├── .github └── workflows │ └── main.yml ├── .gitignore ├── .gitlab-ci.yml ├── .gitmodules ├── CHANGELOG.md ├── CMakeLists.txt ├── CODE_OF_CONDUCT.md ├── CONTRIBUTION.md ├── LICENSE.md ├── Makefile ├── OpenFPM.png ├── README.md ├── cmake_modules ├── CorrectWindowsPaths.cmake ├── FindEigen3.cmake ├── FindLibHilbert.cmake ├── FindMETIS.cmake ├── FindPETSc.cmake ├── FindPackageMultipass.cmake ├── FindParMETIS.cmake ├── FindSuiteSparse.cmake ├── FindTinyObjLoader.cmake ├── FindVc.cmake └── ResolveCompilerPaths.cmake ├── config └── config_cmake.h.in ├── example ├── Grid │ ├── 0_simple │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cpp │ ├── 1_stencil │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cpp │ ├── 2_solve_eq │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cpp │ ├── 3_gray_scott │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cpp │ ├── 3_gray_scott_3d │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cpp │ ├── 3_gray_scott_3d_vectorization │ │ ├── Makefile │ │ ├── config.cfg │ │ ├── main.cpp │ │ └── update_new.f90 │ └── Makefile ├── Makefile ├── Numerics │ ├── 2D_ActiveFluid │ │ ├── Makefile │ │ └── main.cpp │ ├── Closest_point │ │ ├── 0_sphere_redistancing │ │ │ ├── Makefile │ │ │ ├── config.cfg │ │ │ └── main.cpp │ │ └── Makefile │ ├── Makefile │ ├── OdeInt │ │ ├── Advection-Diffusion │ │ │ ├── Makefile │ │ │ ├── config.cfg │ │ │ ├── main.cpp │ │ │ └── main2.cpp │ │ ├── SPH_dlb │ │ │ ├── Makefile │ │ │ ├── main.cpp │ │ │ └── main2.cpp │ │ └── SPH_dlb_gpu │ │ │ ├── Makefile │ │ │ ├── main.cu │ │ │ └── main2.cu │ ├── PS-CMA-ES │ │ ├── Makefile │ │ ├── config.cfg │ │ ├── f15_cec_const.hpp │ │ ├── f15_cec_fun.hpp │ │ └── main.cpp │ ├── PSE │ │ ├── 0_Derivative_approx_1D │ │ │ ├── Makefile │ │ │ ├── config.cfg │ │ │ └── main.cpp │ │ ├── 1_Derivative_approx_1D_mp │ │ │ ├── Makefile │ │ │ ├── config.cfg │ │ │ └── main_float128.cpp │ │ ├── 1_Diffusion_1D │ │ │ ├── Makefile │ │ │ ├── config.cfg │ │ │ └── main.cpp │ │ └── Makefile │ ├── Stoke_flow │ │ ├── 0_2D_incompressible │ │ │ ├── Makefile │ │ │ ├── config.cfg │ │ │ ├── main_eigen.cpp │ │ │ └── main_petsc.cpp │ │ ├── 1_3D_incompressible │ │ │ ├── Makefile │ │ │ ├── config.cfg │ │ │ ├── main_eigen.cpp │ │ │ └── main_petsc.cpp │ │ ├── 2_2D_LidDrivenCavity_PC │ │ │ ├── Makefile │ │ │ ├── config.cfg │ │ │ ├── mainDCPSE.cpp │ │ │ └── mainFD.cpp │ │ ├── 3_3D_StokesFlowBall │ │ │ ├── Makefile │ │ │ └── main.cpp │ │ └── Makefile │ ├── Surface_DCPSE │ │ ├── Bump │ │ │ ├── Bump.cpp │ │ │ ├── Makefile │ │ │ ├── alpha0.csv │ │ │ ├── alpha1.csv │ │ │ └── alpha2.csv │ │ ├── Bunny │ │ │ ├── Bunny.cpp │ │ │ ├── Makefile │ │ │ └── data.csv │ │ ├── Circle │ │ │ ├── CircLap.cpp │ │ │ ├── CircPoisson.cpp │ │ │ └── Makefile │ │ ├── Ellipsoid │ │ │ ├── Ellip.cpp │ │ │ └── Makefile │ │ ├── Makefile │ │ └── Sphere │ │ │ ├── Makefile │ │ │ ├── Sph.cpp │ │ │ ├── SphBench.cpp │ │ │ ├── auxFunc.hpp │ │ │ └── sphereR1_EucLap.cpp │ ├── Sussman_redistancing │ │ ├── Makefile │ │ ├── example_sussman_disk │ │ │ ├── Makefile │ │ │ ├── config.cfg │ │ │ └── main.cpp │ │ ├── example_sussman_images_2D │ │ │ ├── Makefile │ │ │ ├── config.cfg │ │ │ ├── input │ │ │ │ ├── circle.bin │ │ │ │ ├── dolphin.bin │ │ │ │ ├── face.bin │ │ │ │ ├── size_circle.csv │ │ │ │ ├── size_dolphin.csv │ │ │ │ ├── size_face.csv │ │ │ │ ├── size_triangle.csv │ │ │ │ └── triangle.bin │ │ │ └── main.cpp │ │ ├── example_sussman_images_3D │ │ │ ├── Makefile │ │ │ ├── config.cfg │ │ │ ├── input │ │ │ │ ├── size_sphere.csv │ │ │ │ └── sphere.bin │ │ │ └── main.cpp │ │ ├── example_sussman_sphere │ │ │ ├── Makefile │ │ │ ├── config.cfg │ │ │ └── main.cpp │ │ └── image_binary_conversion │ │ │ ├── Makefile │ │ │ ├── config.cfg │ │ │ ├── image2binary_circle.ipynb │ │ │ ├── image2binary_create_sphere.ipynb │ │ │ ├── image2binary_dolphin.ipynb │ │ │ ├── image2binary_face.ipynb │ │ │ ├── image2binary_triangle.ipynb │ │ │ └── lib │ │ │ ├── image_process_and_save.py │ │ │ └── morphological_operations.py │ └── Vortex_in_cell │ │ ├── Makefile │ │ ├── config.cfg │ │ ├── main_vic_petsc.cpp │ │ ├── main_vic_petsc_double.cpp │ │ └── main_vic_petsc_opt.cpp ├── Performance │ ├── Makefile │ ├── Nbody_benchmark │ │ ├── Makefile │ │ ├── main.cu │ │ ├── nbody.s │ │ └── nbody_avx512.s │ ├── Syncthreads_kokkos_benchmark │ │ ├── CMakeLists.txt │ │ ├── Makefile │ │ ├── main.cu │ │ └── team.cpp │ ├── memBW │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cu │ ├── memBW_multi │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cu │ └── miniBUDE │ │ ├── Makefile │ │ ├── bm1 │ │ ├── forcefield.in │ │ ├── ligand.in │ │ ├── poses.in │ │ ├── protein.in │ │ └── ref_energies.out │ │ ├── bm2_long │ │ ├── forcefield.in │ │ ├── ligand.in │ │ ├── params.txt │ │ ├── poses.in │ │ ├── protein.in │ │ └── ref_energies.out │ │ ├── config.cfg │ │ └── main.cu ├── Plot │ ├── 0_simple_graph │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cpp │ ├── 2_PSE_convergence │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cpp │ └── Makefile ├── README(YES, YOU MUST READ IT) ├── SparseGrid │ ├── 10_heat_conduction_reticulate_porous_ceramics │ │ ├── Makefile │ │ ├── config.cfg │ │ ├── include │ │ │ ├── DiffusionSpace_sparseGrid.hpp │ │ │ ├── HelpFunctions_diffusion.hpp │ │ │ └── RemoveLines.hpp │ │ └── main.cu │ ├── 1_gray_scott_3d_sparse │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cpp │ ├── 1_gray_scott_3d_sparse_gpu │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cu │ ├── 2_gray_scott_3d_sparse_gpu_opt │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cu │ ├── 2_gray_scott_3d_sparse_opt │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cpp │ ├── 3_gray_scott_3d_sparse_cs │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cpp │ ├── 3_gray_scott_3d_sparse_gpu_cs │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cu │ ├── 3_gray_scott_3d_sparse_gpu_cs_opt │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cu │ ├── 4_gray_scott_3d_sparse_surface_cs │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cpp │ ├── 5_gray_scott_3d_surface_cs_opt │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cpp │ ├── 6_gray_scott_3d_sparse_gpu_opt_weak_scal │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cu │ ├── 7_gray_scott_3d_sparse_gpu_sphere_expanding │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cu │ ├── 8_filling_benchmark │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cpp │ ├── 8_filling_benchmark_gpu │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cu │ ├── 9_inhomogeneous_diffusion_porous_catalyst_CaCO3 │ │ ├── Makefile │ │ ├── config.cfg │ │ ├── include │ │ │ ├── DiffusionSpace_sparseGrid.hpp │ │ │ ├── HelpFunctions_diffusion.hpp │ │ │ └── RemoveLines.hpp │ │ └── main.cu │ └── Makefile ├── VCluster │ ├── 0_simple │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cpp │ ├── 1_semantic │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cpp │ ├── 2_serial_and_parallel │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cpp │ └── Makefile ├── Vector │ ├── 0_simple │ │ ├── CMakeLists.txt │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cpp │ ├── 10_level_set │ │ ├── Makefile │ │ ├── ellipsoid_helpfunctions.h │ │ ├── kernel_functions.h │ │ └── main.cpp │ ├── 1_HDF5_save_load │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cpp │ ├── 1_celllist │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cpp │ ├── 1_ghost_get_put │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cpp │ ├── 1_gpu_first_step │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cu │ ├── 2_expressions │ │ ├── Makefile │ │ ├── config.cfg │ │ ├── main.cpp │ │ └── out │ ├── 3_molecular_dynamic │ │ ├── Makefile │ │ ├── config.cfg │ │ ├── main.cpp │ │ ├── main_expr.cpp │ │ ├── main_expr_paper.cpp │ │ ├── main_expr_vl.cpp │ │ └── main_vl.cpp │ ├── 3_molecular_dynamic_gpu │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cu │ ├── 3_molecular_dynamic_gpu_opt │ │ ├── Makefile │ │ ├── config.cfg │ │ ├── main_cpu.cpp │ │ ├── main_cpu_best.cpp │ │ └── main_gpu.cu │ ├── 4_complex_prop │ │ ├── Makefile │ │ ├── config.cfg │ │ ├── main.cpp │ │ └── main_ser.cpp │ ├── 4_multiphase_celllist_verlet │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cpp │ ├── 4_reorder │ │ ├── Makefile │ │ ├── config.cfg │ │ ├── energy_force.hpp │ │ ├── main_comp_ord.cpp │ │ ├── main_data_ord.cpp │ │ ├── main_expr.cpp │ │ ├── no_reorder.html │ │ ├── reorder_10000.html │ │ └── reorder_200.html │ ├── 5_molecular_dynamic_sym │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cpp │ ├── 5_molecular_dynamic_sym_crs │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cpp │ ├── 6_complex_usage │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cpp │ ├── 7_SPH_dlb │ │ ├── CMakeLists.txt │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cpp │ ├── 7_SPH_dlb_gpu │ │ ├── CMakeLists.txt │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cu │ ├── 7_SPH_dlb_gpu_more_opt │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cu │ ├── 7_SPH_dlb_gpu_opt │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cu │ ├── 7_SPH_dlb_opt │ │ ├── Makefile │ │ ├── config.cfg │ │ ├── main.cpp │ │ └── main_dbg.cpp │ ├── 8_DEM │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cpp │ ├── 9_gpu_cuda_interop │ │ ├── Makefile │ │ ├── config.cfg │ │ └── main.cu │ └── Makefile └── common.mk ├── footer.html ├── header.html ├── images ├── openfpm.dot └── static │ ├── Domain_decomposition_external.jpg │ └── Domain_decomposition_internal.jpg ├── openfpm_pdata.doc ├── projectid.sh └── script ├── conf_CMake.sh ├── configure_PETSC.sh ├── create_brew.mk.sh ├── create_env_vars.sh ├── create_example.mk.sh ├── install_ALGOIM.sh ├── install_BLITZ.sh ├── install_BOOST.sh ├── install_CATALYST.sh ├── install_EIGEN.sh ├── install_HDF5.sh ├── install_LIBHILBERT.sh ├── install_MINTER.sh ├── install_MPI.sh ├── install_Metis.sh ├── install_OPENBLAS.sh ├── install_PETSC.sh ├── install_Parmetis.sh ├── install_SUITESPARSE.sh ├── install_VCDEVEL.sh ├── install_ZLIB.sh └── py ├── pack_examples.py └── process_examples.py /.github/workflows/main.yml: -------------------------------------------------------------------------------- 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