> remove.packages("rstan") Removing package from ‘C:/Users/21307937/OneDrive/R Packages’ (as ‘lib’ is unspecified) Error in remove.packages : there is no package called ‘rstan’ > remove.packages("rstanarm") Removing package from ‘C:/Users/21307937/OneDrive/R Packages’ (as ‘lib’ is unspecified) Error in remove.packages : there is no package called ‘rstanarm’ > if (file.exists(".RData")) file.remove(".RData") > **# compiler from Rstan** > dotR <- file.path(Sys.getenv("HOME"), ".R") > if (!file.exists(dotR)) dir.create(dotR) > M <- file.path(dotR, "Makevars.win") > if (!file.exists(M)) file.create(M) > cat("\nCXX14FLAGS=-O3 -march=corei7 -mtune=corei7", + "CXX14 = $(BINPREF)g++ -m$(WIN) -std=c++1y", + "CXX11FLAGS=-O3 -march=corei7 -mtune=corei7", + file = M, sep = "\n", append = TRUE) > # Install rstan > # From suggestion online mc-discourse > install.packages("rstan", type = "win.binary", dependencies = TRUE) Installing package into ‘C:/Users/21307937/OneDrive/R Packages’ (as ‘lib’ is unspecified) trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.5/rstan_2.19.3.zip' Content type 'application/zip' length 4734192 bytes (4.5 MB) downloaded 4.5 MB package ‘rstan’ successfully unpacked and MD5 sums checked The downloaded binary packages are in C:\Users\21307937\AppData\Local\Temp\RtmpIntU98\downloaded_packages > install.packages( "https://win-builder.r-project.org/9256KcZ01L9C/StanHeaders_2.19.2.zip", repos = NULL, type = "win.binary") Installing package into ‘C:/Users/21307937/OneDrive/R Packages’ (as ‘lib’ is unspecified) trying URL 'https://win-builder.r-project.org/9256KcZ01L9C/StanHeaders_2.19.2.zip' Content type 'application/x-zip-compressed' length 2260970 bytes (2.2 MB) downloaded 2.2 MB package ‘StanHeaders’ successfully unpacked and MD5 sums checked > pkgbuild::has_build_tools(debug = TRUE) [1] TRUE > if (!require(devtools)) { + install.packages("devtools") + library(devtools) + } Loading required package: devtools Loading required package: usethis > devtools::install_github("stan-dev/rstanarm", build_vignettes = FALSE) Downloading GitHub repo stan-dev/rstanarm@master stan-dev-rstanarm-8709540/tests/testthat/include: Can't create '\\\\?\\C:\\Users\\21307937\\AppData\\Local\\Temp\\RtmpIntU98\\remotes17ab47b414359\\stan-dev-rstanarm-8709540\\tests\\testthat\\include' stan-dev-rstanarm-8709540/tests/testthat/stan_files: Can't create '\\\\?\\C:\\Users\\21307937\\AppData\\Local\\Temp\\RtmpIntU98\\remotes17ab47b414359\\stan-dev-rstanarm-8709540\\tests\\testthat\\stan_files' tar.exe: Error exit delayed from previous errors. √ checking for file 'C:\Users\21307937\AppData\Local\Temp\RtmpIntU98\remotes17ab47b414359\stan-dev-rstanarm-8709540/DESCRIPTION' (588ms) - preparing 'rstanarm': (776ms) √ checking DESCRIPTION meta-information ... - cleaning src - running 'cleanup.win' (606ms) - checking for LF line-endings in source and make files and shell scripts (735ms) - checking for empty or unneeded directories - looking to see if a 'data/datalist' file should be added - building 'rstanarm_2.19.3.tar.gz' Warning: file 'rstanarm/cleanup' did not have execute permissions: corrected Installing package into ‘C:/Users/21307937/OneDrive/R Packages’ (as ‘lib’ is unspecified) * installing *source* package 'rstanarm' ... ** libs *** arch - i386 "C:/PROGRA~1/R/R-35~1.2/bin/i386/Rscript" -e "source(file.path('..', 'tools', 'make_cc.R')); make_cc(commandArgs(TRUE))" stan_files/continuous.stan Wrote C++ file "stan_files/continuous.cc" C:/Rtools/mingw_32/bin/g++ -m32 -std=c++1y -I"C:/PROGRA~1/R/R-35~1.2/include" -DNDEBUG -I"../inst/include" -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "RcppParallel::CxxFlags()"` `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "StanHeaders:::CxxFlags()"` -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include" -I"C:/Users/21307937/OneDrive/R Packages/rstan/include" -I"C:/Users/21307937/OneDrive/R Packages/BH/include" -I"C:/Users/21307937/OneDrive/R Packages/Rcpp/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppEigen/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppParallel/include" -O3 -march=corei7 -mtune=corei7 -c stan_files/continuous.cc -o stan_files/continuous.o Error in get(name, envir = asNamespace(pkg), inherits = FALSE) : object 'CxxFlags' not found Calls: ::: -> get Execution halted "C:/PROGRA~1/R/R-35~1.2/bin/i386/Rscript" -e "source(file.path('..', 'tools', 'make_cc.R')); make_cc(commandArgs(TRUE))" stan_files/polr.stan Wrote C++ file "stan_files/polr.cc" C:/Rtools/mingw_32/bin/g++ -m32 -std=c++1y -I"C:/PROGRA~1/R/R-35~1.2/include" -DNDEBUG -I"../inst/include" -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "RcppParallel::CxxFlags()"` `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "StanHeaders:::CxxFlags()"` -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include" -I"C:/Users/21307937/OneDrive/R Packages/rstan/include" -I"C:/Users/21307937/OneDrive/R Packages/BH/include" -I"C:/Users/21307937/OneDrive/R Packages/Rcpp/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppEigen/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppParallel/include" -O3 -march=corei7 -mtune=corei7 -c stan_files/polr.cc -o stan_files/polr.o Error in get(name, envir = asNamespace(pkg), inherits = FALSE) : object 'CxxFlags' not found Calls: ::: -> get Execution halted "C:/PROGRA~1/R/R-35~1.2/bin/i386/Rscript" -e "source(file.path('..', 'tools', 'make_cc.R')); make_cc(commandArgs(TRUE))" stan_files/bernoulli.stan Wrote C++ file "stan_files/bernoulli.cc" C:/Rtools/mingw_32/bin/g++ -m32 -std=c++1y -I"C:/PROGRA~1/R/R-35~1.2/include" -DNDEBUG -I"../inst/include" -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "RcppParallel::CxxFlags()"` `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "StanHeaders:::CxxFlags()"` -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include" -I"C:/Users/21307937/OneDrive/R Packages/rstan/include" -I"C:/Users/21307937/OneDrive/R Packages/BH/include" -I"C:/Users/21307937/OneDrive/R Packages/Rcpp/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppEigen/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppParallel/include" -O3 -march=corei7 -mtune=corei7 -c stan_files/bernoulli.cc -o stan_files/bernoulli.o Error in get(name, envir = asNamespace(pkg), inherits = FALSE) : object 'CxxFlags' not found Calls: ::: -> get Execution halted "C:/PROGRA~1/R/R-35~1.2/bin/i386/Rscript" -e "source(file.path('..', 'tools', 'make_cc.R')); make_cc(commandArgs(TRUE))" stan_files/count.stan Wrote C++ file "stan_files/count.cc" C:/Rtools/mingw_32/bin/g++ -m32 -std=c++1y -I"C:/PROGRA~1/R/R-35~1.2/include" -DNDEBUG -I"../inst/include" -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "RcppParallel::CxxFlags()"` `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "StanHeaders:::CxxFlags()"` -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include" -I"C:/Users/21307937/OneDrive/R Packages/rstan/include" -I"C:/Users/21307937/OneDrive/R Packages/BH/include" -I"C:/Users/21307937/OneDrive/R Packages/Rcpp/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppEigen/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppParallel/include" -O3 -march=corei7 -mtune=corei7 -c stan_files/count.cc -o stan_files/count.o Error in get(name, envir = asNamespace(pkg), inherits = FALSE) : object 'CxxFlags' not found Calls: ::: -> get Execution halted "C:/PROGRA~1/R/R-35~1.2/bin/i386/Rscript" -e "source(file.path('..', 'tools', 'make_cc.R')); make_cc(commandArgs(TRUE))" stan_files/binomial.stan Wrote C++ file "stan_files/binomial.cc" C:/Rtools/mingw_32/bin/g++ -m32 -std=c++1y -I"C:/PROGRA~1/R/R-35~1.2/include" -DNDEBUG -I"../inst/include" -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "RcppParallel::CxxFlags()"` `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "StanHeaders:::CxxFlags()"` -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include" -I"C:/Users/21307937/OneDrive/R Packages/rstan/include" -I"C:/Users/21307937/OneDrive/R Packages/BH/include" -I"C:/Users/21307937/OneDrive/R Packages/Rcpp/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppEigen/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppParallel/include" -O3 -march=corei7 -mtune=corei7 -c stan_files/binomial.cc -o stan_files/binomial.o Error in get(name, envir = asNamespace(pkg), inherits = FALSE) : object 'CxxFlags' not found Calls: ::: -> get Execution halted "C:/PROGRA~1/R/R-35~1.2/bin/i386/Rscript" -e "source(file.path('..', 'tools', 'make_cc.R')); make_cc(commandArgs(TRUE))" stan_files/mvmer.stan Wrote C++ file "stan_files/mvmer.cc" C:/Rtools/mingw_32/bin/g++ -m32 -std=c++1y -I"C:/PROGRA~1/R/R-35~1.2/include" -DNDEBUG -I"../inst/include" -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "RcppParallel::CxxFlags()"` `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "StanHeaders:::CxxFlags()"` -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include" -I"C:/Users/21307937/OneDrive/R Packages/rstan/include" -I"C:/Users/21307937/OneDrive/R Packages/BH/include" -I"C:/Users/21307937/OneDrive/R Packages/Rcpp/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppEigen/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppParallel/include" -O3 -march=corei7 -mtune=corei7 -c stan_files/mvmer.cc -o stan_files/mvmer.o Error in get(name, envir = asNamespace(pkg), inherits = FALSE) : object 'CxxFlags' not found Calls: ::: -> get Execution halted "C:/PROGRA~1/R/R-35~1.2/bin/i386/Rscript" -e "source(file.path('..', 'tools', 'make_cc.R')); make_cc(commandArgs(TRUE))" stan_files/lm.stan Wrote C++ file "stan_files/lm.cc" C:/Rtools/mingw_32/bin/g++ -m32 -std=c++1y -I"C:/PROGRA~1/R/R-35~1.2/include" -DNDEBUG -I"../inst/include" -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "RcppParallel::CxxFlags()"` `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "StanHeaders:::CxxFlags()"` -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include" -I"C:/Users/21307937/OneDrive/R Packages/rstan/include" -I"C:/Users/21307937/OneDrive/R Packages/BH/include" -I"C:/Users/21307937/OneDrive/R Packages/Rcpp/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppEigen/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppParallel/include" -O3 -march=corei7 -mtune=corei7 -c stan_files/lm.cc -o stan_files/lm.o Error in get(name, envir = asNamespace(pkg), inherits = FALSE) : object 'CxxFlags' not found Calls: ::: -> get Execution halted "C:/PROGRA~1/R/R-35~1.2/bin/i386/Rscript" -e "source(file.path('..', 'tools', 'make_cc.R')); make_cc(commandArgs(TRUE))" stan_files/jm.stan Wrote C++ file "stan_files/jm.cc" C:/Rtools/mingw_32/bin/g++ -m32 -std=c++1y -I"C:/PROGRA~1/R/R-35~1.2/include" -DNDEBUG -I"../inst/include" -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "RcppParallel::CxxFlags()"` `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "StanHeaders:::CxxFlags()"` -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include" -I"C:/Users/21307937/OneDrive/R Packages/rstan/include" -I"C:/Users/21307937/OneDrive/R Packages/BH/include" -I"C:/Users/21307937/OneDrive/R Packages/Rcpp/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppEigen/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppParallel/include" -O3 -march=corei7 -mtune=corei7 -c stan_files/jm.cc -o stan_files/jm.o Error in get(name, envir = asNamespace(pkg), inherits = FALSE) : object 'CxxFlags' not found Calls: ::: -> get Execution halted C:/Rtools/mingw_32/bin/g++ -m32 -std=c++1y -I"C:/PROGRA~1/R/R-35~1.2/include" -DNDEBUG -I"../inst/include" -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "RcppParallel::CxxFlags()"` `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "StanHeaders:::CxxFlags()"` -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include" -I"C:/Users/21307937/OneDrive/R Packages/rstan/include" -I"C:/Users/21307937/OneDrive/R Packages/BH/include" -I"C:/Users/21307937/OneDrive/R Packages/Rcpp/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppEigen/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppParallel/include" -O3 -march=corei7 -mtune=corei7 -c init.cpp -o init.o Error in get(name, envir = asNamespace(pkg), inherits = FALSE) : object 'CxxFlags' not found Calls: ::: -> get Execution halted C:/Rtools/mingw_32/bin/g++ -m32 -std=c++1y -shared -s -static-libgcc -o rstanarm.dll tmp.def stan_files/continuous.o stan_files/mvmer.o stan_files/polr.o stan_files/bernoulli.o stan_files/jm.o stan_files/count.o stan_files/binomial.o stan_files/lm.o init.o -LC:/Users/21307937/OneDrive/RPACKA~1/RCPPPA~1/lib/i386 -ltbb -ltbbmalloc -LC:/PROGRA~1/R/R-35~1.2/bin/i386 -lR rm stan_files/jm.cc stan_files/binomial.cc stan_files/lm.cc stan_files/continuous.cc stan_files/bernoulli.cc stan_files/polr.cc stan_files/count.cc stan_files/mvmer.cc installing to C:/Users/21307937/OneDrive/R Packages/rstanarm/libs/i386 *** arch - x64 "C:/PROGRA~1/R/R-35~1.2/bin/x64/Rscript" -e "source(file.path('..', 'tools', 'make_cc.R')); make_cc(commandArgs(TRUE))" stan_files/continuous.stan Wrote C++ file "stan_files/continuous.cc" C:/Rtools/mingw_64/bin/g++ -m64 -std=c++1y -I"C:/PROGRA~1/R/R-35~1.2/include" -DNDEBUG -I"../inst/include" -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "RcppParallel::CxxFlags()"` `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "StanHeaders:::CxxFlags()"` -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include" -I"C:/Users/21307937/OneDrive/R Packages/rstan/include" -I"C:/Users/21307937/OneDrive/R Packages/BH/include" -I"C:/Users/21307937/OneDrive/R Packages/Rcpp/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppEigen/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppParallel/include" -O3 -march=corei7 -mtune=corei7 -c stan_files/continuous.cc -o stan_files/continuous.o Error in get(name, envir = asNamespace(pkg), inherits = FALSE) : object 'CxxFlags' not found Calls: ::: -> get Execution halted "C:/PROGRA~1/R/R-35~1.2/bin/x64/Rscript" -e "source(file.path('..', 'tools', 'make_cc.R')); make_cc(commandArgs(TRUE))" stan_files/polr.stan Wrote C++ file "stan_files/polr.cc" C:/Rtools/mingw_64/bin/g++ -m64 -std=c++1y -I"C:/PROGRA~1/R/R-35~1.2/include" -DNDEBUG -I"../inst/include" -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "RcppParallel::CxxFlags()"` `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "StanHeaders:::CxxFlags()"` -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include" -I"C:/Users/21307937/OneDrive/R Packages/rstan/include" -I"C:/Users/21307937/OneDrive/R Packages/BH/include" -I"C:/Users/21307937/OneDrive/R Packages/Rcpp/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppEigen/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppParallel/include" -O3 -march=corei7 -mtune=corei7 -c stan_files/polr.cc -o stan_files/polr.o Error in get(name, envir = asNamespace(pkg), inherits = FALSE) : object 'CxxFlags' not found Calls: ::: -> get Execution halted "C:/PROGRA~1/R/R-35~1.2/bin/x64/Rscript" -e "source(file.path('..', 'tools', 'make_cc.R')); make_cc(commandArgs(TRUE))" stan_files/bernoulli.stan Wrote C++ file "stan_files/bernoulli.cc" C:/Rtools/mingw_64/bin/g++ -m64 -std=c++1y -I"C:/PROGRA~1/R/R-35~1.2/include" -DNDEBUG -I"../inst/include" -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "RcppParallel::CxxFlags()"` `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "StanHeaders:::CxxFlags()"` -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include" -I"C:/Users/21307937/OneDrive/R Packages/rstan/include" -I"C:/Users/21307937/OneDrive/R Packages/BH/include" -I"C:/Users/21307937/OneDrive/R Packages/Rcpp/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppEigen/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppParallel/include" -O3 -march=corei7 -mtune=corei7 -c stan_files/bernoulli.cc -o stan_files/bernoulli.o Error in get(name, envir = asNamespace(pkg), inherits = FALSE) : object 'CxxFlags' not found Calls: ::: -> get Execution halted "C:/PROGRA~1/R/R-35~1.2/bin/x64/Rscript" -e "source(file.path('..', 'tools', 'make_cc.R')); make_cc(commandArgs(TRUE))" stan_files/count.stan Wrote C++ file "stan_files/count.cc" C:/Rtools/mingw_64/bin/g++ -m64 -std=c++1y -I"C:/PROGRA~1/R/R-35~1.2/include" -DNDEBUG -I"../inst/include" -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "RcppParallel::CxxFlags()"` `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "StanHeaders:::CxxFlags()"` -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include" -I"C:/Users/21307937/OneDrive/R Packages/rstan/include" -I"C:/Users/21307937/OneDrive/R Packages/BH/include" -I"C:/Users/21307937/OneDrive/R Packages/Rcpp/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppEigen/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppParallel/include" -O3 -march=corei7 -mtune=corei7 -c stan_files/count.cc -o stan_files/count.o Error in get(name, envir = asNamespace(pkg), inherits = FALSE) : object 'CxxFlags' not found Calls: ::: -> get Execution halted "C:/PROGRA~1/R/R-35~1.2/bin/x64/Rscript" -e "source(file.path('..', 'tools', 'make_cc.R')); make_cc(commandArgs(TRUE))" stan_files/binomial.stan Wrote C++ file "stan_files/binomial.cc" C:/Rtools/mingw_64/bin/g++ -m64 -std=c++1y -I"C:/PROGRA~1/R/R-35~1.2/include" -DNDEBUG -I"../inst/include" -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "RcppParallel::CxxFlags()"` `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "StanHeaders:::CxxFlags()"` -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include" -I"C:/Users/21307937/OneDrive/R Packages/rstan/include" -I"C:/Users/21307937/OneDrive/R Packages/BH/include" -I"C:/Users/21307937/OneDrive/R Packages/Rcpp/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppEigen/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppParallel/include" -O3 -march=corei7 -mtune=corei7 -c stan_files/binomial.cc -o stan_files/binomial.o Error in get(name, envir = asNamespace(pkg), inherits = FALSE) : object 'CxxFlags' not found Calls: ::: -> get Execution halted "C:/PROGRA~1/R/R-35~1.2/bin/x64/Rscript" -e "source(file.path('..', 'tools', 'make_cc.R')); make_cc(commandArgs(TRUE))" stan_files/mvmer.stan Wrote C++ file "stan_files/mvmer.cc" C:/Rtools/mingw_64/bin/g++ -m64 -std=c++1y -I"C:/PROGRA~1/R/R-35~1.2/include" -DNDEBUG -I"../inst/include" -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "RcppParallel::CxxFlags()"` `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "StanHeaders:::CxxFlags()"` -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include" -I"C:/Users/21307937/OneDrive/R Packages/rstan/include" -I"C:/Users/21307937/OneDrive/R Packages/BH/include" -I"C:/Users/21307937/OneDrive/R Packages/Rcpp/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppEigen/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppParallel/include" -O3 -march=corei7 -mtune=corei7 -c stan_files/mvmer.cc -o stan_files/mvmer.o Error in get(name, envir = asNamespace(pkg), inherits = FALSE) : object 'CxxFlags' not found Calls: ::: -> get Execution halted "C:/PROGRA~1/R/R-35~1.2/bin/x64/Rscript" -e "source(file.path('..', 'tools', 'make_cc.R')); make_cc(commandArgs(TRUE))" stan_files/lm.stan Wrote C++ file "stan_files/lm.cc" C:/Rtools/mingw_64/bin/g++ -m64 -std=c++1y -I"C:/PROGRA~1/R/R-35~1.2/include" -DNDEBUG -I"../inst/include" -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "RcppParallel::CxxFlags()"` `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "StanHeaders:::CxxFlags()"` -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include" -I"C:/Users/21307937/OneDrive/R Packages/rstan/include" -I"C:/Users/21307937/OneDrive/R Packages/BH/include" -I"C:/Users/21307937/OneDrive/R Packages/Rcpp/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppEigen/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppParallel/include" -O3 -march=corei7 -mtune=corei7 -c stan_files/lm.cc -o stan_files/lm.o Error in get(name, envir = asNamespace(pkg), inherits = FALSE) : object 'CxxFlags' not found Calls: ::: -> get Execution halted "C:/PROGRA~1/R/R-35~1.2/bin/x64/Rscript" -e "source(file.path('..', 'tools', 'make_cc.R')); make_cc(commandArgs(TRUE))" stan_files/jm.stan Wrote C++ file "stan_files/jm.cc" C:/Rtools/mingw_64/bin/g++ -m64 -std=c++1y -I"C:/PROGRA~1/R/R-35~1.2/include" -DNDEBUG -I"../inst/include" -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "RcppParallel::CxxFlags()"` `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "StanHeaders:::CxxFlags()"` -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include" -I"C:/Users/21307937/OneDrive/R Packages/rstan/include" -I"C:/Users/21307937/OneDrive/R Packages/BH/include" -I"C:/Users/21307937/OneDrive/R Packages/Rcpp/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppEigen/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppParallel/include" -O3 -march=corei7 -mtune=corei7 -c stan_files/jm.cc -o stan_files/jm.o Error in get(name, envir = asNamespace(pkg), inherits = FALSE) : object 'CxxFlags' not found Calls: ::: -> get Execution halted C:/Rtools/mingw_64/bin/g++ -m64 -std=c++1y -I"C:/PROGRA~1/R/R-35~1.2/include" -DNDEBUG -I"../inst/include" -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include/src" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "RcppParallel::CxxFlags()"` `"C:/PROGRA~1/R/R-35~1.2/bin/Rscript" -e "StanHeaders:::CxxFlags()"` -I"C:/Users/21307937/OneDrive/R Packages/StanHeaders/include" -I"C:/Users/21307937/OneDrive/R Packages/rstan/include" -I"C:/Users/21307937/OneDrive/R Packages/BH/include" -I"C:/Users/21307937/OneDrive/R Packages/Rcpp/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppEigen/include" -I"C:/Users/21307937/OneDrive/R Packages/RcppParallel/include" -O3 -march=corei7 -mtune=corei7 -c init.cpp -o init.o Error in get(name, envir = asNamespace(pkg), inherits = FALSE) : object 'CxxFlags' not found Calls: ::: -> get Execution halted C:/Rtools/mingw_64/bin/g++ -m64 -std=c++1y -shared -s -static-libgcc -o rstanarm.dll tmp.def stan_files/continuous.o stan_files/mvmer.o stan_files/polr.o stan_files/bernoulli.o stan_files/jm.o stan_files/count.o stan_files/binomial.o stan_files/lm.o init.o -LC:/Users/21307937/OneDrive/RPACKA~1/RCPPPA~1/lib/x64 -ltbb -ltbbmalloc -LC:/PROGRA~1/R/R-35~1.2/bin/x64 -lR rm stan_files/jm.cc stan_files/binomial.cc stan_files/lm.cc stan_files/continuous.cc stan_files/bernoulli.cc stan_files/polr.cc stan_files/count.cc stan_files/mvmer.cc installing to C:/Users/21307937/OneDrive/R Packages/rstanarm/libs/x64 ** R ** data *** moving datasets to lazyload DB ** demo ** inst ** byte-compile and prepare package for lazy loading Warning: package 'Rcpp' was built under R version 3.5.3 ** help No man pages found in package 'rstanarm' *** installing help indices converting help for package 'rstanarm' finding HTML links ... done *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded *** arch - i386 Warning: package 'Rcpp' was built under R version 3.5.3 *** arch - x64 Warning: package 'Rcpp' was built under R version 3.5.3 * DONE (rstanarm) In R CMD INSTALL Warning message: In utils::untar(tarfile, ...) : ‘tar.exe -zxf "C:\Users\21307937\AppData\Local\Temp\RtmpIntU98\file17ab450f917cd.tar.gz" -C "C:/Users/21307937/AppData/Local/Temp/RtmpIntU98/remotes17ab47b414359"’ returned error code 1 > library(rstanarm) Loading required package: Rcpp rstanarm (Version 2.19.3, packaged: 2020-04-18 00:23:44 UTC) - Do not expect the default priors to remain the same in future rstanarm versions. Thus, R scripts should specify priors explicitly, even if they are just the defaults. - For execution on a local, multicore CPU with excess RAM we recommend calling options(mc.cores = parallel::detectCores()) - bayesplot theme set to bayesplot::theme_default() * Does _not_ affect other ggplot2 plots * See ?bayesplot_theme_set for details on theme setting Warning message: package ‘Rcpp’ was built under R version 3.5.3 > help(package = "rstanarm") # returns Documentation for package ‘rstanarm’ version 2.19.3 > ?stan_surv No documentation for ‘stan_surv’ in specified packages and libraries: you could try ‘??stan_surv’ session_info() - Session info --------------------------------------------------------------------------------------------------------------- setting value version R version 3.5.2 (2018-12-20) os Windows 10 x64 system x86_64, mingw32 ui RStudio language (EN) collate English_Australia.1252 ctype English_Australia.1252 tz Australia/Perth date 2020-04-18 - Packages ------------------------------------------------------------------------------------------------------------------- package * version date lib source assertthat 0.2.1 2019-03-21 [1] CRAN (R 3.5.3) backports 1.1.4 2019-04-10 [1] CRAN (R 3.5.3) base64enc 0.1-3 2015-07-28 [1] CRAN (R 3.5.0) bayesplot 1.7.1 2019-12-01 [1] CRAN (R 3.5.3) boot 1.3-20 2017-08-06 [2] CRAN (R 3.5.2) callr 3.4.3 2020-03-28 [1] CRAN (R 3.5.3) cli 2.0.2 2020-02-28 [1] CRAN (R 3.5.3) codetools 0.2-15 2016-10-05 [2] CRAN (R 3.5.2) colorspace 1.4-0 2019-01-13 [1] CRAN (R 3.5.2) colourpicker 1.0 2017-09-27 [1] CRAN (R 3.5.1) crayon 1.3.4 2017-09-16 [1] CRAN (R 3.5.1) crosstalk 1.0.0 2016-12-21 [1] CRAN (R 3.5.1) curl 3.3 2019-01-10 [1] CRAN (R 3.5.2) desc 1.2.0 2018-05-01 [1] CRAN (R 3.5.1) devtools * 2.3.0 2020-04-10 [1] CRAN (R 3.5.2) digest 0.6.25 2020-02-23 [1] CRAN (R 3.5.3) dplyr 0.8.4 2020-01-31 [1] CRAN (R 3.5.3) DT 0.13 2020-03-23 [1] CRAN (R 3.5.3) dygraphs 1.1.1.6 2018-07-11 [1] CRAN (R 3.5.3) ellipsis 0.3.0 2019-09-20 [1] CRAN (R 3.5.3) fansi 0.4.0 2018-10-05 [1] CRAN (R 3.5.2) fs 1.3.1 2019-05-06 [1] CRAN (R 3.5.3) ggplot2 3.2.1 2019-08-10 [1] CRAN (R 3.5.3) ggridges 0.5.1 2018-09-27 [1] CRAN (R 3.5.3) glue 1.4.0 2020-04-03 [1] CRAN (R 3.5.3) gridExtra 2.3 2017-09-09 [1] CRAN (R 3.5.1) gtable 0.2.0 2016-02-26 [1] CRAN (R 3.5.1) gtools 3.8.1 2018-06-26 [1] CRAN (R 3.5.0) htmltools 0.3.6 2017-04-28 [1] CRAN (R 3.5.1) htmlwidgets 1.3 2018-09-30 [1] CRAN (R 3.5.3) httpuv 1.4.5.1 2018-12-18 [1] CRAN (R 3.5.2) igraph 1.2.4 2019-02-13 [1] CRAN (R 3.5.3) inline 0.3.15 2018-05-18 [1] CRAN (R 3.5.3) later 0.8.0 2019-02-11 [1] CRAN (R 3.5.2) lattice 0.20-38 2018-11-04 [2] CRAN (R 3.5.2) lazyeval 0.2.1 2017-10-29 [1] CRAN (R 3.5.1) lme4 1.1-21 2019-03-05 [1] CRAN (R 3.5.3) loo 2.2.0 2019-12-19 [1] CRAN (R 3.5.3) magrittr 1.5 2014-11-22 [1] CRAN (R 3.5.1) markdown 0.9 2018-12-07 [1] CRAN (R 3.5.3) MASS 7.3-51.5 2019-12-20 [1] CRAN (R 3.5.3) Matrix 1.2-15 2018-11-01 [2] CRAN (R 3.5.2) matrixStats 0.54.0 2018-07-23 [1] CRAN (R 3.5.2) memoise 1.1.0 2017-04-21 [1] CRAN (R 3.5.1) mime 0.6 2018-10-05 [1] CRAN (R 3.5.2) miniUI 0.1.1.1 2018-05-18 [1] CRAN (R 3.5.1) minqa 1.2.4 2014-10-09 [1] CRAN (R 3.5.1) munsell 0.5.0 2018-06-12 [1] CRAN (R 3.5.1) nlme 3.1-137 2018-04-07 [2] CRAN (R 3.5.2) nloptr 1.2.1 2018-10-03 [1] CRAN (R 3.5.3) packrat 0.5.0 2018-11-14 [1] CRAN (R 3.5.2) pillar 1.4.3 2019-12-20 [1] CRAN (R 3.5.3) pkgbuild 1.0.6.9000 2020-04-17 [1] Github (r-lib/pkgbuild@a475485) pkgconfig 2.0.2 2018-08-16 [1] CRAN (R 3.5.2) pkgload 1.0.2 2018-10-29 [1] CRAN (R 3.5.3) plyr 1.8.4 2016-06-08 [1] CRAN (R 3.5.1) prettyunits 1.0.2 2015-07-13 [1] CRAN (R 3.5.1) processx 3.4.1 2019-07-18 [1] CRAN (R 3.5.3) promises 1.0.1 2018-04-13 [1] CRAN (R 3.5.1) ps 1.3.0 2018-12-21 [1] CRAN (R 3.5.2) purrr 0.3.3 2019-10-18 [1] CRAN (R 3.5.3) R6 2.4.0 2019-02-14 [1] CRAN (R 3.5.2) Rcpp * 1.0.1 2019-03-17 [1] CRAN (R 3.5.3) remotes 2.1.1 2020-02-15 [1] CRAN (R 3.5.3) reshape2 1.4.3 2017-12-11 [1] CRAN (R 3.5.2) rlang 0.4.5 2020-03-01 [1] CRAN (R 3.5.3) rprojroot 1.3-2 2018-01-03 [1] CRAN (R 3.5.1) rsconnect 0.8.15 2019-07-22 [1] CRAN (R 3.5.3) rstan 2.19.3 2020-02-11 [1] CRAN (R 3.5.3) rstanarm * 2.19.3 2020-04-18 [1] Github (stan-dev/rstanarm@8709540) rstantools 2.0.0 2019-09-15 [1] CRAN (R 3.5.3) rstudioapi 0.11 2020-02-07 [1] CRAN (R 3.5.3) scales 1.0.0 2018-08-09 [1] CRAN (R 3.5.1) sessioninfo 1.1.1 2018-11-05 [1] CRAN (R 3.5.3) shiny 1.2.0 2018-11-02 [1] CRAN (R 3.5.2) shinyjs 1.0 2018-01-08 [1] CRAN (R 3.5.1) shinystan 2.5.0 2018-05-01 [1] CRAN (R 3.5.3) shinythemes 1.1.2 2018-11-06 [1] CRAN (R 3.5.3) StanHeaders 2.19.2 2019-09-07 [1] CRAN (R 3.6.3) stringi 1.3.1 2019-02-13 [1] CRAN (R 3.5.2) stringr 1.4.0 2019-02-10 [1] CRAN (R 3.5.2) survival 2.43-3 2018-11-26 [2] CRAN (R 3.5.2) testthat 2.3.2 2020-03-02 [1] CRAN (R 3.5.3) threejs 0.3.1 2017-08-13 [1] CRAN (R 3.5.3) tibble 2.1.3 2019-06-06 [1] CRAN (R 3.5.3) tidyselect 0.2.5 2018-10-11 [1] CRAN (R 3.5.2) usethis * 1.6.0 2020-04-09 [1] CRAN (R 3.5.2) withr 2.1.2 2018-03-15 [1] CRAN (R 3.5.1) xtable 1.8-3 2018-08-29 [1] CRAN (R 3.5.1) xts 0.11-2 2018-11-05 [1] CRAN (R 3.5.2) zoo 1.8-7 2020-01-10 [1] CRAN (R 3.5.3) [1] C:/Users/21307937/OneDrive/R Packages [2] C:/Program Files/R/R-3.5.2/library]