Error(s) in re-building vignettes:
  ...
--- re-building ‘rubias-fully-bayesian.Rmd’ using rmarkdown
--- finished re-building ‘rubias-fully-bayesian.Rmd’

--- re-building ‘rubias-overview.Rmd’ using rmarkdown
++++ Starting in on repunit_scenario 1 with collection scenario 1 ++++
Doing LOO simulations rep 1 of 5
Doing LOO simulations rep 2 of 5
Doing LOO simulations rep 3 of 5
Doing LOO simulations rep 4 of 5
Doing LOO simulations rep 5 of 5
++++ Starting in on repunit_scenario 1 with collection scenario 1 ++++
Doing LOO simulations rep 1 of 5
Doing LOO simulations rep 2 of 5
Doing LOO simulations rep 3 of 5
Doing LOO simulations rep 4 of 5
Doing LOO simulations rep 5 of 5
++++ Starting in on repunit_scenario 1 with collection scenario 1 ++++
Doing LOO simulations rep 1 of 5
Doing LOO simulations rep 2 of 5
Doing LOO simulations rep 3 of 5
Doing LOO simulations rep 4 of 5
Doing LOO simulations rep 5 of 5
++++ Starting in on repunit_scenario 1 with collection scenario 1 ++++
Doing LOO simulations rep 1 of 5
Doing LOO simulations rep 2 of 5
Doing LOO simulations rep 3 of 5
Doing LOO simulations rep 4 of 5
Doing LOO simulations rep 5 of 5

 *** caught segfault ***
address (nil), cause 'unknown'

Traceback:
 1: vec_group_loc(x)
 2: vec_split_id_order(group_vars)
 3: compute_groups(data, vars, drop = drop)
 4: grouped_df(groups$data, groups$group_names, .drop)
 5: group_by.data.frame(., locus, allele)
 6: dplyr::group_by(., locus, allele)
 7: function_list[[i]](value)
 8: freduce(value, `_function_list`)
 9: `_fseq`(`_lhs`)
10: eval(quote(`_fseq`(`_lhs`)), env, env)
11: eval(quote(`_fseq`(`_lhs`)), env, env)
12: withVisible(eval(quote(`_fseq`(`_lhs`)), env, env))
13: D %>% dplyr::group_by(locus, allele) %>% dplyr::tally() %>% dplyr::ungroup() %>%     dplyr::filter(!is.na(allele)) %>% dplyr::select(-n)
14: reference_allele_counts(cleaned$long)
15: eval(lhs, parent, parent)
16: eval(lhs, parent, parent)
17: reference_allele_counts(cleaned$long) %>% a_freq_list()
18: tcf2param_list(reference, gen_start_col, summ = printSummary,     alle_freq_prior = alle_freq_prior, ploidies = ploidies)
19: assess_reference_loo(reference = chinook, gen_start_col = 5,     reps = 5, mixsize = 200, alpha_repunit = arep, alpha_collection = arep_subs,     return_indiv_posteriors = FALSE)
20: eval(expr, envir, enclos)
21: eval(expr, envir, enclos)
22: withVisible(eval(expr, envir, enclos))
23: withCallingHandlers(withVisible(eval(expr, envir, enclos)), warning = wHandler,     error = eHandler, message = mHandler)
24: handle(ev <- withCallingHandlers(withVisible(eval(expr, envir,     enclos)), warning = wHandler, error = eHandler, message = mHandler))
25: timing_fn(handle(ev <- withCallingHandlers(withVisible(eval(expr,     envir, enclos)), warning = wHandler, error = eHandler, message = mHandler)))
26: evaluate_call(expr, parsed$src[[i]], envir = envir, enclos = enclos,     debug = debug, last = i == length(out), use_try = stop_on_error !=         2L, keep_warning = keep_warning, keep_message = keep_message,     output_handler = output_handler, include_timing = include_timing)
27: evaluate::evaluate(...)
28: evaluate(code, envir = env, new_device = FALSE, keep_warning = !isFALSE(options$warning),     keep_message = !isFALSE(options$message), stop_on_error = if (options$error &&         options$include) 0L else 2L, output_handler = knit_handlers(options$render,         options))
29: 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$render, options)))
30: block_exec(params)
31: call_block(x)
32: process_group.block(group)
33: process_group(group)
34: withCallingHandlers(if (tangle) process_tangle(group) else process_group(group),     error = function(e) {        setwd(wd)        cat(res, sep = "\n", file = output %n% "")        message("Quitting from lines ", paste(current_lines(i),             collapse = "-"), " (", knit_concord$get("infile"),             ") ")    })
35: process_file(text, output)
36: knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet)
37: rmarkdown::render(file, encoding = encoding, quiet = quiet, envir = globalenv(),     output_dir = getwd(), ...)
38: vweave_rmarkdown(...)
39: engine$weave(file, quiet = quiet, encoding = enc)
40: doTryCatch(return(expr), name, parentenv, handler)
41: tryCatchOne(expr, names, parentenv, handlers[[1L]])
42: tryCatchList(expr, classes, parentenv, handlers)
43: tryCatch({    engine$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)))})
44: tools:::.buildOneVignette("rubias-overview.Rmd", "/home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/rubias.Rcheck/vign_test/rubias",     TRUE, FALSE, "rubias-overview", "UTF-8", "/tmp/Rtmp7XGISv/fileb7c8750a6c.rds")
An irrecoverable exception occurred. R is aborting now ...
Segmentation fault
--- re-building ‘rubias-underlying-data-structures.Rmd’ using rmarkdown
--- finished re-building ‘rubias-underlying-data-structures.Rmd’

SUMMARY: processing the following file failed:
  ‘rubias-overview.Rmd’

Error: Vignette re-building failed.
Execution halted