Install log for 'N2R'

* installing *source* package ‘N2R’ ...
** this is package ‘N2R’ version ‘1.0.5’
** package ‘N2R’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++ (GCC) 15.2.1 20260123 (Red Hat 15.2.1-7)’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/N2R/src'
g++ -std=gnu++20 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/BH/include' -I'/data/gannet/ripley/R/test-dev/RcppSpdlog/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I/usr/local/include   -I"../inst/include" -I"./n2/include" -fopenmp  -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++20 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/BH/include' -I'/data/gannet/ripley/R/test-dev/RcppSpdlog/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I/usr/local/include   -I"../inst/include" -I"./n2/include" -fopenmp  -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c check_openmp.cpp -o check_openmp.o
g++ -std=gnu++20 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/BH/include' -I'/data/gannet/ripley/R/test-dev/RcppSpdlog/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I/usr/local/include   -I"../inst/include" -I"./n2/include" -fopenmp  -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c n2knn.cpp -o n2knn.o
(cd n2  && CFLAGS="-g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes " CXXFLAGS="-g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection " MAKE="make -f \"/data/gannet/ripley/R/R-devel/etc/Makeconf\" -f Makefile" make -f "/data/gannet/ripley/R/R-devel/etc/Makeconf" -f Makefile lib) || exit 1;
make[2]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/N2R/src/n2'
g++ -std=gnu++20 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/BH/include' -I'/data/gannet/ripley/R/test-dev/RcppSpdlog/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I/usr/local/include   -I"./include" -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c hnsw.cc -o hnsw.o
g++ -std=gnu++20 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/BH/include' -I'/data/gannet/ripley/R/test-dev/RcppSpdlog/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I/usr/local/include   -I"./include" -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c hnsw_build.cc -o hnsw_build.o
In file included from hnsw.cc:14:
./include/n2/hnsw.h:234: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas]
  234 |         #pragma omp parallel num_threads(n_threads)
./include/n2/hnsw.h:236: warning: ignoring ‘#pragma omp for’ [-Wunknown-pragmas]
  236 |             #pragma omp for schedule(runtime)
./include/n2/hnsw.h:252: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas]
  252 |         #pragma omp parallel num_threads(n_threads)
./include/n2/hnsw.h:254: warning: ignoring ‘#pragma omp for’ [-Wunknown-pragmas]
  254 |             #pragma omp for schedule(runtime)
hnsw_build.cc:176: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas]
  176 |     #pragma omp parallel num_threads(n_threads_)
hnsw_build.cc:180: warning: ignoring ‘#pragma omp for’ [-Wunknown-pragmas]
  180 |             #pragma omp for schedule(dynamic,128)
hnsw_build.cc:188: warning: ignoring ‘#pragma omp for’ [-Wunknown-pragmas]
  188 |             #pragma omp for schedule(dynamic,128)
hnsw_build.cc:426: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas]
  426 |     #pragma omp parallel for schedule(dynamic,128) num_threads(n_threads_)
g++ -std=gnu++20 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/BH/include' -I'/data/gannet/ripley/R/test-dev/RcppSpdlog/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I/usr/local/include   -I"./include" -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c hnsw_search.cc -o hnsw_search.o
g++ -std=gnu++20 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/BH/include' -I'/data/gannet/ripley/R/test-dev/RcppSpdlog/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I/usr/local/include   -I"./include" -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c hnsw_model.cc -o hnsw_model.o
g++ -std=gnu++20 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/BH/include' -I'/data/gannet/ripley/R/test-dev/RcppSpdlog/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I/usr/local/include   -I"./include" -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c hnsw_node.cc -o hnsw_node.o
g++ -std=gnu++20 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/BH/include' -I'/data/gannet/ripley/R/test-dev/RcppSpdlog/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I/usr/local/include   -I"./include" -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c heuristic.cc -o heuristic.o
g++ -std=gnu++20 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/BH/include' -I'/data/gannet/ripley/R/test-dev/RcppSpdlog/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I/usr/local/include   -I"./include" -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c mmap.cc -o mmap.o
ar rvs ../libn2.a hnsw.o hnsw_build.o hnsw_search.o hnsw_model.o hnsw_node.o heuristic.o mmap.o
ar: creating ../libn2.a
a - hnsw.o
a - hnsw_build.o
a - hnsw_search.o
a - hnsw_model.o
a - hnsw_node.o
a - heuristic.o
a - mmap.o
make[2]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/N2R/src/n2'
g++ -std=gnu++20 -shared -L/usr/local/lib64 -o N2R.so RcppExports.o check_openmp.o n2knn.o -L. -lpthread -ln2 -lm -llapack -L/data/gannet/ripley/R/R-devel/lib -lRblas -lgfortran -lm -lquadmath -fopenmp
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/N2R/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/N2R/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/N2R/src'
installing to /data/gannet/ripley/R/packages/tests-devel/N2R.Rcheck/00LOCK-N2R/00new/N2R/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 (N2R)