Error(s) in re-building vignettes:
--- re-building ‘MALDIrppa_vignette.Rmd’ using rmarkdown
Loading required package: MALDIquant

This is MALDIquant version 1.19.2
Quantitative Analysis of Mass Spectrometry Data
 See '?MALDIquant' for more information about this package.

Loading required package: signal

Attaching package: 'signal'

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

    filter, poly

Loading required package: robustbase
Loading required package: wmtsa
Loading required package: lattice

 *** caught segfault ***
address (nil), cause 'memory not mapped'

Traceback:
 1: approxfun(x = x@mass, y = x@intensity, method = method, yleft = yleft,     yright = yright, rule = rule, f = f, ties = ties)
 2: approxfun(x = x@mass, y = x@intensity, method = method, yleft = yleft,     yright = yright, rule = rule, f = f, ties = ties)
 3: FUN(X[[i]], ...)
 4: FUN(X[[i]], ...)
 5: lapply(l, approxfun)
 6: .averageMassSpectra(l, fun = .colMedians, mergeMetaData = FALSE)
 7: .calibrateProbabilisticQuotientNormalization(object, range = range)
 8: .local(object, ...)
 9: calibrateIntensity(spectra, method = "PQN")
10: calibrateIntensity(spectra, method = "PQN")
11: eval(expr, envir, enclos)
12: eval(expr, envir, enclos)
13: withVisible(eval(expr, envir, enclos))
14: withCallingHandlers(withVisible(eval(expr, envir, enclos)), warning = wHandler,     error = eHandler, message = mHandler)
15: handle(ev <- withCallingHandlers(withVisible(eval(expr, envir,     enclos)), warning = wHandler, error = eHandler, message = mHandler))
16: timing_fn(handle(ev <- withCallingHandlers(withVisible(eval(expr,     envir, enclos)), warning = wHandler, error = eHandler, message = mHandler)))
17: evaluate_call(expr, parsed$src[[i]], envir = envir, enclos = enclos,     debug = debug, last = i == length(out), use_try = stop_on_error !=         2L, keep_warning = keep_warning, keep_message = keep_message,     output_handler = output_handler, include_timing = include_timing)
18: evaluate::evaluate(...)
19: evaluate(code, envir = env, new_device = FALSE, keep_warning = !isFALSE(options$warning),     keep_message = !isFALSE(options$message), stop_on_error = if (options$error &&         options$include) 0L else 2L, output_handler = knit_handlers(options$render,         options))
20: 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$render, options)))
21: block_exec(params)
22: call_block(x)
23: process_group.block(group)
24: process_group(group)
25: withCallingHandlers(if (tangle) process_tangle(group) else process_group(group),     error = function(e) {        setwd(wd)        cat(res, sep = "\n", file = output %n% "")        message("Quitting from lines ", paste(current_lines(i),             collapse = "-"), " (", knit_concord$get("infile"),             ") ")    })
26: process_file(text, output)
27: knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet,     encoding = encoding)
28: rmarkdown::render(file, encoding = encoding, quiet = quiet, envir = globalenv(),     ...)
29: vweave_rmarkdown(...)
30: engine$weave(file, quiet = quiet, encoding = enc)
31: doTryCatch(return(expr), name, parentenv, handler)
32: tryCatchOne(expr, names, parentenv, handlers[[1L]])
33: tryCatchList(expr, classes, parentenv, handlers)
34: tryCatch({    engine$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)    }    outputs <- c(outputs, output)}, error = function(e) {    thisOK <<- FALSE    fails <<- c(fails, file)    message(gettextf("Error: processing vignette '%s' failed with diagnostics:\n%s",         file, conditionMessage(e)))})
35: tools:::buildVignettes(dir = "/data/gannet/ripley/R/packages/tests-devel/MALDIrppa.Rcheck/vign_test/MALDIrppa",     ser_elibs = "/tmp/Rtmp0AdqJB/file461946d30fb1.rds")
An irrecoverable exception occurred. R is aborting now ...