v0.13.1
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testing_jacobian_of_hook_element.cpp

Testing implementation of Hook element by verifying tangent stiffness matrix. Test like this is an example of how to verify the implementation of Jacobian.

/** \file testing_jacobian_of_hook_element.cpp
* \example testing_jacobian_of_hook_element.cpp
Testing implementation of Hook element by verifying tangent stiffness matrix.
Test like this is an example of how to verify the implementation of Jacobian.
*/
using namespace boost::numeric;
using namespace MoFEM;
static char help[] = "\n";
int main(int argc, char *argv[]) {
// Initialize MoFEM
MoFEM::Core::Initialize(&argc, &argv, (char *)0, help);
// Create mesh database
moab::Core mb_instance; // create database
moab::Interface &moab = mb_instance; // create interface to database
try {
// Create MoFEM database and link it to MoAB
MoFEM::Core core(moab);
MoFEM::Interface &m_field = core;
PetscBool ale = PETSC_FALSE;
CHKERR PetscOptionsGetBool(PETSC_NULL, "", "-ale", &ale, PETSC_NULL);
PetscBool test_jacobian = PETSC_FALSE;
CHKERR PetscOptionsGetBool(PETSC_NULL, "", "-test_jacobian", &test_jacobian,
PETSC_NULL);
CHKERR DMRegister_MoFEM("DMMOFEM");
Simple *si = m_field.getInterface<MoFEM::Simple>();
const int order = 2;
if (ale == PETSC_TRUE) {
CHKERR si->setFieldOrder("X", 2);
}
CHKERR si->setUp();
// create DM
DM dm;
CHKERR si->getDM(&dm);
// Projection on "x" field
{
Projection10NodeCoordsOnField ent_method(m_field, "x");
CHKERR m_field.loop_dofs("x", ent_method);
// CHKERR m_field.getInterface<FieldBlas>()->fieldScale(2, "x");
}
// Project coordinates on "X" field
if (ale == PETSC_TRUE) {
Projection10NodeCoordsOnField ent_method(m_field, "X");
CHKERR m_field.loop_dofs("X", ent_method);
// CHKERR m_field.getInterface<FieldBlas>()->fieldScale(2, "X");
}
boost::shared_ptr<ForcesAndSourcesCore> fe_lhs_ptr(
boost::shared_ptr<ForcesAndSourcesCore> fe_rhs_ptr(
struct VolRule {
int operator()(int, int, int) const { return 2 * (order - 1); }
};
fe_lhs_ptr->getRuleHook = VolRule();
fe_rhs_ptr->getRuleHook = VolRule();
CHKERR DMMoFEMSNESSetJacobian(dm, si->getDomainFEName(), fe_lhs_ptr,
nullptr, nullptr);
CHKERR DMMoFEMSNESSetFunction(dm, si->getDomainFEName(), fe_rhs_ptr,
nullptr, nullptr);
boost::shared_ptr<map<int, BlockData>> block_sets_ptr =
boost::make_shared<map<int, BlockData>>();
(*block_sets_ptr)[0].iD = 0;
(*block_sets_ptr)[0].E = 1;
(*block_sets_ptr)[0].PoissonRatio = 0.25;
si->getDomainFEName(), 3, (*block_sets_ptr)[0].tEts);
CHKERR HookeElement::setOperators(fe_lhs_ptr, fe_rhs_ptr, block_sets_ptr,
"x", "X", ale, false);
Vec x, f;
CHKERR DMCreateGlobalVector(dm, &x);
CHKERR VecDuplicate(x, &f);
CHKERR DMoFEMMeshToLocalVector(dm, x, INSERT_VALUES, SCATTER_FORWARD);
// CHKERR VecDuplicate(x, &dx);
// PetscRandom rctx;
// PetscRandomCreate(PETSC_COMM_WORLD, &rctx);
// VecSetRandom(dx, rctx);
// PetscRandomDestroy(&rctx);
// CHKERR DMoFEMMeshToGlobalVector(dm, x, INSERT_VALUES, SCATTER_REVERSE);
Mat A, fdA;
CHKERR DMCreateMatrix(dm, &A);
CHKERR MatDuplicate(A, MAT_DO_NOT_COPY_VALUES, &fdA);
if (test_jacobian == PETSC_TRUE) {
char testing_options[] =
"-snes_test_jacobian -snes_test_jacobian_display "
"-snes_no_convergence_test -snes_atol 0 -snes_rtol 0 -snes_max_it 1 "
"-pc_type none";
CHKERR PetscOptionsInsertString(NULL, testing_options);
} else {
char testing_options[] = "-snes_no_convergence_test -snes_atol 0 "
"-snes_rtol 0 -snes_max_it 1 -pc_type none";
CHKERR PetscOptionsInsertString(NULL, testing_options);
}
SNES snes;
CHKERR SNESCreate(PETSC_COMM_WORLD, &snes);
MoFEM::SnesCtx *snes_ctx;
CHKERR DMMoFEMGetSnesCtx(dm, &snes_ctx);
CHKERR SNESSetFunction(snes, f, SnesRhs, snes_ctx);
CHKERR SNESSetJacobian(snes, A, A, SnesMat, snes_ctx);
CHKERR SNESSetFromOptions(snes);
CHKERR SNESSolve(snes, NULL, x);
if (test_jacobian == PETSC_FALSE) {
double nrm_A0;
CHKERR MatNorm(A, NORM_INFINITY, &nrm_A0);
char testing_options_fd[] = "-snes_fd";
CHKERR PetscOptionsInsertString(NULL, testing_options_fd);
CHKERR SNESSetFunction(snes, f, SnesRhs, snes_ctx);
CHKERR SNESSetJacobian(snes, fdA, fdA, SnesMat, snes_ctx);
CHKERR SNESSetFromOptions(snes);
CHKERR SNESSolve(snes, NULL, x);
CHKERR MatAXPY(A, -1, fdA, SUBSET_NONZERO_PATTERN);
double nrm_A;
CHKERR MatNorm(A, NORM_INFINITY, &nrm_A);
PetscPrintf(PETSC_COMM_WORLD, "Matrix norms %3.4e %3.4e\n", nrm_A,
nrm_A / nrm_A0);
nrm_A /= nrm_A0;
const double tol = 1e-5;
if (nrm_A > tol) {
SETERRQ(PETSC_COMM_WORLD, MOFEM_ATOM_TEST_INVALID,
"Difference between hand-calculated tangent matrix and finite "
"difference matrix is too big");
}
}
CHKERR VecDestroy(&x);
CHKERR VecDestroy(&f);
CHKERR MatDestroy(&A);
CHKERR MatDestroy(&fdA);
CHKERR SNESDestroy(&snes);
// destroy DM
CHKERR DMDestroy(&dm);
}
// finish work cleaning memory, getting statistics, etc
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
@ H1
continuous field
Definition: definitions.h:85
@ MOFEM_ATOM_TEST_INVALID
Definition: definitions.h:40
#define CHKERR
Inline error check.
Definition: definitions.h:535
virtual MoFEMErrorCode get_finite_element_entities_by_dimension(const std::string name, int dim, Range &ents) const =0
get entities in the finite element by dimension
virtual MoFEMErrorCode loop_dofs(const Problem *problem_ptr, const std::string &field_name, RowColData rc, DofMethod &method, int lower_rank, int upper_rank, int verb=DEFAULT_VERBOSITY)=0
Make a loop over dofs.
double tol
implementation of Data Operators for Forces and Sources
Definition: Common.hpp:10
constexpr AssemblyType A
Definition: plastic.cpp:46
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.
Projection of edge entities with one mid-node on hierarchical basis.
Simple interface for fast problem set-up.
Definition: Simple.hpp:26
MoFEMErrorCode addDomainField(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_ZERO, int verb=-1)
Add field on domain.
Definition: Simple.cpp:373
MoFEMErrorCode getOptions()
get options
Definition: Simple.cpp:289
MoFEMErrorCode getDM(DM *dm)
Get DM.
Definition: Simple.cpp:780
MoFEMErrorCode loadFile(const std::string options, const std::string mesh_file_name)
Load mesh file.
Definition: Simple.cpp:303
MoFEMErrorCode setFieldOrder(const std::string field_name, const int order, const Range *ents=NULL)
Set field order.
Definition: Simple.cpp:588
MoFEMErrorCode setUp(const PetscBool is_partitioned=PETSC_TRUE)
Setup problem.
Definition: Simple.cpp:723
const std::string getDomainFEName() const
Get the Domain FE Name.
Definition: Simple.hpp:313
Interface for nonlinear (SNES) solver.
Definition: SnesCtx.hpp:15
MoFEMErrorCode getInterface(IFACE *&iface) const
Get interface refernce to pointer of interface.
data for calculation heat conductivity and heat capacity elements
Set integration rule.
int operator()(int, int, int) const