* installing *source* package ‘gpboost’ ...
** this is package ‘gpboost’ version ‘1.7.1.1’
** package ‘gpboost’ successfully unpacked and MD5 sums checked
** using staged installation
checking location of R... /data/localhost/ripley/R/R-devel
checking whether MM_PREFETCH works... yes
checking whether MM_MALLOC works... yes
configure: creating ./config.status
config.status: creating src/Makevars
** libs
specified C++17
using C compiler: ‘gcc (GCC) 16.1.1 20260515 (Red Hat 16.1.1-2)’
using C++ compiler: ‘g++ (GCC) 16.1.1 20260515 (Red Hat 16.1.1-2)’
using C++17
make[1]: Entering directory '/data/localhost/ripley/R/packages/tests-devel/gpboost/src'
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 boosting/boosting.cpp -o boosting/boosting.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 boosting/gbdt.cpp -o boosting/gbdt.o
In file included from ./include/LightGBM/utils/common.h:13,
from ./include/LightGBM/config.h:23,
from ./include/LightGBM/boosting.h:8,
from boosting/boosting.cpp:5:
./include/LightGBM/utils/openmp_wrapper.h: In function ‘int OMP_NUM_THREADS()’:
./include/LightGBM/utils/openmp_wrapper.h:22:19: warning: ‘master’ construct deprecated since OpenMP 5.1, use ‘masked’ [-Wdeprecated-openmp]
22 | #pragma omp master
| ^
In file included from ./include/LightGBM/utils/common.h:13,
from ./include/LightGBM/config.h:23,
from ./include/LightGBM/boosting.h:8,
from boosting/gbdt.h:9,
from boosting/gbdt.cpp:6:
./include/LightGBM/utils/openmp_wrapper.h: In function ‘int OMP_NUM_THREADS()’:
./include/LightGBM/utils/openmp_wrapper.h:22:19: warning: ‘master’ construct deprecated since OpenMP 5.1, use ‘masked’ [-Wdeprecated-openmp]
22 | #pragma omp master
| ^
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 boosting/gbdt_model_text.cpp -o boosting/gbdt_model_text.o
In file included from ./include/LightGBM/utils/common.h:13,
from ./include/LightGBM/config.h:23,
from boosting/gbdt_model_text.cpp:5:
./include/LightGBM/utils/openmp_wrapper.h: In function ‘int OMP_NUM_THREADS()’:
./include/LightGBM/utils/openmp_wrapper.h:22:19: warning: ‘master’ construct deprecated since OpenMP 5.1, use ‘masked’ [-Wdeprecated-openmp]
22 | #pragma omp master
| ^
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 boosting/gbdt_prediction.cpp -o boosting/gbdt_prediction.o
In file included from ./include/LightGBM/utils/common.h:13,
from ./include/GPBoost/re_model_template.h:43,
from ./include/GPBoost/re_model.h:13,
from ./include/LightGBM/objective_function.h:9,
from boosting/gbdt_prediction.cpp:6:
./include/LightGBM/utils/openmp_wrapper.h: In function ‘int OMP_NUM_THREADS()’:
./include/LightGBM/utils/openmp_wrapper.h:22:19: warning: ‘master’ construct deprecated since OpenMP 5.1, use ‘masked’ [-Wdeprecated-openmp]
22 | #pragma omp master
| ^
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 boosting/prediction_early_stop.cpp -o boosting/prediction_early_stop.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 io/bin.cpp -o io/bin.o
In file included from ./include/LightGBM/utils/common.h:13,
from ./include/LightGBM/bin.h:9,
from io/bin.cpp:5:
./include/LightGBM/utils/openmp_wrapper.h: In function ‘int OMP_NUM_THREADS()’:
./include/LightGBM/utils/openmp_wrapper.h:22:19: warning: ‘master’ construct deprecated since OpenMP 5.1, use ‘masked’ [-Wdeprecated-openmp]
22 | #pragma omp master
| ^
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 io/config.cpp -o io/config.o
In file included from ./include/LightGBM/utils/common.h:13,
from ./include/LightGBM/config.h:23,
from io/config.cpp:6:
./include/LightGBM/utils/openmp_wrapper.h: In function ‘int OMP_NUM_THREADS()’:
./include/LightGBM/utils/openmp_wrapper.h:22:19: warning: ‘master’ construct deprecated since OpenMP 5.1, use ‘masked’ [-Wdeprecated-openmp]
22 | #pragma omp master
| ^
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 io/config_auto.cpp -o io/config_auto.o
In file included from ./include/LightGBM/utils/common.h:13,
from ./include/LightGBM/config.h:23,
from io/config_auto.cpp:9:
./include/LightGBM/utils/openmp_wrapper.h: In function ‘int OMP_NUM_THREADS()’:
./include/LightGBM/utils/openmp_wrapper.h:22:19: warning: ‘master’ construct deprecated since OpenMP 5.1, use ‘masked’ [-Wdeprecated-openmp]
22 | #pragma omp master
| ^
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 io/dataset.cpp -o io/dataset.o
In file included from ./include/LightGBM/utils/common.h:13,
from ./include/LightGBM/config.h:23,
from ./include/LightGBM/dataset.h:8,
from io/dataset.cpp:6:
./include/LightGBM/utils/openmp_wrapper.h: In function ‘int OMP_NUM_THREADS()’:
./include/LightGBM/utils/openmp_wrapper.h:22:19: warning: ‘master’ construct deprecated since OpenMP 5.1, use ‘masked’ [-Wdeprecated-openmp]
22 | #pragma omp master
| ^
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 io/dataset_loader.cpp -o io/dataset_loader.o
In file included from ./include/LightGBM/utils/common.h:13,
from ./include/LightGBM/config.h:23,
from ./include/LightGBM/dataset.h:8,
from ./include/LightGBM/dataset_loader.h:8,
from io/dataset_loader.cpp:5:
./include/LightGBM/utils/openmp_wrapper.h: In function ‘int OMP_NUM_THREADS()’:
./include/LightGBM/utils/openmp_wrapper.h:22:19: warning: ‘master’ construct deprecated since OpenMP 5.1, use ‘masked’ [-Wdeprecated-openmp]
22 | #pragma omp master
| ^
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 io/file_io.cpp -o io/file_io.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 io/json11.cpp -o io/json11.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 io/metadata.cpp -o io/metadata.o
In file included from ./include/LightGBM/utils/common.h:13,
from ./include/LightGBM/config.h:23,
from ./include/LightGBM/dataset.h:8,
from io/metadata.cpp:6:
./include/LightGBM/utils/openmp_wrapper.h: In function ‘int OMP_NUM_THREADS()’:
./include/LightGBM/utils/openmp_wrapper.h:22:19: warning: ‘master’ construct deprecated since OpenMP 5.1, use ‘masked’ [-Wdeprecated-openmp]
22 | #pragma omp master
| ^
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 io/parser.cpp -o io/parser.o
In file included from ./include/LightGBM/utils/common.h:13,
from ./include/LightGBM/config.h:23,
from ./include/LightGBM/dataset.h:8,
from io/parser.hpp:8,
from io/parser.cpp:5:
./include/LightGBM/utils/openmp_wrapper.h: In function ‘int OMP_NUM_THREADS()’:
./include/LightGBM/utils/openmp_wrapper.h:22:19: warning: ‘master’ construct deprecated since OpenMP 5.1, use ‘masked’ [-Wdeprecated-openmp]
22 | #pragma omp master
| ^
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 io/train_share_states.cpp -o io/train_share_states.o
In file included from ./include/LightGBM/utils/common.h:13,
from ./include/LightGBM/bin.h:9,
from ./include/LightGBM/train_share_states.h:8,
from io/train_share_states.cpp:7:
./include/LightGBM/utils/openmp_wrapper.h: In function ‘int OMP_NUM_THREADS()’:
./include/LightGBM/utils/openmp_wrapper.h:22:19: warning: ‘master’ construct deprecated since OpenMP 5.1, use ‘masked’ [-Wdeprecated-openmp]
22 | #pragma omp master
| ^
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 io/tree.cpp -o io/tree.o
In file included from ./include/LightGBM/utils/common.h:13,
from ./include/LightGBM/config.h:23,
from ./include/LightGBM/dataset.h:8,
from ./include/LightGBM/tree.h:8,
from io/tree.cpp:5:
./include/LightGBM/utils/openmp_wrapper.h: In function ‘int OMP_NUM_THREADS()’:
./include/LightGBM/utils/openmp_wrapper.h:22:19: warning: ‘master’ construct deprecated since OpenMP 5.1, use ‘masked’ [-Wdeprecated-openmp]
22 | #pragma omp master
| ^
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 metric/dcg_calculator.cpp -o metric/dcg_calculator.o
In file included from ./include/LightGBM/utils/common.h:13,
from ./include/LightGBM/config.h:23,
from ./include/LightGBM/metric.h:9,
from metric/dcg_calculator.cpp:5:
./include/LightGBM/utils/openmp_wrapper.h: In function ‘int OMP_NUM_THREADS()’:
./include/LightGBM/utils/openmp_wrapper.h:22:19: warning: ‘master’ construct deprecated since OpenMP 5.1, use ‘masked’ [-Wdeprecated-openmp]
22 | #pragma omp master
| ^
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 metric/metric.cpp -o metric/metric.o
In file included from ./include/LightGBM/utils/common.h:13,
from ./include/LightGBM/config.h:23,
from ./include/LightGBM/metric.h:9,
from metric/metric.cpp:6:
./include/LightGBM/utils/openmp_wrapper.h: In function ‘int OMP_NUM_THREADS()’:
./include/LightGBM/utils/openmp_wrapper.h:22:19: warning: ‘master’ construct deprecated since OpenMP 5.1, use ‘masked’ [-Wdeprecated-openmp]
22 | #pragma omp master
| ^
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 objective/objective_function.cpp -o objective/objective_function.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 network/ifaddrs_patch.cpp -o network/ifaddrs_patch.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 network/linker_topo.cpp -o network/linker_topo.o
In file included from ./include/LightGBM/utils/common.h:13,
from ./include/LightGBM/config.h:23,
from ./include/LightGBM/network.h:8,
from network/linker_topo.cpp:5:
./include/LightGBM/utils/openmp_wrapper.h: In function ‘int OMP_NUM_THREADS()’:
./include/LightGBM/utils/openmp_wrapper.h:22:19: warning: ‘master’ construct deprecated since OpenMP 5.1, use ‘masked’ [-Wdeprecated-openmp]
22 | #pragma omp master
| ^
In file included from ./include/LightGBM/utils/common.h:13,
from ./include/GPBoost/re_model_template.h:43,
from ./include/GPBoost/re_model.h:13,
from ./include/LightGBM/objective_function.h:9,
from objective/objective_function.cpp:6:
./include/LightGBM/utils/openmp_wrapper.h: In function ‘int OMP_NUM_THREADS()’:
./include/LightGBM/utils/openmp_wrapper.h:22:19: warning: ‘master’ construct deprecated since OpenMP 5.1, use ‘masked’ [-Wdeprecated-openmp]
22 | #pragma omp master
| ^
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 network/linkers_mpi.cpp -o network/linkers_mpi.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 network/linkers_socket.cpp -o network/linkers_socket.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 network/network.cpp -o network/network.o
In file included from ./include/LightGBM/utils/common.h:13,
from ./include/LightGBM/config.h:23,
from network/linkers_socket.cpp:7:
./include/LightGBM/utils/openmp_wrapper.h: In function ‘int OMP_NUM_THREADS()’:
./include/LightGBM/utils/openmp_wrapper.h:22:19: warning: ‘master’ construct deprecated since OpenMP 5.1, use ‘masked’ [-Wdeprecated-openmp]
22 | #pragma omp master
| ^
In file included from ./include/LightGBM/utils/common.h:13,
from ./include/LightGBM/config.h:23,
from ./include/LightGBM/network.h:8,
from network/network.cpp:5:
./include/LightGBM/utils/openmp_wrapper.h: In function ‘int OMP_NUM_THREADS()’:
./include/LightGBM/utils/openmp_wrapper.h:22:19: warning: ‘master’ construct deprecated since OpenMP 5.1, use ‘masked’ [-Wdeprecated-openmp]
22 | #pragma omp master
| ^
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 treelearner/data_parallel_tree_learner.cpp -o treelearner/data_parallel_tree_learner.o
In file included from ./include/LightGBM/utils/common.h:13,
from ./include/LightGBM/config.h:23,
from ./include/LightGBM/network.h:8,
from treelearner/parallel_tree_learner.h:8,
from treelearner/data_parallel_tree_learner.cpp:9:
./include/LightGBM/utils/openmp_wrapper.h: In function ‘int OMP_NUM_THREADS()’:
./include/LightGBM/utils/openmp_wrapper.h:22:19: warning: ‘master’ construct deprecated since OpenMP 5.1, use ‘masked’ [-Wdeprecated-openmp]
22 | #pragma omp master
| ^
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 treelearner/feature_parallel_tree_learner.cpp -o treelearner/feature_parallel_tree_learner.o
In file included from ./include/LightGBM/utils/common.h:13,
from ./include/LightGBM/config.h:23,
from ./include/LightGBM/network.h:8,
from treelearner/parallel_tree_learner.h:8,
from treelearner/feature_parallel_tree_learner.cpp:8:
./include/LightGBM/utils/openmp_wrapper.h: In function ‘int OMP_NUM_THREADS()’:
./include/LightGBM/utils/openmp_wrapper.h:22:19: warning: ‘master’ construct deprecated since OpenMP 5.1, use ‘masked’ [-Wdeprecated-openmp]
22 | #pragma omp master
| ^
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 treelearner/gpu_tree_learner.cpp -o treelearner/gpu_tree_learner.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 treelearner/linear_tree_learner.cpp -o treelearner/linear_tree_learner.o
In file included from ./include/LightGBM/utils/common.h:13,
from ./include/LightGBM/config.h:23,
from ./include/LightGBM/dataset.h:8,
from treelearner/serial_tree_learner.h:8,
from treelearner/linear_tree_learner.h:14,
from treelearner/linear_tree_learner.cpp:5:
./include/LightGBM/utils/openmp_wrapper.h: In function ‘int OMP_NUM_THREADS()’:
./include/LightGBM/utils/openmp_wrapper.h:22:19: warning: ‘master’ construct deprecated since OpenMP 5.1, use ‘masked’ [-Wdeprecated-openmp]
22 | #pragma omp master
| ^
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 treelearner/serial_tree_learner.cpp -o treelearner/serial_tree_learner.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 treelearner/tree_learner.cpp -o treelearner/tree_learner.o
In file included from ./include/LightGBM/utils/common.h:13,
from ./include/LightGBM/config.h:23,
from ./include/LightGBM/dataset.h:8,
from treelearner/serial_tree_learner.h:8,
from treelearner/serial_tree_learner.cpp:6:
./include/LightGBM/utils/openmp_wrapper.h: In function ‘int OMP_NUM_THREADS()’:
./include/LightGBM/utils/openmp_wrapper.h:22:19: warning: ‘master’ construct deprecated since OpenMP 5.1, use ‘masked’ [-Wdeprecated-openmp]
22 | #pragma omp master
| ^
In file included from ./include/LightGBM/utils/common.h:13,
from ./include/LightGBM/config.h:23,
from ./include/LightGBM/tree_learner.h:9,
from treelearner/tree_learner.cpp:5:
./include/LightGBM/utils/openmp_wrapper.h: In function ‘int OMP_NUM_THREADS()’:
./include/LightGBM/utils/openmp_wrapper.h:22:19: warning: ‘master’ construct deprecated since OpenMP 5.1, use ‘masked’ [-Wdeprecated-openmp]
22 | #pragma omp master
| ^
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 treelearner/voting_parallel_tree_learner.cpp -o treelearner/voting_parallel_tree_learner.o
In file included from ./include/LightGBM/utils/common.h:13,
from treelearner/voting_parallel_tree_learner.cpp:5:
./include/LightGBM/utils/openmp_wrapper.h: In function ‘int OMP_NUM_THREADS()’:
./include/LightGBM/utils/openmp_wrapper.h:22:19: warning: ‘master’ construct deprecated since OpenMP 5.1, use ‘masked’ [-Wdeprecated-openmp]
22 | #pragma omp master
| ^
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 c_api.cpp -o c_api.o
In file included from ./include/LightGBM/utils/common.h:13,
from ./include/GPBoost/re_model_template.h:43,
from ./include/GPBoost/re_model.h:13,
from c_api.cpp:12:
./include/LightGBM/utils/openmp_wrapper.h: In function ‘int OMP_NUM_THREADS()’:
./include/LightGBM/utils/openmp_wrapper.h:22:19: warning: ‘master’ construct deprecated since OpenMP 5.1, use ‘masked’ [-Wdeprecated-openmp]
22 | #pragma omp master
| ^
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 gpboost_R.cpp -o gpboost_R.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 re_model.cpp -o re_model.o
In file included from ./include/LightGBM/utils/common.h:13,
from gpboost_R.cpp:9:
./include/LightGBM/utils/openmp_wrapper.h: In function ‘int OMP_NUM_THREADS()’:
./include/LightGBM/utils/openmp_wrapper.h:22:19: warning: ‘master’ construct deprecated since OpenMP 5.1, use ‘masked’ [-Wdeprecated-openmp]
22 | #pragma omp master
| ^
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 sparse_matrix_utils.cpp -o sparse_matrix_utils.o
In file included from ./include/LightGBM/utils/common.h:13,
from ./include/GPBoost/re_model_template.h:43,
from ./include/GPBoost/re_model.h:13,
from re_model.cpp:9:
./include/LightGBM/utils/openmp_wrapper.h: In function ‘int OMP_NUM_THREADS()’:
./include/LightGBM/utils/openmp_wrapper.h:22:19: warning: ‘master’ construct deprecated since OpenMP 5.1, use ‘masked’ [-Wdeprecated-openmp]
22 | #pragma omp master
| ^
In file included from ./include/GPBoost/re_model_template.h:23:
./include/GPBoost/likelihoods.h: In instantiation of ‘const double* GPBoost::Likelihood<T_mat, T_chol>::FindInitialAuxPars(const double*, const double*, GPBoost::data_size_t) [with T_mat = Eigen::SparseMatrix<double>; T_chol = Eigen::SimplicialLLT<Eigen::SparseMatrix<double>, 1, Eigen::AMDOrdering<int> >; GPBoost::data_size_t = int]’:
./include/GPBoost/re_model_template.h:1311:70: required from ‘void GPBoost::REModelTemplate<T_mat, T_chol>::OptimLinRegrCoefCovPar(const double*, const double*, int, double*, double*, int&, double*, double*, const double*, bool, bool, bool, bool, bool) [with T_mat = Eigen::SparseMatrix<double>; T_chol = Eigen::SimplicialLLT<Eigen::SparseMatrix<double>, 1, Eigen::AMDOrdering<int> >]’
1311 | aux_pars = likelihood_[unique_clusters_[0]]->FindInitialAuxPars(y_aux_temp.data(), fixed_effects_ptr, num_data_);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
re_model.cpp:493:40: required from here
493 | re_model_sp_->OptimLinRegrCoefCovPar(y_data,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~
494 | nullptr,
| ~~~~~~~~
495 | 0,
| ~~
496 | cov_pars_.data(),
| ~~~~~~~~~~~~~~~~~
497 | nullptr,
| ~~~~~~~~
498 | num_it_,
| ~~~~~~~~
499 | cov_pars_.data(),
| ~~~~~~~~~~~~~~~~~
500 | nullptr,
| ~~~~~~~~
501 | fixed_effects,
| ~~~~~~~~~~~~~~
502 | /*learn_covariance_parameters = */ true,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | /*called_in_GPBoost_algorithm = */ called_in_GPBoost_algorithm,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
504 | /*reuse_learning_rates_from_previous_call = */ reuse_learning_rates_from_previous_call,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
505 | /*only_intercept_for_GPBoost_algo = */ false,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
506 | /*find_learning_rate_for_GPBoost_algo = */ false);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
./include/GPBoost/likelihoods.h:2271:59: warning: variable ‘Wpos’ set but not used [-Wunused-but-set-variable=]
2271 | double W = 0.0, W0 = 0.0, Wpos = 0.0;
| ^~~~
./include/GPBoost/likelihoods.h: In instantiation of ‘const double* GPBoost::Likelihood<T_mat, T_chol>::FindInitialAuxPars(const double*, const double*, GPBoost::data_size_t) [with T_mat = Eigen::SparseMatrix<double, 1>; T_chol = Eigen::SimplicialLLT<Eigen::SparseMatrix<double, 1>, 1, Eigen::AMDOrdering<int> >; GPBoost::data_size_t = int]’:
./include/GPBoost/re_model_template.h:1311:70: required from ‘void GPBoost::REModelTemplate<T_mat, T_chol>::OptimLinRegrCoefCovPar(const double*, const double*, int, double*, double*, int&, double*, double*, const double*, bool, bool, bool, bool, bool) [with T_mat = Eigen::SparseMatrix<double, 1>; T_chol = Eigen::SimplicialLLT<Eigen::SparseMatrix<double, 1>, 1, Eigen::AMDOrdering<int> >]’
1311 | aux_pars = likelihood_[unique_clusters_[0]]->FindInitialAuxPars(y_aux_temp.data(), fixed_effects_ptr, num_data_);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
re_model.cpp:509:43: required from here
509 | re_model_sp_rm_->OptimLinRegrCoefCovPar(y_data,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~
510 | nullptr,
| ~~~~~~~~
511 | 0,
| ~~
512 | cov_pars_.data(),
| ~~~~~~~~~~~~~~~~~
513 | nullptr,
| ~~~~~~~~
514 | num_it_,
| ~~~~~~~~
515 | cov_pars_.data(),
| ~~~~~~~~~~~~~~~~~
516 | nullptr,
| ~~~~~~~~
517 | fixed_effects,
| ~~~~~~~~~~~~~~
518 | /*learn_covariance_parameters = */ true,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
519 | /*called_in_GPBoost_algorithm = */ called_in_GPBoost_algorithm,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
520 | /*reuse_learning_rates_from_previous_call = */ reuse_learning_rates_from_previous_call,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
521 | /*only_intercept_for_GPBoost_algo = */ false,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
522 | /*find_learning_rate_for_GPBoost_algo = */ false);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
./include/GPBoost/likelihoods.h:2271:59: warning: variable ‘Wpos’ set but not used [-Wunused-but-set-variable=]
2271 | double W = 0.0, W0 = 0.0, Wpos = 0.0;
| ^~~~
./include/GPBoost/likelihoods.h: In instantiation of ‘const double* GPBoost::Likelihood<T_mat, T_chol>::FindInitialAuxPars(const double*, const double*, GPBoost::data_size_t) [with T_mat = Eigen::Matrix<double, -1, -1>; T_chol = Eigen::LLT<Eigen::Matrix<double, -1, -1>, 1>; GPBoost::data_size_t = int]’:
./include/GPBoost/re_model_template.h:1311:70: required from ‘void GPBoost::REModelTemplate<T_mat, T_chol>::OptimLinRegrCoefCovPar(const double*, const double*, int, double*, double*, int&, double*, double*, const double*, bool, bool, bool, bool, bool) [with T_mat = Eigen::Matrix<double, -1, -1>; T_chol = Eigen::LLT<Eigen::Matrix<double, -1, -1>, 1>]’
1311 | aux_pars = likelihood_[unique_clusters_[0]]->FindInitialAuxPars(y_aux_temp.data(), fixed_effects_ptr, num_data_);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
re_model.cpp:525:41: required from here
525 | re_model_den_->OptimLinRegrCoefCovPar(y_data,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~
526 | nullptr,
| ~~~~~~~~
527 | 0,
| ~~
528 | cov_pars_.data(),
| ~~~~~~~~~~~~~~~~~
529 | nullptr,
| ~~~~~~~~
530 | num_it_,
| ~~~~~~~~
531 | cov_pars_.data(),
| ~~~~~~~~~~~~~~~~~
532 | nullptr,
| ~~~~~~~~
533 | fixed_effects,
| ~~~~~~~~~~~~~~
534 | /*learn_covariance_parameters = */ true,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
535 | /*called_in_GPBoost_algorithm = */ called_in_GPBoost_algorithm,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
536 | /*reuse_learning_rates_from_previous_call = */ reuse_learning_rates_from_previous_call,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
537 | /*only_intercept_for_GPBoost_algo = */ false,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
538 | /*find_learning_rate_for_GPBoost_algo = */ false);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
./include/GPBoost/likelihoods.h:2271:59: warning: variable ‘Wpos’ set but not used [-Wunused-but-set-variable=]
2271 | double W = 0.0, W0 = 0.0, Wpos = 0.0;
| ^~~~
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 GP_utils.cpp -o GP_utils.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 DF_utils.cpp -o DF_utils.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 Vecchia_utils.cpp -o Vecchia_utils.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fopenmp -pthread -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 CG_utils.cpp -o CG_utils.o
gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fpic -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 -c cs_spsolve.c -o cs_spsolve.o
gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fpic -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 -c cs_reach.c -o cs_reach.o
gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I./include -DEIGEN_MPL2_ONLY -DMM_PREFETCH=1 -DMM_MALLOC=1 -DUSE_SOCKET -DLGB_R_BUILD -I/usr/local/include -fpic -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 -c cs_dfs.c -o cs_dfs.o
./include/GPBoost/likelihoods.h: In member function ‘void GPBoost::Likelihood<T_mat, T_chol>::Sample_Posterior_LaplaceApprox_FSVA(const GPBoost::den_mat_t*, const GPBoost::den_mat_t&, const GPBoost::den_mat_t&, const GPBoost::chol_den_mat_t&, const GPBoost::chol_den_mat_t&, const GPBoost::chol_den_mat_t&, const GPBoost::den_mat_t&, const std::vector<std::shared_ptr<GPBoost::RECompGP<Eigen::Matrix<double, -1, -1> > > >&) [with T_mat = Eigen::Matrix<double, -1, -1>; T_chol = Eigen::LLT<Eigen::Matrix<double, -1, -1>, 1>]’:
./include/GPBoost/likelihoods.h:9099:9: warning: ‘cross_cov_preconditioner’ may be used uninitialized [-Wmaybe-uninitialized]
9099 | #pragma omp parallel for schedule(static) reduction(||:na_inf_flag_8)
| ^~~
./include/GPBoost/likelihoods.h:9079:50: note: ‘cross_cov_preconditioner’ was declared here
9079 | const den_mat_t* cross_cov_preconditioner;
| ^~~~~~~~~~~~~~~~~~~~~~~~
./include/GPBoost/likelihoods.h: In member function ‘void GPBoost::Likelihood<T_mat, T_chol>::Sample_Posterior_LaplaceApprox_FSVA(const GPBoost::den_mat_t*, const GPBoost::den_mat_t&, const GPBoost::den_mat_t&, const GPBoost::chol_den_mat_t&, const GPBoost::chol_den_mat_t&, const GPBoost::chol_den_mat_t&, const GPBoost::den_mat_t&, const std::vector<std::shared_ptr<GPBoost::RECompGP<Eigen::Matrix<double, -1, -1> > > >&) [with T_mat = Eigen::SparseMatrix<double, 1>; T_chol = Eigen::SimplicialLLT<Eigen::SparseMatrix<double, 1>, 1, Eigen::AMDOrdering<int> >]’:
./include/GPBoost/likelihoods.h:9099:9: warning: ‘cross_cov_preconditioner’ may be used uninitialized [-Wmaybe-uninitialized]
9099 | #pragma omp parallel for schedule(static) reduction(||:na_inf_flag_8)
| ^~~
./include/GPBoost/likelihoods.h:9079:50: note: ‘cross_cov_preconditioner’ was declared here
9079 | const den_mat_t* cross_cov_preconditioner;
| ^~~~~~~~~~~~~~~~~~~~~~~~
./include/GPBoost/likelihoods.h: In member function ‘void GPBoost::Likelihood<T_mat, T_chol>::Sample_Posterior_LaplaceApprox_FSVA(const GPBoost::den_mat_t*, const GPBoost::den_mat_t&, const GPBoost::den_mat_t&, const GPBoost::chol_den_mat_t&, const GPBoost::chol_den_mat_t&, const GPBoost::chol_den_mat_t&, const GPBoost::den_mat_t&, const std::vector<std::shared_ptr<GPBoost::RECompGP<Eigen::Matrix<double, -1, -1> > > >&) [with T_mat = Eigen::SparseMatrix<double>; T_chol = Eigen::SimplicialLLT<Eigen::SparseMatrix<double>, 1, Eigen::AMDOrdering<int> >]’:
./include/GPBoost/likelihoods.h:9099:9: warning: ‘cross_cov_preconditioner’ may be used uninitialized [-Wmaybe-uninitialized]
9099 | #pragma omp parallel for schedule(static) reduction(||:na_inf_flag_8)
| ^~~
./include/GPBoost/likelihoods.h:9079:50: note: ‘cross_cov_preconditioner’ was declared here
9079 | const den_mat_t* cross_cov_preconditioner;
| ^~~~~~~~~~~~~~~~~~~~~~~~
g++ -std=gnu++17 -shared -L/usr/local/lib64 -o gpboost.so boosting/boosting.o boosting/gbdt.o boosting/gbdt_model_text.o boosting/gbdt_prediction.o boosting/prediction_early_stop.o io/bin.o io/config.o io/config_auto.o io/dataset.o io/dataset_loader.o io/file_io.o io/json11.o io/metadata.o io/parser.o io/train_share_states.o io/tree.o metric/dcg_calculator.o metric/metric.o objective/objective_function.o network/ifaddrs_patch.o network/linker_topo.o network/linkers_mpi.o network/linkers_socket.o network/network.o treelearner/data_parallel_tree_learner.o treelearner/feature_parallel_tree_learner.o treelearner/gpu_tree_learner.o treelearner/linear_tree_learner.o treelearner/serial_tree_learner.o treelearner/tree_learner.o treelearner/voting_parallel_tree_learner.o c_api.o gpboost_R.o re_model.o sparse_matrix_utils.o GP_utils.o DF_utils.o Vecchia_utils.o CG_utils.o cs_spsolve.o cs_reach.o cs_dfs.o -fopenmp -pthread
make[1]: Leaving directory '/data/localhost/ripley/R/packages/tests-devel/gpboost/src'
make[1]: Entering directory '/data/localhost/ripley/R/packages/tests-devel/gpboost/src'
make[1]: Leaving directory '/data/localhost/ripley/R/packages/tests-devel/gpboost/src'
installing to /data/localhost/ripley/R/packages/tests-devel/gpboost.Rcheck/00LOCK-gpboost/00new/gpboost/libs
** R
** data
** demo
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** 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 (gpboost)