I’m running a Bayesian ordinal regression model using the brms package in R on a macOS Ventura 13.4 system with arm64 architecture. My Xcode and command line tools version is 14.3.1 and my Clang version is 14.0.3.
My code is as follows:
library(brms)
# Ordinal regression modeling patient's rating of inhaler instructions
# category specific effects are estimated for variable 'treat'
fit2 <- brm(rating ~ period + carry + cs(treat),
data = inhaler, family = sratio("logit"),
prior = set_prior("normal(0,5)"), chains = 2)
When I run this code, I encounter the following error message:
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/v1/__memory/unique_ptr.h:610:45: error: unknown type name 'nullptr_t'operator!=(const unique_ptr<_T1, _D1>& __x, nullptr_t) _NOEXCEPT ^fatal error: too many errors emitted, stopping now [-ferror-limit=]20 errors generated.make: *** [filece0d13588f5.o] Error 1
Error in sink(type = "output") : invalid connection
I believe the error is coming from the C++ code that brms is trying to compile, but I’m unsure how to proceed.
I have tried a number of solutions with no luck, including those suggested in these SF threads:
Does anyone know why this error might be occurring and how I might resolve it? Any help would be much appreciated.
My session information is as follows:
R version 4.3.0 (2023-04-21)
Platform: aarch64-apple-darwin20 (64-bit)
Running under: macOS Ventura 13.4
Matrix products: default
BLAS: /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib/libRblas.0.dylib
LAPACK: /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib/libRlapack.dylib; LAPACK version 3.11.0
locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
time zone: Europe/London
tzcode source: internal
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] brms_2.19.0 Rcpp_1.0.10
loaded via a namespace (and not attached):
[1] gtable_0.3.3 tensorA_0.36.2 ggplot2_3.4.2 shinyjs_2.1.0 htmlwidgets_1.6.2 processx_3.8.1
[7] inline_0.3.19 lattice_0.21-8 callr_3.7.3 crosstalk_1.2.0 vctrs_0.6.2 tools_4.3.0
[13] ps_1.7.5 generics_0.1.3 stats4_4.3.0 parallel_4.3.0 tibble_3.2.1 fansi_1.0.4
[19] xts_0.13.1 pkgconfig_2.0.3 Matrix_1.5-4 checkmate_2.2.0 distributional_0.3.2 RcppParallel_5.1.7
[25] lifecycle_1.0.3 compiler_4.3.0 farver_2.1.1 stringr_1.5.0 Brobdingnag_1.2-9 munsell_0.5.0
[31] threejs_0.3.3 codetools_0.2-19 httpuv_1.6.11 htmltools_0.5.5 bayesplot_1.10.0 pillar_1.9.0
[37] later_1.3.1 crayon_1.5.2 ellipsis_0.3.2 DT_0.27 StanHeaders_2.26.26 bridgesampling_1.1-2
[43] abind_1.4-5 nlme_3.1-162 mime_0.12 posterior_1.4.1 rstan_2.21.8 gtools_3.9.4
[49] tidyselect_1.2.0 digest_0.6.31 mvtnorm_1.1-3 stringi_1.7.12 reshape2_1.4.4 colourpicker_1.2.0
[55] dplyr_1.1.2 fastmap_1.1.1 grid_4.3.0 colorspace_2.1-0 cli_3.6.1 magrittr_2.0.3
[61] shinythemes_1.2.0 base64enc_0.1-3 loo_2.6.0 pkgbuild_1.4.1 utf8_1.2.3 prettyunits_1.1.1
[67] scales_1.2.1 promises_1.2.0.1 backports_1.4.1 matrixStats_0.63.0 igraph_1.4.2 gridExtra_2.3
[73] zoo_1.8-12 coda_0.19-4 shiny_1.7.4 miniUI_0.1.1.1 markdown_1.7 rstantools_2.3.1
[79] rlang_1.1.1 xtable_1.8-4 glue_1.6.2 shinystan_2.6.0 dygraphs_1.1.1.6 plyr_1.8.8
[85] R6_2.5.1