remove_entities_from_problem_not_partitioned.cpp

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/** \file remove_entities_from_problem_not_partitioned.cpp
  \example remove_entities_from_problem_not_partitioned.cpp
  \brief Remove field entities from the problem
 
*/
 
#include <MoFEM.hpp>
using namespace MoFEM;
 
static char help[] = "...\n\n";
 
constexpr int SPACE_DIM = 3;
 
int main(int argc, char *argv[]) {
 
  MoFEM::Core::Initialize(&argc, &argv, (char *)0, help);
 
  try {
 
    moab::Core mb_instance;
    moab::Interface &moab = mb_instance;
    int rank;
    MPI_Comm_rank(PETSC_COMM_WORLD, &rank);
 
    PetscBool flg = PETSC_TRUE;
    char mesh_file_name[255];
#if PETSC_VERSION_GE(3, 6, 4)
    CHKERR PetscOptionsGetString(PETSC_NULL, "", "-my_file", mesh_file_name,
                                 255, &flg);
#else
    CHKERR PetscOptionsGetString(PETSC_NULL, PETSC_NULL, "-my_file",
                                 mesh_file_name, 255, &flg);
#endif
    if (!flg)
      SETERRQ(PETSC_COMM_WORLD, 1, "*** ERROR -my_file (MESH FILE NEEDED)");
    
 
    const char *option;
    option = "";
    CHKERR moab.load_file(mesh_file_name, 0, option);
 
    // Create MoFEM database
    MoFEM::Core core(moab);
    MoFEM::Interface &m_field = core;
 
    MOFEM_LOG_CHANNEL("WORLD");
    BOOST_LOG_SCOPED_THREAD_ATTR("Timeline", attrs::timer());
 
    // set entities bit level
    const auto bit_level = BitRefLevel().set(0);
    CHKERR m_field.getInterface<BitRefManager>()->setBitRefLevelByDim(
        0, 3, bit_level);
 
    // Fields
    CHKERR m_field.add_field("F1", HCURL, DEMKOWICZ_JACOBI_BASE, 3);
    CHKERR m_field.add_field("F2", HDIV, DEMKOWICZ_JACOBI_BASE, 1);
 
    // meshset consisting all entities in mesh
    EntityHandle root_set = moab.get_root_set();
    // add entities to field
    CHKERR m_field.add_ents_to_field_by_dim(root_set, SPACE_DIM, "F1");
    CHKERR m_field.add_ents_to_field_by_dim(root_set, SPACE_DIM, "F2");
 
    // set app. order
    // see Hierarchic Finite Element Bases on Unstructured Tetrahedral Meshes
    // (Mark Ainsworth & Joe Coyle)
    int order = 2;
 
    for (EntityType t = CN::TypeDimensionMap[1].first;
         t <= CN::TypeDimensionMap[SPACE_DIM].second; ++t) {
      CHKERR m_field.set_field_order(root_set, t, "F1", order);
    }
    for (EntityType t = CN::TypeDimensionMap[2].first;
         t <= CN::TypeDimensionMap[SPACE_DIM].second; ++t) {
      CHKERR m_field.set_field_order(root_set, t, "F2", order);
    }
 
    CHKERR m_field.build_fields();
 
    // add elements
    CHKERR m_field.add_finite_element("E1");
 
    CHKERR m_field.modify_finite_element_add_field_row("E1", "F1");
    CHKERR m_field.modify_finite_element_add_field_row("E1", "F2");
    CHKERR m_field.modify_finite_element_add_field_col("E1", "F2");
    CHKERR m_field.modify_finite_element_add_field_col("E1", "F1");
    CHKERR m_field.modify_finite_element_add_field_data("E1", "F1");
    CHKERR m_field.modify_finite_element_add_field_data("E1", "F2");
 
    CHKERR m_field.add_ents_to_finite_element_by_dim(root_set, SPACE_DIM, "E1");
 
    CHKERR m_field.build_finite_elements();
    CHKERR m_field.build_adjacencies(bit_level);
 
    // Problems
    CHKERR m_field.add_problem("P1");
 
    // set refinement level for problem
    CHKERR m_field.modify_problem_ref_level_add_bit("P1", bit_level);
    CHKERR m_field.modify_problem_add_finite_element("P1", "E1");
 
    // build problems
    ProblemsManager *prb_mng_ptr;
    CHKERR m_field.getInterface(prb_mng_ptr);
    CHKERR prb_mng_ptr->buildProblem("P1", true);
    CHKERR prb_mng_ptr->partitionProblem("P1");
 
    auto get_triangles_on_skin = [&](Range &tets_skin) {
      MoFEMFunctionBegin;
      Range tets;
      CHKERR m_field.get_moab().get_entities_by_dimension(root_set, SPACE_DIM,
                                                          tets);
      Skinner skin(&m_field.get_moab());
      CHKERR skin.find_skin(0, tets, false, tets_skin);
      Range adj;
      CHKERR m_field.get_moab().get_adjacencies(tets_skin, SPACE_DIM - 2, false,
                                                adj, moab::Interface::UNION);
      tets_skin.merge(adj);
      MoFEMFunctionReturn(0);
    };
 
    Range tets;
    CHKERR m_field.get_moab().get_entities_by_dimension(root_set, SPACE_DIM,
                                                        tets);
    SmartPetscObj<IS> is_before_remove;
    CHKERR m_field.getInterface<ISManager>()->isCreateProblemFieldAndRank(
        "P1", ROW, "F1", 0, 1, is_before_remove, &tets);
 
    MOFEM_LOG("WORLD", Sev::inform) << "Remove dofs";
 
    Range tets_skin;
    CHKERR get_triangles_on_skin(tets_skin);
    CHKERR prb_mng_ptr->removeDofsOnEntitiesNotDistributed(
        "P1", "F1", tets_skin, 0, 1, 0, 100, VERBOSE, true);
 
    MOFEM_LOG("WORLD", Sev::inform) << "Check consistency";
 
    SmartPetscObj<IS> is_after_remove;
    CHKERR m_field.getInterface<ISManager>()->isCreateProblemFieldAndRank(
        "P1", ROW, "F1", 0, 1, is_after_remove, &tets);
 
    auto test_is = [&]() {
      MoFEMFunctionBegin;
      const Problem *prb_ptr = m_field.get_problem("P1");
      if (auto sub_data = prb_ptr->getSubData()) {
        auto sub_ao = sub_data->getSmartRowMap();
        if (sub_ao) {
          CHKERR AOApplicationToPetscIS(sub_ao, is_before_remove);
          PetscBool is_the_same;
          CHKERR ISEqual(is_before_remove, is_after_remove, &is_the_same);
          if (is_the_same == PETSC_FALSE) {
            SETERRQ(PETSC_COMM_SELF, MOFEM_ATOM_TEST_INVALID,
                    "IS should be the same if map is correctly implemented");
          } else {
            MOFEM_LOG("WORLD", Sev::inform) << "Sub data map is correct";
          }
        } else {
          SETERRQ(PETSC_COMM_SELF, MOFEM_ATOM_TEST_INVALID,
                  "AO map should exist");
        }
      } else {
        SETERRQ(PETSC_COMM_SELF, MOFEM_ATOM_TEST_INVALID,
                "Sub DM should exist");
      }
      MoFEMFunctionReturn(0);
    };
 
    CHKERR test_is();
 
    SmartPetscObj<Vec> v;
    CHKERR m_field.getInterface<VecManager>()->vecCreateGhost("P1", ROW, v);
 
    CHKERR m_field.getInterface<MatrixManager>()
        ->checkMPIAIJWithArraysMatrixFillIn<PetscGlobalIdx_mi_tag>("P1", -2,
        -2,
                                                                   0);
 
    MOFEM_LOG("WORLD", Sev::inform) << "done";
 
  }
  CATCH_ERRORS;
 
  // finish work cleaning memory, getting statistics, etc.
  CHKERR MoFEM::Core::Finalize();
 
  return 0;
}