* installing to library ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages’ * installing *source* package ‘stan4bart’ ... ** package ‘stan4bart’ successfully unpacked and MD5 sums checked ** using staged installation checking whether the C++ compiler works... yes checking for C++ compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C++... yes checking whether g++-13 -std=gnu++17 accepts -g... yes checking for g++-13 -std=gnu++17 option to enable C++11 features... none needed checking how to run the C++ preprocessor... g++-13 -std=gnu++17 -E checking whether the compiler supports GNU C++... (cached) yes checking whether g++-13 -std=gnu++17 accepts -g... (cached) yes checking for g++-13 -std=gnu++17 option to enable C++11 features... (cached) none needed checking build system type... x86_64-pc-linux-gnu checking host system type... x86_64-pc-linux-gnu checking for gcc... gcc-13 checking whether the compiler supports GNU C... yes checking whether gcc-13 accepts -g... yes checking for gcc-13 option to enable C11 features... none needed checking for x86 cpuid output... unknown checking for x86-AVX xgetbv output... unknown checking for x86 cpuid 0x00000000 output... 14:756e6547:6c65746e:49656e69 checking for x86 cpuid 0x00000001 output... 406f1:34200800:7ffefbff:bfebfbff checking whether SSE2 is supported by the processor... yes checking whether SSE2 is supported by the processor and OS... yes checking whether C++ compiler accepts -msse2... yes checking for stdio.h... yes checking for stdlib.h... yes checking for string.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for strings.h... yes checking for sys/stat.h... yes checking for sys/types.h... yes checking for unistd.h... yes checking for malloc.h... yes checking size of size_t... 8 checking alignment of void*... 8 checking for size_t... yes checking for working alloca.h... yes checking for alloca... yes checking for working posix_memalign... yes checking for ffs... yes configure: creating ./config.status config.status: creating src/Makevars config.status: creating src/config.h ** libs using C compiler: ‘gcc-13 (Debian 13.2.0-23) 13.2.0’ using C++ compiler: ‘g++-13 (Debian 13.2.0-23) 13.2.0’ using C++17 make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpIfazIo/R.INSTALL17b6a13a9631eb/stan4bart/src' g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I"include" -I"include/sundials" -I"../inst/include" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppEigen/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/dbarts/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -Wall -pedantic -mtune=native -c bart_util.cpp -o bart_util.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I"include" -I"include/sundials" -I"../inst/include" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppEigen/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/dbarts/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -Wall -pedantic -mtune=native -c init.cpp -o init.o In file included from include/stan/math/rev/fun.hpp:128, from include/stan/math/rev.hpp:10, from include/stan/model/gradient.hpp:6, from include/stan/mcmc/hmc/hamiltonians/base_hamiltonian.hpp:6, from include/stan/mcmc/hmc/hamiltonians/diag_e_metric.hpp:5, from include/stan/mcmc/hmc/nuts/diag_e_nuts.hpp:6, from include/stan/mcmc/hmc/nuts/adapt_diag_e_nuts.hpp:6, from interruptable_sampler.hpp:68, from stan_sampler.hpp:18, from init.cpp:30: include/stan/math/rev/fun/matrix_power.hpp: In function ‘stan::plain_type_t stan::math::matrix_power(const T&, int)’: include/stan/math/rev/fun/matrix_power.hpp:33: note: ‘-Wmisleading-indentation’ is disabled from this point onwards, since column-tracking was disabled due to the size of the code/headers 33 | if (M.size() == 0) | include/stan/math/rev/fun/matrix_power.hpp:33: note: adding ‘-flarge-source-files’ will allow for more column-tracking support, at the expense of compilation time and memory gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I"include" -I"include/sundials" -I"../inst/include" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppEigen/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/dbarts/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c misc_adaptiveRadixTree.c -o misc_adaptiveRadixTree.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I"include" -I"include/sundials" -I"../inst/include" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppEigen/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/dbarts/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c misc_string.c -o misc_string.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I"include" -I"include/sundials" -I"../inst/include" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppEigen/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/dbarts/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rc_bounds.c -o rc_bounds.o gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I"include" -I"include/sundials" -I"../inst/include" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppEigen/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/dbarts/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rc_util.c -o rc_util.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I"include" -I"include/sundials" -I"../inst/include" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/BH/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppEigen/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/dbarts/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -fpic -g -O2 -Wall -pedantic -mtune=native -c stan_sampler.cpp -o stan_sampler.o In file included from include/stan/math/rev/fun.hpp:128, from include/stan/math/rev.hpp:10, from include/stan/model/gradient.hpp:6, from include/stan/mcmc/hmc/hamiltonians/base_hamiltonian.hpp:6, from include/stan/mcmc/hmc/hamiltonians/diag_e_metric.hpp:5, from include/stan/mcmc/hmc/nuts/diag_e_nuts.hpp:6, from include/stan/mcmc/hmc/nuts/adapt_diag_e_nuts.hpp:6, from interruptable_sampler.hpp:68, from stan_sampler.hpp:18, from stan_sampler.cpp:1: include/stan/math/rev/fun/matrix_power.hpp: In function ‘stan::plain_type_t stan::math::matrix_power(const T&, int)’: include/stan/math/rev/fun/matrix_power.hpp:33: note: ‘-Wmisleading-indentation’ is disabled from this point onwards, since column-tracking was disabled due to the size of the code/headers 33 | if (M.size() == 0) | include/stan/math/rev/fun/matrix_power.hpp:33: note: adding ‘-flarge-source-files’ will allow for more column-tracking support, at the expense of compilation time and memory In file included from include/stan/model/model_header.hpp:15, from stan_files/continuous.hpp:43, from stan_sampler.cpp:16: include/stan/model/model_base_crtp.hpp: At global scope: include/stan/model/model_base_crtp.hpp:149: warning: ‘stan::math::var stan::model::model_base_crtp::log_prob(std::vector, std::allocator > >&, std::vector&, std::ostream*) const [with M = continuous_model_namespace::continuous_model; stan::math::var = stan::math::var_value; std::ostream = std::basic_ostream]’ was hidden [-Woverloaded-virtual=] 149 | inline math::var log_prob(std::vector& theta, | stan_files/continuous.hpp:3389: note: by ‘continuous_model_namespace::continuous_model::log_prob’ 3389 | inline T__ log_prob(std::vector& params_r, | include/stan/model/model_base_crtp.hpp:144: warning: ‘double stan::model::model_base_crtp::log_prob(std::vector&, std::vector&, std::ostream*) const [with M = continuous_model_namespace::continuous_model; std::ostream = std::basic_ostream]’ was hidden [-Woverloaded-virtual=] 144 | inline double log_prob(std::vector& theta, std::vector& theta_i, | stan_files/continuous.hpp:3389: note: by ‘continuous_model_namespace::continuous_model::log_prob’ 3389 | inline T__ log_prob(std::vector& params_r, | include/stan/model/model_base_crtp.hpp:93: warning: ‘stan::math::var stan::model::model_base_crtp::log_prob(Eigen::Matrix, -1, 1>&, std::ostream*) const [with M = continuous_model_namespace::continuous_model; stan::math::var = stan::math::var_value; std::ostream = std::basic_ostream]’ was hidden [-Woverloaded-virtual=] 93 | inline math::var log_prob(Eigen::Matrix& theta, | stan_files/continuous.hpp:3389: note: by ‘continuous_model_namespace::continuous_model::log_prob’ 3389 | inline T__ log_prob(std::vector& params_r, | include/stan/model/model_base_crtp.hpp:88: warning: ‘double stan::model::model_base_crtp::log_prob(Eigen::VectorXd&, std::ostream*) const [with M = continuous_model_namespace::continuous_model; Eigen::VectorXd = Eigen::Matrix; std::ostream = std::basic_ostream]’ was hidden [-Woverloaded-virtual=] 88 | inline double log_prob(Eigen::VectorXd& theta, | stan_files/continuous.hpp:3389: note: by ‘continuous_model_namespace::continuous_model::log_prob’ 3389 | inline T__ log_prob(std::vector& params_r, | g++-13 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-devel-gcc/Work/build/lib -Wl,-O1 -o stan4bart.so bart_util.o init.o misc_adaptiveRadixTree.o misc_string.o rc_bounds.o rc_util.o stan_sampler.o -L/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/lib/ -Wl,-rpath,/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/lib/ -ltbb -ltbbmalloc -L/home/hornik/tmp/R.check/r-devel-gcc/Work/build/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpIfazIo/R.INSTALL17b6a13a9631eb/stan4bart/src' make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpIfazIo/R.INSTALL17b6a13a9631eb/stan4bart/src' make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpIfazIo/R.INSTALL17b6a13a9631eb/stan4bart/src' installing to /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/00LOCK-stan4bart/00new/stan4bart/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * creating tarball packaged installation of ‘stan4bart’ as ‘stan4bart_0.0-7_R_x86_64-pc-linux-gnu.tar.gz’ * DONE (stan4bart)