* using log directory ‘/Users/ripley/R/packages/tests-devel/GPFDA.Rcheck’
* using R Under development (unstable) (2024-04-09 r86375)
* using platform: aarch64-apple-darwin23.4.0
* R was compiled by
    Apple clang version 15.0.0 (clang-1500.3.9.4)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Sonoma 14.4.1
* using session charset: UTF-8
* using option ‘--no-stop-on-test-error’
* checking for file ‘GPFDA/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘GPFDA’ version ‘3.1.3’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for executable files ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘GPFDA’ can be installed ... OK
* used C++ compiler: ‘Apple clang version 15.0.0 (clang-1500.3.9.4)’
* used SDK: ‘MacOSX14.4.sdk’
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking use of S3 registration ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking use of PKG_*FLAGS in Makefiles ... OK
* checking pragmas in C/C++ headers and code ... OK
* checking compilation flags used ... OK
* checking compiled code ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [104s/105s] ERROR
Error(s) in re-building vignettes:
--- re-building ‘co2.Rmd’ using rmarkdown
--- finished re-building ‘co2.Rmd’

--- re-building ‘gpfr.Rmd’ using rmarkdown
--- finished re-building ‘gpfr.Rmd’

--- re-building ‘gpr_ex1.Rmd’ using rmarkdown
--- finished re-building ‘gpr_ex1.Rmd’

--- re-building ‘gpr_ex2.Rmd’ using rmarkdown
--- finished re-building ‘gpr_ex2.Rmd’

--- re-building ‘mgpr.Rmd’ using rmarkdown
--- finished re-building ‘mgpr.Rmd’

sh: line 1: 82608 Segmentation fault: 11  R_LIBS=/var/folders/pk/n4bndnt1287ctrd_ftthnnnr0000gp/T//RtmpwT07vF/RLIBS_13ea23a84f0d7 R_ENVIRON_USER='' R_LIBS_USER='NULL' R_LIBS_SITE='NULL' '/Users/ripley/R/R-devel/bin/R' --vanilla --no-echo > '/var/folders/pk/n4bndnt1287ctrd_ftthnnnr0000gp/T//RtmpwT07vF/working_dir/Rtmp9AcpHu/file1405d5d0ac0cd' 2>&1 < '/var/folders/pk/n4bndnt1287ctrd_ftthnnnr0000gp/T//RtmpwT07vF/working_dir/Rtmp9AcpHu/file1405d6cf80273'
--- re-building ‘nsgpr.Rmd’ using rmarkdown

 *** caught segfault ***
address 0x308000000, cause 'invalid permissions'

Traceback:
 1: interpShull(xo, yo, x, y, z, linear, input, output, kernel, h,     solver, degree, baryweight, autodegree, adtol, smoothpde,     akimaweight, nweight)
 2: interp(x = input[, 1], y = input[, 2], z = as.numeric(responseMat),     nx = nGrid, ny = nGrid, linear = T)
 3: plotImage(response = pred$pred.mean, input = inputMatTest, realisation = 1,     n1 = n1test, n2 = n2test, zlim = zlim, main = "prediction")
 4: eval(expr, envir, enclos)
 5: eval(expr, envir, enclos)
 6: eval_with_user_handlers(expr, envir, enclos, user_handlers)
 7: withVisible(eval_with_user_handlers(expr, envir, enclos, user_handlers))
 8: withCallingHandlers(withVisible(eval_with_user_handlers(expr,     envir, enclos, user_handlers)), warning = wHandler, error = eHandler,     message = mHandler)
 9: handle(ev <- withCallingHandlers(withVisible(eval_with_user_handlers(expr,     envir, enclos, user_handlers)), warning = wHandler, error = eHandler,     message = mHandler))
10: timing_fn(handle(ev <- withCallingHandlers(withVisible(eval_with_user_handlers(expr,     envir, enclos, user_handlers)), warning = wHandler, error = eHandler,     message = mHandler)))
11: evaluate_call(expr, parsed$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,     log_echo = log_echo, log_warning = log_warning, output_handler = output_handler,     include_timing = include_timing)
12: evaluate::evaluate(...)
13: evaluate(code, envir = env, new_device = FALSE, keep_warning = if (is.numeric(options$warning)) TRUE else options$warning,     keep_message = if (is.numeric(options$message)) TRUE else options$message,     stop_on_error = if (is.numeric(options$error)) options$error else {        if (options$error && options$include)             0L        else 2L    }, output_handler = knit_handlers(options$render, options))
14: in_dir(input_dir(), expr)
15: in_input_dir(evaluate(code, envir = env, new_device = FALSE,     keep_warning = if (is.numeric(options$warning)) TRUE else options$warning,     keep_message = if (is.numeric(options$message)) TRUE else options$message,     stop_on_error = if (is.numeric(options$error)) options$error else {        if (options$error && options$include)             0L        else 2L    }, output_handler = knit_handlers(options$render, options)))
16: eng_r(options)
17: block_exec(params)
18: call_block(x)
19: process_group(group)
20: withCallingHandlers(if (tangle) process_tangle(group) else process_group(group),     error = function(e) if (xfun::pkg_available("rlang", "1.0.0")) rlang::entrace(e))
21: withCallingHandlers(expr, error = function(e) {    loc = if (is.function(fun))         trimws(fun(label))    else ""    if (loc != "")         loc = sprintf(" at lines %s", loc)    message(one_string(handler(e, loc)))})
22: xfun:::handle_error(withCallingHandlers(if (tangle) process_tangle(group) else process_group(group),     error = function(e) if (xfun::pkg_available("rlang", "1.0.0")) rlang::entrace(e)),     function(e, loc) {        setwd(wd)        write_utf8(res, output %n% stdout())        paste0("\nQuitting from lines ", loc)    }, if (labels[i] != "") sprintf(" [%s]", labels[i]), get_loc)
23: process_file(text, output)
24: knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet)
25: rmarkdown::render(file, encoding = encoding, quiet = quiet, envir = globalenv(),     output_dir = getwd(), ...)
26: vweave_rmarkdown(...)
27: engine$weave(file, quiet = quiet, encoding = enc)
28: doTryCatch(return(expr), name, parentenv, handler)
29: tryCatchOne(expr, names, parentenv, handlers[[1L]])
30: tryCatchList(expr, classes, parentenv, handlers)
31: tryCatch({    engine$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)))})
32: tools:::.buildOneVignette("nsgpr.Rmd", "/Users/ripley/R/packages/tests-devel/GPFDA.Rcheck/vign_test/GPFDA",     TRUE, FALSE, "nsgpr", "UTF-8", "/var/folders/pk/n4bndnt1287ctrd_ftthnnnr0000gp/T//RtmpwT07vF/working_dir/Rtmp9AcpHu/file1405d21d9b927.rds")
An irrecoverable exception occurred. R is aborting now ...
SUMMARY: processing the following file failed:
  ‘nsgpr.Rmd’

Error: Vignette re-building failed.
Execution halted

* checking PDF version of manual ... OK
* checking HTML version of manual ... OK
* checking for detritus in the temp directory ... OK
* DONE

Status: 1 ERROR
See
  ‘/Users/ripley/R/packages/tests-devel/GPFDA.Rcheck/00check.log’
for details.

      141.55 real       143.94 user         7.76 sys