* using log directory ‘/Volumes/Builds/packages/big-sur-arm64/results/4.4/bayesbr.Rcheck’ * using R version 4.4.0 alpha (2024-03-31 r86238) * using platform: aarch64-apple-darwin20 * R was compiled by Apple clang version 14.0.0 (clang-1400.0.29.202) GNU Fortran (GCC) 12.2.0 * running under: macOS Ventura 13.4 * using session charset: UTF-8 * checking for file ‘bayesbr/DESCRIPTION’ ... OK * this is package ‘bayesbr’ version ‘0.0.1.0’ * 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 ‘bayesbr’ can be installed ... [53s/56s] OK See 'https://www.r-project.org/nosvn/R.check/r-release-macos-arm64/bayesbr-00install.html' for details. * used C++ compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’ * used SDK: ‘MacOSX11.3.sdk’ * checking C++ specification ... OK Not all R platforms support C++17 * checking installed package size ... NOTE installed size is 52.9Mb sub-directories of 1Mb or more: libs 50.9Mb * 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 ... [2s/1s] OK * checking whether the package can be loaded with stated dependencies ... [1s/1s] OK * checking whether the package can be unloaded cleanly ... [1s/1s] OK * checking whether the namespace can be loaded with stated dependencies ... [1s/1s] OK * checking whether the namespace can be unloaded cleanly ... [1s/1s] OK * checking loading without being on the library search path ... [3s/3s] 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 ... [5s/4s] OK * checking Rd files ... [0s/0s] NOTE checkRd: (-1) FoodExpenditure.Rd:48: Lost braces 48 | doi{10.1002/jae.3950090208} Griffiths, W.E., Hill, R.C., and Judge, G.G. (1993). | ^ checkRd: (-1) GasolineYield.Rd:30: Lost braces; missing escapes or markup? 30 | variables. It was observed that there are only ten sets of values for the first three explanatory variables, so these sets served as conditions for controlled distillation. These conditions are listed in the variable \ code {batch}. | ^ * 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 ... [0s/0s] OK * checking LazyData ... OK * checking data for ASCII and uncompressed saves ... OK * checking line endings in shell scripts ... 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 ... NOTE GNU make is a SystemRequirements. * checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK * checking use of PKG_*FLAGS in Makefiles ... OK * checking compiled code ... OK * checking installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... [3s/3s] ERROR Running examples in ‘bayesbr-Ex.R’ failed The error most likely occurred in: > ### Name: AIC_bayesbr > ### Title: Akaike Information Criterion > ### Aliases: AIC_bayesbr > > ### ** Examples > > data("CarTask",package = "bayesbr") > > car_bayesbr <- bayesbr(probability ~ NFCCscale + task, + data = CarTask,iter =100) SAMPLING FOR MODEL 'bayesbr' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 0.000175 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 1.75 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: There aren't enough warmup iterations to fit the Chain 1: three stages of adaptation as currently configured. Chain 1: Reducing each adaptation stage to 15%/75%/10% of Chain 1: the given number of warmup iterations: Chain 1: init_buffer = 7 Chain 1: adapt_window = 38 Chain 1: term_buffer = 5 Chain 1: Chain 1: Iteration: 1 / 100 [ 1%] (Warmup) Chain 1: Iteration: 10 / 100 [ 10%] (Warmup) Chain 1: Iteration: 20 / 100 [ 20%] (Warmup) Chain 1: Iteration: 30 / 100 [ 30%] (Warmup) Chain 1: Iteration: 40 / 100 [ 40%] (Warmup) Chain 1: Iteration: 50 / 100 [ 50%] (Warmup) Chain 1: Iteration: 51 / 100 [ 51%] (Sampling) Chain 1: Iteration: 60 / 100 [ 60%] (Sampling) Chain 1: Iteration: 70 / 100 [ 70%] (Sampling) Chain 1: Iteration: 80 / 100 [ 80%] (Sampling) Chain 1: Iteration: 90 / 100 [ 90%] (Sampling) Chain 1: Iteration: 100 / 100 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 1.601 seconds (Warm-up) Chain 1: 0.146 seconds (Sampling) Chain 1: 1.747 seconds (Total) Chain 1: Warning: There were 50 divergent transitions after warmup. See https://mc-stan.org/misc/warnings.html#divergent-transitions-after-warmup to find out why this is a problem and how to eliminate them. Warning: Examine the pairs() plot to diagnose sampling problems Warning: The largest R-hat is 1.36, indicating chains have not mixed. Running the chains for more iterations may help. See https://mc-stan.org/misc/warnings.html#r-hat Warning: Bulk Effective Samples Size (ESS) is too low, indicating posterior means and medians may be unreliable. Running the chains for more iterations may help. See https://mc-stan.org/misc/warnings.html#bulk-ess Warning: Tail Effective Samples Size (ESS) is too low, indicating posterior variances and tail quantiles may be unreliable. Running the chains for more iterations may help. See https://mc-stan.org/misc/warnings.html#tail-ess Error in if (name == names_w[i]) { : missing value where TRUE/FALSE needed Calls: bayesbr -> model.bayesbr Execution halted * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... [7s/7s] OK * checking PDF version of manual ... [4s/4s] OK * DONE Status: 1 ERROR, 3 NOTEs * using check arguments '--no-clean-on-error ' * elapsed time (check, wall clock): 1:48