• using R Under development (unstable) (2026-03-29 r89739)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)     flang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)
• running under: Fedora Linux 42 (Workstation Edition)
• using session charset: UTF-8 * current time: 2026-03-30 07:04:47 UTC
• using option ‘--no-stop-on-test-error’
• checking for file ‘villager/DESCRIPTION’ ... OK
• this is package ‘villager’ version ‘2.0.0’
• 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 ‘villager’ can be installed ... [15s/31s] OK See the install log for details.
• checking installed package size ... INFO   installed size is 5.3Mb   sub-directories of 1Mb or more:     doc 4.7Mb
• 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 ... [7s/15s] 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 installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... NONE
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [98s/179s] OK   Running ‘testthat.R’ [98s/178s]
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [105s/259s] ERROR Error(s) in re-building vignettes: --- re-building ‘example-boltzman-wealth.Rmd’ using rmarkdown  *** caught segfault *** address 0x7fb42e51b9c8, cause 'memory not mapped' Traceback:  1: vroom_write_(x, file, delim, eol, na_str = na, col_names = col_names, append = append, options = opts, num_threads = num_threads, progress = progress, buf_lines = buf_lines)  2: vroom::vroom_write(x, file, delim = delim, col_names = col_names, append = append, na = na, eol = eol, quote = quote, escape = escape, num_threads = num_threads, progress = progress)  3: write_delim(x, file, delim = ",", na = na, append = append, col_names = col_names, quote = quote, escape = escape, eol = eol, num_threads = num_threads, progress = progress)  4: readr::write_csv(state$agent_states, file = agent_path, na = "NA", append = append, col_names = col_names)  5: self$writer$write(village$current_state, village$name)  6: simulator$run_model()  7: eval(expr, envir)  8: eval(expr, envir)  9: withVisible(eval(expr, envir)) 10: 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)}) 11: eval(call) 12: eval(call) 13: with_handlers({ for (expr in tle$exprs) { ev <- withVisible(eval(expr, envir)) watcher$capture_plot_and_output() watcher$print_value(ev$value, ev$visible, envir) } TRUE}, handlers) 14: doWithOneRestart(return(expr), restart) 15: withOneRestart(expr, restarts[[1L]]) 16: withRestartList(expr, restarts[-nr]) 17: doWithOneRestart(return(expr), restart) 18: withOneRestart(withRestartList(expr, restarts[-nr]), restarts[[nr]]) 19: withRestartList(expr, restarts) 20: withRestarts(with_handlers({ for (expr in tle$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) 21: evaluate::evaluate(...) 22: 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$render, options)) 23: in_dir(input_dir(), expr) 24: in_input_dir(evaluate(code, envir = env, new_device = FALSE, keep_warning = if (is.numeric(options$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))) 25: eng_r(options) 26: block_exec(params) 27: call_block(x) 28: process_group(group) 29: 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) }) 30: 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())) 31: 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) 32: process_file(text, output) 33: knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet) 34: rmarkdown::render(file, encoding = encoding, quiet = quiet, envir = globalenv(), output_dir = getwd(), ...) 35: vweave_rmarkdown(...) 36: engine$weave(file, quiet = quiet, encoding = enc) 37: doTryCatch(return(expr), name, parentenv, handler) 38: tryCatchOne(expr, names, parentenv, handlers[[1L]]) 39: tryCatchList(expr, classes, parentenv, handlers) 40: tryCatch({ engine$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)))}) 41: tools:::.buildOneVignette("example-boltzman-wealth.Rmd", "/data/gannet/ripley/R/packages/tests-clang/villager.Rcheck/vign_test/villager", TRUE, FALSE, "example-boltzman-wealth", "UTF-8", "/tmp/RtmpWyAMoj/working_dir/RtmpKZnJtg/file16e4b52b7509fd.rds") An irrecoverable exception occurred. R is aborting now ... --- re-building ‘extending-agents.Rmd’ using rmarkdown --- finished re-building ‘extending-agents.Rmd’ --- re-building ‘extending-resources.Rmd’ using rmarkdown --- finished re-building ‘extending-resources.Rmd’ SUMMARY: processing the following file failed:   ‘example-boltzman-wealth.Rmd’ Error: Vignette re-building failed. Execution halted
• checking PDF version of manual ... [9s/23s] 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: 1 ERROR