def __init__(self):
"""
Constructor.
"""
self.availableFields = \
{'vertex': \
{'info': ["vertex info"],
'data': ["vertex data 1",
"vertex data 2"]},
'cell': \
{'info': ["cell info"],
'data': ["cell data"]}}
filename = "data/twohex8.txt"
from pylith.meshio.MeshIOAscii import MeshIOAscii
iohandler = MeshIOAscii()
iohandler.inventory.filename = filename
from spatialdata.geocoords.CSCart import CSCart
iohandler.inventory.coordsys = CSCart()
iohandler._configure()
from spatialdata.units.Nondimensional import Nondimensional
normalizer = Nondimensional()
normalizer._configure()
mesh = iohandler.read(debug=False, interpolate=False)
from pylith.topology.Fields import Fields
fields = Fields(mesh)
self.mesh = mesh
self.fields = fields
return
def _runTest(self, filenameIn, filenameOut, filenameOutE, faultGroup=None):
from spatialdata.geocoords.CSCart import CSCart
cs = CSCart()
cs._configure()
from pylith.meshio.MeshIOAscii import MeshIOAscii
io = MeshIOAscii()
io.inventory.filename = filenameIn
io.inventory.coordsys = cs
io._configure()
mesh = io.read(debug=False, interpolate=True)
if not faultGroup is None:
from pylith.faults.FaultCohesiveKin import FaultCohesiveKin
fault = FaultCohesiveKin()
fault.inventory.matId = 10
fault.inventory.faultLabel = faultGroup
fault._configure()
nvertices = fault.numVerticesNoMesh(mesh)
firstFaultVertex = 0
firstLagrangeVertex = nvertices
firstFaultCell = 2*nvertices
fault.adjustTopology(mesh,
firstFaultVertex,
firstLagrangeVertex,
firstFaultCell)
from pylith.topology.RefineUniform import RefineUniform
refiner = RefineUniform()
meshRefined = refiner.refine(mesh)
return
def setUp(self):
"""
Setup mesh and associated field.
"""
from spatialdata.geocoords.CSCart import CSCart
cs = CSCart()
cs.inventory.spaceDim = 2
cs._configure()
from spatialdata.units.Nondimensional import Nondimensional
normalizer = Nondimensional()
normalizer._configure()
from pylith.meshio.MeshIOAscii import MeshIOAscii
importer = MeshIOAscii()
importer.inventory.filename = "data/tri3.mesh"
importer.inventory.coordsys = cs
importer._configure()
self.mesh = importer.read(debug=False, interpolate=False)
from pylith.topology.SolutionFields import SolutionFields
fields = SolutionFields(self.mesh)
fields.add("disp t+dt", "displacement")
fields.solutionName("disp t+dt")
solution = fields.solution()
solution.newSection(solution.VERTICES_FIELD, self.mesh.dimension())
solution.allocate()
solution.zero()
self.fields = fields
self.jacobian = Jacobian(solution)
return
def __init__(self):
"""
Constructor.
"""
self.availableFields = \
{'vertex': \
{'info': ["vertex info"],
'data': ["vertex data 1",
"vertex data 2"]},
'cell': \
{'info': ["cell info"],
'data': ["cell data"]}}
filename = "data/twohex8.txt"
from pylith.meshio.MeshIOAscii import MeshIOAscii
iohandler = MeshIOAscii()
iohandler.inventory.filename = filename
from spatialdata.geocoords.CSCart import CSCart
iohandler.inventory.coordsys = CSCart()
iohandler._configure()
from spatialdata.units.Nondimensional import Nondimensional
normalizer = Nondimensional()
normalizer._configure()
mesh = iohandler.read(debug=False, interpolate=False)
from pylith.topology.Fields import Fields
fields = Fields(mesh)
self.mesh = mesh
self.fields = fields
return
def setUp(self):
"""
Setup mesh and associated field.
"""
from spatialdata.geocoords.CSCart import CSCart
cs = CSCart()
cs.inventory.spaceDim = 2
cs._configure()
from spatialdata.units.Nondimensional import Nondimensional
normalizer = Nondimensional()
normalizer._configure()
from pylith.meshio.MeshIOAscii import MeshIOAscii
importer = MeshIOAscii()
importer.inventory.filename = "data/tri3.mesh"
importer.inventory.coordsys = cs
importer._configure()
self.mesh = importer.read(debug=False, interpolate=False)
from pylith.topology.SolutionFields import SolutionFields
fields = SolutionFields(self.mesh)
fields.add("disp t+dt", "displacement")
fields.solutionName("disp t+dt")
solution = fields.solution()
solution.newSection(solution.VERTICES_FIELD, self.mesh.dimension())
solution.allocate()
solution.zero()
self.fields = fields
self.jacobian = Jacobian(solution)
return
def _runTest(self, filenameIn, filenameOut, filenameOutE, faultGroup=None):
from spatialdata.geocoords.CSCart import CSCart
cs = CSCart()
cs._configure()
from pylith.meshio.MeshIOAscii import MeshIOAscii
io = MeshIOAscii()
io.inventory.filename = filenameIn
io.inventory.coordsys = cs
io._configure()
mesh = io.read(debug=False, interpolate=True)
if not faultGroup is None:
from pylith.faults.FaultCohesiveKin import FaultCohesiveKin
fault = FaultCohesiveKin()
fault.inventory.matId = 10
fault.inventory.faultLabel = faultGroup
fault._configure()
nvertices = fault.numVerticesNoMesh(mesh)
firstFaultVertex = 0
firstLagrangeVertex = nvertices
firstFaultCell = 2 * nvertices
fault.adjustTopology(mesh, firstFaultVertex, firstLagrangeVertex,
firstFaultCell)
from pylith.topology.RefineUniform import RefineUniform
refiner = RefineUniform()
meshRefined = refiner.refine(mesh)
return
def setUp(self):
"""
Setup mesh and associated field.
"""
from spatialdata.geocoords.CSCart import CSCart
cs = CSCart()
cs.inventory.spaceDim = 2
cs._configure()
from spatialdata.units.Nondimensional import Nondimensional
normalizer = Nondimensional()
normalizer._configure()
from pylith.meshio.MeshIOAscii import MeshIOAscii
importer = MeshIOAscii()
importer.inventory.filename = "data/tri3.mesh"
importer.inventory.coordsys = cs
importer._configure()
self.mesh = importer.read(debug=False, interpolate=False)
self.field = Field(self.mesh)
self.field.allocate()
return
def setUp(self):
from pylith.meshio.MeshIOAscii import MeshIOAscii
iohandler = MeshIOAscii()
filename = "data/twohex8.txt"
from spatialdata.units.Nondimensional import Nondimensional
normalizer = Nondimensional()
normalizer._configure()
from spatialdata.geocoords.CSCart import CSCart
iohandler.inventory.filename = filename
iohandler.inventory.coordsys = CSCart()
iohandler._configure()
mesh = iohandler.read(debug=False, interpolate=False)
from pylith.topology.SolutionFields import SolutionFields
fields = SolutionFields(mesh)
name = "disp(t)"
fields.add(name, "displacement")
fields.solutionName(name)
field = fields.get(name)
field.subfieldAdd("displacement", mesh.dimension(), field.VECTOR)
field.subfieldsSetup()
field.newSection(field.VERTICES_FIELD, mesh.dimension())
field.allocate()
self.mesh = mesh
self.fields = fields
self.normalizer = normalizer
return
def setUp(self):
from pylith.meshio.MeshIOAscii import MeshIOAscii
iohandler = MeshIOAscii()
filename = "data/twohex8.txt"
from spatialdata.units.Nondimensional import Nondimensional
normalizer = Nondimensional()
normalizer._configure()
from spatialdata.geocoords.CSCart import CSCart
iohandler.inventory.filename = filename
iohandler.inventory.coordsys = CSCart()
iohandler._configure()
mesh = iohandler.read(debug=False, interpolate=False)
from pylith.topology.SolutionFields import SolutionFields
fields = SolutionFields(mesh)
name = "disp(t)"
fields.add(name, "displacement")
fields.solutionName(name)
field = fields.get(name)
field.subfieldAdd("displacement", mesh.dimension(), field.VECTOR)
field.subfieldsSetup()
field.newSection(field.VERTICES_FIELD, mesh.dimension())
field.allocate()
self.mesh = mesh
self.fields = fields
self.normalizer = normalizer
return
def test_preinitialize(self):
"""
Test preinitialize().
WARNING: This is not a rigorous test of initialize() because we
don't verify the results.
"""
from pylith.feassemble.FIATSimplex import FIATSimplex
cell = FIATSimplex()
cell.inventory.dimension = 2
cell.inventory.order = 1
cell.inventory.degree = 1
cell._configure()
from pylith.feassemble.Quadrature import Quadrature
quadrature = Quadrature()
quadrature.inventory.cell = cell
quadrature.inventory.minJacobian = 1.0e-4
quadrature._configure()
from spatialdata.spatialdb.SimpleDB import SimpleDB
from spatialdata.spatialdb.SimpleIOAscii import SimpleIOAscii
iohandler = SimpleIOAscii()
iohandler.inventory.filename = "data/matinitialize.spatialdb"
iohandler._configure()
db = SimpleDB()
db.inventory.label = "material properties"
db.inventory.iohandler = iohandler
db._configure()
from pylith.materials.ElasticPlaneStrain import ElasticPlaneStrain
material = ElasticPlaneStrain()
material.inventory.quadrature = quadrature
material.inventory.dbProperties = db
material.inventory.label = "my material"
material.inventory.id = 54
material._configure()
from spatialdata.geocoords.CSCart import CSCart
cs = CSCart()
cs.inventory.spaceDim = 2
cs._configure()
from spatialdata.units.Nondimensional import Nondimensional
normalizer = Nondimensional()
normalizer._configure()
from pylith.meshio.MeshIOAscii import MeshIOAscii
importer = MeshIOAscii()
importer.inventory.filename = "data/twoelems.mesh"
importer.inventory.coordsys = cs
importer._configure()
mesh = importer.read(debug=False, interpolate=False)
material.preinitialize(mesh)
# No test of result.
return
def test_preinitialize(self):
"""
Test preinitialize().
WARNING: This is not a rigorous test of initialize() because we
don't verify the results.
"""
from pylith.feassemble.FIATSimplex import FIATSimplex
cell = FIATSimplex()
cell.inventory.dimension = 2
cell.inventory.order = 1
cell.inventory.degree = 1
cell._configure()
from pylith.feassemble.Quadrature import Quadrature
quadrature = Quadrature()
quadrature.inventory.cell = cell
quadrature.inventory.minJacobian = 1.0e-4
quadrature._configure()
from spatialdata.spatialdb.SimpleDB import SimpleDB
from spatialdata.spatialdb.SimpleIOAscii import SimpleIOAscii
iohandler = SimpleIOAscii()
iohandler.inventory.filename = "data/matinitialize.spatialdb"
iohandler._configure()
db = SimpleDB()
db.inventory.label = "material properties"
db.inventory.iohandler = iohandler
db._configure()
from pylith.materials.ElasticPlaneStrain import ElasticPlaneStrain
material = ElasticPlaneStrain()
material.inventory.quadrature = quadrature
material.inventory.dbProperties = db
material.inventory.label = "my material"
material.inventory.id = 54
material._configure()
from spatialdata.geocoords.CSCart import CSCart
cs = CSCart()
cs.inventory.spaceDim = 2
cs._configure()
from spatialdata.units.Nondimensional import Nondimensional
normalizer = Nondimensional()
normalizer._configure()
from pylith.meshio.MeshIOAscii import MeshIOAscii
importer = MeshIOAscii()
importer.inventory.filename = "data/twoelems.mesh"
importer.inventory.coordsys = cs
importer._configure()
mesh = importer.read(debug=False, interpolate=False)
material.preinitialize(mesh)
# No test of result.
return
def _preinitialize(self):
"""
Setup mesh and integrator and preinitialize integrator.
"""
from spatialdata.units.Nondimensional import Nondimensional
normalizer = Nondimensional()
normalizer._configure()
# Setup mesh
cs = CSCart()
cs.inventory.spaceDim = 2
cs._configure()
from pylith.meshio.MeshIOAscii import MeshIOAscii
importer = MeshIOAscii()
importer.inventory.filename = "data/tri3.mesh"
importer.inventory.coordsys = cs
importer._configure()
mesh = importer.read(debug=False, interpolate=False)
# Setup material
from pylith.feassemble.FIATSimplex import FIATSimplex
cell = FIATSimplex()
cell.inventory.dimension = 2
cell.inventory.degree = 1
cell.inventory.order = 1
cell._configure()
from pylith.feassemble.Quadrature import Quadrature
quadrature = Quadrature()
quadrature.inventory.cell = cell
quadrature._configure()
from spatialdata.spatialdb.SimpleDB import SimpleDB
from spatialdata.spatialdb.SimpleIOAscii import SimpleIOAscii
iohandler = SimpleIOAscii()
iohandler.inventory.filename = "data/elasticplanestrain.spatialdb"
iohandler._configure()
db = SimpleDB()
db.inventory.label = "elastic plane strain"
db.inventory.iohandler = iohandler
db._configure()
from pylith.materials.ElasticPlaneStrain import ElasticPlaneStrain
material = ElasticPlaneStrain()
material.inventory.label = "elastic plane strain"
material.inventory.id = 0
material.inventory.dbProperties = db
material.inventory.quadrature = quadrature
material._configure()
from pylith.meshio.OutputMatElastic import OutputMatElastic
material.output = OutputMatElastic()
material.output._configure()
material.output.writer._configure()
# Setup integrator
integrator = ElasticityImplicitLgDeform()
integrator.preinitialize(mesh, material)
return (mesh, integrator)
def _preinitialize(self):
"""
Setup mesh and integrator and preinitialize integrator.
"""
from spatialdata.units.Nondimensional import Nondimensional
normalizer = Nondimensional()
normalizer._configure()
# Setup mesh
cs = CSCart()
cs.inventory.spaceDim = 2
cs._configure()
from pylith.meshio.MeshIOAscii import MeshIOAscii
importer = MeshIOAscii()
importer.inventory.filename = "data/tri3.mesh"
importer.inventory.coordsys = cs
importer._configure()
mesh = importer.read(debug=False, interpolate=False)
# Setup material
from pylith.feassemble.FIATSimplex import FIATSimplex
cell = FIATSimplex()
cell.inventory.dimension = 2
cell.inventory.degree = 1
cell.inventory.order = 1
cell._configure()
from pylith.feassemble.Quadrature import Quadrature
quadrature = Quadrature()
quadrature.inventory.cell = cell
quadrature._configure()
from spatialdata.spatialdb.SimpleDB import SimpleDB
from spatialdata.spatialdb.SimpleIOAscii import SimpleIOAscii
iohandler = SimpleIOAscii()
iohandler.inventory.filename = "data/elasticplanestrain.spatialdb"
iohandler._configure()
db = SimpleDB()
db.inventory.label = "elastic plane strain"
db.inventory.iohandler = iohandler
db._configure()
from pylith.materials.ElasticPlaneStrain import ElasticPlaneStrain
material = ElasticPlaneStrain()
material.inventory.label = "elastic plane strain"
material.inventory.id = 0
material.inventory.dbProperties = db
material.inventory.quadrature = quadrature
material._configure()
from pylith.meshio.OutputMatElastic import OutputMatElastic
material.output = OutputMatElastic()
material.output._configure()
material.output.writer._configure()
# Setup integrator
integrator = ElasticityImplicitLgDeform()
integrator.preinitialize(mesh, material)
return (mesh, integrator)
def test_filename(self):
"""
Test filename().
"""
value = "hi.txt"
io = MeshIOAscii()
io.filename(value)
self.assertEqual(value, io.filename())
return
def test_filename(self):
"""
Test filename().
"""
value = "hi.txt"
io = MeshIOAscii()
io.filename(value)
self.assertEqual(value, io.filename())
return
def test_readwrite(self):
"""
Test write() and read().
"""
filenameIn = "data/mesh2Din3D.txt"
filenameOut = "data/mesh2Din3D_test.txt"
from spatialdata.geocoords.CSCart import CSCart
cs = CSCart()
cs._configure()
io = MeshIOAscii()
io.inventory.filename = filenameIn
io.inventory.coordsys = cs
io._configure()
from spatialdata.units.Nondimensional import Nondimensional
normalizer = Nondimensional()
mesh = io.read(debug=False, interpolate=True)
io.filename(filenameOut)
io.write(mesh)
fileE = open(filenameIn, "r")
linesE = fileE.readlines()
fileE.close()
fileT = open(filenameOut, "r")
linesT = fileT.readlines()
fileT.close()
self.assertEqual(len(linesE), len(linesT))
for (lineE, lineT) in zip(linesE, linesT):
self.assertEqual(lineE, lineT)
return
def _initialize(self):
"""
Initialize DirichletBoundary boundary condition.
"""
from spatialdata.geocoords.CSCart import CSCart
cs = CSCart()
cs.inventory.spaceDim = 2
cs._configure()
from spatialdata.units.Nondimensional import Nondimensional
normalizer = Nondimensional()
normalizer._configure()
from pylith.meshio.MeshIOAscii import MeshIOAscii
importer = MeshIOAscii()
importer.inventory.filename = "data/tri3.mesh"
importer.inventory.coordsys = cs
importer._configure()
mesh = importer.read(debug=False, interpolate=False)
from spatialdata.spatialdb.SimpleDB import SimpleDB
db = SimpleDB()
db.inventory.label = "TestDirichletBoundary tri3"
db.inventory.iohandler.inventory.filename = "data/tri3_disp.spatialdb"
db.inventory.iohandler._configure()
db._configure()
from spatialdata.spatialdb.SimpleDB import SimpleDB
dbRate = SimpleDB()
dbRate.inventory.label = "TestDirichletBoundary tri3"
dbRate.inventory.iohandler.inventory.filename = "data/tri3_vel.spatialdb"
dbRate.inventory.iohandler._configure()
dbRate._configure()
from pylith.bc.DirichletBoundary import DirichletBoundary
bc = DirichletBoundary()
bc.inventory.output._configure()
bc.inventory.output.writer._configure()
bc.inventory.label = "bc"
bc.inventory.bcDOF = [1]
bc.inventory.dbInitial = db
bc.inventory.dbRate = dbRate
bc._configure()
bc.preinitialize(mesh)
bc.initialize(totalTime=0.0, numTimeSteps=1, normalizer=normalizer)
# Setup field
from pylith.topology.Field import Field
field = Field(mesh)
field.newSection(field.VERTICES_FIELD, cs.spaceDim())
return (mesh, bc, field)
def _initialize(self):
"""
Initialize DirichletBoundary boundary condition.
"""
from spatialdata.geocoords.CSCart import CSCart
cs = CSCart()
cs.inventory.spaceDim = 2
cs._configure()
from spatialdata.units.Nondimensional import Nondimensional
normalizer = Nondimensional()
normalizer._configure()
from pylith.meshio.MeshIOAscii import MeshIOAscii
importer = MeshIOAscii()
importer.inventory.filename = "data/tri3.mesh"
importer.inventory.coordsys = cs
importer._configure()
mesh = importer.read(debug=False, interpolate=False)
from spatialdata.spatialdb.SimpleDB import SimpleDB
db = SimpleDB()
db.inventory.label = "TestDirichletBoundary tri3"
db.inventory.iohandler.inventory.filename = "data/tri3_disp.spatialdb"
db.inventory.iohandler._configure()
db._configure()
from spatialdata.spatialdb.SimpleDB import SimpleDB
dbRate = SimpleDB()
dbRate.inventory.label = "TestDirichletBoundary tri3"
dbRate.inventory.iohandler.inventory.filename = "data/tri3_vel.spatialdb"
dbRate.inventory.iohandler._configure()
dbRate._configure()
from pylith.bc.DirichletBoundary import DirichletBoundary
bc = DirichletBoundary()
bc.inventory.output._configure()
bc.inventory.output.writer._configure()
bc.inventory.label = "bc"
bc.inventory.bcDOF = [1]
bc.inventory.dbInitial = db
bc.inventory.dbRate = dbRate
bc._configure()
bc.preinitialize(mesh)
bc.initialize(totalTime=0.0, numTimeSteps=1, normalizer=normalizer)
# Setup field
from pylith.topology.Field import Field
field = Field(mesh)
field.newSection(field.VERTICES_FIELD, cs.spaceDim())
return (mesh, bc, field)
def test_readwrite(self):
"""
Test write() and read().
"""
filenameIn = "data/mesh2Din3D.txt"
filenameOut = "data/mesh2Din3D_test.txt"
from spatialdata.geocoords.CSCart import CSCart
cs = CSCart()
cs._configure()
io = MeshIOAscii()
io.inventory.filename = filenameIn
io.inventory.coordsys = cs
io._configure()
from spatialdata.units.Nondimensional import Nondimensional
normalizer = Nondimensional()
mesh = io.read(debug=False, interpolate=True)
io.filename(filenameOut)
io.write(mesh)
fileE = open(filenameIn, "r")
linesE = fileE.readlines()
fileE.close()
fileT = open(filenameOut, "r")
linesT = fileT.readlines()
fileT.close()
self.assertEqual(len(linesE), len(linesT))
for (lineE, lineT) in zip(linesE, linesT):
self.assertEqual(lineE, lineT)
return
def _getMesh(self):
"""
Get mesh from file.
"""
from spatialdata.geocoords.CSCart import CSCart
cs = CSCart()
cs.inventory.spaceDim = 2
cs._configure()
from spatialdata.units.Nondimensional import Nondimensional
normalizer = Nondimensional()
normalizer._configure()
from pylith.meshio.MeshIOAscii import MeshIOAscii
importer = MeshIOAscii()
importer.inventory.filename = "data/tri3.mesh"
importer.inventory.coordsys = cs
importer._configure()
mesh = importer.read(debug=False, interpolate=False)
return mesh
def _getMesh(self):
"""
Get mesh from file.
"""
from spatialdata.geocoords.CSCart import CSCart
cs = CSCart()
cs.inventory.spaceDim = 2
cs._configure()
from spatialdata.units.Nondimensional import Nondimensional
normalizer = Nondimensional()
normalizer._configure()
from pylith.meshio.MeshIOAscii import MeshIOAscii
importer = MeshIOAscii()
importer.inventory.filename = "data/tri3.mesh"
importer.inventory.coordsys = cs
importer._configure()
mesh = importer.read(debug=False, interpolate=False)
return mesh
def setUp(self):
"""
Setup mesh and associated field.
"""
from spatialdata.geocoords.CSCart import CSCart
cs = CSCart()
cs.inventory.spaceDim = 2
cs._configure()
from spatialdata.units.Nondimensional import Nondimensional
normalizer = Nondimensional()
normalizer._configure()
from pylith.meshio.MeshIOAscii import MeshIOAscii
importer = MeshIOAscii()
importer.inventory.filename = "data/tri3.mesh"
importer.inventory.coordsys = cs
importer._configure()
self.mesh = importer.read(debug=False, interpolate=False)
self.fields = Fields(self.mesh)
return
def test_adjustTopology(self):
"""
Test adjustTopology().
WARNING: This is not a rigorous test of adjustTopology() because we
neither set the input fields or verify the results.
"""
cs = CSCart()
cs.inventory.spaceDim = 2
cs._configure()
from spatialdata.units.Nondimensional import Nondimensional
normalizer = Nondimensional()
normalizer._configure()
from pylith.meshio.MeshIOAscii import MeshIOAscii
importer = MeshIOAscii()
importer.inventory.filename = "data/tri3.mesh"
importer.inventory.coordsys = cs
importer._configure()
mesh = importer.read(debug=False, interpolate=False)
fault = FaultCohesiveKin()
fault.inventory.matId = 10
fault.inventory.faultLabel = "fault"
fault.inventory.faultEdge = "fault_edge"
fault._configure()
nvertices = fault.numVerticesNoMesh(mesh)
firstFaultVertex = 0
firstLagrangeVertex = nvertices
firstFaultCell = 2*nvertices
fault.adjustTopology(mesh, firstFaultVertex, firstLagrangeVertex,
firstFaultCell)
# We should really add something here to check to make sure things
# actually initialized correctly
return
def test_adjustTopology(self):
"""
Test adjustTopology().
WARNING: This is not a rigorous test of adjustTopology() because we
neither set the input fields or verify the results.
"""
cs = CSCart()
cs.inventory.spaceDim = 2
cs._configure()
from spatialdata.units.Nondimensional import Nondimensional
normalizer = Nondimensional()
normalizer._configure()
from pylith.meshio.MeshIOAscii import MeshIOAscii
importer = MeshIOAscii()
importer.inventory.filename = "data/tri3.mesh"
importer.inventory.coordsys = cs
importer._configure()
mesh = importer.read(debug=False, interpolate=False)
fault = FaultCohesiveKin()
fault.inventory.matId = 10
fault.inventory.faultLabel = "fault"
fault.inventory.faultEdge = "fault_edge"
fault._configure()
nvertices = fault.numVerticesNoMesh(mesh)
firstFaultVertex = 0
firstLagrangeVertex = nvertices
firstFaultCell = 2*nvertices
fault.adjustTopology(mesh, firstFaultVertex, firstLagrangeVertex,
firstFaultCell)
# We should really add something here to check to make sure things
# actually initialized correctly
return
def test_readwrite(self):
"""
Test read().
"""
filenameGmvIn = "data/cube2_ascii.gmv"
filenamePsetIn = "data/cube2_ascii.pset"
filenameOut = "data/cube2_test.txt"
filenameE = "data/cube2.txt"
from spatialdata.geocoords.CSCart import CSCart
cs = CSCart()
cs._configure()
# For now, we only test reading the file. We would like to write
# the file and compare against the original.
io = MeshIOLagrit()
io.inventory.filenameGmv = filenameGmvIn
io.inventory.filenamePset = filenamePsetIn
io._configure()
from spatialdata.units.Nondimensional import Nondimensional
normalizer = Nondimensional()
mesh = io.read(debug=False, interpolate=True)
testhandler = MeshIOAscii()
testhandler.filename(filenameOut)
testhandler.coordsys = cs
testhandler.write(mesh)
fileE = open(filenameE, "r")
linesE = fileE.readlines()
fileE.close()
fileT = open(filenameOut, "r")
linesT = fileT.readlines()
fileT.close()
self.assertEqual(len(linesE), len(linesT))
for (lineE, lineT) in zip(linesE, linesT):
self.assertEqual(lineE, lineT)
return
def test_readwrite(self):
"""
Test read().
"""
filenameIn = "data/twohex8.exo"
filenameOut = "data/twohex8_test.txt"
filenameE = "data/twohex8.txt"
from spatialdata.geocoords.CSCart import CSCart
cs = CSCart()
cs._configure()
# For now, we only test reading the file.
io = MeshIOCubit()
io.inventory.filename = filenameIn
io.inventory.useNames = False
io._configure()
from spatialdata.units.Nondimensional import Nondimensional
normalizer = Nondimensional()
mesh = io.read(debug=False, interpolate=True)
testhandler = MeshIOAscii()
testhandler.filename(filenameOut)
testhandler.coordsys = cs
testhandler.write(mesh)
fileE = open(filenameE, "r")
linesE = fileE.readlines()
fileE.close()
fileT = open(filenameOut, "r")
linesT = fileT.readlines()
fileT.close()
self.assertEqual(len(linesE), len(linesT))
for (lineE, lineT) in zip(linesE, linesT):
self.assertEqual(lineE, lineT)
return
def test_readwrite(self):
"""
Test read().
"""
filenameGmvIn = "data/cube2_ascii.gmv"
filenamePsetIn = "data/cube2_ascii.pset"
filenameOut = "data/cube2_test.txt"
filenameE = "data/cube2.txt"
from spatialdata.geocoords.CSCart import CSCart
cs = CSCart()
cs._configure()
# For now, we only test reading the file. We would like to write
# the file and compare against the original.
io = MeshIOLagrit()
io.inventory.filenameGmv = filenameGmvIn
io.inventory.filenamePset = filenamePsetIn
io._configure()
from spatialdata.units.Nondimensional import Nondimensional
normalizer = Nondimensional()
mesh = io.read(debug=False, interpolate=True)
testhandler = MeshIOAscii()
testhandler.filename(filenameOut)
testhandler.coordsys = cs
testhandler.write(mesh)
fileE = open(filenameE, "r")
linesE = fileE.readlines()
fileE.close()
fileT = open(filenameOut, "r")
linesT = fileT.readlines()
fileT.close()
self.assertEqual(len(linesE), len(linesT))
for (lineE, lineT) in zip(linesE, linesT):
self.assertEqual(lineE, lineT)
return
def test_readwrite(self):
"""
Test read().
"""
filenameIn = "data/twohex8.exo"
filenameOut = "data/twohex8_test.txt"
filenameE = "data/twohex8.txt"
from spatialdata.geocoords.CSCart import CSCart
cs = CSCart()
cs._configure()
# For now, we only test reading the file.
io = MeshIOCubit()
io.inventory.filename = filenameIn
io.inventory.useNames = False
io._configure()
from spatialdata.units.Nondimensional import Nondimensional
normalizer = Nondimensional()
mesh = io.read(debug=False, interpolate=False)
testhandler = MeshIOAscii()
testhandler.filename(filenameOut)
testhandler.coordsys = cs
testhandler.write(mesh)
fileE = open(filenameE, "r")
linesE = fileE.readlines()
fileE.close()
fileT = open(filenameOut, "r")
linesT = fileT.readlines()
fileT.close()
self.assertEqual(len(linesE), len(linesT))
for (lineE, lineT) in zip(linesE, linesT):
self.assertEqual(lineE, lineT)
return
if len(sys.argv) != 2:
raise ValueError("usage: exotoascii.py EXODUS_MESH")
filenameEXO = sys.argv[1]
filenameASCII = filenameEXO.replace(".exo", ".mesh")
from pylith.meshio.MeshIOAscii import MeshIOAscii
from pylith.meshio.MeshIOCubit import MeshIOCubit
import pylith.utils.petsc as petsc
petsc.initialize(sys.argv)
cubit = MeshIOCubit()
cubit.inventory.filename = filenameEXO
cubit._configure()
mesh = cubit.read(debug=False, interpolate=True)
ascii = MeshIOAscii()
ascii.inventory.filename = filenameASCII
ascii._configure()
ascii.write(mesh)
del cubit
del ascii
del mesh
petsc.finalize()
# End of file
def _initialize(self):
"""
Initialize AbsorbingDampers boundary condition.
"""
from spatialdata.spatialdb.SimpleDB import SimpleDB
db = SimpleDB()
db.inventory.label = "TestAbsorbingDampers tri3"
db.inventory.iohandler.inventory.filename = \
"data/elasticplanestrain.spatialdb"
db.inventory.iohandler._configure()
db._configure()
from pylith.feassemble.FIATSimplex import FIATSimplex
cell = FIATSimplex()
cell.inventory.dimension = 1
cell.inventory.degree = 1
cell.inventory.order = 1
cell._configure()
from pylith.feassemble.Quadrature import Quadrature
quadrature = Quadrature()
quadrature.inventory.cell = cell
quadrature._configure()
from pylith.bc.AbsorbingDampers import AbsorbingDampers
bc = AbsorbingDampers()
bc.inventory.quadrature = quadrature
bc.inventory.db = db
bc.inventory.id = 0
bc.inventory.label = "bc"
bc._configure()
from spatialdata.geocoords.CSCart import CSCart
cs = CSCart()
cs.inventory.spaceDim = 2
cs._configure()
from spatialdata.units.Nondimensional import Nondimensional
normalizer = Nondimensional()
normalizer._configure()
from pylith.meshio.MeshIOAscii import MeshIOAscii
importer = MeshIOAscii()
importer.inventory.filename = "data/tri3.mesh"
importer.inventory.coordsys = cs
importer._configure()
mesh = importer.read(debug=False, interpolate=False)
bc.preinitialize(mesh)
bc.initialize(totalTime=0.0, numTimeSteps=1, normalizer=normalizer)
bc.timeStep(0.01)
# Setup fields
from pylith.topology.SolutionFields import SolutionFields
fields = SolutionFields(mesh)
fields.add("residual", "residual")
fields.add("dispIncr(t->t+dt)", "displacement")
fields.add("disp(t)", "displacement")
fields.add("disp(t-dt)", "displacement")
fields.add("velocity(t)", "velocity")
fields.solutionName("dispIncr(t->t+dt)")
residual = fields.get("residual")
residual.newSection(residual.VERTICES_FIELD, cs.spaceDim())
residual.allocate()
residual.zero()
fields.copyLayout("residual")
return (mesh, bc, fields)
def _initialize(self):
"""
Initialize AbsorbingDampers boundary condition.
"""
from spatialdata.spatialdb.SimpleDB import SimpleDB
db = SimpleDB()
db.inventory.label = "TestAbsorbingDampers tri3"
db.inventory.iohandler.inventory.filename = \
"data/elasticplanestrain.spatialdb"
db.inventory.iohandler._configure()
db._configure()
from pylith.feassemble.FIATSimplex import FIATSimplex
cell = FIATSimplex()
cell.inventory.dimension = 1
cell.inventory.degree = 1
cell.inventory.order = 1
cell._configure()
from pylith.feassemble.Quadrature import Quadrature
quadrature = Quadrature()
quadrature.inventory.cell = cell
quadrature._configure()
from pylith.bc.AbsorbingDampers import AbsorbingDampers
bc = AbsorbingDampers()
bc.inventory.quadrature = quadrature
bc.inventory.db = db
bc.inventory.id = 0
bc.inventory.label = "bc"
bc._configure()
from spatialdata.geocoords.CSCart import CSCart
cs = CSCart()
cs.inventory.spaceDim = 2
cs._configure()
from spatialdata.units.Nondimensional import Nondimensional
normalizer = Nondimensional()
normalizer._configure()
from pylith.meshio.MeshIOAscii import MeshIOAscii
importer = MeshIOAscii()
importer.inventory.filename = "data/tri3.mesh"
importer.inventory.coordsys = cs
importer._configure()
mesh = importer.read(debug=False, interpolate=False)
bc.preinitialize(mesh)
bc.initialize(totalTime=0.0, numTimeSteps=1, normalizer=normalizer)
bc.timeStep(0.01)
# Setup fields
from pylith.topology.SolutionFields import SolutionFields
fields = SolutionFields(mesh)
fields.add("residual", "residual")
fields.add("dispIncr(t->t+dt)", "displacement")
fields.add("disp(t)", "displacement")
fields.add("disp(t-dt)", "displacement")
fields.add("velocity(t)", "velocity")
fields.solutionName("dispIncr(t->t+dt)")
residual = fields.get("residual")
residual.newSection(residual.VERTICES_FIELD, cs.spaceDim())
residual.allocate()
residual.zero()
fields.copyLayout("residual")
return (mesh, bc, fields)
def _initialize(self):
"""
Initialize fault.
"""
dt = 2.4
from spatialdata.units.Nondimensional import Nondimensional
normalizer = Nondimensional()
normalizer._configure()
# Setup mesh
cs = CSCart()
cs.inventory.spaceDim = 2
cs._configure()
from pylith.meshio.MeshIOAscii import MeshIOAscii
importer = MeshIOAscii()
importer.inventory.filename = "data/tri3.mesh"
importer.inventory.coordsys = cs
importer._configure()
mesh = importer.read(debug=False, interpolate=False)
# Setup quadrature
from pylith.feassemble.FIATSimplex import FIATSimplex
cell = FIATSimplex()
cell.inventory.dimension = 1
cell.inventory.degree = 1
cell.inventory.order = 1
cell._configure()
from pylith.feassemble.Quadrature import Quadrature
quadrature = Quadrature()
quadrature.inventory.cell = cell
quadrature._configure()
# Setup impulses
from spatialdata.spatialdb.SimpleDB import SimpleDB
from spatialdata.spatialdb.SimpleIOAscii import SimpleIOAscii
ioImpulseAmp = SimpleIOAscii()
ioImpulseAmp.inventory.filename = "data/tri3_impulses.spatialdb"
ioImpulseAmp._configure()
dbImpulseAmp = SimpleDB()
dbImpulseAmp.inventory.iohandler = ioImpulseAmp
dbImpulseAmp.inventory.label = "impulse amplitude"
dbImpulseAmp._configure()
# Setup fault
fault = FaultCohesiveImpulses()
fault.inventory.output.inventory.writer._configure()
fault.inventory.output._configure()
fault.inventory.matId = 10
fault.inventory.faultLabel = "fault"
fault.inventory.upDir = [0, 0, 1]
fault.inventory.faultQuadrature = quadrature
fault.inventory.dbImpulseAmp = dbImpulseAmp
fault._configure()
nvertices = fault.numVerticesNoMesh(mesh)
firstFaultVertex = 0
firstLagrangeVertex = nvertices
firstFaultCell = 2*nvertices
fault.adjustTopology(mesh, firstFaultVertex, firstLagrangeVertex,
firstFaultCell)
fault.preinitialize(mesh)
fault.timeStep(dt)
fault.verifyConfiguration()
from pyre.units.time import s
fault.initialize(totalTime=0.0*s, numTimeSteps=1, normalizer=normalizer)
# Setup fields
from pylith.topology.SolutionFields import SolutionFields
fields = SolutionFields(mesh)
fields.add("residual", "residual")
fields.add("dispIncr(t->t+dt)", "displacement_increment")
fields.add("disp(t)", "displacement")
fields.solutionName("dispIncr(t->t+dt)")
residual = fields.get("residual")
residual.newSection(residual.VERTICES_FIELD, cs.spaceDim())
residual.allocate()
residual.zero()
fields.copyLayout("residual")
return (mesh, fault, fields)
def _initialize(self):
"""
Initialize fault.
"""
dt = 2.4
from spatialdata.units.Nondimensional import Nondimensional
normalizer = Nondimensional()
normalizer._configure()
# Setup mesh
cs = CSCart()
cs.inventory.spaceDim = 2
cs._configure()
from pylith.meshio.MeshIOAscii import MeshIOAscii
importer = MeshIOAscii()
importer.inventory.filename = "data/tri3.mesh"
importer.inventory.coordsys = cs
importer._configure()
mesh = importer.read(debug=False, interpolate=False)
# Setup quadrature
from pylith.feassemble.FIATSimplex import FIATSimplex
cell = FIATSimplex()
cell.inventory.dimension = 1
cell.inventory.degree = 1
cell.inventory.order = 1
cell._configure()
from pylith.feassemble.Quadrature import Quadrature
quadrature = Quadrature()
quadrature.inventory.cell = cell
quadrature._configure()
# Setup earthquake source
from spatialdata.spatialdb.SimpleDB import SimpleDB
from spatialdata.spatialdb.SimpleIOAscii import SimpleIOAscii
ioFinalSlip = SimpleIOAscii()
ioFinalSlip.inventory.filename = "data/tri3_finalslip.spatialdb"
ioFinalSlip._configure()
dbFinalSlip = SimpleDB()
dbFinalSlip.inventory.iohandler = ioFinalSlip
dbFinalSlip.inventory.label = "final slip"
dbFinalSlip._configure()
ioSlipTime = SimpleIOAscii()
ioSlipTime.inventory.filename = "data/tri3_sliptime.spatialdb"
ioSlipTime._configure()
dbSlipTime = SimpleDB()
dbSlipTime.inventory.iohandler = ioSlipTime
dbSlipTime.inventory.label = "slip time"
dbSlipTime._configure()
from pylith.faults.StepSlipFn import StepSlipFn
slipfn = StepSlipFn()
slipfn.inventory.dbSlip = dbFinalSlip
slipfn.inventory.dbSlipTime = dbSlipTime
slipfn._configure()
# Setup fault
fault = FaultCohesiveKin()
fault.inventory.output.inventory.writer._configure()
fault.inventory.output._configure()
fault.inventory.matId = 10
fault.inventory.faultLabel = "fault"
fault.inventory.upDir = [0, 0, 1]
fault.inventory.faultQuadrature = quadrature
fault._configure()
eqsrc = fault.eqsrcs.components()[0]
eqsrc.inventory.originTime = 1.23*second
eqsrc.inventory.slipfn = slipfn
eqsrc._configure()
nvertices = fault.numVerticesNoMesh(mesh)
firstFaultVertex = 0
firstLagrangeVertex = nvertices
firstFaultCell = 2*nvertices
fault.adjustTopology(mesh, firstFaultVertex, firstLagrangeVertex,
firstFaultCell)
fault.preinitialize(mesh)
fault.timeStep(dt)
fault.verifyConfiguration()
from pyre.units.time import s
fault.initialize(totalTime=0.0*s, numTimeSteps=1, normalizer=normalizer)
# Setup fields
from pylith.topology.SolutionFields import SolutionFields
fields = SolutionFields(mesh)
fields.add("residual", "residual")
fields.add("dispIncr(t->t+dt)", "displacement_increment")
fields.add("disp(t)", "displacement")
fields.solutionName("dispIncr(t->t+dt)")
residual = fields.get("residual")
residual.subfieldAdd("displacement", cs.spaceDim(), residual.VECTOR)
residual.subfieldAdd("lagrange_multiplier", cs.spaceDim(), residual.VECTOR)
residual.subfieldsSetup()
residual.setupSolnChart()
residual.setupSolnDof(cs.spaceDim())
fault.setupSolnDof(residual)
residual.allocate()
residual.zero()
fields.copyLayout("residual")
return (mesh, fault, fields)
def _initialize(self):
"""
Initialize fault.
"""
dt = 2.4
from spatialdata.units.Nondimensional import Nondimensional
normalizer = Nondimensional()
normalizer._configure()
# Setup mesh
cs = CSCart()
cs.inventory.spaceDim = 2
cs._configure()
from pylith.meshio.MeshIOAscii import MeshIOAscii
importer = MeshIOAscii()
importer.inventory.filename = "data/tri3.mesh"
importer.inventory.coordsys = cs
importer._configure()
mesh = importer.read(debug=False, interpolate=False)
# Setup quadrature
from pylith.feassemble.FIATSimplex import FIATSimplex
cell = FIATSimplex()
cell.inventory.dimension = 1
cell.inventory.degree = 1
cell.inventory.order = 1
cell._configure()
from pylith.feassemble.Quadrature import Quadrature
quadrature = Quadrature()
quadrature.inventory.cell = cell
quadrature._configure()
# Setup impulses
from spatialdata.spatialdb.SimpleDB import SimpleDB
from spatialdata.spatialdb.SimpleIOAscii import SimpleIOAscii
ioImpulseAmp = SimpleIOAscii()
ioImpulseAmp.inventory.filename = "data/tri3_impulses.spatialdb"
ioImpulseAmp._configure()
dbImpulseAmp = SimpleDB()
dbImpulseAmp.inventory.iohandler = ioImpulseAmp
dbImpulseAmp.inventory.label = "impulse amplitude"
dbImpulseAmp._configure()
# Setup fault
fault = FaultCohesiveImpulses()
fault.inventory.output.inventory.writer._configure()
fault.inventory.output._configure()
fault.inventory.matId = 10
fault.inventory.faultLabel = "fault"
fault.inventory.upDir = [0, 0, 1]
fault.inventory.faultQuadrature = quadrature
fault.inventory.dbImpulseAmp = dbImpulseAmp
fault._configure()
nvertices = fault.numVerticesNoMesh(mesh)
firstFaultVertex = 0
firstLagrangeVertex = nvertices
firstFaultCell = 2*nvertices
fault.adjustTopology(mesh, firstFaultVertex, firstLagrangeVertex,
firstFaultCell)
fault.preinitialize(mesh)
fault.timeStep(dt)
fault.verifyConfiguration()
from pyre.units.time import s
fault.initialize(totalTime=0.0*s, numTimeSteps=1, normalizer=normalizer)
# Setup fields
from pylith.topology.SolutionFields import SolutionFields
fields = SolutionFields(mesh)
fields.add("residual", "residual")
fields.add("dispIncr(t->t+dt)", "displacement_increment")
fields.add("disp(t)", "displacement")
fields.solutionName("dispIncr(t->t+dt)")
residual = fields.get("residual")
residual.subfieldAdd("displacement", cs.spaceDim(), residual.VECTOR)
residual.subfieldAdd("lagrange_multiplier", cs.spaceDim(), residual.VECTOR)
residual.subfieldsSetup()
residual.setupSolnChart()
residual.setupSolnDof(cs.spaceDim())
fault.setupSolnDof(residual)
residual.allocate()
residual.zero()
fields.copyLayout("residual")
return (mesh, fault, fields)
def test_constructor(self):
"""
Test constructor.
"""
io = MeshIOAscii()
return
def _initialize(self):
"""
Initialize fault.
"""
dt = 2.4
from spatialdata.units.Nondimensional import Nondimensional
normalizer = Nondimensional()
normalizer._configure()
# Setup mesh
cs = CSCart()
cs.inventory.spaceDim = 2
cs._configure()
from pylith.meshio.MeshIOAscii import MeshIOAscii
importer = MeshIOAscii()
importer.inventory.filename = "data/tri3.mesh"
importer.inventory.coordsys = cs
importer._configure()
mesh = importer.read(debug=False, interpolate=False)
# Setup quadrature
from pylith.feassemble.FIATSimplex import FIATSimplex
cell = FIATSimplex()
cell.inventory.dimension = 1
cell.inventory.degree = 1
cell.inventory.order = 1
cell._configure()
from pylith.feassemble.Quadrature import Quadrature
quadrature = Quadrature()
quadrature.inventory.cell = cell
quadrature._configure()
# Setup rupture info
from spatialdata.spatialdb.SimpleDB import SimpleDB
from spatialdata.spatialdb.SimpleIOAscii import SimpleIOAscii
ioTractions = SimpleIOAscii()
ioTractions.inventory.filename = "data/tri3_initialtractions.spatialdb"
ioTractions._configure()
dbTractions = SimpleDB()
dbTractions.inventory.iohandler = ioTractions
dbTractions.inventory.label = "initial tractions"
dbTractions._configure()
from pylith.faults.TractPerturbation import TractPerturbation
tract = TractPerturbation()
tract.inventory.dbInitial = dbTractions
tract._configure()
ioFriction = SimpleIOAscii()
ioFriction.inventory.filename = "data/tri3_staticfriction.spatialdb"
ioFriction._configure()
dbFriction = SimpleDB()
dbFriction.inventory.iohandler = ioFriction
dbFriction.inventory.label = "friction"
dbFriction._configure()
from pylith.friction.StaticFriction import StaticFriction
friction = StaticFriction()
friction.inventory.label = "Static friction"
friction.inventory.dbProperties = dbFriction
friction._configure()
# Setup fault
fault = FaultCohesiveDyn()
fault.inventory.output.inventory.writer._configure()
fault.inventory.output._configure()
fault.inventory.matId = 10
fault.inventory.faultLabel = "fault"
fault.inventory.upDir = [0, 0, 1]
fault.inventory.faultQuadrature = quadrature
fault.inventory.tract = tract
fault.inventory.friction = friction
fault._configure()
nvertices = fault.numVerticesNoMesh(mesh)
firstFaultVertex = 0
firstLagrangeVertex = nvertices
firstFaultCell = 2*nvertices
fault.adjustTopology(mesh, firstFaultVertex, firstLagrangeVertex,
firstFaultCell)
from pylith.topology.topology import MeshOps_nondimensionalize
MeshOps_nondimensionalize(mesh, normalizer)
fault.preinitialize(mesh)
fault.timeStep(dt)
fault.verifyConfiguration()
from pyre.units.time import s
fault.initialize(totalTime=0.0*s, numTimeSteps=1, normalizer=normalizer)
# Setup fields
from pylith.topology.SolutionFields import SolutionFields
fields = SolutionFields(mesh)
fields.add("residual", "residual")
fields.add("dispIncr(t->t+dt)", "displacement_increment")
fields.add("disp(t)", "displacement")
fields.add("velocity(t)", "velocity")
fields.solutionName("dispIncr(t->t+dt)")
residual = fields.get("residual")
residual.subfieldAdd("displacement", cs.spaceDim(), residual.VECTOR)
residual.subfieldAdd("lagrange_multiplier", cs.spaceDim(), residual.VECTOR)
residual.subfieldsSetup()
residual.setupSolnChart()
residual.setupSolnDof(cs.spaceDim())
fault.setupSolnDof(residual)
residual.allocate()
residual.zero()
fields.copyLayout("residual")
return (mesh, fault, fields)
