CRAN Package Check Results for Package ggdag

Last updated on 2019-09-16 14:47:11 CEST.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 0.2.0 10.14 136.53 146.67 OK
r-devel-linux-x86_64-debian-gcc 0.2.0 7.24 103.01 110.25 OK
r-devel-linux-x86_64-fedora-clang 0.2.0 117.42 ERROR
r-devel-linux-x86_64-fedora-gcc 0.2.0 116.59 ERROR
r-devel-windows-ix86+x86_64 0.2.0 22.00 146.00 168.00 OK
r-patched-linux-x86_64 0.2.0 9.46 135.18 144.64 OK
r-patched-solaris-x86 0.2.0 231.10 NOTE
r-release-linux-x86_64 0.2.0 8.52 134.26 142.78 OK
r-release-windows-ix86+x86_64 0.2.0 3.00 6.00 9.00 OK
r-release-osx-x86_64 0.2.0 NOTE
r-oldrel-windows-ix86+x86_64 0.2.0 18.00 150.00 168.00 OK
r-oldrel-osx-x86_64 0.2.0 NOTE

Check Details

Version: 0.2.0
Check: dependencies in R code
Result: NOTE
    Namespaces in Imports field not imported from:
     ‘ggforce’ ‘plyr’
     All declared Imports should be used.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-patched-solaris-x86, r-release-osx-x86_64, r-oldrel-osx-x86_64

Version: 0.2.0
Check: examples
Result: ERROR
    Running examples in ‘ggdag-Ex.R’ failed
    The error most likely occurred in:
    
    > ### Name: Covariate Adjustment Sets
    > ### Title: Covariate Adjustment Sets
    > ### Aliases: 'Covariate Adjustment Sets' dag_adjustment_sets
    > ### ggdag_adjustment_set
    >
    > ### ** Examples
    >
    > dag <- dagify(y ~ x + z2 + w2 + w1,
    + x ~ z1 + w1,
    + z1 ~ w1 + v,
    + z2 ~ w2 + v,
    + w1 ~~ w2,
    + exposure = "x",
    + outcome = "y")
    
    
    #
    # Fatal error in , line 0
    # Failed to create ICU collator, are ICU data files missing?
    #
    #
    #
    #FailureMessage Object: 0x7ffe2cfdb320
    ==== C stack trace ===============================
    
     /lib64/libnode.so.64(v8::base::debug::StackTrace::StackTrace()+0x1a) [0x7fd8ea15d45a]
     /lib64/libnode.so.64(+0x92e8b1) [0x7fd8e96e58b1]
     /lib64/libnode.so.64(V8_Fatal(char const*, int, char const*, ...)+0x177) [0x7fd8ea158f57]
     /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) [0x7fd8e9e3a413]
     /lib64/libnode.so.64(v8::internal::Runtime_CreateCollator(int, v8::internal::Object**, v8::internal::Isolate*)+0x192) [0x7fd8e9f5f4a2]
     [0x210d3505c0d8]
    
     *** caught illegal operation ***
    address 0x7fd8e95239a5, cause 'illegal operand'
    
    Traceback:
     1: context_eval(join(src), private$context)
     2: get_str_output(context_eval(join(src), private$context))
     3: ct$eval(paste("global.", name, "=", value))
     4: .jsassign(xv, .jsp("GraphParser.parseGuess(global.", xv, ").toString()"))
     5: doTryCatch(return(expr), name, parentenv, handler)
     6: tryCatchOne(expr, names, parentenv, handlers[[1L]])
     7: tryCatchList(expr, classes, parentenv, handlers)
     8: 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)})
     9: dagitty::dagitty(dag_txt)
    10: dagify(y ~ x + z2 + w2 + w1, x ~ z1 + w1, z1 ~ w1 + v, z2 ~ w2 + v, w1 ~ ~w2, exposure = "x", outcome = "y")
    An irrecoverable exception occurred. R is aborting now ...
Flavor: r-devel-linux-x86_64-fedora-clang

Version: 0.2.0
Check: tests
Result: ERROR
     Running ‘spelling.R’
     Running ‘testthat.R’
    Running the tests in ‘tests/testthat.R’ failed.
    Complete output:
     > library(testthat)
     > library(ggdag)
     Loading required package: ggplot2
    
     Attaching package: 'ggdag'
    
     The following object is masked from 'package:ggplot2':
    
     expand_scale
    
     The following object is masked from 'package:stats':
    
     filter
    
     >
     > test_check("ggdag")
    
    
     #
     # Fatal error in , line 0
     # Failed to create ICU collator, are ICU data files missing?
     #
     #
     #
     #FailureMessage Object: 0x7ffcf982e210
     ==== C stack trace ===============================
    
     /lib64/libnode.so.64(v8::base::debug::StackTrace::StackTrace()+0x1a) [0x7ff8fd1c645a]
     /lib64/libnode.so.64(+0x92e8b1) [0x7ff8fc74e8b1]
     /lib64/libnode.so.64(V8_Fatal(char const*, int, char const*, ...)+0x177) [0x7ff8fd1c1f57]
     /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) [0x7ff8fcea3413]
     /lib64/libnode.so.64(v8::internal::Runtime_CreateCollator(int, v8::internal::Object**, v8::internal::Isolate*)+0x192) [0x7ff8fcfc84a2]
     [0x3c052495c0d8]
    
     *** caught illegal operation ***
     address 0x7ff8fc58c9a5, cause 'illegal operand'
    
     Traceback:
     1: context_eval(join(src), private$context)
     2: get_str_output(context_eval(join(src), private$context))
     3: ct$eval(paste("global.", name, "=", value))
     4: .jsassign(xv, .jsp("GraphTransformer.", method, "(global.", xv, ")"))
     5: doTryCatch(return(expr), name, parentenv, handler)
     6: tryCatchOne(expr, names, parentenv, handlers[[1L]])
     7: tryCatchList(expr, classes, parentenv, handlers)
     8: tryCatch({ .jsassigngraph(xv, x) .jsassign(xv, .jsp("GraphTransformer.", method, "(global.", xv, ")")) .jsassign(xv, .jsp("global.", xv, ".toString()")) r <- .jsget(xv)}, error = function(e) stop(e), finally = { .deleteJSVar(xv)})
     9: .graphTransformer(x, "dagToCpdag")
     10: dagitty::equivalenceClass(.dag$dag)
     11: eval(lhs, parent, parent)
     12: eval(lhs, parent, parent)
     13: dagitty::equivalenceClass(.dag$dag) %>% dagitty::edges(.) %>% dplyr::filter(e == "--") %>% dplyr::select(name = v, reversable = e, to = w) %>% dplyr::mutate_at(c("name", "to"), as.character) %>% dplyr::mutate(hash = hash(name, to)) %>% dplyr::select(hash, reversable)
     14: node_equivalent_class(tidy_dag)
     15: expect_function_produces_name(node_equivalent_class(tidy_dag), "reversable")
     16: eval(code, test_env)
     17: eval(code, test_env)
     18: withCallingHandlers({ eval(code, test_env) if (!handled && !is.null(test)) { skip_empty() }}, expectation = handle_expectation, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error)
     19: doTryCatch(return(expr), name, parentenv, handler)
     20: tryCatchOne(expr, names, parentenv, handlers[[1L]])
     21: tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
     22: doTryCatch(return(expr), name, parentenv, handler)
     23: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]), names[nh], parentenv, handlers[[nh]])
     24: tryCatchList(expr, classes, parentenv, handlers)
     25: tryCatch(withCallingHandlers({ eval(code, test_env) if (!handled && !is.null(test)) { skip_empty() }}, expectation = handle_expectation, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error), error = handle_fatal, skip = function(e) { })
     26: test_code(desc, code, env = parent.frame())
     27: test_that("node functions produce correct columns", { tidy_dag <- dagify(y ~ x + z, x ~ z) %>% tidy_dagitty() expect_function_produces_name(node_ancestors(tidy_dag, "y"), "ancestor") expect_function_produces_name(node_children(tidy_dag, "z"), "children") expect_function_produces_name(node_collider(tidy_dag), "colliders") expect_function_produces_name(node_dconnected(tidy_dag, "x", "y"), c("adjusted", "d_relationship")) expect_function_produces_name(node_descendants(tidy_dag, "z"), "descendant") expect_function_produces_name(node_drelationship(tidy_dag, "x", "y"), c("adjusted", "d_relationship")) expect_function_produces_name(node_dseparated(tidy_dag, "x", "y"), c("adjusted", "d_relationship")) expect_function_produces_name(node_equivalent_class(tidy_dag), "reversable") expect_function_produces_name(node_equivalent_dags(tidy_dag), "dag") expect_function_produces_name(node_exogenous(tidy_dag), "exogenous") expect_function_produces_name(node_instrumental(tidy_dag, exposure = "x", outcome = "y"), c("adjusted", "instrumental")) expect_function_produces_name(node_parents(tidy_dag, "z"), "parent") expect_function_produces_name(node_status(tidy_dag), "status")})
     28: eval(code, test_env)
     29: eval(code, test_env)
     30: withCallingHandlers({ eval(code, test_env) if (!handled && !is.null(test)) { skip_empty() }}, expectation = handle_expectation, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error)
     31: doTryCatch(return(expr), name, parentenv, handler)
     32: tryCatchOne(expr, names, parentenv, handlers[[1L]])
     33: tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
     34: doTryCatch(return(expr), name, parentenv, handler)
     35: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]), names[nh], parentenv, handlers[[nh]])
     36: tryCatchList(expr, classes, parentenv, handlers)
     37: tryCatch(withCallingHandlers({ eval(code, test_env) if (!handled && !is.null(test)) { skip_empty() }}, expectation = handle_expectation, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error), error = handle_fatal, skip = function(e) { })
     38: test_code(NULL, exprs, env)
     39: source_file(path, new.env(parent = env), chdir = TRUE, wrap = wrap)
     40: force(code)
     41: with_reporter(reporter = reporter, start_end_reporter = start_end_reporter, { reporter$start_file(basename(path)) lister$start_file(basename(path)) source_file(path, new.env(parent = env), chdir = TRUE, wrap = wrap) reporter$.end_context() reporter$end_file() })
     42: FUN(X[[i]], ...)
     43: lapply(paths, test_file, env = env, reporter = current_reporter, start_end_reporter = FALSE, load_helpers = FALSE, wrap = wrap)
     44: force(code)
     45: with_reporter(reporter = current_reporter, results <- lapply(paths, test_file, env = env, reporter = current_reporter, start_end_reporter = FALSE, load_helpers = FALSE, wrap = wrap))
     46: test_files(paths, reporter = reporter, env = env, stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning, wrap = wrap)
     47: test_dir(path = test_path, reporter = reporter, env = env, filter = filter, ..., stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning, wrap = wrap)
     48: test_package_dir(package = package, test_path = test_path, filter = filter, reporter = reporter, ..., stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning, wrap = wrap)
     49: test_check("ggdag")
     An irrecoverable exception occurred. R is aborting now ...
Flavor: r-devel-linux-x86_64-fedora-clang

Version: 0.2.0
Check: re-building of vignette outputs
Result: WARN
    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:ggplot2':
    
     expand_scale
    
    The following object is masked from 'package:stats':
    
     filter
    
    --- finished re-building ‘bias-structures.Rmd’
    
    sh: line 1: 45697 Illegal instruction (core dumped) '/data/gannet/ripley/R/R-clang/bin/R' --vanilla --slave > '/tmp/RtmpFUvwm7/working_dir/Rtmparvzh4/filea4a75ae1cef4' 2>&1 < '/tmp/RtmpFUvwm7/working_dir/Rtmparvzh4/filea4a713f1a910'
    --- re-building ‘intro-to-dags.Rmd’ using rmarkdown
    Loading required package: ggplot2
    
    Attaching package: 'ggdag'
    
    The following object is masked from 'package:ggplot2':
    
     expand_scale
    
    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: 0x7ffebace81f0
    ==== C stack trace ===============================
    
     /lib64/libnode.so.64(v8::base::debug::StackTrace::StackTrace()+0x1a) [0x7fa16c39c45a]
     /lib64/libnode.so.64(+0x92e8b1) [0x7fa16b9248b1]
     /lib64/libnode.so.64(V8_Fatal(char const*, int, char const*, ...)+0x177) [0x7fa16c397f57]
     /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) [0x7fa16c079413]
     /lib64/libnode.so.64(v8::internal::Runtime_CreateCollator(int, v8::internal::Object**, v8::internal::Isolate*)+0x192) [0x7fa16c19e4a2]
     [0x21c7cf0dc0d8]
    
     *** caught illegal operation ***
    address 0x7fa16b7629a5, cause 'illegal operand'
    
    Traceback:
     1: context_eval(join(src), private$context)
     2: get_str_output(context_eval(join(src), private$context))
     3: ct$eval(paste("global.", name, "=", value))
     4: .jsassign(xv, .jsp("GraphParser.parseGuess(global.", xv, ").toString()"))
     5: doTryCatch(return(expr), name, parentenv, handler)
     6: tryCatchOne(expr, names, parentenv, handlers[[1L]])
     7: tryCatchList(expr, classes, parentenv, handlers)
     8: tryCatch({ .jsassign(xv, as.character(x)) .jsassign(xv, .jsp("GraphParser.parseGuess(global.", xv, ").toString()")) r <- structure(.jsget(xv), class = "dagitty")}, error = function(e) { stop(e)}, finally = { .deleteJSVar(xv)})
     9: dagitty::dagitty(dag_txt)
    10: dagify(y ~ ~x)
    11: eval(lhs, parent, parent)
    12: eval(lhs, parent, parent)
    13: dagify(y ~ ~x) %>% ggdag()
    14: eval(expr, envir, enclos)
    15: eval(expr, envir, enclos)
    16: withVisible(eval(expr, envir, enclos))
    17: withCallingHandlers(withVisible(eval(expr, envir, enclos)), warning = wHandler, error = eHandler, message = mHandler)
    18: handle(ev <- withCallingHandlers(withVisible(eval(expr, envir, enclos)), warning = wHandler, error = eHandler, message = mHandler))
    19: timing_fn(handle(ev <- withCallingHandlers(withVisible(eval(expr, envir, enclos)), warning = wHandler, error = eHandler, message = mHandler)))
    20: evaluate_call(expr, parsed$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)
    21: evaluate::evaluate(...)
    22: 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$render, options))
    23: in_dir(input_dir(), evaluate(code, envir = env, new_device = FALSE, keep_warning = !isFALSE(options$warning), keep_message = !isFALSE(options$message), stop_on_error = if (options$error && options$include) 0L else 2L, output_handler = knit_handlers(options$render, options)))
    24: block_exec(params)
    25: call_block(x)
    26: process_group.block(group)
    27: process_group(group)
    28: 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$get("infile"), ") ") })
    29: process_file(text, output)
    30: knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet, encoding = encoding)
    31: rmarkdown::render(file, encoding = encoding, quiet = quiet, envir = globalenv(), ...)
    32: vweave_rmarkdown(...)
    33: engine$weave(file, quiet = quiet, encoding = enc)
    34: doTryCatch(return(expr), name, parentenv, handler)
    35: tryCatchOne(expr, names, parentenv, handlers[[1L]])
    36: tryCatchList(expr, classes, parentenv, handlers)
    37: 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)))})
    38: 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/RtmpFUvwm7/working_dir/Rtmparvzh4/filea4a7743dac18.rds")
    An irrecoverable exception occurred. R is aborting now ...
    sh: line 1: 46881 Illegal instruction (core dumped) '/data/gannet/ripley/R/R-clang/bin/R' --vanilla --slave > '/tmp/RtmpFUvwm7/working_dir/Rtmparvzh4/filea4a76244e327' 2>&1 < '/tmp/RtmpFUvwm7/working_dir/Rtmparvzh4/filea4a73dfd5598'
    --- re-building ‘intro-to-ggdag.Rmd’ using rmarkdown
    Loading required package: ggplot2
    
    Attaching package: 'ggdag'
    
    The following object is masked from 'package:ggplot2':
    
     expand_scale
    
    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: 0x7ffe0662d2f0
    ==== C stack trace ===============================
    
     /lib64/libnode.so.64(v8::base::debug::StackTrace::StackTrace()+0x1a) [0x7f1d4629445a]
     /lib64/libnode.so.64(+0x92e8b1) [0x7f1d4581c8b1]
     /lib64/libnode.so.64(V8_Fatal(char const*, int, char const*, ...)+0x177) [0x7f1d4628ff57]
     /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) [0x7f1d45f71413]
     /lib64/libnode.so.64(v8::internal::Runtime_CreateCollator(int, v8::internal::Object**, v8::internal::Isolate*)+0x192) [0x7f1d460964a2]
     [0x18b6f275c0d8]
    
     *** caught illegal operation ***
    address 0x7f1d4565a9a5, cause 'illegal operand'
    
    Traceback:
     1: context_eval(join(src), private$context)
     2: get_str_output(context_eval(join(src), private$context))
     3: ct$eval(paste("global.", name, "=", value))
     4: .jsassign(xv, .jsp("GraphParser.parseGuess(global.", xv, ").toString()"))
     5: doTryCatch(return(expr), name, parentenv, handler)
     6: tryCatchOne(expr, names, parentenv, handlers[[1L]])
     7: tryCatchList(expr, classes, parentenv, handlers)
     8: tryCatch({ .jsassign(xv, as.character(x)) .jsassign(xv, .jsp("GraphParser.parseGuess(global.", xv, ").toString()")) r <- structure(.jsget(xv), class = "dagitty")}, error = function(e) { stop(e)}, finally = { .deleteJSVar(xv)})
     9: dagitty::dagitty(dag_txt)
    10: dagify(y ~ x + z, x ~ ~z)
    11: eval(lhs, parent, parent)
    12: eval(lhs, parent, parent)
    13: dagify(y ~ x + z, x ~ ~z) %>% node_canonical() %>% ggplot(aes(x = x, y = y, xend = xend, yend = yend))
    14: eval(expr, envir, enclos)
    15: eval(expr, envir, enclos)
    16: withVisible(eval(expr, envir, enclos))
    17: withCallingHandlers(withVisible(eval(expr, envir, enclos)), warning = wHandler, error = eHandler, message = mHandler)
    18: handle(ev <- withCallingHandlers(withVisible(eval(expr, envir, enclos)), warning = wHandler, error = eHandler, message = mHandler))
    19: timing_fn(handle(ev <- withCallingHandlers(withVisible(eval(expr, envir, enclos)), warning = wHandler, error = eHandler, message = mHandler)))
    20: evaluate_call(expr, parsed$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)
    21: evaluate::evaluate(...)
    22: 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$render, options))
    23: in_dir(input_dir(), evaluate(code, envir = env, new_device = FALSE, keep_warning = !isFALSE(options$warning), keep_message = !isFALSE(options$message), stop_on_error = if (options$error && options$include) 0L else 2L, output_handler = knit_handlers(options$render, options)))
    24: block_exec(params)
    25: call_block(x)
    26: process_group.block(group)
    27: process_group(group)
    28: 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$get("infile"), ") ") })
    29: process_file(text, output)
    30: knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet, encoding = encoding)
    31: rmarkdown::render(file, encoding = encoding, quiet = quiet, envir = globalenv(), ...)
    32: vweave_rmarkdown(...)
    33: engine$weave(file, quiet = quiet, encoding = enc)
    34: doTryCatch(return(expr), name, parentenv, handler)
    35: tryCatchOne(expr, names, parentenv, handlers[[1L]])
    36: tryCatchList(expr, classes, parentenv, handlers)
    37: 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)))})
    38: 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/RtmpFUvwm7/working_dir/Rtmparvzh4/filea4a7646b0c47.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
Flavor: r-devel-linux-x86_64-fedora-clang

Version: 0.2.0
Check: examples
Result: ERROR
    Running examples in ‘ggdag-Ex.R’ failed
    The error most likely occurred in:
    
    > ### Name: Covariate Adjustment Sets
    > ### Title: Covariate Adjustment Sets
    > ### Aliases: 'Covariate Adjustment Sets' dag_adjustment_sets
    > ### ggdag_adjustment_set
    >
    > ### ** Examples
    >
    > dag <- dagify(y ~ x + z2 + w2 + w1,
    + x ~ z1 + w1,
    + z1 ~ w1 + v,
    + z2 ~ w2 + v,
    + w1 ~~ w2,
    + exposure = "x",
    + outcome = "y")
    
    
    #
    # Fatal error in , line 0
    # Failed to create ICU collator, are ICU data files missing?
    #
    #
    #
    #FailureMessage Object: 0x7ffeef962060
    ==== C stack trace ===============================
    
     /lib64/libnode.so.64(v8::base::debug::StackTrace::StackTrace()+0x1a) [0x7f2b354b045a]
     /lib64/libnode.so.64(+0x92e8b1) [0x7f2b34a388b1]
     /lib64/libnode.so.64(V8_Fatal(char const*, int, char const*, ...)+0x177) [0x7f2b354abf57]
     /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) [0x7f2b3518d413]
     /lib64/libnode.so.64(v8::internal::Runtime_CreateCollator(int, v8::internal::Object**, v8::internal::Isolate*)+0x192) [0x7f2b352b24a2]
     [0x2afeb525c0d8]
    
     *** caught illegal operation ***
    address 0x7f2b348769a5, cause 'illegal operand'
    
    Traceback:
     1: context_eval(join(src), private$context)
     2: get_str_output(context_eval(join(src), private$context))
     3: ct$eval(paste("global.", name, "=", value))
     4: .jsassign(xv, .jsp("GraphParser.parseGuess(global.", xv, ").toString()"))
     5: doTryCatch(return(expr), name, parentenv, handler)
     6: tryCatchOne(expr, names, parentenv, handlers[[1L]])
     7: tryCatchList(expr, classes, parentenv, handlers)
     8: 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)})
     9: dagitty::dagitty(dag_txt)
    10: dagify(y ~ x + z2 + w2 + w1, x ~ z1 + w1, z1 ~ w1 + v, z2 ~ w2 + v, w1 ~ ~w2, exposure = "x", outcome = "y")
    An irrecoverable exception occurred. R is aborting now ...
Flavor: r-devel-linux-x86_64-fedora-gcc

Version: 0.2.0
Check: tests
Result: ERROR
     Running ‘spelling.R’
     Running ‘testthat.R’
    Running the tests in ‘tests/testthat.R’ failed.
    Complete output:
     > library(testthat)
     > library(ggdag)
     Loading required package: ggplot2
    
     Attaching package: 'ggdag'
    
     The following object is masked from 'package:ggplot2':
    
     expand_scale
    
     The following object is masked from 'package:stats':
    
     filter
    
     >
     > test_check("ggdag")
    
    
     #
     # Fatal error in , line 0
     # Failed to create ICU collator, are ICU data files missing?
     #
     #
     #
     #FailureMessage Object: 0x7ffd8a64afc0
     ==== C stack trace ===============================
    
     /lib64/libnode.so.64(v8::base::debug::StackTrace::StackTrace()+0x1a) [0x7f531738645a]
     /lib64/libnode.so.64(+0x92e8b1) [0x7f531690e8b1]
     /lib64/libnode.so.64(V8_Fatal(char const*, int, char const*, ...)+0x177) [0x7f5317381f57]
     /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) [0x7f5317063413]
     /lib64/libnode.so.64(v8::internal::Runtime_CreateCollator(int, v8::internal::Object**, v8::internal::Isolate*)+0x192) [0x7f53171884a2]
     [0xc1e7765c0d8]
    
     *** caught illegal operation ***
     address 0x7f531674c9a5, cause 'illegal operand'
    
     Traceback:
     1: context_eval(join(src), private$context)
     2: get_str_output(context_eval(join(src), private$context))
     3: ct$eval(paste("global.", name, "=", value))
     4: .jsassign(xv, .jsp("GraphTransformer.", method, "(global.", xv, ")"))
     5: doTryCatch(return(expr), name, parentenv, handler)
     6: tryCatchOne(expr, names, parentenv, handlers[[1L]])
     7: tryCatchList(expr, classes, parentenv, handlers)
     8: tryCatch({ .jsassigngraph(xv, x) .jsassign(xv, .jsp("GraphTransformer.", method, "(global.", xv, ")")) .jsassign(xv, .jsp("global.", xv, ".toString()")) r <- .jsget(xv)}, error = function(e) stop(e), finally = { .deleteJSVar(xv)})
     9: .graphTransformer(x, "dagToCpdag")
     10: dagitty::equivalenceClass(.dag$dag)
     11: eval(lhs, parent, parent)
     12: eval(lhs, parent, parent)
     13: dagitty::equivalenceClass(.dag$dag) %>% dagitty::edges(.) %>% dplyr::filter(e == "--") %>% dplyr::select(name = v, reversable = e, to = w) %>% dplyr::mutate_at(c("name", "to"), as.character) %>% dplyr::mutate(hash = hash(name, to)) %>% dplyr::select(hash, reversable)
     14: node_equivalent_class(tidy_dag)
     15: expect_function_produces_name(node_equivalent_class(tidy_dag), "reversable")
     16: eval(code, test_env)
     17: eval(code, test_env)
     18: withCallingHandlers({ eval(code, test_env) if (!handled && !is.null(test)) { skip_empty() }}, expectation = handle_expectation, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error)
     19: doTryCatch(return(expr), name, parentenv, handler)
     20: tryCatchOne(expr, names, parentenv, handlers[[1L]])
     21: tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
     22: doTryCatch(return(expr), name, parentenv, handler)
     23: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]), names[nh], parentenv, handlers[[nh]])
     24: tryCatchList(expr, classes, parentenv, handlers)
     25: tryCatch(withCallingHandlers({ eval(code, test_env) if (!handled && !is.null(test)) { skip_empty() }}, expectation = handle_expectation, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error), error = handle_fatal, skip = function(e) { })
     26: test_code(desc, code, env = parent.frame())
     27: test_that("node functions produce correct columns", { tidy_dag <- dagify(y ~ x + z, x ~ z) %>% tidy_dagitty() expect_function_produces_name(node_ancestors(tidy_dag, "y"), "ancestor") expect_function_produces_name(node_children(tidy_dag, "z"), "children") expect_function_produces_name(node_collider(tidy_dag), "colliders") expect_function_produces_name(node_dconnected(tidy_dag, "x", "y"), c("adjusted", "d_relationship")) expect_function_produces_name(node_descendants(tidy_dag, "z"), "descendant") expect_function_produces_name(node_drelationship(tidy_dag, "x", "y"), c("adjusted", "d_relationship")) expect_function_produces_name(node_dseparated(tidy_dag, "x", "y"), c("adjusted", "d_relationship")) expect_function_produces_name(node_equivalent_class(tidy_dag), "reversable") expect_function_produces_name(node_equivalent_dags(tidy_dag), "dag") expect_function_produces_name(node_exogenous(tidy_dag), "exogenous") expect_function_produces_name(node_instrumental(tidy_dag, exposure = "x", outcome = "y"), c("adjusted", "instrumental")) expect_function_produces_name(node_parents(tidy_dag, "z"), "parent") expect_function_produces_name(node_status(tidy_dag), "status")})
     28: eval(code, test_env)
     29: eval(code, test_env)
     30: withCallingHandlers({ eval(code, test_env) if (!handled && !is.null(test)) { skip_empty() }}, expectation = handle_expectation, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error)
     31: doTryCatch(return(expr), name, parentenv, handler)
     32: tryCatchOne(expr, names, parentenv, handlers[[1L]])
     33: tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
     34: doTryCatch(return(expr), name, parentenv, handler)
     35: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]), names[nh], parentenv, handlers[[nh]])
     36: tryCatchList(expr, classes, parentenv, handlers)
     37: tryCatch(withCallingHandlers({ eval(code, test_env) if (!handled && !is.null(test)) { skip_empty() }}, expectation = handle_expectation, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error), error = handle_fatal, skip = function(e) { })
     38: test_code(NULL, exprs, env)
     39: source_file(path, new.env(parent = env), chdir = TRUE, wrap = wrap)
     40: force(code)
     41: with_reporter(reporter = reporter, start_end_reporter = start_end_reporter, { reporter$start_file(basename(path)) lister$start_file(basename(path)) source_file(path, new.env(parent = env), chdir = TRUE, wrap = wrap) reporter$.end_context() reporter$end_file() })
     42: FUN(X[[i]], ...)
     43: lapply(paths, test_file, env = env, reporter = current_reporter, start_end_reporter = FALSE, load_helpers = FALSE, wrap = wrap)
     44: force(code)
     45: with_reporter(reporter = current_reporter, results <- lapply(paths, test_file, env = env, reporter = current_reporter, start_end_reporter = FALSE, load_helpers = FALSE, wrap = wrap))
     46: test_files(paths, reporter = reporter, env = env, stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning, wrap = wrap)
     47: test_dir(path = test_path, reporter = reporter, env = env, filter = filter, ..., stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning, wrap = wrap)
     48: test_package_dir(package = package, test_path = test_path, filter = filter, reporter = reporter, ..., stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning, wrap = wrap)
     49: test_check("ggdag")
     An irrecoverable exception occurred. R is aborting now ...
Flavor: r-devel-linux-x86_64-fedora-gcc

Version: 0.2.0
Check: re-building of vignette outputs
Result: WARN
    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:ggplot2':
    
     expand_scale
    
    The following object is masked from 'package:stats':
    
     filter
    
    --- finished re-building ‘bias-structures.Rmd’
    
    sh: line 1: 30135 Illegal instruction (core dumped) '/data/gannet/ripley/R/R-devel/bin/R' --vanilla --slave > '/tmp/RtmpbOCw0p/working_dir/Rtmpdeb6zn/file653c2ee9e088' 2>&1 < '/tmp/RtmpbOCw0p/working_dir/Rtmpdeb6zn/file653c15aee52d'
    --- re-building ‘intro-to-dags.Rmd’ using rmarkdown
    Loading required package: ggplot2
    
    Attaching package: 'ggdag'
    
    The following object is masked from 'package:ggplot2':
    
     expand_scale
    
    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: 0x7ffd79bf6a70
    ==== C stack trace ===============================
    
     /lib64/libnode.so.64(v8::base::debug::StackTrace::StackTrace()+0x1a) [0x7f2b098c945a]
     /lib64/libnode.so.64(+0x92e8b1) [0x7f2b08e518b1]
     /lib64/libnode.so.64(V8_Fatal(char const*, int, char const*, ...)+0x177) [0x7f2b098c4f57]
     /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) [0x7f2b095a6413]
     /lib64/libnode.so.64(v8::internal::Runtime_CreateCollator(int, v8::internal::Object**, v8::internal::Isolate*)+0x192) [0x7f2b096cb4a2]
     [0xb01d7dc0d8]
    
     *** caught illegal operation ***
    address 0x7f2b08c8f9a5, cause 'illegal operand'
    
    Traceback:
     1: context_eval(join(src), private$context)
     2: get_str_output(context_eval(join(src), private$context))
     3: ct$eval(paste("global.", name, "=", value))
     4: .jsassign(xv, .jsp("GraphParser.parseGuess(global.", xv, ").toString()"))
     5: doTryCatch(return(expr), name, parentenv, handler)
     6: tryCatchOne(expr, names, parentenv, handlers[[1L]])
     7: tryCatchList(expr, classes, parentenv, handlers)
     8: tryCatch({ .jsassign(xv, as.character(x)) .jsassign(xv, .jsp("GraphParser.parseGuess(global.", xv, ").toString()")) r <- structure(.jsget(xv), class = "dagitty")}, error = function(e) { stop(e)}, finally = { .deleteJSVar(xv)})
     9: dagitty::dagitty(dag_txt)
    10: dagify(y ~ ~x)
    11: eval(lhs, parent, parent)
    12: eval(lhs, parent, parent)
    13: dagify(y ~ ~x) %>% ggdag()
    14: eval(expr, envir, enclos)
    15: eval(expr, envir, enclos)
    16: withVisible(eval(expr, envir, enclos))
    17: withCallingHandlers(withVisible(eval(expr, envir, enclos)), warning = wHandler, error = eHandler, message = mHandler)
    18: handle(ev <- withCallingHandlers(withVisible(eval(expr, envir, enclos)), warning = wHandler, error = eHandler, message = mHandler))
    19: timing_fn(handle(ev <- withCallingHandlers(withVisible(eval(expr, envir, enclos)), warning = wHandler, error = eHandler, message = mHandler)))
    20: evaluate_call(expr, parsed$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)
    21: evaluate::evaluate(...)
    22: 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$render, options))
    23: in_dir(input_dir(), evaluate(code, envir = env, new_device = FALSE, keep_warning = !isFALSE(options$warning), keep_message = !isFALSE(options$message), stop_on_error = if (options$error && options$include) 0L else 2L, output_handler = knit_handlers(options$render, options)))
    24: block_exec(params)
    25: call_block(x)
    26: process_group.block(group)
    27: process_group(group)
    28: 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$get("infile"), ") ") })
    29: process_file(text, output)
    30: knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet, encoding = encoding)
    31: rmarkdown::render(file, encoding = encoding, quiet = quiet, envir = globalenv(), ...)
    32: vweave_rmarkdown(...)
    33: engine$weave(file, quiet = quiet, encoding = enc)
    34: doTryCatch(return(expr), name, parentenv, handler)
    35: tryCatchOne(expr, names, parentenv, handlers[[1L]])
    36: tryCatchList(expr, classes, parentenv, handlers)
    37: 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)))})
    38: tools:::.buildOneVignette("intro-to-dags.Rmd", "/data/gannet/ripley/R/packages/tests-devel/ggdag.Rcheck/vign_test/ggdag", TRUE, FALSE, "intro-to-dags", "UTF-8", "/tmp/RtmpbOCw0p/working_dir/Rtmpdeb6zn/file653c57e78bd0.rds")
    An irrecoverable exception occurred. R is aborting now ...
    sh: line 1: 30765 Illegal instruction (core dumped) '/data/gannet/ripley/R/R-devel/bin/R' --vanilla --slave > '/tmp/RtmpbOCw0p/working_dir/Rtmpdeb6zn/file653c2ca2130e' 2>&1 < '/tmp/RtmpbOCw0p/working_dir/Rtmpdeb6zn/file653c68a5711b'
    --- re-building ‘intro-to-ggdag.Rmd’ using rmarkdown
    Loading required package: ggplot2
    
    Attaching package: 'ggdag'
    
    The following object is masked from 'package:ggplot2':
    
     expand_scale
    
    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: 0x7ffd3e381380
    ==== C stack trace ===============================
    
     /lib64/libnode.so.64(v8::base::debug::StackTrace::StackTrace()+0x1a) [0x7fbc8c5f345a]
     /lib64/libnode.so.64(+0x92e8b1) [0x7fbc8bb7b8b1]
     /lib64/libnode.so.64(V8_Fatal(char const*, int, char const*, ...)+0x177) [0x7fbc8c5eef57]
     /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) [0x7fbc8c2d0413]
     /lib64/libnode.so.64(v8::internal::Runtime_CreateCollator(int, v8::internal::Object**, v8::internal::Isolate*)+0x192) [0x7fbc8c3f54a2]
     [0x2b0cffb5c0d8]
    
     *** caught illegal operation ***
    address 0x7fbc8b9b99a5, cause 'illegal operand'
    
    Traceback:
     1: context_eval(join(src), private$context)
     2: get_str_output(context_eval(join(src), private$context))
     3: ct$eval(paste("global.", name, "=", value))
     4: .jsassign(xv, .jsp("GraphParser.parseGuess(global.", xv, ").toString()"))
     5: doTryCatch(return(expr), name, parentenv, handler)
     6: tryCatchOne(expr, names, parentenv, handlers[[1L]])
     7: tryCatchList(expr, classes, parentenv, handlers)
     8: tryCatch({ .jsassign(xv, as.character(x)) .jsassign(xv, .jsp("GraphParser.parseGuess(global.", xv, ").toString()")) r <- structure(.jsget(xv), class = "dagitty")}, error = function(e) { stop(e)}, finally = { .deleteJSVar(xv)})
     9: dagitty::dagitty(dag_txt)
    10: dagify(y ~ x + z, x ~ ~z)
    11: eval(lhs, parent, parent)
    12: eval(lhs, parent, parent)
    13: dagify(y ~ x + z, x ~ ~z) %>% node_canonical() %>% ggplot(aes(x = x, y = y, xend = xend, yend = yend))
    14: eval(expr, envir, enclos)
    15: eval(expr, envir, enclos)
    16: withVisible(eval(expr, envir, enclos))
    17: withCallingHandlers(withVisible(eval(expr, envir, enclos)), warning = wHandler, error = eHandler, message = mHandler)
    18: handle(ev <- withCallingHandlers(withVisible(eval(expr, envir, enclos)), warning = wHandler, error = eHandler, message = mHandler))
    19: timing_fn(handle(ev <- withCallingHandlers(withVisible(eval(expr, envir, enclos)), warning = wHandler, error = eHandler, message = mHandler)))
    20: evaluate_call(expr, parsed$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)
    21: evaluate::evaluate(...)
    22: 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$render, options))
    23: in_dir(input_dir(), evaluate(code, envir = env, new_device = FALSE, keep_warning = !isFALSE(options$warning), keep_message = !isFALSE(options$message), stop_on_error = if (options$error && options$include) 0L else 2L, output_handler = knit_handlers(options$render, options)))
    24: block_exec(params)
    25: call_block(x)
    26: process_group.block(group)
    27: process_group(group)
    28: 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$get("infile"), ") ") })
    29: process_file(text, output)
    30: knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet, encoding = encoding)
    31: rmarkdown::render(file, encoding = encoding, quiet = quiet, envir = globalenv(), ...)
    32: vweave_rmarkdown(...)
    33: engine$weave(file, quiet = quiet, encoding = enc)
    34: doTryCatch(return(expr), name, parentenv, handler)
    35: tryCatchOne(expr, names, parentenv, handlers[[1L]])
    36: tryCatchList(expr, classes, parentenv, handlers)
    37: 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)))})
    38: tools:::.buildOneVignette("intro-to-ggdag.Rmd", "/data/gannet/ripley/R/packages/tests-devel/ggdag.Rcheck/vign_test/ggdag", TRUE, FALSE, "intro-to-ggdag", "UTF-8", "/tmp/RtmpbOCw0p/working_dir/Rtmpdeb6zn/file653c4fb3c1fa.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
Flavor: r-devel-linux-x86_64-fedora-gcc

Version: 0.2.0
Check: installed package size
Result: NOTE
     installed size is 5.0Mb
     sub-directories of 1Mb or more:
     doc 1.8Mb
     help 2.6Mb
Flavor: r-patched-solaris-x86