-- The CXX compiler identification is GNU 10.2.1 -- The C compiler identification is GNU 10.2.1 -- Check for working CXX compiler: /usr/bin/c++ -- Check for working CXX compiler: /usr/bin/c++ -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Detecting CXX compile features -- Detecting CXX compile features - done -- Check for working C compiler: /usr/bin/cc -- Check for working C compiler: /usr/bin/cc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Detecting C compile features -- Detecting C compile features - done -- Could NOT find Doxygen (missing: DOXYGEN_EXECUTABLE) -- Looking for include file inttypes.h -- Looking for include file inttypes.h - found -- Looking for include file mach-o/dyld.h -- Looking for include file mach-o/dyld.h - not found -- Looking for include file mach/mach.h -- Looking for include file mach/mach.h - not found -- Looking for include file memory.h -- Looking for include file memory.h - found -- Looking for include file stdint.h -- Looking for include file stdint.h - found -- Looking for include file sys/types.h -- Looking for include file sys/types.h - found -- Looking for C++ include istream -- Looking for C++ include istream - found -- Looking for C++ include ostream -- Looking for C++ include ostream - found -- Looking for C++ include sstream -- Looking for C++ include sstream - found -- Looking for stddef.h -- Looking for stddef.h - found -- Check size of long long -- Check size of long long - done -- Check size of u_int16_t -- Check size of u_int16_t - done -- Check size of uint16_t -- Check size of uint16_t - done -- Check size of u_int64_t -- Check size of u_int64_t - done -- Check size of uint64_t -- Check size of uint64_t - done -- Looking for NAN -- Looking for NAN - found -- Looking for isnan -- Looking for isnan - found -- Looking for M_E -- Looking for M_E - found -- Looking for M_PI -- Looking for M_PI - found -- Looking for expm1 -- Looking for expm1 - not found -- Host triple: x86_64-pc-linux -- Target triple: x86_64-pc-linux -- Found Python: /home/mikael/opt/anaconda3/envs/nest-3.3/bin/python3.9 (found suitable version "3.9.12", minimum required is "3.8") found components: Interpreter Development CMake Warning at cmake/ProcessOptions.cmake:373 (message): Could not locate Python ABI, using shared libraries and header file instead. Please clear your CMake cache and build folder and verify that CMake is up-to-date (3.18+). Call Stack (most recent call first): CMakeLists.txt:129 (nest_process_with_python) -- Found Cython: /home/mikael/opt/anaconda3/envs/nest-3.3/bin/cython (found suitable version "0.29.28", minimum required is "0.28.3") -- Found LTDL: /usr/lib/x86_64-linux-gnu/libltdl.so (found version "2.4.6") -- Found Readline: /usr/lib/x86_64-linux-gnu/libreadline.so (found version "8.1") -- Found PkgConfig: /usr/bin/pkg-config (found version "0.29.2") -- Found GSL: /usr/include (found version "2.6") -- Found OpenMP_C: -fopenmp (found version "4.5") -- Found OpenMP_CXX: -fopenmp (found version "4.5") -- Found OpenMP: TRUE (found version "4.5") -- Could NOT find Boost (missing: Boost_INCLUDE_DIR) (Required is at least version "1.69.0") -- Check the abort exitcode. -- Check the abort exitcode. 134 -- Check the segmentation fault exitcode. -- Check the segmentation fault exitcode. 139 -- Check whether the compiler ignores cmath makros. -- Check whether the compiler ignores cmath makros. OFF -- Check whether the compiler does NOT include <*.h> headers ISO conformant. -- Check whether the compiler does NOT include <*.h> headers ISO conformant. OFF -- Check whether the compiler respects symbolic signal names in signal.h. -- Check whether the compiler respects symbolic signal names in signal.h. OFF -- Check static template member declaration. -- Check static template member declaration. OFF -- Check for STL vector capacity base unity. -- Check for STL vector capacity base unity. ON -- Check for STL vector capacity doubling strategy. -- Check for STL vector capacity doubling strategy. ON -- Check whether the compiler fails with ICE. -- Check whether the compiler fails with ICE. OFF -- Check if ::nan is available from cmath. -- Check if ::nan is available from cmath. ON -- Check if ::isnan is available from cmath. -- Check if ::isnan is available from cmath. ON -- Check if Random123 generators work. -- Check if Random123 generators work. ON -- NEST version: 3.3 -- Found PythonInterp: /home/mikael/opt/anaconda3/envs/nest-3.3/bin/python (found version "3.9.12") -------------------------------------------------------------------------------- NEST Configuration Summary -------------------------------------------------------------------------------- Build type : Target System : Linux Cross Compiling : FALSE C compiler : GNU 10.2.1 (/usr/bin/cc) C compiler flags : -O2 -Wall -fopenmp -fdiagnostics-color=auto C++ compiler : GNU 10.2.1 (/usr/bin/c++) C++ compiler flags : -O2 -std=c++11 -Wall -fopenmp -fdiagnostics-color=auto Build dynamic : ON Built-in modules : models User modules : None Python bindings : Yes (Python 3.9.12: /home/mikael/opt/anaconda3/envs/nest-3.3/bin/python3.9) Includes : /home/mikael/opt/anaconda3/envs/nest-3.3/include/python3.9 Libraries : /home/mikael/opt/anaconda3/envs/nest-3.3/lib/libpython3.9.so Cython bindings : Yes (Cython 0.29.28: /home/mikael/opt/anaconda3/envs/nest-3.3/bin/cython) MPI4PY header : NO Use threading : Yes (OpenMP: -fopenmp) Use GSL : Yes (GSL 2.6) Includes : /usr/include Libraries : /usr/lib/x86_64-linux-gnu/libgsl.so;/usr/lib/x86_64-linux-gnu/libgslcblas.so Use Readline : Yes (GNU Readline 8.1) Includes : /usr/include Libraries : /usr/lib/x86_64-linux-gnu/libreadline.so;/usr/lib/x86_64-linux-gnu/libncurses.so Use libltdl : Yes (LTDL 2.4.6) Includes : /usr/include Libraries : /usr/lib/x86_64-linux-gnu/libltdl.so Use doxygen : No Use MPI : No Detailed timers : No Use MUSIC : No Use libneurosim : No Use Boost : No Use SIONlib : No -------------------------------------------------------------------------------- The NEST executable will be installed to: /home/mikael/git/bgmodel/nest/dist/install/nest-simulator-3.3/bin/ NEST dynamic libraries and user modules will be installed to: /home/mikael/git/bgmodel/nest/dist/install/nest-simulator-3.3/lib/nest/ Documentation and examples will be installed to: /home/mikael/git/bgmodel/nest/dist/install/nest-simulator-3.3/share/doc/nest/ PyNEST will be installed to: /home/mikael/git/bgmodel/nest/dist/install/nest-simulator-3.3/lib/python3.9/site-packages To set necessary environment variables, add the following line to your ~/.bashrc : source /home/mikael/git/bgmodel/nest/dist/install/nest-simulator-3.3/bin/nest_vars.sh -------------------------------------------------------------------------------- You can now build and install NEST with make make install make installcheck If you experience problems with the installation or the use of NEST, please see https://www.nest-simulator.org/frequently_asked_questions or go to https://www.nest-simulator.org/community to find out how to join the user mailing list. -- Configuring done CMake Warning at cmake/UseCython.cmake:100 (add_library): Cannot generate a safe runtime search path for target pynestkernel because files in some directories may conflict with libraries in implicit directories: runtime library [libgomp.so.1] in /usr/lib/gcc/x86_64-linux-gnu/10 may be hidden by files in: /home/mikael/opt/anaconda3/envs/nest-3.3/lib Some of these libraries may not be found correctly. Call Stack (most recent call first): cmake/UseCython.cmake:283 (python_add_module) pynest/CMakeLists.txt:28 (cython_add_module) -- Generating done -- Build files have been written to: /home/mikael/git/bgmodel/nest/dist/build/nest-simulator-3.3