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dm_build_partitioned_mesh.cpp

Testing problem for partitioned mesh.

Testing problem for partitioned mesh

/** \file dm_build_partitioned_mesh.cpp
\example dm_build_partitioned_mesh.cpp
\brief Testing problem for partitioned mesh
*/
#include <MoFEM.hpp>
using namespace MoFEM;
static char help[] = "...\n\n";
struct CountUp : FEMethod {
CountUp(int &counter) : FEMethod(), cOunter(counter) {}
MoFEMErrorCode preProcess() { return 0; }
return 0;
}
MoFEMErrorCode postProcess() { return 0; }
private:
int &cOunter;
};
struct CountDown : FEMethod {
CountDown(int &counter) : FEMethod(), cOunter(counter) {}
MoFEMErrorCode preProcess() { return 0; }
return 0;
}
MoFEMErrorCode postProcess() { return 0; }
private:
int &cOunter;
};
int main(int argc, char *argv[]) {
// initialize petsc
MoFEM::Core::Initialize(&argc, &argv, (char *)0, help);
try {
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 != PETSC_TRUE) {
SETERRQ(PETSC_COMM_SELF, 1, "*** ERROR -my_file (MESH FILE NEEDED)");
}
// register new dm type, i.e. mofem
DMType dm_name = "DMMOFEM";
// create dm instance
DM dm;
CHKERR DMCreate(PETSC_COMM_WORLD, &dm);
CHKERR DMSetType(dm, dm_name);
// read mesh and create moab and mofem data structures
moab::Core mb_instance;
moab::Interface &moab = mb_instance;
ParallelComm *pcomm = ParallelComm::get_pcomm(&moab, MYPCOMM_INDEX);
auto moab_comm_wrap =
boost::make_shared<WrapMPIComm>(PETSC_COMM_WORLD, false);
if (pcomm == NULL)
pcomm = new ParallelComm(&moab, moab_comm_wrap->get_comm());
const char *option;
option = "PARALLEL=BCAST_DELETE;PARALLEL_RESOLVE_SHARED_ENTS;PARTITION="
"PARALLEL_PARTITION;";
CHKERR moab.load_file(mesh_file_name, 0, option);
MoFEM::Core core(moab, PETSC_COMM_WORLD);
MoFEM::Interface &m_field = core;
EntityHandle root_set = moab.get_root_set();
// add all entities to database, all of them will be used
BitRefLevel bit_level0;
bit_level0.set(0);
CHKERR m_field.getInterface<BitRefManager>()->setBitRefLevelByDim(
root_set, 3, bit_level0);
// define & build field
int field_rank = 3;
#if PETSC_VERSION_GE(3, 6, 4)
CHKERR PetscOptionsGetInt(PETSC_NULL, "", "-my_field_rank", &field_rank,
&flg);
#else
CHKERR PetscOptionsGetInt(PETSC_NULL, PETSC_NULL, "-my_field_rank",
&field_rank, &flg);
#endif
CHKERR m_field.add_field("FIELD1", H1, AINSWORTH_LEGENDRE_BASE, field_rank);
CHKERR m_field.add_field("FIELD2", L2, AINSWORTH_LEGENDRE_BASE, 1);
// add entities to field
CHKERR m_field.add_ents_to_field_by_type(root_set, MBTET, "FIELD1");
CHKERR m_field.add_ents_to_field_by_type(root_set, MBTET, "FIELD2");
// set app. order
int order = 4;
CHKERR m_field.set_field_order(root_set, MBTET, "FIELD1", order);
CHKERR m_field.set_field_order(root_set, MBTRI, "FIELD1", order);
CHKERR m_field.set_field_order(root_set, MBEDGE, "FIELD1", order);
CHKERR m_field.set_field_order(root_set, MBVERTEX, "FIELD1", 1);
CHKERR m_field.set_field_order(root_set, MBTET, "FIELD2", order);
// build data structures for fields
CHKERR m_field.build_fields();
// define & build finite elements
CHKERR m_field.add_finite_element("FE");
// Define rows/cols and element data
// Only data
CHKERR m_field.add_finite_element("FE_ONLY_DATA");
"FIELD1");
"FIELD2");
// Add entities to finite element
CHKERR m_field.add_ents_to_finite_element_by_type(root_set, MBTET, "FE");
CHKERR m_field.add_ents_to_finite_element_by_type(root_set, MBTET,
"FE_ONLY_DATA");
// build finite elemnts
// build adjacencies
CHKERR m_field.build_adjacencies(bit_level0);
// set dm data structure which created mofem data structures
CHKERR DMMoFEMCreateMoFEM(dm, &m_field, "TEST_PROBLEM", bit_level0);
dm, PETSC_FALSE); // this is for testing (this problem has the same rows
// and cols)
CHKERR DMSetFromOptions(dm);
CHKERR DMMoFEMAddElement(dm, "FE_ONLY_DATA");
CHKERR DMSetUp(dm);
// dump data to file, just to check if something was changed
->checkMPIAIJWithArraysMatrixFillIn<PetscGlobalIdx_mi_tag>(
"TEST_PROBLEM", -1, -1, 1);
->checkMPIAIJMatrixFillIn<PetscGlobalIdx_mi_tag>("TEST_PROBLEM", -1, -1,
1);
std::vector<std::string> fields_list;
fields_list.push_back("FIELD1");
// PetscSection section;
PetscSection section;
CHKERR m_field.getInterface<ISManager>()->sectionCreate("TEST_PROBLEM",
&section);
CHKERR PetscSectionView(section, PETSC_VIEWER_STDOUT_WORLD);
CHKERR DMSetSection(dm, section);
CHKERR PetscSectionDestroy(&section);
PetscBool save_file = PETSC_TRUE;
#if PETSC_VERSION_GE(3, 6, 4)
CHKERR PetscOptionsGetBool(PETSC_NULL, "", "-my_save_file", &save_file,
&flg);
#else
CHKERR PetscOptionsGetBool(PETSC_NULL, PETSC_NULL, "-my_save_file",
&save_file, &flg);
#endif
if (save_file) {
PetscViewer viewer;
CHKERR PetscViewerASCIIOpen(PETSC_COMM_WORLD,
"dm_build_partitioned_mesh.txt", &viewer);
CHKERR PetscViewerPushFormat(viewer, PETSC_VIEWER_ASCII_INFO);
MatView(m, viewer);
CHKERR PetscViewerDestroy(&viewer);
}
int count = 0;
boost::make_shared<CountUp>(count));
CHKERR DMoFEMLoopFiniteElements(dm, "FE_ONLY_DATA",
boost::make_shared<CountDown>(count));
if (count)
SETERRQ1(PETSC_COMM_SELF, MOFEM_ATOM_TEST_INVALID, "Should be zero %d",
count);
auto check_consistency_of_uids = [&]() {
auto field_ents_ptr = m_field.get_field_ents();
for (auto &fe : *field_ents_ptr) {
if (fe->getOwnerProc() !=
(FieldEntity::getOwnerFromUniqueId(fe->getGlobalUniqueId()))) {
MOFEM_LOG("SELF", Sev::error) << *fe;
MOFEM_LOG("SELF", Sev::error)
<< "UId owner proc "
<< FieldEntity::getOwnerFromUniqueId(fe->getGlobalUniqueId());
MOFEM_LOG("SELF", Sev::error)
<< "Entity owner proc " << fe->getOwnerProc();
SETERRQ(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
"UId and entity handle inconsistency");
}
if (fe->getEnt() !=
FieldEntity::getHandleFromUniqueId(fe->getLocalUniqueId())) {
MOFEM_LOG("SELF", Sev::error) << *fe;
MOFEM_LOG("SELF", Sev::error)
<< "UId handle "
<< FieldEntity::getHandleFromUniqueId(fe->getLocalUniqueId());
MOFEM_LOG("SELF", Sev::error) << "Entity handle " << fe->getEnt();
SETERRQ(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
"UId and entity handle inconsistency");
}
const auto field_bit_number_from_uid =
FieldEntity::getFieldBitNumberFromUniqueId(fe->getLocalUniqueId());
if (fe->getBitNumber() != field_bit_number_from_uid) {
MOFEM_LOG("SELF", Sev::error) << *fe;
MOFEM_LOG("SELF", Sev::error)
<< "UId field bit " << field_bit_number_from_uid;
MOFEM_LOG("SELF", Sev::error)
<< "Entity owner proc " << fe->getBitNumber();
SETERRQ(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
"UId and entity handle inconsistency");
}
if (fe->getName() != m_field.get_field_name(BitFieldId().set(
field_bit_number_from_uid - 1))) {
MOFEM_LOG("SELF", Sev::error) << *fe;
MOFEM_LOG("SELF", Sev::error)
<< "UId field bit "
<< m_field.get_field_name(
BitFieldId().set(field_bit_number_from_uid - 1));
MOFEM_LOG("SELF", Sev::error)
<< "Entity owner proc " << fe->getName();
SETERRQ(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
"UId and entity handle inconsistency");
}
}
};
CHKERR check_consistency_of_uids();
// destry dm
CHKERR DMDestroy(&dm);
}
// finish work cleaning memory, getting statistics, ect.
return 0;
}
static char help[]
int main()
Definition: adol-c_atom.cpp:46
#define CATCH_ERRORS
Catch errors.
Definition: definitions.h:372
@ AINSWORTH_LEGENDRE_BASE
Ainsworth Cole (Legendre) approx. base .
Definition: definitions.h:60
@ L2
field with C-1 continuity
Definition: definitions.h:88
@ H1
continuous field
Definition: definitions.h:85
#define MYPCOMM_INDEX
default communicator number PCOMM
Definition: definitions.h:215
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:346
@ MOFEM_ATOM_TEST_INVALID
Definition: definitions.h:40
@ MOFEM_DATA_INCONSISTENCY
Definition: definitions.h:31
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:416
#define CHKERR
Inline error check.
Definition: definitions.h:535
FTensor::Index< 'm', SPACE_DIM > m
PetscErrorCode DMMoFEMSetIsPartitioned(DM dm, PetscBool is_partitioned)
Definition: DMMMoFEM.cpp:1070
PetscErrorCode DMMoFEMSetSquareProblem(DM dm, PetscBool square_problem)
set squared problem
Definition: DMMMoFEM.cpp:403
PetscErrorCode DMMoFEMCreateMoFEM(DM dm, MoFEM::Interface *m_field_ptr, const char problem_name[], const MoFEM::BitRefLevel bit_level, const MoFEM::BitRefLevel bit_mask=MoFEM::BitRefLevel().set())
Must be called by user to set MoFEM data structures.
Definition: DMMMoFEM.cpp:118
PetscErrorCode DMMoFEMAddElement(DM dm, const char fe_name[])
add element to dm
Definition: DMMMoFEM.cpp:450
PetscErrorCode DMCreateMatrix_MoFEM(DM dm, Mat *M)
Definition: DMMMoFEM.cpp:1144
PetscErrorCode DMRegister_MoFEM(const char sname[])
Register MoFEM problem.
Definition: DMMMoFEM.cpp:47
PetscErrorCode DMoFEMLoopFiniteElements(DM dm, const char fe_name[], MoFEM::FEMethod *method, CacheTupleWeakPtr cache_ptr=CacheTupleSharedPtr())
Executes FEMethod for finite elements in DM.
Definition: DMMMoFEM.cpp:533
virtual const FieldEntity_multiIndex * get_field_ents() const =0
Get the field ents object.
virtual MoFEMErrorCode modify_finite_element_add_field_row(const std::string &fe_name, const std::string &name_row)=0
set field row which finite element use
virtual MoFEMErrorCode add_finite_element(const std::string &fe_name, enum MoFEMTypes bh=MF_EXCL, int verb=DEFAULT_VERBOSITY)=0
add finite element
virtual MoFEMErrorCode build_finite_elements(int verb=DEFAULT_VERBOSITY)=0
Build finite elements.
virtual MoFEMErrorCode add_ents_to_finite_element_by_type(const EntityHandle entities, const EntityType type, const std::string &name, const bool recursive=true)=0
add entities to finite element
virtual MoFEMErrorCode modify_finite_element_add_field_data(const std::string &fe_name, const std::string &name_filed)=0
set finite element field data
virtual MoFEMErrorCode modify_finite_element_add_field_col(const std::string &fe_name, const std::string &name_row)=0
set field col which finite element use
virtual MoFEMErrorCode build_fields(int verb=DEFAULT_VERBOSITY)=0
virtual MoFEMErrorCode set_field_order(const EntityHandle meshset, const EntityType type, const std::string &name, const ApproximationOrder order, int verb=DEFAULT_VERBOSITY)=0
Set order approximation of the entities in the field.
virtual MoFEMErrorCode add_ents_to_field_by_type(const Range &ents, const EntityType type, const std::string &name, int verb=DEFAULT_VERBOSITY)=0
Add entities to field meshset.
#define MOFEM_LOG(channel, severity)
Log.
Definition: LogManager.hpp:301
char mesh_file_name[255]
PetscErrorCode MoFEMErrorCode
MoFEM/PETSc error code.
Definition: Exceptions.hpp:56
std::bitset< BITFIELDID_SIZE > BitFieldId
Field Id.
Definition: Types.hpp:42
std::bitset< BITREFLEVEL_SIZE > BitRefLevel
Bit structure attached to each entity identifying to what mesh entity is attached.
Definition: Types.hpp:40
implementation of Data Operators for Forces and Sources
Definition: Common.hpp:10
PetscErrorCode PetscOptionsGetInt(PetscOptions *, const char pre[], const char name[], PetscInt *ivalue, PetscBool *set)
PetscErrorCode PetscOptionsGetBool(PetscOptions *, const char pre[], const char name[], PetscBool *bval, PetscBool *set)
PetscErrorCode PetscOptionsGetString(PetscOptions *, const char pre[], const char name[], char str[], size_t size, PetscBool *set)
MoFEMErrorCode preProcess()
function is run at the beginning of loop
MoFEMErrorCode operator()()
function is run for every finite element
MoFEMErrorCode postProcess()
function is run at the end of loop
MoFEMErrorCode postProcess()
function is run at the end of loop
MoFEMErrorCode preProcess()
function is run at the beginning of loop
MoFEMErrorCode operator()()
function is run for every finite element
Managing BitRefLevels.
virtual MoFEMErrorCode build_adjacencies(const Range &ents, int verb=DEFAULT_VERBOSITY)=0
build adjacencies
virtual std::string get_field_name(const BitFieldId id) const =0
get field name from id
virtual MoFEMErrorCode add_field(const std::string &name, const FieldSpace space, const FieldApproximationBase base, const FieldCoefficientsNumber nb_of_coefficients, const TagType tag_type=MB_TAG_SPARSE, const enum MoFEMTypes bh=MF_EXCL, int verb=DEFAULT_VERBOSITY)=0
Add field.
Core (interface) class.
Definition: Core.hpp:82
static MoFEMErrorCode Initialize(int *argc, char ***args, const char file[], const char help[])
Initializes the MoFEM database PETSc, MOAB and MPI.
Definition: Core.cpp:72
static MoFEMErrorCode Finalize()
Checks for options to be called at the conclusion of the program.
Definition: Core.cpp:112
Deprecated interface functions.
FEMethod()=default
Section manager is used to create indexes and sections.
Definition: ISManager.hpp:23
Matrix manager is used to build and partition problems.
intrusive_ptr for managing petsc objects
MoFEMErrorCode getInterface(IFACE *&iface) const
Get interface refernce to pointer of interface.