* installing *source* package ‘knnmi’ ... ** package ‘knnmi’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘clang version 18.1.4’ using C++ compiler: ‘clang version 18.1.4’ make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/knnmi/src' /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -Iinclude/ -Iinclude/eigen3/ -DNDEBUG -DEIGEN_NO_DEBUG -DEIGEN_NO_IO -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c CondMutualInformation.cpp -o CondMutualInformation.o /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -Iinclude/ -Iinclude/eigen3/ -DNDEBUG -DEIGEN_NO_DEBUG -DEIGEN_NO_IO -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c MI_Matrix.cpp -o MI_Matrix.o In file included from CondMutualInformation.cpp:22: In file included from include/CondMutualInformation.h:23: In file included from include/eigen3/Eigen/Core:382: include/eigen3/Eigen/src/Core/util/ReenableStupidWarnings.h:14:33: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] 14 | #pragma clang diagnostic pop | ^ In file included from CondMutualInformation.cpp:22: include/CondMutualInformation.h:49:24: warning: 'CaDrA::CondMutualInformation::compute' hides overloaded virtual function [-Woverloaded-virtual] 49 | virtual double compute(const ArrayXd &x, const ArrayXd& y, const ArrayXd& z) ; | ^ include/MutualInformationBase.h:65:24: note: hidden overloaded virtual function 'CaDrA::MutualInformationBase::compute' declared here: different number of parameters (0 vs 3) 65 | virtual double compute() ; | ^ In file included from CondMutualInformation.cpp:22: include/CondMutualInformation.h:54:24: warning: 'CaDrA::CondMutualInformation::sum_digamma_from_neighbors' hides overloaded virtual function [-Woverloaded-virtual] 54 | virtual double sum_digamma_from_neighbors(MapArrayConst &vec1, MapArrayConst &vec2, const vector &dists) ; | ^ include/MutualInformationBase.h:81:24: note: hidden overloaded virtual function 'CaDrA::MutualInformationBase::sum_digamma_from_neighbors' declared here: different number of parameters (2 vs 3) 81 | virtual double sum_digamma_from_neighbors(MapArrayConst &vec, const vector &dists) ; | ^ /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -Iinclude/ -Iinclude/eigen3/ -DNDEBUG -DEIGEN_NO_DEBUG -DEIGEN_NO_IO -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c MutualInformation.cpp -o MutualInformation.o In file included from MI_Matrix.cpp:35: In file included from include/MutualInformation.h:24: In file included from include/eigen3/Eigen/Core:382: include/eigen3/Eigen/src/Core/util/ReenableStupidWarnings.h:14:33: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] 14 | #pragma clang diagnostic pop | ^ In file included from MI_Matrix.cpp:35: include/MutualInformation.h:50:18: warning: 'CaDrA::MutualInformation::compute' hides overloaded virtual function [-Woverloaded-virtual] 50 | virtual double compute(const ArrayXd &x, const ArrayXd& y) ; | ^ include/MutualInformationBase.h:65:24: note: hidden overloaded virtual function 'CaDrA::MutualInformationBase::compute' declared here: different number of parameters (0 vs 2) 65 | virtual double compute() ; | ^ In file included from MI_Matrix.cpp:36: include/MutualInformationDiscrete.h:50:18: warning: 'CaDrA::MutualInformationDiscrete::compute' hides overloaded virtual function [-Woverloaded-virtual] 50 | virtual double compute(const ArrayXd &x, const ArrayXi& y) ; | ^ include/MutualInformationBase.h:65:24: note: hidden overloaded virtual function 'CaDrA::MutualInformationBase::compute' declared here: different number of parameters (0 vs 2) 65 | virtual double compute() ; | ^ In file included from MI_Matrix.cpp:37: include/CondMutualInformation.h:49:24: warning: 'CaDrA::CondMutualInformation::compute' hides overloaded virtual function [-Woverloaded-virtual] 49 | virtual double compute(const ArrayXd &x, const ArrayXd& y, const ArrayXd& z) ; | ^ include/MutualInformationBase.h:65:24: note: hidden overloaded virtual function 'CaDrA::MutualInformationBase::compute' declared here: different number of parameters (0 vs 3) 65 | virtual double compute() ; | ^ In file included from MI_Matrix.cpp:37: include/CondMutualInformation.h:54:24: warning: 'CaDrA::CondMutualInformation::sum_digamma_from_neighbors' hides overloaded virtual function [-Woverloaded-virtual] 54 | virtual double sum_digamma_from_neighbors(MapArrayConst &vec1, MapArrayConst &vec2, const vector &dists) ; | ^ include/MutualInformationBase.h:81:24: note: hidden overloaded virtual function 'CaDrA::MutualInformationBase::sum_digamma_from_neighbors' declared here: different number of parameters (2 vs 3) 81 | virtual double sum_digamma_from_neighbors(MapArrayConst &vec, const vector &dists) ; | ^ 3 warnings generated. 5 warnings generated. In file included from MutualInformation.cpp:21: In file included from include/MutualInformation.h:24: In file included from include/eigen3/Eigen/Core:382: include/eigen3/Eigen/src/Core/util/ReenableStupidWarnings.h:14:33: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] 14 | #pragma clang diagnostic pop | ^ In file included from MutualInformation.cpp:21: include/MutualInformation.h:50:18: warning: 'CaDrA::MutualInformation::compute' hides overloaded virtual function [-Woverloaded-virtual] 50 | virtual double compute(const ArrayXd &x, const ArrayXd& y) ; | ^ include/MutualInformationBase.h:65:24: note: hidden overloaded virtual function 'CaDrA::MutualInformationBase::compute' declared here: different number of parameters (0 vs 2) 65 | virtual double compute() ; | ^ /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -Iinclude/ -Iinclude/eigen3/ -DNDEBUG -DEIGEN_NO_DEBUG -DEIGEN_NO_IO -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c MutualInformationBase.cpp -o MutualInformationBase.o 2 warnings generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -Iinclude/ -Iinclude/eigen3/ -DNDEBUG -DEIGEN_NO_DEBUG -DEIGEN_NO_IO -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c MutualInformationDiscrete.cpp -o MutualInformationDiscrete.o In file included from MutualInformationBase.cpp:22: In file included from include/MutualInformationBase.h:24: In file included from include/eigen3/Eigen/Core:382: include/eigen3/Eigen/src/Core/util/ReenableStupidWarnings.h:14:33: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] 14 | #pragma clang diagnostic pop | ^ In file included from MutualInformationDiscrete.cpp:21: In file included from include/MutualInformationDiscrete.h:24: In file included from include/eigen3/Eigen/Core:382: include/eigen3/Eigen/src/Core/util/ReenableStupidWarnings.h:14:33: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas] 14 | #pragma clang diagnostic pop | ^ In file included from MutualInformationDiscrete.cpp:21: include/MutualInformationDiscrete.h:50:18: warning: 'CaDrA::MutualInformationDiscrete::compute' hides overloaded virtual function [-Woverloaded-virtual] 50 | virtual double compute(const ArrayXd &x, const ArrayXi& y) ; | ^ include/MutualInformationBase.h:65:24: note: hidden overloaded virtual function 'CaDrA::MutualInformationBase::compute' declared here: different number of parameters (0 vs 2) 65 | virtual double compute() ; | ^ 1 warning generated. /usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c knn_mi_lib.c -o knn_mi_lib.o /usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c registerDynamicSymbol.c -o registerDynamicSymbol.o 2 warnings generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -shared -L/usr/local/clang/lib64 -L/usr/local/clang18/lib -L/usr/local/clang18/lib/x86_64-unknown-linux-gnu -L/usr/local/gcc13/lib64 -L/usr/local/lib64 -o knnmi.so CondMutualInformation.o MI_Matrix.o MutualInformation.o MutualInformationBase.o MutualInformationDiscrete.o knn_mi_lib.o registerDynamicSymbol.o make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/knnmi/src' make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/knnmi/src' make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/knnmi/src' installing to /data/gannet/ripley/R/packages/tests-clang/knnmi.Rcheck/00LOCK-knnmi/00new/knnmi/libs ** R ** data *** moving datasets to lazyload DB ** 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 (knnmi)