Error(s) in re-building vignettes:
--- re-building ‘bias-structures.Rmd’ using rmarkdown
Loading required package: ggplot2

Attaching package: 'ggdag'

The following object is masked from 'package:stats':

    filter

--- finished re-building ‘bias-structures.Rmd’

sh: line 1: 35084 Illegal instruction     (core dumped) R_LIBS=/tmp/Rtmpvh85KS/RLIBS_2d322c76561 R_ENVIRON_USER='' R_LIBS_USER='' R_LIBS_SITE='no_such_dir' '/data/gannet/ripley/R/R-clang/bin/R' --vanilla --no-echo > '/tmp/Rtmpvh85KS/working_dir/RtmpyoDyua/file79036f73420a' 2>&1 < '/tmp/Rtmpvh85KS/working_dir/RtmpyoDyua/file79037fe482e5'
--- re-building ‘intro-to-dags.Rmd’ using rmarkdown
Loading required package: ggplot2

Attaching package: 'ggdag'

The following object is masked from 'package:stats':

    filter



#
# Fatal error in , line 0
# Failed to create ICU collator, are ICU data files missing?
#
#
#
#FailureMessage Object: 0x7ffcadee7800
==== C stack trace ===============================

    /lib64/libnode.so.64(v8::base::debug::StackTrace::StackTrace()+0x1a) [0x7f773b02661a]
    /lib64/libnode.so.64(+0x92f2a1) [0x7f773a5ae2a1]
    /lib64/libnode.so.64(V8_Fatal(char const*, int, char const*, ...)+0x177) [0x7f773b022117]
    /lib64/libnode.so.64(v8::internal::Collator::InitializeCollator(v8::internal::Isolate*, v8::internal::Handle<v8::internal::JSObject>, v8::internal::Handle<v8::internal::String>, v8::internal::Handle<v8::internal::JSObject>, v8::internal::Handle<v8::internal::JSObject>)+0x473) [0x7f773ad02693]
    /lib64/libnode.so.64(v8::internal::Runtime_CreateCollator(int, v8::internal::Object**, v8::internal::Isolate*)+0x192) [0x7f773ae27632]
    [0x20d9ed0dc0d8]

 *** caught illegal operation ***
address 0x7f773a3ebb7d, cause 'illegal operand'

Traceback:
 1: context_eval(join(src), private$context, serialize)
 2: get_str_output(context_eval(join(src), private$context, serialize))
 3: evaluate_js(src, serialize = serialize)
 4: ct$eval(paste("global.", name, "=", value))
 5: .jsassign(xv, .jsp("GraphParser.parseGuess(global.", xv, ").toString()"))
 6: doTryCatch(return(expr), name, parentenv, handler)
 7: tryCatchOne(expr, names, parentenv, handlers[[1L]])
 8: tryCatchList(expr, classes, parentenv, handlers)
 9: tryCatch({    .jsassign(xv, as.character(x))    .jsassign(xv, .jsp("GraphParser.parseGuess(global.", xv,         ").toString()"))    r <- structure(.jsget(xv), class = "dagitty")}, error = function(e) {    stop(e)}, finally = {    .deleteJSVar(xv)})
10: dagitty::dagitty(dag_txt)
11: dagify(y ~ ~x)
12: eval(lhs, parent, parent)
13: eval(lhs, parent, parent)
14: dagify(y ~ ~x) %>% ggdag()
15: eval(expr, envir, enclos)
16: eval(expr, envir, enclos)
17: withVisible(eval(expr, envir, enclos))
18: withCallingHandlers(withVisible(eval(expr, envir, enclos)), warning = wHandler,     error = eHandler, message = mHandler)
19: handle(ev <- withCallingHandlers(withVisible(eval(expr, envir,     enclos)), warning = wHandler, error = eHandler, message = mHandler))
20: timing_fn(handle(ev <- withCallingHandlers(withVisible(eval(expr,     envir, enclos)), warning = wHandler, error = eHandler, message = mHandler)))
21: evaluate_call(expr, parsed$src[[i]], envir = envir, enclos = enclos,     debug = debug, last = i == length(out), use_try = stop_on_error !=         2L, keep_warning = keep_warning, keep_message = keep_message,     output_handler = output_handler, include_timing = include_timing)
22: evaluate::evaluate(...)
23: evaluate(code, envir = env, new_device = FALSE, keep_warning = !isFALSE(options$warning),     keep_message = !isFALSE(options$message), stop_on_error = if (options$error &&         options$include) 0L else 2L, output_handler = knit_handlers(options$render,         options))
24: in_dir(input_dir(), evaluate(code, envir = env, new_device = FALSE,     keep_warning = !isFALSE(options$warning), keep_message = !isFALSE(options$message),     stop_on_error = if (options$error && options$include) 0L else 2L,     output_handler = knit_handlers(options$render, options)))
25: block_exec(params)
26: call_block(x)
27: process_group.block(group)
28: process_group(group)
29: withCallingHandlers(if (tangle) process_tangle(group) else process_group(group),     error = function(e) {        setwd(wd)        cat(res, sep = "\n", file = output %n% "")        message("Quitting from lines ", paste(current_lines(i),             collapse = "-"), " (", knit_concord$get("infile"),             ") ")    })
30: process_file(text, output)
31: knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet)
32: rmarkdown::render(file, encoding = encoding, quiet = quiet, envir = globalenv(),     output_dir = getwd(), ...)
33: vweave_rmarkdown(...)
34: engine$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("intro-to-dags.Rmd", "/data/gannet/ripley/R/packages/tests-clang/ggdag.Rcheck/vign_test/ggdag",     TRUE, FALSE, "intro-to-dags", "UTF-8", "/tmp/Rtmpvh85KS/working_dir/RtmpyoDyua/file7903636eda2a.rds")
An irrecoverable exception occurred. R is aborting now ...
sh: line 1: 36058 Illegal instruction     (core dumped) R_LIBS=/tmp/Rtmpvh85KS/RLIBS_2d322c76561 R_ENVIRON_USER='' R_LIBS_USER='' R_LIBS_SITE='no_such_dir' '/data/gannet/ripley/R/R-clang/bin/R' --vanilla --no-echo > '/tmp/Rtmpvh85KS/working_dir/RtmpyoDyua/file79037c19fbef' 2>&1 < '/tmp/Rtmpvh85KS/working_dir/RtmpyoDyua/file790322345631'
--- re-building ‘intro-to-ggdag.Rmd’ using rmarkdown
Loading required package: ggplot2

Attaching package: 'ggdag'

The following object is masked from 'package:stats':

    filter


Attaching package: 'dplyr'

The following objects are masked from 'package:stats':

    filter, lag

The following objects are masked from 'package:base':

    intersect, setdiff, setequal, union



#
# Fatal error in , line 0
# Failed to create ICU collator, are ICU data files missing?
#
#
#
#FailureMessage Object: 0x7ffc634a1b70
==== C stack trace ===============================

    /lib64/libnode.so.64(v8::base::debug::StackTrace::StackTrace()+0x1a) [0x7f1b6c0f161a]
    /lib64/libnode.so.64(+0x92f2a1) [0x7f1b6b6792a1]
    /lib64/libnode.so.64(V8_Fatal(char const*, int, char const*, ...)+0x177) [0x7f1b6c0ed117]
    /lib64/libnode.so.64(v8::internal::Collator::InitializeCollator(v8::internal::Isolate*, v8::internal::Handle<v8::internal::JSObject>, v8::internal::Handle<v8::internal::String>, v8::internal::Handle<v8::internal::JSObject>, v8::internal::Handle<v8::internal::JSObject>)+0x473) [0x7f1b6bdcd693]
    /lib64/libnode.so.64(v8::internal::Runtime_CreateCollator(int, v8::internal::Object**, v8::internal::Isolate*)+0x192) [0x7f1b6bef2632]
    [0x360db07dc0d8]

 *** caught illegal operation ***
address 0x7f1b6b4b6b7d, cause 'illegal operand'

Traceback:
 1: context_eval(join(src), private$context, serialize)
 2: get_str_output(context_eval(join(src), private$context, serialize))
 3: evaluate_js(src, serialize = serialize)
 4: ct$eval(paste("global.", name, "=", value))
 5: .jsassign(xv, .jsp("GraphParser.parseGuess(global.", xv, ").toString()"))
 6: doTryCatch(return(expr), name, parentenv, handler)
 7: tryCatchOne(expr, names, parentenv, handlers[[1L]])
 8: tryCatchList(expr, classes, parentenv, handlers)
 9: tryCatch({    .jsassign(xv, as.character(x))    .jsassign(xv, .jsp("GraphParser.parseGuess(global.", xv,         ").toString()"))    r <- structure(.jsget(xv), class = "dagitty")}, error = function(e) {    stop(e)}, finally = {    .deleteJSVar(xv)})
10: dagitty::dagitty(dag_txt)
11: dagify(y ~ x + z, x ~ ~z)
12: eval(lhs, parent, parent)
13: eval(lhs, parent, parent)
14: dagify(y ~ x + z, x ~ ~z) %>% node_canonical() %>% ggplot(aes(x = x,     y = y, xend = xend, yend = yend))
15: eval(expr, envir, enclos)
16: eval(expr, envir, enclos)
17: withVisible(eval(expr, envir, enclos))
18: withCallingHandlers(withVisible(eval(expr, envir, enclos)), warning = wHandler,     error = eHandler, message = mHandler)
19: handle(ev <- withCallingHandlers(withVisible(eval(expr, envir,     enclos)), warning = wHandler, error = eHandler, message = mHandler))
20: timing_fn(handle(ev <- withCallingHandlers(withVisible(eval(expr,     envir, enclos)), warning = wHandler, error = eHandler, message = mHandler)))
21: evaluate_call(expr, parsed$src[[i]], envir = envir, enclos = enclos,     debug = debug, last = i == length(out), use_try = stop_on_error !=         2L, keep_warning = keep_warning, keep_message = keep_message,     output_handler = output_handler, include_timing = include_timing)
22: evaluate::evaluate(...)
23: evaluate(code, envir = env, new_device = FALSE, keep_warning = !isFALSE(options$warning),     keep_message = !isFALSE(options$message), stop_on_error = if (options$error &&         options$include) 0L else 2L, output_handler = knit_handlers(options$render,         options))
24: in_dir(input_dir(), evaluate(code, envir = env, new_device = FALSE,     keep_warning = !isFALSE(options$warning), keep_message = !isFALSE(options$message),     stop_on_error = if (options$error && options$include) 0L else 2L,     output_handler = knit_handlers(options$render, options)))
25: block_exec(params)
26: call_block(x)
27: process_group.block(group)
28: process_group(group)
29: withCallingHandlers(if (tangle) process_tangle(group) else process_group(group),     error = function(e) {        setwd(wd)        cat(res, sep = "\n", file = output %n% "")        message("Quitting from lines ", paste(current_lines(i),             collapse = "-"), " (", knit_concord$get("infile"),             ") ")    })
30: process_file(text, output)
31: knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet)
32: rmarkdown::render(file, encoding = encoding, quiet = quiet, envir = globalenv(),     output_dir = getwd(), ...)
33: vweave_rmarkdown(...)
34: engine$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("intro-to-ggdag.Rmd", "/data/gannet/ripley/R/packages/tests-clang/ggdag.Rcheck/vign_test/ggdag",     TRUE, FALSE, "intro-to-ggdag", "UTF-8", "/tmp/Rtmpvh85KS/working_dir/RtmpyoDyua/file7903147bdd3f.rds")
An irrecoverable exception occurred. R is aborting now ...
SUMMARY: processing the following files failed:
  ‘intro-to-dags.Rmd’ ‘intro-to-ggdag.Rmd’

Error: Vignette re-building failed.
Execution halted