Error(s) in re-building vignettes:
  ...
--- re-building ‘run_example_pathways.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
  Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
--- finished re-building ‘run_example_pathways.Rmd’

--- re-building ‘plots_directed.Rmd’ using knitr

Attaching package: 'igraph'

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

    decompose, spectrum

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

    union

--- finished re-building ‘plots_directed.Rmd’

Segmentation Fault - core dumped
--- re-building ‘plots_viral_quantitate.Rmd’ using knitr

Attaching package: 'igraph'

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

    decompose, spectrum

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

    union


 *** caught segfault ***
address 0, cause 'memory not mapped'

Traceback:
 1: magick_image_write(image, format, quality, depth, density, comment)
 2: magick::image_write(anim, path = output)
 3: magick.convert(files = files, output = output, loop = loop, interval = interval,     dispose = dispose)
 4: im.convert(img.files, output = path.expand(movie.name), convert = convert,     cmd.fun = cmd.fun, clean = clean, extra.opts = extra.opts)
 5: saveGIF({    count = 0    for (i in 1:length(Glist)) {        plot(Glist[[i]], layout = L, vertex.label = NA, vertex.size = 10,             vertex.color = V(G)$color, vertex.frame.color = "white",             edge.arrow.size = 1, edge.color = E(G)$color)        count = count + 1        title(main = "Graph simulation example", sub = paste("Time = ",             count), cex.main = 1.2, cex.sub = 1)    }}, interval = 1, movie.name = "demo.gif", ani.width = 350, ani.height = 350)
 6: eval(expr, envir, enclos)
 7: eval(expr, envir, enclos)
 8: withVisible(eval(expr, envir, enclos))
 9: withCallingHandlers(withVisible(eval(expr, envir, enclos)), warning = wHandler,     error = eHandler, message = mHandler)
10: handle(ev <- withCallingHandlers(withVisible(eval(expr, envir,     enclos)), warning = wHandler, error = eHandler, message = mHandler))
11: timing_fn(handle(ev <- withCallingHandlers(withVisible(eval(expr,     envir, enclos)), warning = wHandler, error = eHandler, message = mHandler)))
12: evaluate_call(expr, parsed$src[[i]], envir = envir, enclos = enclos,     debug = debug, last = i == length(out), use_try = stop_on_error !=         2L, keep_warning = keep_warning, keep_message = keep_message,     output_handler = output_handler, include_timing = include_timing)
13: evaluate::evaluate(...)
14: evaluate(code, envir = env, new_device = FALSE, keep_warning = !isFALSE(options$warning),     keep_message = !isFALSE(options$message), stop_on_error = if (options$error &&         options$include) 0L else 2L, output_handler = knit_handlers(options$render,         options))
15: 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$render, options)))
16: block_exec(params)
17: call_block(x)
18: process_group.block(group)
19: process_group(group)
20: withCallingHandlers(if (tangle) process_tangle(group) else process_group(group),     error = function(e) {        setwd(wd)        cat(res, sep = "\n", file = output %n% "")        message("Quitting from lines ", paste(current_lines(i),             collapse = "-"), " (", knit_concord$get("infile"),             ") ")    })
21: process_file(text, output)
22: knit(input, text = text, envir = envir, quiet = quiet)
23: knit2html(..., force_v1 = TRUE)
24: (if (grepl("\\.[Rr]md$", file)) knit2html_v1 else if (grepl("\\.[Rr]rst$",     file)) knit2pandoc else knit)(file, encoding = encoding,     quiet = quiet, envir = globalenv(), ...)
25: engine$weave(file, quiet = quiet, encoding = enc)
26: doTryCatch(return(expr), name, parentenv, handler)
27: tryCatchOne(expr, names, parentenv, handlers[[1L]])
28: tryCatchList(expr, classes, parentenv, handlers)
29: tryCatch({    engine$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)))})
30: tools:::.buildOneVignette("plots_viral_quantitate.Rmd", "/home/ripley/R/packages/tests-devel/graphsim.Rcheck/vign_test/graphsim",     TRUE, FALSE, "plots_viral_quantitate", "UTF-8", "/tmp/Rtmp2EaafD/working_dir/RtmpoRayYU/file5d931c8844c1.rds")
An irrecoverable exception occurred. R is aborting now ...
--- re-building ‘test_graph_convergent.Rmd’ using knitr

Attaching package: 'igraph'

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

    decompose, spectrum

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

    union


Attaching package: 'gplots'

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

    lowess

--- finished re-building ‘test_graph_convergent.Rmd’

--- re-building ‘test_graph_divergent.Rmd’ using knitr

Attaching package: 'igraph'

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

    decompose, spectrum

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

    union


Attaching package: 'gplots'

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

    lowess

--- finished re-building ‘test_graph_divergent.Rmd’

--- re-building ‘test_graph_network.Rmd’ using knitr

Attaching package: 'igraph'

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

    decompose, spectrum

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

    union


Attaching package: 'gplots'

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

    lowess

--- finished re-building ‘test_graph_network.Rmd’

Profiling Timer Expired
--- re-building ‘test_graph_network_inhibiting.Rmd’ using knitr

Attaching package: 'igraph'

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

    decompose, spectrum

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

    union


Attaching package: 'gplots'

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

    lowess

--- re-building ‘test_graph_reconvergent.Rmd’ using knitr

Attaching package: 'igraph'

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

    decompose, spectrum

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

    union


Attaching package: 'gplots'

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

    lowess

--- finished re-building ‘test_graph_reconvergent.Rmd’

SUMMARY: processing the following files failed:
  ‘plots_viral_quantitate.Rmd’ ‘test_graph_network_inhibiting.Rmd’

Error: Vignette re-building failed.
Execution halted