def updMassMatMS(self, elmLst, elmCompDiagMassMat, rho=1.0):
self.M = mfem.ParBilinearForm(self.fespace)
self.ro = mfem.ConstantCoefficient(rho)
self.M.AddDomainIntegrator(mfem.VectorMassIntegrator(self.ro))
print("in updateMass")
self.M.Assemble(0, elmLst, elmCompDiagMassMat, True, True)
self.M.EliminateEssentialBC(self.vess_bdr)
self.M.Finalize(0)
self.Mmat = self.M.ParallelAssemble()
self.M_solver.SetOperator(self.Mmat)
def SetParameters(self, u):
u_alpha_gf = mfem.ParGridFunction(self.fespace)
u_alpha_gf.SetFromTrueDofs(u)
for i in range(u_alpha_gf.Size()):
u_alpha_gf[i] = self.kappa + self.alpha * u_alpha_gf[i]
self.K = mfem.ParBilinearForm(self.fespace)
u_coeff = mfem.GridFunctionCoefficient(u_alpha_gf)
self.K.AddDomainIntegrator(mfem.DiffusionIntegrator(u_coeff))
self.K.Assemble(0)
self.K.FormSystemMatrix(self.ess_tdof_list, self.Kmat)
self.T = None
def __init__(self, spaces, ess_bdr, block_offsets, rel_tol, abs_tol, iter,
mu):
# Array<Vector *> -> tuple
super(RubberOperator,
self).__init__(spaces[0].TrueVSize() + spaces[1].TrueVSize())
rhs = (None, None)
self.spaces = spaces
self.mu = mfem.ConstantCoefficient(mu)
self.block_offsets = block_offsets
Hform = mfem.ParBlockNonlinearForm(spaces)
Hform.AddDomainIntegrator(
mfem.IncompressibleNeoHookeanIntegrator(self.mu))
Hform.SetEssentialBC(ess_bdr, rhs)
self.Hform = Hform
a = mfem.ParBilinearForm(self.spaces[1])
one = mfem.ConstantCoefficient(1.0)
mass = mfem.OperatorHandle(mfem.Operator.Hypre_ParCSR)
a.AddDomainIntegrator(mfem.MassIntegrator(one))
a.Assemble()
a.Finalize()
a.ParallelAssemble(mass)
mass.SetOperatorOwner(False)
pressure_mass = mass.Ptr()
self.j_prec = JacobianPreconditioner(spaces, pressure_mass,
block_offsets)
j_gmres = mfem.GMRESSolver(MPI.COMM_WORLD)
j_gmres.iterative_mode = False
j_gmres.SetRelTol(1e-12)
j_gmres.SetAbsTol(1e-12)
j_gmres.SetMaxIter(300)
j_gmres.SetPrintLevel(0)
j_gmres.SetPreconditioner(self.j_prec)
self.j_solver = j_gmres
newton_solver = mfem.NewtonSolver(MPI.COMM_WORLD)
# Set the newton solve parameters
newton_solver.iterative_mode = True
newton_solver.SetSolver(self.j_solver)
newton_solver.SetOperator(self)
newton_solver.SetPrintLevel(1)
newton_solver.SetRelTol(rel_tol)
newton_solver.SetAbsTol(abs_tol)
newton_solver.SetMaxIter(iter)
self.newton_solver = newton_solver
def updStiffMatMS(self, elmLst, elmCompStiffMat):
self.K = mfem.ParBilinearForm(self.fespace)
lambVec = mfem.Vector(self.fespace.GetMesh().attributes.Max())
lambVec.Assign(self.lmbda)
lambVec[0] = lambVec[1]
lambda_func = mfem.PWConstCoefficient(lambVec)
muVec = mfem.Vector(self.fespace.GetMesh().attributes.Max())
muVec.Assign(self.mu)
muVec[0] = muVec[1]
mu_func = mfem.PWConstCoefficient(muVec)
self.K.AddDomainIntegrator(
mfem.ElasticityIntegrator(lambda_func, mu_func))
self.K.Assemble(0, elmLst, elmCompStiffMat, False, True)
self.Kmat = mfem.HypreParMatrix()
empty_tdof_list = intArray()
self.K.FormLinearSystem(empty_tdof_list, self.x_gfBdr, self.bx,
self.Kmat, self.vx.GetBlock(1), self.Bx, 1)
def __init__(self, fespace, alpha, kappa, u):
mfem.PyTimeDependentOperator.__init__(self, fespace.GetTrueVSize(),
0.0)
rel_tol = 1e-8
self.alpha = alpha
self.kappa = kappa
self.T = None
self.K = None
self.M = None
self.fespace = fespace
self.ess_tdof_list = intArray()
self.Mmat = mfem.HypreParMatrix()
self.Kmat = mfem.HypreParMatrix()
self.M_solver = mfem.CGSolver(fespace.GetComm())
self.M_prec = mfem.HypreSmoother()
self.T_solver = mfem.CGSolver(fespace.GetComm())
self.T_prec = mfem.HypreSmoother()
self.z = mfem.Vector(self.Height())
self.M = mfem.ParBilinearForm(fespace)
self.M.AddDomainIntegrator(mfem.MassIntegrator())
self.M.Assemble()
self.M.FormSystemMatrix(self.ess_tdof_list, self.Mmat)
self.M_solver.iterative_mode = False
self.M_solver.SetRelTol(rel_tol)
self.M_solver.SetAbsTol(0.0)
self.M_solver.SetMaxIter(100)
self.M_solver.SetPrintLevel(0)
self.M_prec.SetType(mfem.HypreSmoother.Jacobi)
self.M_solver.SetPreconditioner(self.M_prec)
self.M_solver.SetOperator(self.Mmat)
self.T_solver.iterative_mode = False
self.T_solver.SetRelTol(rel_tol)
self.T_solver.SetAbsTol(0.0)
self.T_solver.SetMaxIter(100)
self.T_solver.SetPrintLevel(0)
self.T_solver.SetPreconditioner(self.T_prec)
self.SetParameters(u)
# Inflow boundary condition (zero for the problems considered in this example)
class inflow_coeff(mfem.PyCoefficient):
def EvalValue(self, x):
return 0
# 8. Set up and assemble the bilinear and linear forms corresponding to the
# DG discretization. The DGTraceIntegrator involves integrals over mesh
# interior faces.
velocity = velocity_coeff(dim)
inflow = inflow_coeff()
u0 = u0_coeff()
m = mfem.ParBilinearForm(fes)
m.AddDomainIntegrator(mfem.MassIntegrator())
k = mfem.ParBilinearForm(fes)
k.AddDomainIntegrator(mfem.ConvectionIntegrator(velocity, -1.0))
k.AddInteriorFaceIntegrator(
mfem.TransposeIntegrator(mfem.DGTraceIntegrator(velocity, 1.0, -0.5)))
k.AddBdrFaceIntegrator(
mfem.TransposeIntegrator(mfem.DGTraceIntegrator(velocity, 1.0, -0.5)))
b = mfem.ParLinearForm(fes)
b.AddBdrFaceIntegrator(
mfem.BoundaryFlowIntegrator(inflow, velocity, -1.0, -0.5))
m.Assemble()
m.Finalize()
skip_zeros = 0
# 5. Define a parallel mesh by partitioning the serial mesh. Once the # parallel mesh is defined, the serial mesh can be deleted. pmesh = mfem.ParMesh(MPI.COMM_WORLD, mesh) del mesh ess_bdr = mfem.intArray(pmesh.bdr_attributes.Max()) ess_bdr.Assign(1) # 6. Define a finite element space on the mesh. The polynomial order is one # (linear) by default, but this can be changed on the command line. fec = mfem.H1_FECollection(order, dim) fespace = mfem.ParFiniteElementSpace(pmesh, fec) # 7. As in Example 1p, we set up bilinear and linear forms corresponding to # the Laplace problem -\Delta u = 1. We don't assemble the discrete # problem yet, this will be done in the inner loop. a = mfem.ParBilinearForm(fespace) b = mfem.ParLinearForm(fespace) one = mfem.ConstantCoefficient(1.0) bdr = BdrCoefficient() rhs = RhsCoefficient() integ = mfem.DiffusionIntegrator(one) a.AddDomainIntegrator(integ) b.AddDomainIntegrator(mfem.DomainLFIntegrator(rhs)) # 8. The solution vector x and the associated finite element grid function # will be maintained over the AMR iterations. x = mfem.ParGridFunction(fespace) # 9. Connect to GLVis.
ess_bdr.Assign(1) ess_dof = mfem.intArray() x0_space.GetEssentialVDofs(ess_bdr, ess_dof) B0 = mfem.ParMixedBilinearForm(x0_space, test_space) B0.AddDomainIntegrator(mfem.DiffusionIntegrator(one)) B0.Assemble() B0.EliminateEssentialBCFromTrialDofs(ess_dof, x0, F) B0.Finalize() Bhat = mfem.ParMixedBilinearForm(xhat_space, test_space) Bhat.AddTraceFaceIntegrator(mfem.TraceJumpIntegrator()) Bhat.Assemble() Bhat.Finalize() Sinv = mfem.ParBilinearForm(test_space) Sum = mfem.SumIntegrator() Sum.AddIntegrator(mfem.DiffusionIntegrator(one)) Sum.AddIntegrator(mfem.MassIntegrator(one)) Sinv.AddDomainIntegrator(mfem.InverseIntegrator(Sum)) Sinv.Assemble() Sinv.Finalize() S0 = mfem.ParBilinearForm(x0_space) S0.AddDomainIntegrator(mfem.DiffusionIntegrator(one)) S0.Assemble() S0.EliminateEssentialBC(ess_bdr) S0.Finalize() matB0 = B0.ParallelAssemble() del B0
trueRhs = mfem.BlockVector(block_trueOffsets) fform = mfem.ParLinearForm() fform.Update(R_space, rhs.GetBlock(0), 0) fform.AddDomainIntegrator(mfem.VectorFEDomainLFIntegrator(fcoeff)) fform.AddBoundaryIntegrator(mfem.VectorFEBoundaryFluxLFIntegrator(fnatcoeff)) fform.Assemble() fform.ParallelAssemble(trueRhs.GetBlock(0)) gform = mfem.ParLinearForm() gform.Update(W_space, rhs.GetBlock(1), 0) gform.AddDomainIntegrator(mfem.DomainLFIntegrator(gcoeff)) gform.Assemble() gform.ParallelAssemble(trueRhs.GetBlock(1)) mVarf = mfem.ParBilinearForm(R_space) bVarf = mfem.ParMixedBilinearForm(R_space, W_space) mVarf.AddDomainIntegrator(mfem.VectorFEMassIntegrator(k)) mVarf.Assemble() mVarf.Finalize() M = mVarf.ParallelAssemble() bVarf.AddDomainIntegrator(mfem.VectorFEDivergenceIntegrator()) bVarf.Assemble() bVarf.Finalize() B = bVarf.ParallelAssemble() B *= -1 BT = B.Transpose() darcyOp = mfem.BlockOperator(block_trueOffsets)
def __init__(self, fespace, ess_bdr, visc, mu, K):
mfem.PyTimeDependentOperator.__init__(self, 2 * fespace.TrueVSize(),
0.0)
rel_tol = 1e-8
skip_zero_entries = 0
ref_density = 1.0
self.ess_tdof_list = intArray()
self.z = mfem.Vector(self.Height() // 2)
self.fespace = fespace
self.viscosity = visc
self.newton_solver = mfem.NewtonSolver(fespace.GetComm())
M = mfem.ParBilinearForm(fespace)
S = mfem.ParBilinearForm(fespace)
H = mfem.ParNonlinearForm(fespace)
self.M = M
self.H = H
self.S = S
rho = mfem.ConstantCoefficient(ref_density)
M.AddDomainIntegrator(mfem.VectorMassIntegrator(rho))
M.Assemble(skip_zero_entries)
M.EliminateEssentialBC(ess_bdr)
M.Finalize(skip_zero_entries)
self.Mmat = M.ParallelAssemble()
fespace.GetEssentialTrueDofs(ess_bdr, self.ess_tdof_list)
self.Mmat.EliminateRowsCols(self.ess_tdof_list)
M_solver = mfem.CGSolver(fespace.GetComm())
M_prec = mfem.HypreSmoother()
M_solver.iterative_mode = False
M_solver.SetRelTol(rel_tol)
M_solver.SetAbsTol(0.0)
M_solver.SetMaxIter(30)
M_solver.SetPrintLevel(0)
M_prec.SetType(mfem.HypreSmoother.Jacobi)
M_solver.SetPreconditioner(M_prec)
M_solver.SetOperator(self.Mmat)
self.M_solver = M_solver
self.M_prec = M_prec
model = mfem.NeoHookeanModel(mu, K)
H.AddDomainIntegrator(mfem.HyperelasticNLFIntegrator(model))
H.SetEssentialTrueDofs(self.ess_tdof_list)
self.model = model
visc_coeff = mfem.ConstantCoefficient(visc)
S.AddDomainIntegrator(mfem.VectorDiffusionIntegrator(visc_coeff))
S.Assemble(skip_zero_entries)
S.EliminateEssentialBC(ess_bdr)
S.Finalize(skip_zero_entries)
self.reduced_oper = ReducedSystemOperator(M, S, H, self.ess_tdof_list)
J_hypreSmoother = mfem.HypreSmoother()
J_hypreSmoother.SetType(mfem.HypreSmoother.l1Jacobi)
J_hypreSmoother.SetPositiveDiagonal(True)
J_prec = J_hypreSmoother
J_minres = mfem.MINRESSolver(fespace.GetComm())
J_minres.SetRelTol(rel_tol)
J_minres.SetAbsTol(0.0)
J_minres.SetMaxIter(300)
J_minres.SetPrintLevel(-1)
J_minres.SetPreconditioner(J_prec)
self.J_solver = J_minres
self.J_prec = J_prec
newton_solver = mfem.NewtonSolver(fespace.GetComm())
newton_solver.iterative_mode = False
newton_solver.SetSolver(self.J_solver)
newton_solver.SetOperator(self.reduced_oper)
newton_solver.SetPrintLevel(1)
#print Newton iterations
newton_solver.SetRelTol(rel_tol)
newton_solver.SetAbsTol(0.0)
newton_solver.SetMaxIter(10)
self.newton_solver = newton_solver
def run(order = 1, static_cond = False,
meshfile = def_meshfile, visualization = False,
use_strumpack = False):
mesh = mfem.Mesh(meshfile, 1,1)
dim = mesh.Dimension()
ref_levels = int(np.floor(np.log(10000./mesh.GetNE())/np.log(2.)/dim))
for x in range(ref_levels):
mesh.UniformRefinement();
mesh.ReorientTetMesh();
pmesh = mfem.ParMesh(MPI.COMM_WORLD, mesh)
del mesh
par_ref_levels = 2
for l in range(par_ref_levels):
pmesh.UniformRefinement();
if order > 0:
fec = mfem.H1_FECollection(order, dim)
elif mesh.GetNodes():
fec = mesh.GetNodes().OwnFEC()
print( "Using isoparametric FEs: " + str(fec.Name()));
else:
order = 1
fec = mfem.H1_FECollection(order, dim)
fespace =mfem.ParFiniteElementSpace(pmesh, fec)
fe_size = fespace.GlobalTrueVSize()
if (myid == 0):
print('Number of finite element unknowns: '+ str(fe_size))
ess_tdof_list = mfem.intArray()
if pmesh.bdr_attributes.Size()>0:
ess_bdr = mfem.intArray(pmesh.bdr_attributes.Max())
ess_bdr.Assign(1)
fespace.GetEssentialTrueDofs(ess_bdr, ess_tdof_list)
# the basis functions in the finite element fespace.
b = mfem.ParLinearForm(fespace)
one = mfem.ConstantCoefficient(1.0)
b.AddDomainIntegrator(mfem.DomainLFIntegrator(one))
b.Assemble();
x = mfem.ParGridFunction(fespace);
x.Assign(0.0)
a = mfem.ParBilinearForm(fespace);
a.AddDomainIntegrator(mfem.DiffusionIntegrator(one))
if static_cond: a.EnableStaticCondensation()
a.Assemble();
A = mfem.HypreParMatrix()
B = mfem.Vector()
X = mfem.Vector()
a.FormLinearSystem(ess_tdof_list, x, b, A, X, B)
if (myid == 0):
print("Size of linear system: " + str(x.Size()))
print("Size of linear system: " + str(A.GetGlobalNumRows()))
if use_strumpack:
import mfem.par.strumpack as strmpk
Arow = strmpk.STRUMPACKRowLocMatrix(A)
args = ["--sp_hss_min_sep_size", "128", "--sp_enable_hss"]
strumpack = strmpk.STRUMPACKSolver(args, MPI.COMM_WORLD)
strumpack.SetPrintFactorStatistics(True)
strumpack.SetPrintSolveStatistics(False)
strumpack.SetKrylovSolver(strmpk.KrylovSolver_DIRECT);
strumpack.SetReorderingStrategy(strmpk.ReorderingStrategy_METIS)
strumpack.SetMC64Job(strmpk.MC64Job_NONE)
# strumpack.SetSymmetricPattern(True)
strumpack.SetOperator(Arow)
strumpack.SetFromCommandLine()
strumpack.Mult(B, X);
else:
amg = mfem.HypreBoomerAMG(A)
cg = mfem.CGSolver(MPI.COMM_WORLD)
cg.SetRelTol(1e-12)
cg.SetMaxIter(200)
cg.SetPrintLevel(1)
cg.SetPreconditioner(amg)
cg.SetOperator(A)
cg.Mult(B, X);
a.RecoverFEMSolution(X, b, x)
smyid = '{:0>6d}'.format(myid)
mesh_name = "mesh."+smyid
sol_name = "sol."+smyid
pmesh.Print(mesh_name, 8)
x.Save(sol_name, 8)
def run(order = 1, static_cond = False,
meshfile = def_meshfile, visualization = False):
mesh = mfem.Mesh(meshfile, 1,1)
dim = mesh.Dimension()
ref_levels = int(np.floor(np.log(10000./mesh.GetNE())/np.log(2.)/dim))
for x in range(ref_levels):
mesh.UniformRefinement();
mesh.ReorientTetMesh();
pmesh = mfem.ParMesh(MPI.COMM_WORLD, mesh)
del mesh
par_ref_levels = 2
for l in range(par_ref_levels):
pmesh.UniformRefinement();
if order > 0:
fec = mfem.H1_FECollection(order, dim)
elif mesh.GetNodes():
fec = mesh.GetNodes().OwnFEC()
prinr( "Using isoparametric FEs: " + str(fec.Name()));
else:
order = 1
fec = mfem.H1_FECollection(order, dim)
fespace =mfem.ParFiniteElementSpace(pmesh, fec)
fe_size = fespace.GlobalTrueVSize()
if (myid == 0):
print('Number of finite element unknowns: '+ str(fe_size))
ess_tdof_list = mfem.intArray()
if pmesh.bdr_attributes.Size()>0:
ess_bdr = mfem.intArray(pmesh.bdr_attributes.Max())
ess_bdr.Assign(1)
fespace.GetEssentialTrueDofs(ess_bdr, ess_tdof_list)
# the basis functions in the finite element fespace.
b = mfem.ParLinearForm(fespace)
one = mfem.ConstantCoefficient(1.0)
b.AddDomainIntegrator(mfem.DomainLFIntegrator(one))
b.Assemble();
x = mfem.ParGridFunction(fespace);
x.Assign(0.0)
a = mfem.ParBilinearForm(fespace);
a.AddDomainIntegrator(mfem.DiffusionIntegrator(one))
if static_cond: a.EnableStaticCondensation()
a.Assemble();
A = mfem.HypreParMatrix()
B = mfem.Vector()
X = mfem.Vector()
a.FormLinearSystem(ess_tdof_list, x, b, A, X, B)
if (myid == 0):
print("Size of linear system: " + str(x.Size()))
print("Size of linear system: " + str(A.GetGlobalNumRows()))
amg = mfem.HypreBoomerAMG(A)
pcg = mfem.HyprePCG(A)
pcg.SetTol(1e-12)
pcg.SetMaxIter(200)
pcg.SetPrintLevel(2)
pcg.SetPreconditioner(amg)
pcg.Mult(B, X);
a.RecoverFEMSolution(X, b, x)
smyid = '{:0>6d}'.format(myid)
mesh_name = "mesh."+smyid
sol_name = "sol."+smyid
pmesh.PrintToFile(mesh_name, 8)
x.SaveToFile(sol_name, 8)
def __init__(self,
fespace,
lmbda=1.,
mu=1.,
rho=1.,
visc=0.0,
vess_tdof_list=None,
vess_bdr=None,
xess_tdof_list=None,
xess_bdr=None,
v_gfBdr=None,
x_gfBdr=None,
deform=None,
velo=None,
vx=None):
mfem.PyTimeDependentOperator.__init__(self, 2 * fespace.GetTrueVSize(),
0.0)
self.lmbda = lmbda
self.mu = mu
self.viscosity = visc
self.deform = deform
self.velo = velo
self.x_gfBdr = x_gfBdr
self.v_gfBdr = v_gfBdr
self.vx = vx
self.z = mfem.Vector(self.Height() / 2)
self.z.Assign(0.0)
self.w = mfem.Vector(self.Height() / 2)
self.w.Assign(0.0)
self.tmpVec = mfem.Vector(self.Height() / 2)
self.tmpVec.Assign(0.0)
self.fespace = fespace
self.xess_bdr = xess_bdr
self.vess_bdr = vess_bdr
self.xess_tdof_list = xess_tdof_list
self.vess_tdof_list = vess_tdof_list
# setting up linear form
cv = mfem.Vector(3)
cv.Assign(0.0)
#self.zero_coef = mfem.ConstantCoefficient(0.0)
self.zero_coef = mfem.VectorConstantCoefficient(cv)
self.bx = mfem.LinearForm(self.fespace)
self.bx.AddDomainIntegrator(
mfem.VectorBoundaryLFIntegrator(self.zero_coef))
self.bx.Assemble()
self.bv = mfem.LinearForm(self.fespace)
self.bv.AddDomainIntegrator(
mfem.VectorBoundaryLFIntegrator(self.zero_coef))
self.bv.Assemble()
self.Bx = mfem.Vector()
self.Bv = mfem.Vector()
# setting up bilinear forms
self.M = mfem.ParBilinearForm(self.fespace)
self.K = mfem.ParBilinearForm(self.fespace)
self.S = mfem.ParBilinearForm(self.fespace)
self.ro = mfem.ConstantCoefficient(rho)
self.M.AddDomainIntegrator(mfem.VectorMassIntegrator(self.ro))
self.M.Assemble(0)
self.M.EliminateEssentialBC(self.vess_bdr)
self.M.Finalize(0)
self.Mmat = self.M.ParallelAssemble()
self.M_solver = mfem.CGSolver(self.fespace.GetComm())
self.M_solver.iterative_mode = False
self.M_solver.SetRelTol(1e-8)
self.M_solver.SetAbsTol(0.0)
self.M_solver.SetMaxIter(30)
self.M_solver.SetPrintLevel(0)
self.M_prec = mfem.HypreSmoother()
self.M_prec.SetType(mfem.HypreSmoother.Jacobi)
self.M_solver.SetPreconditioner(self.M_prec)
self.M_solver.SetOperator(self.Mmat)
lambVec = mfem.Vector(self.fespace.GetMesh().attributes.Max())
print('Number of volume attributes : ' +
str(self.fespace.GetMesh().attributes.Max()))
lambVec.Assign(lmbda)
lambVec[0] = lambVec[1] * 1.0
lambda_func = mfem.PWConstCoefficient(lambVec)
muVec = mfem.Vector(self.fespace.GetMesh().attributes.Max())
muVec.Assign(mu)
muVec[0] = muVec[1] * 1.0
mu_func = mfem.PWConstCoefficient(muVec)
self.K.AddDomainIntegrator(
mfem.ElasticityIntegrator(lambda_func, mu_func))
self.K.Assemble(0)
# to set essential BC to zero value uncomment
#self.K.EliminateEssentialBC(self.xess_bdr)
#self.K.Finalize(0)
#self.Kmat = self.K.ParallelAssemble()
# to set essential BC to non-zero uncomment
self.Kmat = mfem.HypreParMatrix()
visc_coeff = mfem.ConstantCoefficient(visc)
self.S.AddDomainIntegrator(mfem.VectorDiffusionIntegrator(visc_coeff))
self.S.Assemble(0)
#self.S.EliminateEssentialBC(self.vess_bdr)
#self.S.Finalize(0)
#self.Smat = self.S.ParallelAssemble()
self.Smat = mfem.HypreParMatrix()
# VX solver for implicit time-stepping
self.VX_solver = mfem.CGSolver(self.fespace.GetComm())
self.VX_solver.iterative_mode = False
self.VX_solver.SetRelTol(1e-8)
self.VX_solver.SetAbsTol(0.0)
self.VX_solver.SetMaxIter(30)
self.VX_solver.SetPrintLevel(0)
self.VX_prec = mfem.HypreSmoother()
self.VX_prec.SetType(mfem.HypreSmoother.Jacobi)
self.VX_solver.SetPreconditioner(self.VX_prec)
# setting up operators
empty_tdof_list = intArray()
self.S.FormLinearSystem(empty_tdof_list, self.v_gfBdr, self.bv,
self.Smat, self.vx.GetBlock(0), self.Bv, 1)
self.K.FormLinearSystem(empty_tdof_list, self.x_gfBdr, self.bx,
self.Kmat, self.vx.GetBlock(1), self.Bx, 1)
def run_test():
print("Test complex_operator module")
Nvert = 6
Nelem = 8
Nbelem = 2
mesh = mfem.Mesh(2, Nvert, Nelem, 2, 3)
tri_v = [[1., 0., 0.], [0., 1., 0.], [-1., 0., 0.], [0., -1., 0.],
[0., 0., 1.], [0., 0., -1.]]
tri_e = [[0, 1, 4], [1, 2, 4], [2, 3, 4], [3, 0, 4], [1, 0, 5], [2, 1, 5],
[3, 2, 5], [0, 3, 5]]
tri_l = [[1, 4], [1, 2]]
for j in range(Nvert):
mesh.AddVertex(tri_v[j])
for j in range(Nelem):
mesh.AddTriangle(tri_e[j], 1)
for j in range(Nbelem):
mesh.AddBdrSegment(tri_l[j], 1)
mesh.FinalizeTriMesh(1, 1, True)
dim = mesh.Dimension()
order = 1
fec = mfem.H1_FECollection(order, dim)
if use_parallel:
mesh = mfem.ParMesh(MPI.COMM_WORLD, mesh)
fes = mfem.ParFiniteElementSpace(mesh, fec)
a1 = mfem.ParBilinearForm(fes)
a2 = mfem.ParBilinearForm(fes)
else:
fes = mfem.FiniteElementSpace(mesh, fec)
a1 = mfem.BilinearForm(fes)
a2 = mfem.BilinearForm(fes)
one = mfem.ConstantCoefficient(1.0)
a1.AddDomainIntegrator(mfem.DiffusionIntegrator(one))
a1.Assemble()
a1.Finalize()
a2.AddDomainIntegrator(mfem.DiffusionIntegrator(one))
a2.Assemble()
a2.Finalize()
if use_parallel:
M1 = a1.ParallelAssemble()
M2 = a2.ParallelAssemble()
M1.Print('M1')
width = fes.GetTrueVSize()
#X = mfem.HypreParVector(fes)
#Y = mfem.HypreParVector(fes)
#X.SetSize(fes.TrueVSize())
#Y.SetSize(fes.TrueVSize())
#from mfem.common.parcsr_extra import ToScipyCoo
#MM1 = ToScipyCoo(M1)
#print(MM1.toarray())
#print(MM1.dot(np.ones(6)))
else:
M1 = a1.SpMat()
M2 = a2.SpMat()
M1.Print('M1')
width = fes.GetVSize()
#X = mfem.Vector()
#Y = mfem.Vector()
#X.SetSize(M1.Width())
#Y.SetSize(M1.Height())
#from mfem.common.sparse_utils import sparsemat_to_scipycsr
#MM1 = sparsemat_to_scipycsr(M1, np.float)
#print(MM1.toarray())
#print(MM1.dot(np.ones(6)))
#X.Assign(0.0)
#X[0] = 1.0
#M1.Mult(X, Y)
#print(Y.GetDataArray())
Mc = mfem.ComplexOperator(M1, M2, hermitan=True)
offsets = mfem.intArray([0, width, width])
offsets.PartialSum()
x = mfem.BlockVector(offsets)
y = mfem.BlockVector(offsets)
x.GetBlock(0).Assign(0)
if myid == 0:
x.GetBlock(0)[0] = 1.0
x.GetBlock(1).Assign(0)
if myid == 0:
x.GetBlock(1)[0] = 1.0
Mc.Mult(x, y)
print("x", x.GetDataArray())
print("y", y.GetDataArray())
if myid == 0:
x.GetBlock(1)[0] = -1.0
x.Print()
Mc.Mult(x, y)
print("x", x.GetDataArray())
print("y", y.GetDataArray())
