* installing *source* package ‘BayesSUR’ ... ** 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 clang++-18 -std=gnu++17 accepts -g... yes checking for clang++-18 -std=gnu++17 option to enable C++11 features... none needed checking whether CXX supports -std=c++17... yes checking for clang++-18 -std=gnu++17 option to support OpenMP... -fopenmp checking whether OpenMP will actually work in a package... yes configure: creating ./config.status config.status: creating src/Makevars ** libs using C++ compiler: ‘Debian clang version 18.1.6 (1)’ using C++17 clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c BayesSUR.cpp -o BayesSUR.o In file included from BayesSUR.cpp:17: In file included from ./drive.h:8: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:25: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:30: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp/r/headers.h:26:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 26 | #define R_NO_REMAP | ^ :4:9: note: previous definition is here 4 | #define R_NO_REMAP 1 | ^ 1 warning generated. clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c HRR_Chain.cpp -o HRR_Chain.o In file included from HRR_Chain.cpp:1: In file included from ./HRR_Chain.h:8: In file included from ./utils.h:8: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:25: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:30: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp/r/headers.h:26:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 26 | #define R_NO_REMAP | ^ :4:9: note: previous definition is here 4 | #define R_NO_REMAP 1 | ^ 1 warning generated. clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c RcppExports.cpp -o RcppExports.o In file included from RcppExports.cpp:4: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:25: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:30: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp/r/headers.h:26:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 26 | #define R_NO_REMAP | ^ :4:9: note: previous definition is here 4 | #define R_NO_REMAP 1 | ^ 1 warning generated. clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c SUR_Chain.cpp -o SUR_Chain.o In file included from SUR_Chain.cpp:1: In file included from ./SUR_Chain.h:8: In file included from ./utils.h:8: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:25: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:30: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp/r/headers.h:26:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 26 | #define R_NO_REMAP | ^ :4:9: note: previous definition is here 4 | #define R_NO_REMAP 1 | ^ 1 warning generated. clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c distr.cpp -o distr.o In file included from distr.cpp:1: In file included from ./global.h:16: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:25: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:30: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp/r/headers.h:26:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 26 | #define R_NO_REMAP | ^ :4:9: note: previous definition is here 4 | #define R_NO_REMAP 1 | ^ 1 warning generated. clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c drive.cpp -o drive.o In file included from drive.cpp:1: In file included from ./drive.h:8: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:25: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:30: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp/r/headers.h:26:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 26 | #define R_NO_REMAP | ^ :4:9: note: previous definition is here 4 | #define R_NO_REMAP 1 | ^ 1 warning generated. clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c global.cpp -o global.o In file included from global.cpp:1: In file included from ./global.h:16: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:25: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:30: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp/r/headers.h:26:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 26 | #define R_NO_REMAP | ^ :4:9: note: previous definition is here 4 | #define R_NO_REMAP 1 | ^ 1 warning generated. clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c junction_tree.cpp -o junction_tree.o In file included from junction_tree.cpp:1: In file included from ./junction_tree.h:8: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:25: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:30: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp/r/headers.h:26:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 26 | #define R_NO_REMAP | ^ :4:9: note: previous definition is here 4 | #define R_NO_REMAP 1 | ^ 1 warning generated. clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c pugixml.cpp -o pugixml.o clang++-18 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c utils.cpp -o utils.o In file included from utils.cpp:1: In file included from ./utils.h:8: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:25: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:30: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include/Rcpp/r/headers.h:26:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 26 | #define R_NO_REMAP | ^ :4:9: note: previous definition is here 4 | #define R_NO_REMAP 1 | ^ 1 warning generated. clang++-18 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o BayesSUR.so BayesSUR.o HRR_Chain.o RcppExports.o SUR_Chain.o distr.o drive.o global.o junction_tree.o pugixml.o utils.o -fopenmp -llapack -L/home/hornik/tmp/R/lib -lRblas -L/usr/lib/llvm-18/lib -lFortran_main -lFortranRuntime -lFortranDecimal -lm -L/home/hornik/tmp/R/lib -lR installing to /srv/hornik/tmp/CRAN/BayesSUR.Rcheck/00LOCK-BayesSUR/00new/BayesSUR/libs ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** 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 * DONE (BayesSUR)