Error(s) in re-building vignettes:
  ...
Segmentation Fault - core dumped
--- re-building ‘additonal_examples.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.

 *** caught segfault ***
address 5e2160f8, cause 'memory not mapped'

Traceback:
 1: HiCseg::HiCseg_linkC_R(size_mat = dim(genomicmatrix)[1], nb_change_max = nb_change_max,     distrib = distrib, mat_data = as.matrix(genomicmatrix), model = model)
 2: CNVScope::getAsymmetricBlockIndices(cor(chr_7_mat, use = "pairwise.complete.obs"))
 3: eval(lhs, parent, parent)
 4: eval(lhs, parent, parent)
 5: colnames(chr_7_mat)[CNVScope::getAsymmetricBlockIndices(cor(chr_7_mat,     use = "pairwise.complete.obs"))] %>% stringr::str_split_fixed(string = .,     pattern = "_", n = 3) %>% as.matrix() %>% .[, 2] %>% as.numeric()
 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: vweave(...)
26: engine$weave(file, quiet = quiet, encoding = enc)
27: doTryCatch(return(expr), name, parentenv, handler)
28: tryCatchOne(expr, names, parentenv, handlers[[1L]])
29: tryCatchList(expr, classes, parentenv, handlers)
30: tryCatch({    engine$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)))})
31: tools:::.buildOneVignette("additonal_examples.Rmd", "/home/ripley/R/packages/tests32/CNVScope.Rcheck/vign_test/CNVScope",     TRUE, FALSE, "additonal_examples", "UTF-8", "/tmp/Rtmp29aajj/file1248666252da.rds")
An irrecoverable exception occurred. R is aborting now ...
--- re-building ‘create_input_matrix.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 ‘create_input_matrix.Rmd’

--- re-building ‘create_output_matrix.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.
Loading required package: ggplot2
--- finished re-building ‘create_output_matrix.Rmd’

--- re-building ‘power_analysis.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 ‘power_analysis.Rmd’

SUMMARY: processing the following file failed:
  ‘additonal_examples.Rmd’

Error: Vignette re-building failed.
Execution halted