├── .clang-format ├── .clang-tidy ├── .gitignore ├── .readthedocs.yml ├── CMakeLists.txt ├── COPYING ├── LICENSE ├── README.md ├── VERSION ├── bin ├── CMakeLists.txt └── nestgpu_vars.sh.in ├── cmake ├── CheckIncludesSymbols.cmake ├── ColorMessages.cmake ├── ConfigureSummary.cmake ├── FindCython.cmake ├── FindLTDL.cmake ├── FindPythonModule.cmake ├── GetTriple.cmake ├── ProcessOptions.cmake ├── UseCython.cmake └── VersionInfo.cmake ├── doc ├── _static │ └── css │ │ ├── custom.css │ │ └── pygments.css ├── community.rst ├── conf.py ├── contents.rst ├── download │ └── download.rst ├── examples │ └── index.rst ├── extractor_userdocs.py ├── guides │ ├── differences_nest-gpu_nest.rst │ ├── how_to_record_spikes.rst │ ├── implement_new_neuron_models.rst │ └── index.rst ├── index.rst ├── installation │ ├── cmake_options.rst │ └── index.rst ├── logo │ ├── nestgpu-logo.pdf │ ├── nestgpu-logo.png │ └── nestgpu-logo.svg ├── publications.rst └── requirements.txt ├── libnestutil ├── CMakeLists.txt └── config.h.in ├── python ├── examples │ ├── Potjans_2014 │ │ ├── README.md │ │ ├── helpers.py │ │ ├── network.py │ │ ├── network_params.py │ │ ├── run_benchmark.py │ │ ├── run_benchmark.sh │ │ ├── run_microcircuit.py │ │ ├── script.sh │ │ ├── sim_params.py │ │ ├── sim_params.templ │ │ └── stimulus_params.py │ ├── balanced_izh.py │ ├── balanced_izh_cond_beta.py │ ├── balanced_izh_psc_exp_2s.py │ ├── balanced_izh_psc_exp_2s_eval_time.py │ ├── balanced_izh_psc_exp_5s.py │ ├── brunel_array.py │ ├── brunel_list.py │ ├── brunel_mpi.py │ ├── brunel_net.py │ ├── brunel_outdegree.py │ ├── example1.py │ ├── example2.py │ ├── hpc_benchmark │ │ ├── hpc_benchmark.py │ │ └── run_sbatch.templ │ ├── plot_aeif_cond_alpha.py │ ├── plot_aeif_cond_alpha_multisynapse.py │ ├── plot_aeif_cond_beta.py │ ├── plot_aeif_cond_beta_multisynapse.py │ ├── plot_aeif_psc_alpha.py │ ├── plot_aeif_psc_alpha_multisynapse.py │ ├── plot_aeif_psc_delta.py │ ├── plot_aeif_psc_exp.py │ ├── plot_aeif_psc_exp_multisynapse.py │ ├── plot_fast_iaf_psc_exp.py │ ├── plot_iaf_psc_alpha.py │ ├── plot_iaf_psc_exp.py │ ├── plot_iaf_psc_exp_g.py │ ├── plot_izh.py │ ├── plot_izh_cond_beta.py │ └── stdp.py └── tests │ ├── hpc_benchmark │ ├── data_check │ │ ├── alpha_0.0513_spikes_0_e_pop.dat │ │ ├── alpha_0.0513_spikes_0_i_pop.dat │ │ ├── alpha_0.0513_spikes_1_e_pop.dat │ │ ├── alpha_0.0513_spikes_1_i_pop.dat │ │ ├── alpha_0.0513_spikes_2_e_pop.dat │ │ ├── alpha_0.0513_spikes_2_i_pop.dat │ │ ├── alpha_0.0513_spikes_3_e_pop.dat │ │ ├── alpha_0.0513_spikes_3_i_pop.dat │ │ ├── alpha_0.0513_spikes_4_e_pop.dat │ │ ├── alpha_0.0513_spikes_4_i_pop.dat │ │ ├── alpha_0.0513_spikes_5_e_pop.dat │ │ ├── alpha_0.0513_spikes_5_i_pop.dat │ │ ├── alpha_0.0513_spikes_6_e_pop.dat │ │ ├── alpha_0.0513_spikes_6_i_pop.dat │ │ ├── alpha_0.0513_spikes_7_e_pop.dat │ │ ├── alpha_0.0513_spikes_7_i_pop.dat │ │ ├── alpha_0.0513_spikes_8_e_pop.dat │ │ ├── alpha_0.0513_spikes_8_i_pop.dat │ │ ├── alpha_0.0513_spikes_9_e_pop.dat │ │ ├── alpha_0.0513_spikes_9_i_pop.dat │ │ ├── log_0.json │ │ ├── log_1.json │ │ ├── log_2.json │ │ ├── log_3.json │ │ ├── log_4.json │ │ ├── log_5.json │ │ ├── log_6.json │ │ ├── log_7.json │ │ ├── log_8.json │ │ ├── log_9.json │ │ ├── raster_plot0.png │ │ ├── raster_plot1.png │ │ ├── raster_plot2.png │ │ ├── raster_plot3.png │ │ ├── raster_plot4.png │ │ ├── raster_plot5.png │ │ ├── raster_plot6.png │ │ ├── raster_plot7.png │ │ ├── raster_plot8.png │ │ └── raster_plot9.png │ ├── data_check_dfi │ │ ├── alpha_0.0513_spikes_0_e_pop.dat │ │ ├── alpha_0.0513_spikes_0_i_pop.dat │ │ ├── alpha_0.0513_spikes_1_e_pop.dat │ │ ├── alpha_0.0513_spikes_1_i_pop.dat │ │ ├── alpha_0.0513_spikes_2_e_pop.dat │ │ ├── alpha_0.0513_spikes_2_i_pop.dat │ │ ├── alpha_0.0513_spikes_3_e_pop.dat │ │ ├── alpha_0.0513_spikes_3_i_pop.dat │ │ ├── alpha_0.0513_spikes_4_e_pop.dat │ │ ├── alpha_0.0513_spikes_4_i_pop.dat │ │ ├── alpha_0.0513_spikes_5_e_pop.dat │ │ ├── alpha_0.0513_spikes_5_i_pop.dat │ │ ├── alpha_0.0513_spikes_6_e_pop.dat │ │ ├── alpha_0.0513_spikes_6_i_pop.dat │ │ ├── alpha_0.0513_spikes_7_e_pop.dat │ │ ├── alpha_0.0513_spikes_7_i_pop.dat │ │ ├── alpha_0.0513_spikes_8_e_pop.dat │ │ ├── alpha_0.0513_spikes_8_i_pop.dat │ │ ├── alpha_0.0513_spikes_9_e_pop.dat │ │ ├── alpha_0.0513_spikes_9_i_pop.dat │ │ ├── log_0.json │ │ ├── log_1.json │ │ ├── log_2.json │ │ ├── log_3.json │ │ ├── log_4.json │ │ ├── log_5.json │ │ ├── log_6.json │ │ ├── log_7.json │ │ ├── log_8.json │ │ ├── log_9.json │ │ ├── raster_plot0.png │ │ ├── raster_plot1.png │ │ ├── raster_plot2.png │ │ ├── raster_plot3.png │ │ ├── raster_plot4.png │ │ ├── raster_plot5.png │ │ ├── raster_plot6.png │ │ ├── raster_plot7.png │ │ ├── raster_plot8.png │ │ └── raster_plot9.png │ ├── test_hpc_benchmark_hg │ │ ├── check.sh │ │ ├── check2.sh │ │ ├── clean.sh │ │ ├── hpc_benchmark_hg.py │ │ └── run.sh │ ├── test_hpc_benchmark_p2p │ │ ├── check.sh │ │ ├── check2.sh │ │ ├── clean.sh │ │ ├── hpc_benchmark_p2p.py │ │ └── run.sh │ ├── test_hpc_benchmark_wg │ │ ├── check.sh │ │ ├── check2.sh │ │ ├── clean.sh │ │ ├── hpc_benchmark_wg.py │ │ ├── hpc_benchmark_wg_ignore.py │ │ ├── hpc_benchmark_wg_ignore_leonardo.py │ │ ├── hpc_benchmark_wg_jureca.py │ │ ├── hpc_benchmark_wg_leonardo.py │ │ ├── run.sh │ │ ├── run_sbatch.sh │ │ └── run_sbatch_leonardo.sh │ └── test_hpc_benchmark_wg_dfi │ │ ├── check.sh │ │ ├── check2.sh │ │ ├── clean.sh │ │ ├── hpc_benchmark.py │ │ ├── run.sh │ │ ├── run_sbatch.sh │ │ └── run_sbatch_leonardo.sh │ ├── mpi_mem_check │ ├── README.md │ ├── benchmark.sh │ ├── benchmark_terminal.sh │ ├── n_conn_list.txt │ ├── n_mpi_list.txt │ ├── n_neuron_list.txt │ ├── run.sh │ ├── run_terminal.sh │ ├── summary.sh │ └── test.py │ ├── new_features │ ├── example2.py │ ├── plot_aeif_cond_beta.py │ ├── test_distributions.py │ ├── test_fixed_total_number.py │ ├── test_new_connect.dat │ ├── test_new_connect.py │ └── tmp.py │ └── static_tests │ ├── analyze_connect_distributed_fixed_indegree.py │ ├── err.py │ ├── err_mpi.py │ ├── just_import.py │ ├── log_remote_connect.txt │ ├── logp3_connect.txt │ ├── logp3_getarr.txt │ ├── logp3_group_param.txt │ ├── logp3_setvar2.txt │ ├── logp3_setvar3.txt │ ├── logp3_syn_group.txt │ ├── nest_iaf_psc_alpha.py │ ├── parrot_neuron.py │ ├── plot_aeif_psc_delta_multisynapse.py │ ├── run_sbatch_all_leonardo.sh │ ├── test_aeif_cond_alpha.py │ ├── test_aeif_cond_alpha_multisynapse.py │ ├── test_aeif_cond_alpha_multisynapse_nest.txt │ ├── test_aeif_cond_alpha_nest.txt │ ├── test_aeif_cond_beta.py │ ├── test_aeif_cond_beta_multisynapse.py │ ├── test_aeif_cond_beta_multisynapse_nest.txt │ ├── test_aeif_cond_beta_nest.txt │ ├── test_aeif_psc_alpha.py │ ├── test_aeif_psc_alpha_multisynapse.py │ ├── test_aeif_psc_alpha_multisynapse_nest.txt │ ├── test_aeif_psc_alpha_nest.txt │ ├── test_aeif_psc_delta.py │ ├── test_aeif_psc_delta_nest.txt │ ├── test_aeif_psc_exp.py │ ├── test_aeif_psc_exp_multisynapse.py │ ├── test_aeif_psc_exp_multisynapse_nest.txt │ ├── test_aeif_psc_exp_nest.txt │ ├── test_all.sh │ ├── test_brunel_array.py │ ├── test_brunel_list.py │ ├── test_brunel_mpi.py │ ├── test_brunel_mpi_hg.py │ ├── test_brunel_outdegree.py │ ├── test_brunel_outdegree_mpi.py │ ├── test_brunel_outdegree_mpi_hg.py │ ├── test_brunel_user_m1.py │ ├── test_connect.py │ ├── test_connect_distributed_fixed_indegree.py │ ├── test_connect_distributed_fixed_indegree.sh │ ├── test_distributed_fixed_indegree.sh │ ├── test_distribution.py │ ├── test_ext_neuron.py │ ├── test_fast_iaf_psc_exp_nest.txt │ ├── test_fixed_total_number.py │ ├── test_getarr.py │ ├── test_group_param.py │ ├── test_iaf_psc_alpha.py │ ├── test_iaf_psc_alpha_nest.txt │ ├── test_iaf_psc_exp.py │ ├── test_iaf_psc_exp_g.py │ ├── test_iaf_psc_exp_hc.py │ ├── test_iaf_psc_exp_nest.txt │ ├── test_izh.py │ ├── test_izh_nest.txt │ ├── test_izh_psc_exp_2s_mpi.py │ ├── test_izh_psc_exp_2s_mpi_hg.py │ ├── test_mpi.sh │ ├── test_remote_connect.py │ ├── test_remote_connect.sh │ ├── test_remote_connection_maps.py │ ├── test_remote_spikes.py │ ├── test_remote_spikes_host_group_mix.py │ ├── test_remote_spikes_host_group_mix2.py │ ├── test_remote_spikes_host_group_w.py │ ├── test_remote_spikes_host_group_w2.py │ ├── test_setvar.py │ ├── test_setvar2.py │ ├── test_setvar3.py │ ├── test_spike_detector.py │ ├── test_spike_times.py │ ├── test_stdp.py │ ├── test_stdp │ ├── cases │ │ ├── case1.py │ │ ├── case10.py │ │ ├── case2.py │ │ ├── case3.py │ │ ├── case4.py │ │ ├── case5.py │ │ ├── case6.py │ │ ├── case7.py │ │ ├── case8.py │ │ ├── case9.py │ │ ├── swap.sh │ │ └── test_all.sh │ └── long_test │ │ └── test_stdp.py │ ├── test_stdp_list.py │ ├── test_syn_group.py │ ├── test_syn_model.py │ ├── test_t_ref.py │ └── test_user_m1.py ├── pythonlib ├── CMakeLists.txt └── nestgpu.py └── src ├── .clang-format ├── .clang-tidy ├── .clang-tidy-ignore ├── CMakeLists.txt ├── aeif_cond_alpha.cu ├── aeif_cond_alpha.h ├── aeif_cond_alpha_kernel.h ├── aeif_cond_alpha_multisynapse.cu ├── aeif_cond_alpha_multisynapse.h ├── aeif_cond_alpha_multisynapse_kernel.h ├── aeif_cond_alpha_multisynapse_rk5.h ├── aeif_cond_beta.cu ├── aeif_cond_beta.h ├── aeif_cond_beta_kernel.h ├── aeif_cond_beta_multisynapse.cu ├── aeif_cond_beta_multisynapse.h ├── aeif_cond_beta_multisynapse_kernel.h ├── aeif_cond_beta_multisynapse_rk5.h ├── aeif_psc_alpha.cu ├── aeif_psc_alpha.h ├── aeif_psc_alpha_kernel.h ├── aeif_psc_alpha_multisynapse.cu ├── aeif_psc_alpha_multisynapse.h ├── aeif_psc_alpha_multisynapse_kernel.h ├── aeif_psc_alpha_multisynapse_rk5.h ├── aeif_psc_delta.cu ├── aeif_psc_delta.h ├── aeif_psc_delta_kernel.h ├── aeif_psc_delta_rk5.h ├── aeif_psc_exp.cu ├── aeif_psc_exp.h ├── aeif_psc_exp_kernel.h ├── aeif_psc_exp_multisynapse.cu ├── aeif_psc_exp_multisynapse.h ├── aeif_psc_exp_multisynapse_kernel.h ├── aeif_psc_exp_multisynapse_rk5.h ├── base_neuron.cu ├── base_neuron.h ├── conn12b.cu ├── conn12b.h ├── conn16b.cu ├── conn16b.h ├── connect.cu ├── connect.h ├── connect_rules.cu ├── connect_rules.h ├── connect_spec.h ├── copass_kernels.cu ├── copass_kernels.h ├── copass_sort.cu ├── copass_sort.h ├── cuda_error.h ├── distribution.cu ├── distribution.h ├── dummyfile.cpp ├── ext_neuron.cu ├── ext_neuron.h ├── fix_headers.sh ├── getRealTime.cu ├── getRealTime.h ├── get_spike.cu ├── get_spike.h ├── iaf_psc_alpha.cu ├── iaf_psc_alpha.h ├── iaf_psc_exp.cu ├── iaf_psc_exp.h ├── iaf_psc_exp_g.cu ├── iaf_psc_exp_g.h ├── iaf_psc_exp_hc.cu ├── iaf_psc_exp_hc.h ├── iaf_psc_exp_hc_params.h ├── input_spike_buffer.cu ├── input_spike_buffer.h ├── izhikevich.cu ├── izhikevich.h ├── izhikevich_cond_beta.cu ├── izhikevich_cond_beta.h ├── izhikevich_cond_beta_kernel.h ├── izhikevich_cond_beta_rk5.h ├── izhikevich_psc_exp.cu ├── izhikevich_psc_exp.h ├── izhikevich_psc_exp_2s.cu ├── izhikevich_psc_exp_2s.h ├── izhikevich_psc_exp_5s.cu ├── izhikevich_psc_exp_5s.h ├── mpi_comm.cu ├── mpi_comm.h ├── multimeter.cu ├── multimeter.h ├── nested_loop.cu ├── nested_loop.h ├── nestgpu.cu ├── nestgpu.h ├── nestgpu_C.cpp ├── nestgpu_C.h ├── neuron_models.cu ├── neuron_models.h ├── ngpu_exception.h ├── node_group.cu ├── node_group.h ├── parrot_neuron.cu ├── parrot_neuron.h ├── poiss_gen.cu ├── poiss_gen.h ├── poiss_gen_variables.h ├── prefix_scan.cu ├── prefix_scan.h ├── propagate_error.h ├── propagator_stability.cu ├── propagator_stability.h ├── random.cu ├── random.h ├── remote_connect.cu ├── remote_connect.h ├── remote_spike.cu ├── remote_spike.h ├── replace_cudafree.sh ├── replace_cudamalloc.sh ├── replace_header.sh ├── replace_header2.sh ├── rev_spike.cu ├── rev_spike.h ├── rk5.cu ├── rk5.h ├── rk5_const.h ├── rk5_interface.h ├── scan.cu ├── scan.h ├── script.sh ├── send_spike.cu ├── send_spike.h ├── spike_buffer.cu ├── spike_buffer.h ├── spike_detector.cu ├── spike_detector.h ├── spike_generator.cu ├── spike_generator.h ├── stdp.cu ├── stdp.h ├── syn_model.cu ├── syn_model.h ├── test_syn_model.cu ├── test_syn_model.h ├── tmp_mpi_comm.cu ├── user_m1.cu ├── user_m1.h ├── user_m1_cond_alpha.cu ├── user_m1_cond_alpha.h ├── user_m1_cond_alpha_kernel.h ├── user_m1_cond_alpha_rk5.h ├── user_m1_cond_beta.cu ├── user_m1_cond_beta.h ├── user_m1_cond_beta_kernel.h ├── user_m1_cond_beta_rk5.h ├── user_m1_iaf_psc_exp.cu ├── user_m1_iaf_psc_exp.h ├── user_m1_iaf_psc_exp_g.cu ├── user_m1_iaf_psc_exp_g.h ├── user_m1_iaf_psc_exp_hc.cu ├── user_m1_iaf_psc_exp_hc.h ├── user_m1_iaf_psc_exp_hc_params.h ├── user_m1_kernel.h ├── user_m1_psc_alpha.cu ├── user_m1_psc_alpha.h ├── user_m1_psc_alpha_kernel.h ├── user_m1_psc_alpha_rk5.h ├── user_m1_psc_delta.cu ├── user_m1_psc_delta.h ├── user_m1_psc_delta_kernel.h ├── user_m1_psc_delta_rk5.h ├── user_m1_psc_exp.cu ├── user_m1_psc_exp.h ├── user_m1_psc_exp_g.cu ├── user_m1_psc_exp_g.h ├── user_m1_psc_exp_hc.cu ├── user_m1_psc_exp_hc.h ├── user_m1_psc_exp_hc_params.h ├── user_m1_psc_exp_kernel.h ├── user_m1_psc_exp_rk5.h ├── user_m1_rk5.h ├── user_m2.cu ├── user_m2.h ├── user_m2_cond_alpha.cu ├── user_m2_cond_alpha.h ├── user_m2_cond_alpha_kernel.h ├── user_m2_cond_alpha_rk5.h ├── user_m2_cond_beta.cu ├── user_m2_cond_beta.h ├── user_m2_cond_beta_kernel.h ├── user_m2_cond_beta_rk5.h ├── user_m2_iaf_psc_exp.cu ├── user_m2_iaf_psc_exp.h ├── user_m2_iaf_psc_exp_g.cu ├── user_m2_iaf_psc_exp_g.h ├── user_m2_iaf_psc_exp_hc.cu ├── user_m2_iaf_psc_exp_hc.h ├── user_m2_iaf_psc_exp_hc_params.h ├── user_m2_kernel.h ├── user_m2_psc_alpha.cu ├── user_m2_psc_alpha.h ├── user_m2_psc_alpha_kernel.h ├── user_m2_psc_alpha_rk5.h ├── user_m2_psc_delta.cu ├── user_m2_psc_delta.h ├── user_m2_psc_delta_kernel.h ├── user_m2_psc_delta_rk5.h ├── user_m2_psc_exp.cu ├── user_m2_psc_exp.h ├── user_m2_psc_exp_g.cu ├── user_m2_psc_exp_g.h ├── user_m2_psc_exp_hc.cu ├── user_m2_psc_exp_hc.h ├── user_m2_psc_exp_hc_params.h ├── user_m2_psc_exp_kernel.h ├── user_m2_psc_exp_rk5.h ├── user_m2_rk5.h ├── utilities.cu ├── utilities.h └── write_iaf_psc_exp_hc_params.py /.clang-format: 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