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Classes | Functions | Variables
dm_build_partitioned_mesh.cpp File Reference
#include <MoFEM.hpp>

Go to the source code of this file.

Classes

struct  CountUp
 
struct  CountDown
 

Functions

int main (int argc, char *argv[])
 

Variables

static char help [] = "...\n\n"
 

Function Documentation

◆ main()

int main ( int  argc,
char *  argv[] 
)

Definition at line 41 of file dm_build_partitioned_mesh.cpp.

41 {
42 // initialize petsc
43 MoFEM::Core::Initialize(&argc, &argv, (char *)0, help);
44
45 try {
46
47 PetscBool flg = PETSC_TRUE;
48 char mesh_file_name[255];
49#if PETSC_VERSION_GE(3, 6, 4)
50 CHKERR PetscOptionsGetString(PETSC_NULL, "", "-my_file", mesh_file_name,
51 255, &flg);
52#else
53 CHKERR PetscOptionsGetString(PETSC_NULL, PETSC_NULL, "-my_file",
54 mesh_file_name, 255, &flg);
55#endif
56 if (flg != PETSC_TRUE) {
57 SETERRQ(PETSC_COMM_SELF, 1, "*** ERROR -my_file (MESH FILE NEEDED)");
58 }
59
60 // register new dm type, i.e. mofem
61 DMType dm_name = "DMMOFEM";
62 CHKERR DMRegister_MoFEM(dm_name);
63
64 // create dm instance
65 DM dm;
66 CHKERR DMCreate(PETSC_COMM_WORLD, &dm);
67 CHKERR DMSetType(dm, dm_name);
68
69 // read mesh and create moab and mofem data structures
70 moab::Core mb_instance;
71 moab::Interface &moab = mb_instance;
72
73 ParallelComm *pcomm = ParallelComm::get_pcomm(&moab, MYPCOMM_INDEX);
74 auto moab_comm_wrap =
75 boost::make_shared<WrapMPIComm>(PETSC_COMM_WORLD, false);
76 if (pcomm == NULL)
77 pcomm = new ParallelComm(&moab, moab_comm_wrap->get_comm());
78
79 const char *option;
80 option = "PARALLEL=BCAST_DELETE;PARALLEL_RESOLVE_SHARED_ENTS;PARTITION="
81 "PARALLEL_PARTITION;";
82 CHKERR moab.load_file(mesh_file_name, 0, option);
83
84 MoFEM::Core core(moab, PETSC_COMM_WORLD);
85 MoFEM::Interface &m_field = core;
86
87 EntityHandle root_set = moab.get_root_set();
88 // add all entities to database, all of them will be used
89 BitRefLevel bit_level0;
90 bit_level0.set(0);
91 CHKERR m_field.getInterface<BitRefManager>()->setBitRefLevelByDim(
92 root_set, 3, bit_level0);
93 // define & build field
94 int field_rank = 3;
95#if PETSC_VERSION_GE(3, 6, 4)
96 CHKERR PetscOptionsGetInt(PETSC_NULL, "", "-my_field_rank", &field_rank,
97 &flg);
98#else
99 CHKERR PetscOptionsGetInt(PETSC_NULL, PETSC_NULL, "-my_field_rank",
100 &field_rank, &flg);
101#endif
102 CHKERR m_field.add_field("FIELD1", H1, AINSWORTH_LEGENDRE_BASE, field_rank);
103 CHKERR m_field.add_field("FIELD2", L2, AINSWORTH_LEGENDRE_BASE, 1);
104
105 // add entities to field
106 CHKERR m_field.add_ents_to_field_by_type(root_set, MBTET, "FIELD1");
107 CHKERR m_field.add_ents_to_field_by_type(root_set, MBTET, "FIELD2");
108
109 // set app. order
110 int order = 4;
111 CHKERR m_field.set_field_order(root_set, MBTET, "FIELD1", order);
112 CHKERR m_field.set_field_order(root_set, MBTRI, "FIELD1", order);
113 CHKERR m_field.set_field_order(root_set, MBEDGE, "FIELD1", order);
114 CHKERR m_field.set_field_order(root_set, MBVERTEX, "FIELD1", 1);
115 CHKERR m_field.set_field_order(root_set, MBTET, "FIELD2", order);
116
117 // build data structures for fields
118 CHKERR m_field.build_fields();
119
120 // define & build finite elements
121 CHKERR m_field.add_finite_element("FE");
122 // Define rows/cols and element data
123 CHKERR m_field.modify_finite_element_add_field_row("FE", "FIELD1");
124 CHKERR m_field.modify_finite_element_add_field_col("FE", "FIELD1");
125 CHKERR m_field.modify_finite_element_add_field_data("FE", "FIELD1");
126 CHKERR m_field.modify_finite_element_add_field_row("FE", "FIELD2");
127 CHKERR m_field.modify_finite_element_add_field_col("FE", "FIELD2");
128 CHKERR m_field.modify_finite_element_add_field_data("FE", "FIELD2");
129 // Only data
130 CHKERR m_field.add_finite_element("FE_ONLY_DATA");
131 CHKERR m_field.modify_finite_element_add_field_data("FE_ONLY_DATA",
132 "FIELD1");
133 CHKERR m_field.modify_finite_element_add_field_data("FE_ONLY_DATA",
134 "FIELD2");
135 // Add entities to finite element
136 CHKERR m_field.add_ents_to_finite_element_by_type(root_set, MBTET, "FE");
137 CHKERR m_field.add_ents_to_finite_element_by_type(root_set, MBTET,
138 "FE_ONLY_DATA");
139 // build finite elemnts
140 CHKERR m_field.build_finite_elements();
141 // build adjacencies
142 CHKERR m_field.build_adjacencies(bit_level0);
143
144 // set dm data structure which created mofem data structures
145 CHKERR DMMoFEMCreateMoFEM(dm, &m_field, "TEST_PROBLEM", bit_level0);
146 CHKERR DMMoFEMSetIsPartitioned(dm, PETSC_TRUE);
147 CHKERR DMMoFEMSetSquareProblem(
148 dm, PETSC_FALSE); // this is for testing (this problem has the same rows
149 // and cols)
150 CHKERR DMSetFromOptions(dm);
151 CHKERR DMMoFEMAddElement(dm, "FE");
152 CHKERR DMMoFEMAddElement(dm, "FE_ONLY_DATA");
153 CHKERR DMSetUp(dm);
154
155 // dump data to file, just to check if something was changed
156 SmartPetscObj<Mat> m;
157 CHKERR DMCreateMatrix_MoFEM(dm, m);
158
159 CHKERR m_field.getInterface<MatrixManager>()
160 ->checkMPIAIJWithArraysMatrixFillIn<PetscGlobalIdx_mi_tag>(
161 "TEST_PROBLEM", -1, -1, 1);
162
163 CHKERR m_field.getInterface<MatrixManager>()
164 ->checkMPIAIJMatrixFillIn<PetscGlobalIdx_mi_tag>("TEST_PROBLEM", -1, -1,
165 1);
166
167 std::vector<std::string> fields_list;
168 fields_list.push_back("FIELD1");
169
170 // PetscSection section;
171 PetscSection section;
172 CHKERR m_field.getInterface<ISManager>()->sectionCreate("TEST_PROBLEM",
173 &section);
174 CHKERR PetscSectionView(section, PETSC_VIEWER_STDOUT_WORLD);
175 CHKERR DMSetSection(dm, section);
176 CHKERR PetscSectionDestroy(&section);
177
178 PetscBool save_file = PETSC_TRUE;
179#if PETSC_VERSION_GE(3, 6, 4)
180 CHKERR PetscOptionsGetBool(PETSC_NULL, "", "-my_save_file", &save_file,
181 &flg);
182#else
183 CHKERR PetscOptionsGetBool(PETSC_NULL, PETSC_NULL, "-my_save_file",
184 &save_file, &flg);
185#endif
186 if (save_file) {
187 PetscViewer viewer;
188 CHKERR PetscViewerASCIIOpen(PETSC_COMM_WORLD,
189 "dm_build_partitioned_mesh.txt", &viewer);
190 CHKERR PetscViewerPushFormat(viewer, PETSC_VIEWER_ASCII_INFO);
191 MatView(m, viewer);
192 CHKERR PetscViewerDestroy(&viewer);
193 }
194
195 int count = 0;
196 CHKERR DMoFEMLoopFiniteElements(dm, "FE",
197 boost::make_shared<CountUp>(count));
198 CHKERR DMoFEMLoopFiniteElements(dm, "FE_ONLY_DATA",
199 boost::make_shared<CountDown>(count));
200 if (count)
201 SETERRQ1(PETSC_COMM_SELF, MOFEM_ATOM_TEST_INVALID, "Should be zero %d",
202 count);
203
204 auto check_consistency_of_uids = [&]() {
205 MoFEMFunctionBegin;
206 auto field_ents_ptr = m_field.get_field_ents();
207 for (auto &fe : *field_ents_ptr) {
208 if (fe->getOwnerProc() !=
209 (FieldEntity::getOwnerFromUniqueId(fe->getGlobalUniqueId()))) {
210 MOFEM_LOG("SELF", Sev::error) << *fe;
211 MOFEM_LOG("SELF", Sev::error)
212 << "UId owner proc "
213 << FieldEntity::getOwnerFromUniqueId(fe->getGlobalUniqueId());
214 MOFEM_LOG("SELF", Sev::error)
215 << "Entity owner proc " << fe->getOwnerProc();
216 SETERRQ(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
217 "UId and entity handle inconsistency");
218 }
219 if (fe->getEnt() !=
220 FieldEntity::getHandleFromUniqueId(fe->getLocalUniqueId())) {
221 MOFEM_LOG("SELF", Sev::error) << *fe;
222 MOFEM_LOG("SELF", Sev::error)
223 << "UId handle "
224 << FieldEntity::getHandleFromUniqueId(fe->getLocalUniqueId());
225 MOFEM_LOG("SELF", Sev::error) << "Entity handle " << fe->getEnt();
226 SETERRQ(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
227 "UId and entity handle inconsistency");
228 }
229 const auto field_bit_number_from_uid =
230 FieldEntity::getFieldBitNumberFromUniqueId(fe->getLocalUniqueId());
231 if (fe->getBitNumber() != field_bit_number_from_uid) {
232 MOFEM_LOG("SELF", Sev::error) << *fe;
233 MOFEM_LOG("SELF", Sev::error)
234 << "UId field bit " << field_bit_number_from_uid;
235 MOFEM_LOG("SELF", Sev::error)
236 << "Entity owner proc " << fe->getBitNumber();
237 SETERRQ(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
238 "UId and entity handle inconsistency");
239 }
240 if (fe->getName() != m_field.get_field_name(BitFieldId().set(
241 field_bit_number_from_uid - 1))) {
242 MOFEM_LOG("SELF", Sev::error) << *fe;
243 MOFEM_LOG("SELF", Sev::error)
244 << "UId field bit "
245 << m_field.get_field_name(
246 BitFieldId().set(field_bit_number_from_uid - 1));
247 MOFEM_LOG("SELF", Sev::error)
248 << "Entity owner proc " << fe->getName();
249 SETERRQ(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
250 "UId and entity handle inconsistency");
251 }
252 }
253
254 MoFEMFunctionReturn(0);
255 };
256
257 CHKERR check_consistency_of_uids();
258
259 // destry dm
260 CHKERR DMDestroy(&dm);
261 }
262 CATCH_ERRORS;
263
264 // finish work cleaning memory, getting statistics, ect.
265 CHKERR MoFEM::Core::Finalize();
266
267 return 0;
268}
CATCH_ERRORS
#define CATCH_ERRORS
Catch errors.
Definition: definitions.h:372
AINSWORTH_LEGENDRE_BASE
@ AINSWORTH_LEGENDRE_BASE
Ainsworth Cole (Legendre) approx. base .
Definition: definitions.h:60
L2
@ L2
field with C-1 continuity
Definition: definitions.h:88
H1
@ H1
continuous field
Definition: definitions.h:85
MYPCOMM_INDEX
#define MYPCOMM_INDEX
default communicator number PCOMM
Definition: definitions.h:215
MoFEMFunctionBegin
#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
@ MOFEM_ATOM_TEST_INVALID
Definition: definitions.h:40
MOFEM_DATA_INCONSISTENCY
@ MOFEM_DATA_INCONSISTENCY
Definition: definitions.h:31
MoFEMFunctionReturn
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:416
CHKERR
#define CHKERR
Inline error check.
Definition: definitions.h:535
order
constexpr int order
Definition: dg_projection.cpp:18
help
static char help[]
Definition: dm_build_partitioned_mesh.cpp:11
m
FTensor::Index< 'm', SPACE_DIM > m
Definition: fluid_structure_eigenproblem.cpp:65
MoFEM::DMMoFEMSetIsPartitioned
PetscErrorCode DMMoFEMSetIsPartitioned(DM dm, PetscBool is_partitioned)
Definition: DMMoFEM.cpp:1109
MoFEM::DMMoFEMAddElement
PetscErrorCode DMMoFEMAddElement(DM dm, std::string fe_name)
add element to dm
Definition: DMMoFEM.cpp:483
MoFEM::DMMoFEMSetSquareProblem
PetscErrorCode DMMoFEMSetSquareProblem(DM dm, PetscBool square_problem)
set squared problem
Definition: DMMoFEM.cpp:442
MoFEM::DMMoFEMCreateMoFEM
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: DMMoFEM.cpp:118
MoFEM::DMCreateMatrix_MoFEM
PetscErrorCode DMCreateMatrix_MoFEM(DM dm, Mat *M)
Definition: DMMoFEM.cpp:1183
MoFEM::DMRegister_MoFEM
PetscErrorCode DMRegister_MoFEM(const char sname[])
Register MoFEM problem.
Definition: DMMoFEM.cpp:47
MoFEM::DMoFEMLoopFiniteElements
PetscErrorCode DMoFEMLoopFiniteElements(DM dm, const char fe_name[], MoFEM::FEMethod *method, CacheTupleWeakPtr cache_ptr=CacheTupleSharedPtr())
Executes FEMethod for finite elements in DM.
Definition: DMMoFEM.cpp:572
MoFEM::CoreInterface::get_field_ents
virtual const FieldEntity_multiIndex * get_field_ents() const =0
Get the field ents object.
MoFEM::CoreInterface::add_finite_element
virtual MoFEMErrorCode add_finite_element(const std::string &fe_name, enum MoFEMTypes bh=MF_EXCL, int verb=DEFAULT_VERBOSITY)=0
add finite element
MoFEM::CoreInterface::build_finite_elements
virtual MoFEMErrorCode build_finite_elements(int verb=DEFAULT_VERBOSITY)=0
Build finite elements.
MoFEM::CoreInterface::modify_finite_element_add_field_col
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
MoFEM::CoreInterface::add_ents_to_finite_element_by_type
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
MoFEM::CoreInterface::modify_finite_element_add_field_data
virtual MoFEMErrorCode modify_finite_element_add_field_data(const std::string &fe_name, const std::string name_filed)=0
set finite element field data
MoFEM::CoreInterface::modify_finite_element_add_field_row
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
MoFEM::CoreInterface::build_fields
virtual MoFEMErrorCode build_fields(int verb=DEFAULT_VERBOSITY)=0
MoFEM::CoreInterface::set_field_order
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.
MoFEM::CoreInterface::add_ents_to_field_by_type
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.
MOFEM_LOG
#define MOFEM_LOG(channel, severity)
Log.
Definition: LogManager.hpp:308
mesh_file_name
char mesh_file_name[255]
Definition: mesh_smoothing.cpp:23
MoFEM::Types::BitFieldId
std::bitset< BITFIELDID_SIZE > BitFieldId
Field Id.
Definition: Types.hpp:42
MoFEM::Types::BitRefLevel
std::bitset< BITREFLEVEL_SIZE > BitRefLevel
Bit structure attached to each entity identifying to what mesh entity is attached.
Definition: Types.hpp:40
MoFEM::PetscOptionsGetInt
PetscErrorCode PetscOptionsGetInt(PetscOptions *, const char pre[], const char name[], PetscInt *ivalue, PetscBool *set)
Definition: DeprecatedPetsc.hpp:142
MoFEM::PetscOptionsGetBool
PetscErrorCode PetscOptionsGetBool(PetscOptions *, const char pre[], const char name[], PetscBool *bval, PetscBool *set)
Definition: DeprecatedPetsc.hpp:182
MoFEM::PetscOptionsGetString
PetscErrorCode PetscOptionsGetString(PetscOptions *, const char pre[], const char name[], char str[], size_t size, PetscBool *set)
Definition: DeprecatedPetsc.hpp:172
MoFEM::BitRefManager
Managing BitRefLevels.
Definition: BitRefManager.hpp:21
MoFEM::CoreInterface::build_adjacencies
virtual MoFEMErrorCode build_adjacencies(const Range &ents, int verb=DEFAULT_VERBOSITY)=0
build adjacencies
MoFEM::CoreInterface::get_field_name
virtual std::string get_field_name(const BitFieldId id) const =0
get field name from id
MoFEM::CoreInterface::add_field
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.
MoFEM::CoreTmp< 0 >
Core (interface) class.
Definition: Core.hpp:82
MoFEM::CoreTmp< 0 >::Initialize
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
MoFEM::CoreTmp< 0 >::Finalize
static MoFEMErrorCode Finalize()
Checks for options to be called at the conclusion of the program.
Definition: Core.cpp:112
MoFEM::DeprecatedCoreInterface
Deprecated interface functions.
Definition: DeprecatedCoreInterface.hpp:16
MoFEM::FieldEntity::getHandleFromUniqueId
static auto getHandleFromUniqueId(const UId uid)
Get the Handle From Unique Id.
Definition: FieldEntsMultiIndices.hpp:192
MoFEM::FieldEntity::getFieldBitNumberFromUniqueId
static auto getFieldBitNumberFromUniqueId(const UId uid)
Get the Field Bit Number From Unique Id.
Definition: FieldEntsMultiIndices.hpp:205
MoFEM::FieldEntity::getOwnerFromUniqueId
static auto getOwnerFromUniqueId(const UId uid)
Definition: FieldEntsMultiIndices.hpp:177
MoFEM::ISManager
Section manager is used to create indexes and sections.
Definition: ISManager.hpp:23
MoFEM::MatrixManager
Matrix manager is used to build and partition problems.
Definition: MatrixManager.hpp:21
MoFEM::SmartPetscObj
intrusive_ptr for managing petsc objects
Definition: PetscSmartObj.hpp:79
MoFEM::UnknownInterface::getInterface
MoFEMErrorCode getInterface(IFACE *&iface) const
Get interface refernce to pointer of interface.
Definition: UnknownInterface.hpp:93

Variable Documentation

◆ help

char help[] = "...\n\n"
static

Definition at line 11 of file dm_build_partitioned_mesh.cpp.

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