Dear Abolfazl, Could you please post the output of: nest-config --prefix nest-config --datadir Could it be that there is an issue due to using a space in a filename? Kind regards, Charl On Tue, Apr 21, 2020, at 17:27, Abolfazl Ziaeemehr wrote: Hello everyone, I used the source code to install nest simulator 2.20 from here<https://nest-simulator.readthedocs.io/en/stable/installation/linux_install.html> and did the following steps (I used to do the same steps for version 2.18 without error.) cmake -Dwith-python=3 -DCMAKE_INSTALL_PREFIX:PATH=</install/path> </path/to/NEST/src> make make install make installcheck I got this error from "make installcheck": Phase 1: Testing if SLI can execute scripts and report errors ------------------------------------------------------------- Running test 'selftests/test_pass.sli'... Running Apr 21 19:46:31 SLIStartup [Error]: NEST_DATA_DIR is not usable: Apr 21 19:46:31 SLIStartup [Error]: Directory '/usr/share/nest' does not exist. Apr 21 19:46:31 SLIStartup [Error]: I'm using the default: /home/abolfazl/prog/install-dir/nest-simulator-2.20.0_build/share/nest Apr 21 19:46:31 SLIStartup [Error]: NEST_DOC_DIR is not usable: Apr 21 19:46:31 SLIStartup [Error]: Directory '/usr/share/doc/nest' does not exist. Apr 21 19:46:31 SLIStartup [Error]: I'm using the default: /home/abolfazl/prog/install-dir/nest-simulator-2.20.0_build/share/doc/nest /usr/bin//bin/nest /usr/share/doc/nest/selftests/test_pass.sli /home/abolfazl/prog/install-dir/nest-simulator-2.20.0_build/bin/nest_serial: 20: /home/abolfazl/prog/install-dir/nest-simulator-2.20.0_build/bin/nest_serial: Apr: not found Failed: unexpected exit code 127 Running Apr 21 19:46:31 SLIStartup [Error]: NEST_DATA_DIR is not usable: Apr 21 19:46:31 SLIStartup [Error]: Directory '/usr/share/nest' does not exist. Apr 21 19:46:31 SLIStartup [Error]: I'm using the default: /home/abolfazl/prog/install-dir/nest-simulator-2.20.0_build/share/nest Apr 21 19:46:31 SLIStartup [Error]: NEST_DOC_DIR is not usable: Apr 21 19:46:31 SLIStartup [Error]: Directory '/usr/share/doc/nest' does not exist. Apr 21 19:46:31 SLIStartup [Error]: I'm using the default: /home/abolfazl/prog/install-dir/nest-simulator-2.20.0_build/share/doc/nest /usr/bin//bin/nest /usr/share/doc/nest/selftests/test_pass.sli /home/abolfazl/prog/install-dir/nest-simulator-2.20.0_build/bin/nest_serial: 20: /home/abolfazl/prog/install-dir/nest-simulator-2.20.0_build/bin/nest_serial: Apr: not found *** *** An unexpected exit code usually hints at a bug in the test suite! *** *** Please report the problem at *** https://github.com/nest/nest-simulator/issues *** *** To help us diagnose the problem, please attach the archived content *** of these directories to the issue: *** - '/home/abolfazl/prog/install-dir/nest-simulator-2.20.0_build/reports' *** - '/home/abolfazl/prog/install-dir/nest-simulator-2.20.0_build/reports/nest.CgbAi' *** CMakeFiles/installcheck.dir/build.make:57: recipe for target 'CMakeFiles/installcheck' failed make[3]: *** [CMakeFiles/installcheck] Error 2 CMakeFiles/Makefile2:99: recipe for target 'CMakeFiles/installcheck.dir/all' failed make[2]: *** [CMakeFiles/installcheck.dir/all] Error 2 CMakeFiles/Makefile2:106: recipe for target 'CMakeFiles/installcheck.dir/rule' failed make[1]: *** [CMakeFiles/installcheck.dir/rule] Error 2 Makefile:188: recipe for target 'installcheck' failed make: *** [installcheck] Error 2 -- regards, Abolfazl Ziaeemehr Department of Physics, PhD student in Computational Physics Institute for Advanced Studies in Basic Sciences (IASBS) Tel: 0919 607 4296 Page: iasbs.ac.ir/~a.ziaeemehr<http://iasbs.ac.ir/~a.ziaeemehr> _______________________________________________ NEST Users mailing list -- users(a)nest-simulator.org To unsubscribe send an email to users-leave(a)nest-simulator.org Attachments: * reports.zip ------------------------------------------------------------------------------------------------ ------------------------------------------------------------------------------------------------ Forschungszentrum Juelich GmbH 52425 Juelich Sitz der Gesellschaft: Juelich Eingetragen im Handelsregister des Amtsgerichts Dueren Nr. HR B 3498 Vorsitzender des Aufsichtsrats: MinDir Volker Rieke Geschaeftsfuehrung: Prof. Dr.-Ing. Wolfgang Marquardt (Vorsitzender), Karsten Beneke (stellv. Vorsitzender), Prof. Dr.-Ing. Harald Bolt ------------------------------------------------------------------------------------------------ ------------------------------------------------------------------------------------------------

Dear Charl, Could you please post the output of: nest-config --prefix */usr* nest-config --datadir *share/nest* I reinstalled the nest package and made sure there is no space in directory names. cmake -Dwith-python=3 -DCMAKE_INSTALL_PREFIX:PATH=/home/abolfazl/prog/nest-install /home/abolfazl/prog/nest-source regards, Abolfazl

Dear Charl, Thanks for your reply, I completely removed every build files and directories. and reinstalled the package. $ ./nest-config --prefix */home/abolfazl/prog/nest-build* $ ./nest-config --datadir *share/nest* After adding the path variable in .bashrc Still I have these errors from make installcheck, and I can not import nest. FAIL: test_nn_pre_centered_synapse (nest.tests.test_stdp_nn_synapses.STDPNNSynapsesTest) AssertionError: 0.32057074514327416 != 0.8197400647350731 within 7 places : stdp_nn_pre-centered_synapse test: Resulting synaptic weight 8.197401e-01 differs from expected 3.205707e-01 FAILED (SKIP=9, failures=1) PyNEST tests: 569 Passed: 559 Skipped: 9 Failed: 1 Phase 8: Running C++ tests (experimental) ----------------------------------------- Not running C++ tests because NEST was compiled without Boost. NEST Testsuite Summary ---------------------- NEST Executable: /home/abolfazl/prog/nest-build/bin/nest SLI Executable : /home/abolfazl/prog/nest-build/bin/sli Total number of tests: 870 Passed: 859 Skipped: 10 (9 PyNEST) Failed: 1 (1 PyNEST) *** *** There were errors detected during the run of the NEST test suite! *** *** Please report the problem at *** https://github.com/nest/nest-simulator/issues *** *** To help us diagnose the problem, please attach the archived content *** of these directories to the issue: *** - '/home/abolfazl/prog/nest-build/reports' *** - '/home/abolfazl/prog/nest-build/reports/nest.RrYRt' *** CMakeFiles/installcheck.dir/build.make:57: recipe for target 'CMakeFiles/installcheck' failed make[3]: *** [CMakeFiles/installcheck] Error 1 CMakeFiles/Makefile2:99: recipe for target 'CMakeFiles/installcheck.dir/all' failed make[2]: *** [CMakeFiles/installcheck.dir/all] Error 2 CMakeFiles/Makefile2:106: recipe for target 'CMakeFiles/installcheck.dir/rule' failed make[1]: *** [CMakeFiles/installcheck.dir/rule] Error 2 Makefile:188: recipe for target 'installcheck' failed make: *** [installcheck] Error 2 I use cmake version 3.10.2. regards, Abolfazl

Hi, with mpi option enable: *cmake -Dwith-python=3 -Dwith-mpi=ON -DCMAKE_INSTALL_PREFIX:PATH=/home/abolfazl/prog/nest-build /home/abolfazl/prog/nest-source* $ make installcheck FAIL: testWithMPI (nest.tests.test_sp.test_mpitests.TestStructuralPlasticityMPI) '[script]": {}'.format(failing_tests)) AssertionError: False is not true : The following tests failed when executing with "mpirun -np 2 nosetests [script]": ['/home/abolfazl/prog/nest-build/lib/python3.6/site-packages/nest/tests/test_sp/mpitest_issue_578_sp.py'] FAIL: test_nn_pre_centered_synapse (nest.tests.test_stdp_nn_synapses.STDPNNSynapsesTest) AssertionError: 0.32057074514327416 != 0.8197400647350731 within 7 places : stdp_nn_pre-centered_synapse test: Resulting synaptic weight 8.197401e-01 differs from expected 3.205707e-01 FAILED (SKIP=8, failures=2) PyNEST tests: 569 Passed: 559 Skipped: 8 Failed: 2 Phase 8: Running C++ tests (experimental) ----------------------------------------- Not running C++ tests because NEST was compiled without Boost. NEST Testsuite Summary ---------------------- NEST Executable: /home/abolfazl/prog/nest-build/bin/nest SLI Executable : /home/abolfazl/prog/nest-build/bin/sli Total number of tests: 940 Passed: 919 Skipped: 19 (8 PyNEST) Failed: 2 (2 PyNEST) *** *** There were errors detected during the run of the NEST test suite! *** *** Please report the problem at *** https://github.com/nest/nest-simulator/issues *** *** To help us diagnose the problem, please attach the archived content *** of these directories to the issue: *** - '/home/abolfazl/prog/nest-build/reports' *** - '/home/abolfazl/prog/nest-build/reports/nest.eYBJZ' *** CMakeFiles/installcheck.dir/build.make:57: recipe for target 'CMakeFiles/installcheck' failed make[3]: *** [CMakeFiles/installcheck] Error 1 CMakeFiles/Makefile2:99: recipe for target 'CMakeFiles/installcheck.dir/all' failed make[2]: *** [CMakeFiles/installcheck.dir/all] Error 2 CMakeFiles/Makefile2:106: recipe for target 'CMakeFiles/installcheck.dir/rule' failed make[1]: *** [CMakeFiles/installcheck.dir/rule] Error 2 Makefile:188: recipe for target 'installcheck' failed make: *** [installcheck] Error 2 regards, Abolfazl

Hi, One thing I didn't notice initially is the CMake version. For the next release after NEST 2.20 we will recommend to use CMake version 3.12 or higher (and preferably 3.16+). Could you perhaps try if this might solve your problem? Thanks! Charl On Fri, Apr 24, 2020, at 19:42, Abolfazl Ziaeemehr wrote: Department of Physics, PhD student in Computational Physics Institute for Advanced Studies in Basic Sciences (IASBS)

Dear Abolfazl, Thank you for the report. We have been able to reproduce the issue on a particular machine (the Norwegian Saga supercomputer). A GitHub issue already exists for this; see https://github.com/nest/nest-simulator/issues/1435. Now that we have reproduced the issue, debugging should be a lot easier. Please give us some time to hone in on the source of the problem. We will get back to you as soon as we know more. Regards, Charl On Tue, Apr 28, 2020, at 10:26, Abolfazl Ziaeemehr wrote: