <- verify_exec(quo_get_expr(x), quo_get_env(x), replay))   23: expect_snapshot_(x, cran = cran, error = error, transform = transform, variant = variant, cnd_class = cnd_class)   24: expect_snapshot(df <- read_excel(test_sheet("types.xls"), sheet = "logical_coercion", col_types = c("logical", "text")))   25: eval(code, test_env)   26: eval(code, test_env)   27: withCallingHandlers({ eval(code, test_env) new_expectations <- the$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$package, "} is not installed.")) }}, snapshot_on_cran = function(cnd) { snapshot_skipped <<- TRUE invokeRestart("muffle_cran_snapshot")}, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error, interrupt = handle_interrupt)   28: doTryCatch(return(expr), name, parentenv, handler)   29: tryCatchOne(expr, names, parentenv, handlers[[1L]])   30: tryCatchList(expr, classes, parentenv, handlers)   31: tryCatch(withCallingHandlers({ eval(code, test_env) new_expectations <- the$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$package, "} is not installed.")) }}, snapshot_on_cran = function(cnd) { snapshot_skipped <<- TRUE invokeRestart("muffle_cran_snapshot")}, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error, interrupt = handle_interrupt), error = handle_fatal)   32: doWithOneRestart(return(expr), restart)   33: withOneRestart(expr, restarts[[1L]])   34: withRestarts(tryCatch(withCallingHandlers({ eval(code, test_env) new_expectations <- the$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$package, "} is not installed.")) }}, snapshot_on_cran = function(cnd) { snapshot_skipped <<- TRUE invokeRestart("muffle_cran_snapshot")}, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error, interrupt = handle_interrupt), error = handle_fatal), end_test = function() { })   35: test_code(code, parent.frame())   36: test_that("contaminated, explicit logical is read as logical", { expect_snapshot(df <- read_excel(test_sheet("types.xls"), sheet = "logical_coercion", col_types = c("logical", "text"))) expect_true(is.logical(df$logical)) should_be_NA <- df$explanation %in% c("string not logical", "blank", "date") expect_false(anyNA(df$logical[!should_be_NA])) expect_snapshot(df <- read_excel(test_sheet("types.xlsx"), sheet = "logical_coercion", col_types = c("logical", "text"))) expect_true(is.logical(df$logical)) should_be_NA <- df$explanation %in% c("string not logical", "blank", "date") expect_false(anyNA(df$logical[!should_be_NA])) })   37: eval(code, test_env)   38: eval(code, test_env)   39: withCallingHandlers({ eval(code, test_env) new_expectations <- the$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$package, "} is not installed.")) }}, snapshot_on_cran = function(cnd) { snapshot_skipped <<- TRUE invokeRestart("muffle_cran_snapshot")}, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error, interrupt = handle_interrupt)   40: doTryCatch(return(expr), name, parentenv, handler)   41: tryCatchOne(expr, names, parentenv, handlers[[1L]])   42: tryCatchList(expr, classes, parentenv, handlers)   43: tryCatch(withCallingHandlers({ eval(code, test_env) new_expectations <- the$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$package, "} is not installed.")) }}, snapshot_on_cran = function(cnd) { snapshot_skipped <<- TRUE invokeRestart("muffle_cran_snapshot")}, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error, interrupt = handle_interrupt), error = handle_fatal)   44: doWithOneRestart(return(expr), restart)   45: withOneRestart(expr, restarts[[1L]])   46: withRestarts(tryCatch(withCallingHandlers({ eval(code, test_env) new_expectations <- the$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$package, "} is not installed.")) }}, snapshot_on_cran = function(cnd) { snapshot_skipped <<- TRUE invokeRestart("muffle_cran_snapshot")}, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error, interrupt = handle_interrupt), error = handle_fatal), end_test = function() { })   47: test_code(code = exprs, env = env, reporter = get_reporter() %||% StopReporter$new())   48: source_file(path, env = env(env), desc = desc, shuffle = shuffle, error_call = error_call)   49: FUN(X[[i]], ...)   50: lapply(test_paths, test_one_file, env = env, desc = desc, shuffle = shuffle, error_call = error_call)   51: doTryCatch(return(expr), name, parentenv, handler)   52: tryCatchOne(expr, names, parentenv, handlers[[1L]])   53: tryCatchList(expr, classes, parentenv, handlers)   54: tryCatch(code, testthat_abort_reporter = function(cnd) { cat(conditionMessage(cnd), "\n") NULL})   55: with_reporter(reporters$multi, lapply(test_paths, test_one_file, env = env, desc = desc, shuffle = shuffle, error_call = error_call))   56: 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)   57: 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)   58: test_dir("testthat", package = package, reporter = reporter, ..., load_package = "installed")   59: test_check("readxl")   An irrecoverable exception occurred. R is aborting now ...
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [9s/13s] ERROR Error(s) in re-building vignettes: --- re-building ‘cell-and-column-types.Rmd’ using rmarkdown  *** caught segfault *** address (nil), cause 'memory not mapped' Traceback:  1: read_fun(path = path, sheet_i = sheet, limits = limits, shim = shim, col_names = col_names, col_types = col_types, na = na, trim_ws = trim_ws, guess_max = guess_max, progress = progress)  2: tibble::as_tibble(l, .name_repair = .name_repair)  3: set_readxl_names(read_fun(path = path, sheet_i = sheet, limits = limits, shim = shim, col_names = col_names, col_types = col_types, na = na, trim_ws = trim_ws, guess_max = guess_max, progress = progress), .name_repair = .name_repair)  4: read_excel_(path = path, sheet = sheet, range = range, col_names = col_names, col_types = col_types, na = na, trim_ws = trim_ws, skip = skip, n_max = n_max, guess_max = guess_max, progress = progress, .name_repair = .name_repair, format = format)  5: read_excel(readxl_example("type-me.xlsx"), sheet = "logical_coercion", col_types = c("logical", "text"))  6: eval(expr, envir)  7: eval(expr, envir)  8: withVisible(eval(expr, envir))  9: 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$push(cnd) switch(on_error, continue = invokeRestart("eval_continue"), stop = invokeRestart("eval_stop"), error = NULL)}) 10: eval(call) 11: eval(call) 12: with_handlers({ for (expr in tle$exprs) { ev <- withVisible(eval(expr, envir)) watcher$capture_plot_and_output() watcher$print_value(ev$value, ev$visible, envir) } TRUE}, handlers) 13: doWithOneRestart(return(expr), restart) 14: withOneRestart(expr, restarts[[1L]]) 15: withRestartList(expr, restarts[-nr]) 16: doWithOneRestart(return(expr), restart) 17: withOneRestart(withRestartList(expr, restarts[-nr]), restarts[[nr]]) 18: withRestartList(expr, restarts) 19: withRestarts(with_handlers({ for (expr in tle$exprs) { ev <- withVisible(eval(expr, envir)) watcher$capture_plot_and_output() watcher$print_value(ev$value, ev$visible, envir) } TRUE}, handlers), eval_continue = function() TRUE, eval_stop = function() FALSE) 20: evaluate::evaluate(...) 21: evaluate(code, envir = env, new_device = FALSE, keep_warning = if (is.numeric(options$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)) 22: in_dir(input_dir(), expr) 23: 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$render, options))) 24: eng_r(options) 25: block_exec(params) 26: call_block(x) 27: process_group(group) 28: withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() if (is_R_CMD_build() || is_R_CMD_check()) error <<- format(e) }) 29: with_options(withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() if (is_R_CMD_build() || is_R_CMD_check()) error <<- format(e) }), list(rlang_trace_top_env = knit_global())) 30: xfun:::handle_error(with_options(withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() if (is_R_CMD_build() || is_R_CMD_check()) error <<- format(e) }), list(rlang_trace_top_env = knit_global())), function(loc) { setwd(wd) write_utf8(res, output %n% stdout()) paste0("\nQuitting from ", loc, if (!is.null(error)) paste0("\n", rule(), error, "\n", rule()))}, if (labels[i] != "") sprintf(" [%s]", labels[i]), get_loc) 31: process_file(text, output) 32: knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet) 33: rmarkdown::render(file, encoding = encoding, quiet = quiet, envir = globalenv(), output_dir = getwd(), ...) 34: vweave_rmarkdown(...) 35: engine$weave(file, quiet = quiet, encoding = enc) 36: doTryCatch(return(expr), name, parentenv, handler) 37: tryCatchOne(expr, names, parentenv, handlers[[1L]]) 38: tryCatchList(expr, classes, parentenv, handlers) 39: 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)))}) 40: tools:::.buildOneVignette("cell-and-column-types.Rmd", "/data/gannet/ripley/R/packages/tests-clang/readxl.Rcheck/vign_test/readxl", TRUE, FALSE, "cell-and-column-types", "UTF-8", "/tmp/RtmpkLJ1Ns/working_dir/Rtmp6ZOtBz/file413034b43a3d7.rds") An irrecoverable exception occurred. R is aborting now ... --- re-building ‘sheet-geometry.Rmd’ using rmarkdown --- finished re-building ‘sheet-geometry.Rmd’ SUMMARY: processing the following file failed:   ‘cell-and-column-types.Rmd’ Error: Vignette re-building failed. Execution halted
• checking PDF version of manual ... OK
• checking HTML version of manual ... OK
• checking for non-standard things in the check directory ... OK
• checking for detritus in the temp directory ... OK
• DONE

Status: 2 ERRORs