I would like to use brms package for Bayesian mixed model in R. I installed, brms, rstan, rstanarm and StanHeaders packages in Rstudio. If I run the model, window pops up suggesting to install Rtools although it is already installed. I put Rtools on the first order in Path in Environmental Variables. If I press No button for Rtools installation pop -up window, following error message comes out.
Compiling the C++ model
Error in compileCode(f, code, language = language, verbose = verbose) :
Compilation ERROR, function(s)/method(s) not created! sh: c:/Rtools/mingw_64/bin/g++: No such file or directory
make: *** [C:/PROGRA~1/R/R-36~1.2/etc/x64/Makeconf:215: file69286a911ec5.o] Error 127
In addition: Warning message:
In system(cmd, intern = !verbose) :
running command ‘C:/PROGRA~1/R/R-36~1.2/bin/x64/R CMD SHLIB file69286a911ec5.cpp 2> file69286a911ec5.cpp.err.txt’ had status 1
Error in sink(type = “output”) : invalid connection
Thanks in advance for help.
Session info
setting value
version R version 3.6.2 (2019-12-12)
os Windows >= 8 x64
system x86_64, mingw32
ui RStudio
Thank you bgoodri, there is no error: (error with colon), but the last message was this:
Error in compileCode(f, code, language = language, verbose = verbose) :
Compilation ERROR, function(s)/method(s) not created! sh: c:/Rtools/mingw_64/bin/g++: No such file or directory
make: *** [C:/PROGRA~1/R/R-36~1.2/etc/x64/Makeconf:215: file6928439b4ad2.o] Error 127
> Sys.getenv("CXX")
[1] "($BINPREF)g++ -m$(WIN) -std=c++14"
> Sys.getenv("BINPREF")
[1] "C:/RBuildTools/3.5/mingw_64/bin"
> library(rstan)
Loading required package: StanHeaders
Loading required package: ggplot2
rstan (Version 2.21.2, GitRev: 2e1f913d3ca3)
For execution on a local, multicore CPU with excess RAM we recommend calling
options(mc.cores = parallel::detectCores()).
To avoid recompilation of unchanged Stan programs, we recommend calling
rstan_options(auto_write = TRUE)
Do not specify '-march=native' in 'LOCAL_CPPFLAGS' or a Makevars file
Warning messages:
1: package ‘rstan’ was built under R version 3.6.3
2: package ‘StanHeaders’ was built under R version 3.6.3
3: package ‘ggplot2’ was built under R version 3.6.3
> example(stan_model, run.dontrun = TRUE)
stn_md> stancode <- 'data {real y_mean;} parameters {real y;} model {y ~ normal(y_mean,1);}'
stn_md> mod <- stan_model(model_code = stancode, verbose = TRUE)
TRANSLATING MODEL '73fc79f8b1915e8208c736914c86d1a1' FROM Stan CODE TO C++ CODE NOW.
successful in parsing the Stan model '73fc79f8b1915e8208c736914c86d1a1'.
Error in open.connection(con, open = mode) :
Timeout was reached: [github.com] Connection timed out after 10003 milliseconds
In addition: Warning message:
In system(paste(CXX, ARGS), ignore.stdout = TRUE, ignore.stderr = TRUE) :
'C:/cygwin64/mingw_/bin/g++' not found
COMPILING THE C++ CODE FOR MODEL '73fc79f8b1915e8208c736914c86d1a1' NOW.
OS: x86_64, mingw32; rstan: 2.21.2; Rcpp: 1.0.5; inline: 0.3.16
Error in cleanup_makevar(old) :
argument "RMU" is missing, with no default
Never mind the github.com access error (probably proxy related). But it keeps using C:/cygwin64/mingw_/bin/g++. Why?