def test_initialize(self):
    """
    Test initialize().
    """
    # No quadrature
    output = OutputManager()
    output.inventory.writer.inventory.filename = "test.vtk"
    output.inventory.writer._configure()
    output._configure()
    dataProvider = TestProvider()
    output.preinitialize(dataProvider)
    output.initialize(self.normalizer)

    # With quadrature
    from pylith.feassemble.FIATLagrange import FIATLagrange
    from pylith.feassemble.Quadrature import Quadrature
    cell = FIATLagrange()
    cell.inventory.dimension = 3
    cell.inventory.degree = 2
    cell.inventory.order = 2
    cell._configure()

    quadrature = Quadrature()
    quadrature.inventory.cell = cell
    quadrature._configure()
    
    output = OutputManager()
    output.inventory.writer.inventory.filename = "test.vtk"
    output.inventory.writer._configure()
    output._configure()
    dataProvider = TestProvider()
    output.preinitialize(dataProvider)
    output.initialize(self.normalizer, quadrature)
    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 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_minJacobian(self):
   """
   Test minJacobian().
   """
   minJacobian = 4.0e-02;
   q = Quadrature()
   q.minJacobian(minJacobian)
   self.assertAlmostEqual(minJacobian, q.minJacobian(), places=5)
   return

  def test_checkConditioning(self):
    """
    Test checkConditioning().
    """
    q = Quadrature()

    flag = False # default
    self.assertEqual(flag, q.checkConditioning())

    flag = True
    q.checkConditioning(flag)
    self.assertEqual(flag, q.checkConditioning())
    
    flag = False
    q.checkConditioning(flag)
    self.assertEqual(flag, q.checkConditioning())
    
    return

  def test_lagrange3D(self):
    """
    Test setup of quadrature for Lagrange cells for a 3-D problem.
    """
    spaceDim = 3

    cell = FIATLagrange()
    cell.inventory.dimension = 3
    cell._configure()
    
    quadrature = Quadrature()
    quadrature.inventory.cell = cell
    quadrature._configure()

    quadrature.preinitialize(spaceDim)
    self.assertEqual(3, quadrature.cellDim())
    self.assertEqual(spaceDim, quadrature.spaceDim())
    self.assertEqual(8, quadrature.numBasis())
    return

  def test_simplex2D(self):
    """
    Test setup of quadrature for simplex cells for a 2-D problem.
    """
    spaceDim = 2

    cell = FIATSimplex()
    cell.inventory.dimension = 2
    cell._configure()
    
    quadrature = Quadrature()
    quadrature.inventory.cell = cell
    quadrature._configure()

    quadrature.preinitialize(spaceDim)
    self.assertEqual(2, quadrature.cellDim())
    self.assertEqual(spaceDim, quadrature.spaceDim())
    self.assertEqual(3, quadrature.numBasis())
    return

  def test_initialize(self):
    """
    Test constructor.
    """
    spaceDim = 2
    
    from pylith.feassemble.FIATSimplex import FIATSimplex
    cell = FIATSimplex()
    cell.inventory.dimension = 2
    cell.inventory.degree = 2
    cell.inventory.order = 2
    cell._configure()

    from pylith.feassemble.Quadrature import Quadrature
    quadrature = Quadrature()
    quadrature.inventory.cell = cell
    quadrature._configure()
    quadrature.preinitialize(spaceDim)
    quadrature.initialize()

    filter = CellFilterAvg()
    filter._configure()
    filter.initialize(quadrature)
    return

  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 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")
#.........这里部分代码省略.........

  def test_initialize(self):
    """
    Test initialize().
    """
    cell = FIATSimplex()
    cell.inventory.dimension = 2
    cell.inventory.order = 1
    cell._configure()

    scalarType = None
    from pylith.utils.utils import sizeofPylithScalar
    if 8 == sizeofPylithScalar():
      scalarType = numpy.float64
    elif 4 == sizeofPylithScalar():
      scalarType = numpy.float32
    else:
      raise ValueError("Unknown size for PylithScalar.")

    verticesE = numpy.array([ [-1.0, -1.0],
                              [+1.0, -1.0],
                              [-1.0, +1.0] ])
    quadPtsE = numpy.array( [[-1.0/3.0, -1.0/3.0]], dtype=scalarType )
    quadWtsE = numpy.array( [2.0], dtype=scalarType )

    # Compute basis functions and derivatives at quadrature points
    basisE = numpy.zeros( (1, 3), dtype=scalarType)
    basisDerivE = numpy.zeros( (1, 3, 2), dtype=scalarType)
    iQuad = 0
    for x in quadPtsE:
      basisE[iQuad] = numpy.array([N0(x), N1(x), N2(x)], dtype=scalarType).reshape( (3,) )
      deriv = numpy.array([[N0p(x), N0q(x)], [N1p(x), N1q(x)], [N2p(x), N2q(x)]], dtype=scalarType)      
      basisDerivE[iQuad] = deriv.reshape((1, 3, 2))
      iQuad += 1

    quadrature = Quadrature()
    quadrature.inventory.cell = cell
    quadrature._configure()

    quadrature.preinitialize(spaceDim=2)
    quadrature.initialize()

    self.assertEqual(2, quadrature.cellDim())
    self.assertEqual(2, quadrature.spaceDim())
    self.assertEqual(3, quadrature.numBasis())
    self.assertEqual(1, quadrature.numQuadPts())

    from pylith.utils.utils import TestArray_checkScalar

    self.failUnless(TestArray_checkScalar(basisE.ravel(), quadrature.basis()))
    self.failUnless(TestArray_checkScalar(basisDerivE.ravel(), quadrature.basisDerivRef()))
    self.failUnless(TestArray_checkScalar(quadPtsE.ravel(), quadrature.quadPtsRef()))
    self.failUnless(TestArray_checkScalar(quadWtsE.ravel(), quadrature.quadWts()))

    quadrature.initializeGeometry()
    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 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)
#.........这里部分代码省略.........

  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)