* installing *source* package ‘bayou’ ... ** package ‘bayou’ successfully unpacked and MD5 sums checked ** using staged installation ** libs make[2]: Entering directory '/data/gannet/ripley/R/packages/tests-LTO/bayou/src' g++ -std=gnu++11 -I"/data/gannet/ripley/R/LTO/include" -DNDEBUG -I'/data/gannet/ripley/R/test-4.0/Rcpp/include' -I'/data/gannet/ripley/R/test-4.0/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-deprecated-declarations -Wno-parentheses -flto -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++11 -I"/data/gannet/ripley/R/LTO/include" -DNDEBUG -I'/data/gannet/ripley/R/test-4.0/Rcpp/include' -I'/data/gannet/ripley/R/test-4.0/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-deprecated-declarations -Wno-parentheses -flto -c branches.cpp -o branches.o g++ -std=gnu++11 -I"/data/gannet/ripley/R/LTO/include" -DNDEBUG -I'/data/gannet/ripley/R/test-4.0/Rcpp/include' -I'/data/gannet/ripley/R/test-4.0/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-deprecated-declarations -Wno-parentheses -flto -c threepoint.cpp -o threepoint.o g++ -std=gnu++11 -I"/data/gannet/ripley/R/LTO/include" -DNDEBUG -I'/data/gannet/ripley/R/test-4.0/Rcpp/include' -I'/data/gannet/ripley/R/test-4.0/RcppArmadillo/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-deprecated-declarations -Wno-parentheses -flto -c weightmatrix.cpp -o weightmatrix.o weightmatrix.cpp: In function ‘SEXPREC* C_weightmatrix(SEXP, SEXP)’: weightmatrix.cpp:81:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const uword’ {aka ‘const unsigned int’} [-Wsign-compare] 81 | for(int j=0; j < mstart.n_rows; ++j){ | ~~^~~~~~~~~~~~~~~ g++ -std=gnu++11 -shared -L/usr/local/lib64 -o bayou.so RcppExports.o branches.o threepoint.o weightmatrix.o RcppExports.cpp:48:17: warning: ‘cache_descendants’ violates the C++ One Definition Rule [-Wodr] 48 | RcppExport SEXP cache_descendants(SEXP, SEXP); | ^ branches.cpp:256:17: note: type mismatch in parameter 2 256 | RcppExport SEXP cache_descendants (SEXP phy) | ^ branches.cpp:256:17: note: type ‘void’ should match type ‘struct SEXPREC *’ branches.cpp:256:17: note: ‘cache_descendants’ was previously declared here make[2]: Leaving directory '/data/gannet/ripley/R/packages/tests-LTO/bayou/src' installing to /data/gannet/ripley/R/packages/tests-LTO/Libs/bayou-lib/00LOCK-bayou/00new/bayou/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 * DONE (bayou) Time 1:48.41, 87.27 + 5.63