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Committer: Johannes Ring
Date: 2008-03-05 22:43:06 UTC
Revision ID: johannr@simula.no-20080305224306-2npsdyhfdpl2esji

The BIG commit!

files added:
SConstruct

bench

bench/README

bench/bench

bench/fem

bench/fem/assembly

bench/fem/assembly/Advection.form

bench/fem/assembly/Advection.h

bench/fem/assembly/bench.log

bench/fem/assembly/bench.py

bench/fem/assembly/main.cpp

bench/fem/convergence

bench/fem/convergence/Poisson2D_1.form

bench/fem/convergence/Poisson2D_1.h

bench/fem/convergence/Poisson2D_2.form

bench/fem/convergence/Poisson2D_2.h

bench/fem/convergence/Poisson2D_3.form

bench/fem/convergence/Poisson2D_3.h

bench/fem/convergence/Poisson2D_4.form

bench/fem/convergence/Poisson2D_4.h

bench/fem/convergence/Poisson2D_5.form

bench/fem/convergence/Poisson2D_5.h

bench/fem/convergence/Poisson3D_1.form

bench/fem/convergence/Poisson3D_1.h

bench/fem/convergence/Poisson3D_2.form

bench/fem/convergence/Poisson3D_2.h

bench/fem/convergence/Poisson3D_3.form

bench/fem/convergence/Poisson3D_3.h

bench/fem/convergence/Poisson3D_4.form

bench/fem/convergence/Poisson3D_4.h

bench/fem/convergence/Poisson3D_5.form

bench/fem/convergence/Poisson3D_5.h

bench/fem/convergence/README

bench/fem/convergence/bench.log

bench/fem/convergence/bench.py

bench/fem/convergence/main.cpp

bench/fem/passembly

bench/fem/passembly/Nonlinear2D.form

bench/fem/passembly/Nonlinear2D.h

bench/fem/passembly/Poisson.form

bench/fem/passembly/Poisson.h

bench/fem/passembly/Poisson2D.h

bench/fem/passembly/Poisson3D_1.form

bench/fem/passembly/Poisson3D_1.h

bench/fem/passembly/assemble.h

bench/fem/passembly/getopts.cpp

bench/fem/passembly/getopts.h

bench/fem/passembly/main.cpp

bench/fem/passembly/parallel_poisson_cube.sh

bench/fem/passembly/plot.py

bench/fem/passembly/plot_parallel_assembly_time.sh

bench/fem/passembly/sequential_poisson_cube.sh

bench/la

bench/la/bench.log

bench/la/bench.py

bench/la/sparse-matrix

bench/la/sparse-matrix/Poisson.form.old

bench/la/sparse-matrix/Poisson.h

bench/la/sparse-matrix/VectorPoisson.form.old

bench/la/sparse-matrix/VectorPoisson.h

bench/la/sparse-matrix/main.cpp

bench/la/vector

bench/la/vector/main.cpp

bench/mesh

bench/mesh/bench.log

bench/mesh/bench.py

bench/mesh/main.cpp

bench/ode

bench/ode/reaction

bench/ode/reaction/README

bench/ode/reaction/bench-domain.log

bench/ode/reaction/bench-domain.py

bench/ode/reaction/bench-overhead.log

bench/ode/reaction/bench-overhead.py

bench/ode/reaction/bench-plot.py

bench/ode/reaction/bench-tol.log

bench/ode/reaction/bench-tol.py

bench/ode/reaction/bench.log

bench/ode/reaction/bench.py

bench/ode/reaction/benchutil.py

bench/ode/reaction/checkerror.py

bench/ode/reaction/main.cpp

bench/ode/reaction/parameters-bench.xml

bench/ode/reaction/parameters-plot.xml

bench/ode/reaction/parameters-reference.xml

bench/ode/reaction/reference_1000.data

bench/ode/reaction/reference_16000.data

bench/ode/reaction/reference_2000.data

bench/ode/reaction/reference_4000.data

bench/ode/reaction/reference_8000.data

bench/ode/wave

bench/ode/wave/bench.log

bench/ode/wave/bench.py

bench/ode/wave/main.cpp

bench/ode/wave/parameters-bench.xml

bench/ode/wave/slit.xml.gz

data/SConscript

demo

demo/SConscript

demo/fem

demo/fem/assembly

demo/fem/assembly/cpp

demo/fem/assembly/cpp/ReactionDiffusion.form

demo/fem/assembly/cpp/ReactionDiffusion.h

demo/fem/assembly/cpp/main.cpp

demo/fem/assembly/python

demo/fem/assembly/python/README

demo/fem/simple

demo/fem/simple/cpp

demo/fem/simple/cpp/main.cpp

demo/fem/simple/python

demo/fem/simple/python/demo.py

demo/fem/simple/tetrahedron.xml.gz

demo/la

demo/la/eigensolver

demo/la/eigensolver/cpp

demo/la/eigensolver/cpp/main.cpp

demo/la/eigensolver/python

demo/la/eigensolver/python/demo.py

demo/mesh

demo/mesh/meshfunction

demo/mesh/meshfunction/cpp

demo/mesh/meshfunction/cpp/main.cpp

demo/mesh/meshfunction/cpp/plot.py

demo/mesh/meshfunction/mesh2D.xml.gz

demo/mesh/meshfunction/meshfunction.xml

demo/mesh/meshfunction/python

demo/mesh/meshfunction/python/demo.py

demo/mesh/partitioning

demo/mesh/partitioning/cpp

demo/mesh/partitioning/cpp/main.cpp

demo/mesh/partitioning/python

demo/mesh/partitioning/python/demo.py

demo/mesh/refinement

demo/mesh/refinement/cpp

demo/mesh/refinement/cpp/main.cpp

demo/mesh/refinement/python

demo/mesh/refinement/python/demo.py

demo/mesh/subdomains

demo/mesh/subdomains/cpp

demo/mesh/subdomains/cpp/main.cpp

demo/mesh/subdomains/python

demo/mesh/subdomains/python/demo.py

demo/nls

demo/nls/cahn-hilliard

demo/nls/cahn-hilliard/cpp

demo/nls/cahn-hilliard/cpp/CahnHilliard2D.form

demo/nls/cahn-hilliard/cpp/CahnHilliard2D.h

demo/nls/cahn-hilliard/cpp/CahnHilliard3D.form

demo/nls/cahn-hilliard/cpp/CahnHilliard3D.h

demo/nls/cahn-hilliard/cpp/main.cpp

demo/nls/cahn-hilliard/python

demo/nls/cahn-hilliard/python/README

demo/nls/nonlinearpoisson

demo/nls/nonlinearpoisson/cpp

demo/nls/nonlinearpoisson/cpp/NonlinearPoisson.form

demo/nls/nonlinearpoisson/cpp/NonlinearPoisson.h

demo/nls/nonlinearpoisson/cpp/main.cpp

demo/nls/nonlinearpoisson/python

demo/nls/nonlinearpoisson/python/demo.py

demo/ode

demo/ode/aliev-panfilov

demo/ode/aliev-panfilov/cpp

demo/ode/aliev-panfilov/cpp/main.cpp

demo/ode/aliev-panfilov/cpp/plot.py

demo/ode/aliev-panfilov/python

demo/ode/aliev-panfilov/python/demo.py

demo/ode/complex

demo/ode/complex/main.cpp

demo/ode/complex/plot.py

demo/ode/courtemanche

demo/ode/courtemanche/main.cpp

demo/ode/courtemanche/plot.py

demo/ode/harmonic

demo/ode/harmonic/main.cpp

demo/ode/harmonic/plot.py

demo/ode/homotopy

demo/ode/homotopy/economy

demo/ode/homotopy/economy/CES.h

demo/ode/homotopy/economy/EavesSchmedders.h

demo/ode/homotopy/economy/Economy.h

demo/ode/homotopy/economy/Leontief.h

demo/ode/homotopy/economy/Polemarchakis.h

demo/ode/homotopy/economy/ces.cpp

demo/ode/homotopy/economy/run-tests.sh

demo/ode/homotopy/economy/test.cpp

demo/ode/homotopy/simple

demo/ode/homotopy/simple/main.cpp

demo/ode/homotopy/simple/plot.py

demo/ode/lorenz

demo/ode/lorenz/main.cpp

demo/ode/lorenz/plot.py

demo/ode/method-weights

demo/ode/method-weights/main.cpp

demo/ode/stiff

demo/ode/stiff/TestProblem1.h

demo/ode/stiff/TestProblem2.h

demo/ode/stiff/TestProblem3.h

demo/ode/stiff/TestProblem4.h

demo/ode/stiff/TestProblem5.h

demo/ode/stiff/TestProblem6.h

demo/ode/stiff/TestProblem7.h

demo/ode/stiff/TestProblem8.h

demo/ode/stiff/TestProblem9.h

demo/ode/stiff/main.cpp

demo/ode/stiff/plot.py

demo/ode/stiff/run-tests.sh

demo/pde

demo/pde/convection-diffusion

demo/pde/convection-diffusion/cpp

demo/pde/convection-diffusion/cpp/ConvectionDiffusion.form

demo/pde/convection-diffusion/cpp/ConvectionDiffusion.h

demo/pde/convection-diffusion/cpp/main.cpp

demo/pde/convection-diffusion/python

demo/pde/convection-diffusion/python/demo.py

demo/pde/convection-diffusion/subdomains.xml.gz

demo/pde/convection-diffusion/velocity.xml.gz

demo/pde/dg

demo/pde/dg/cpp

demo/pde/dg/cpp/Poisson.form

demo/pde/dg/cpp/Poisson.h

demo/pde/dg/cpp/main.cpp

demo/pde/dg/cpp/plot.py

demo/pde/dg/python

demo/pde/dg/python/demo.py

demo/pde/dielectric

demo/pde/dielectric/cpp

demo/pde/dielectric/cpp/README

demo/pde/dielectric/python

demo/pde/dielectric/python/demo.py

demo/pde/elasticity

demo/pde/elasticity/cpp

demo/pde/elasticity/cpp/Elasticity.form

demo/pde/elasticity/cpp/Elasticity.h

demo/pde/elasticity/cpp/main.cpp

demo/pde/elasticity/cpp/plot.py

demo/pde/elasticity/python

demo/pde/elasticity/python/demo.py

demo/pde/functional

demo/pde/functional/cpp

demo/pde/functional/cpp/EnergyNorm.form

demo/pde/functional/cpp/EnergyNorm.h

demo/pde/functional/cpp/main.cpp

demo/pde/functional/python

demo/pde/functional/python/demo.py

demo/pde/lift-drag

demo/pde/lift-drag/cpp

demo/pde/lift-drag/cpp/Drag.form

demo/pde/lift-drag/cpp/Drag.h

demo/pde/lift-drag/cpp/Lift.form

demo/pde/lift-drag/cpp/Lift.h

demo/pde/lift-drag/cpp/main.cpp

demo/pde/lift-drag/pressure.xml.gz

demo/pde/lift-drag/python

demo/pde/lift-drag/python/demo.py

demo/pde/mixed-poisson

demo/pde/mixed-poisson/cpp

demo/pde/mixed-poisson/cpp/MixedPoisson.form

demo/pde/mixed-poisson/cpp/MixedPoisson.h

demo/pde/mixed-poisson/cpp/main.cpp

demo/pde/mixed-poisson/cpp/plot.py

demo/pde/mixed-poisson/python

demo/pde/mixed-poisson/python/demo.py

demo/pde/nonlinear-poisson

demo/pde/nonlinear-poisson/cpp

demo/pde/nonlinear-poisson/cpp/NonlinearPoisson.form

demo/pde/nonlinear-poisson/cpp/NonlinearPoisson.h

demo/pde/nonlinear-poisson/cpp/NonlinearPoisson.py

demo/pde/nonlinear-poisson/cpp/main.cpp

demo/pde/nonlinear-poisson/cpp/plot.py

demo/pde/nonlinear-poisson/python

demo/pde/nonlinear-poisson/python/demo.py

demo/pde/periodic

demo/pde/periodic/cpp

demo/pde/periodic/cpp/Poisson.form

demo/pde/periodic/cpp/Poisson.h

demo/pde/periodic/cpp/main.cpp

demo/pde/periodic/python

demo/pde/periodic/python/demo.py

demo/pde/poisson

demo/pde/poisson/cpp

demo/pde/poisson/cpp/Poisson.form

demo/pde/poisson/cpp/Poisson.h

demo/pde/poisson/cpp/README

demo/pde/poisson/cpp/main.cpp

demo/pde/poisson/python

demo/pde/poisson/python/demo.py

demo/pde/poisson1D

demo/pde/poisson1D/cpp

demo/pde/poisson1D/cpp/Poisson.form

demo/pde/poisson1D/cpp/Poisson.h

demo/pde/poisson1D/cpp/main.cpp

demo/pde/poisson1D/python

demo/pde/poisson1D/python/demo.py

demo/pde/stokes

demo/pde/stokes/stabilized

demo/pde/stokes/stabilized/cpp

demo/pde/stokes/stabilized/cpp/Stokes.form

demo/pde/stokes/stabilized/cpp/Stokes.h

demo/pde/stokes/stabilized/cpp/main.cpp

demo/pde/stokes/stabilized/cpp/plot.py

demo/pde/stokes/stabilized/python

demo/pde/stokes/stabilized/python/demo.py

demo/pde/stokes/stabilized/subdomains.xml.gz

demo/pde/stokes/taylor-hood

demo/pde/stokes/taylor-hood/cpp

demo/pde/stokes/taylor-hood/cpp/Stokes.form

demo/pde/stokes/taylor-hood/cpp/Stokes.h

demo/pde/stokes/taylor-hood/cpp/main.cpp

demo/pde/stokes/taylor-hood/cpp/plot.py

demo/pde/stokes/taylor-hood/python

demo/pde/stokes/taylor-hood/python/demo.py

demo/pde/stokes/taylor-hood/subdomains.xml.gz

demo/plot

demo/plot/cpp

demo/plot/cpp/dolfin-2.xml.gz

demo/plot/cpp/main.cpp

demo/plot/python

demo/plot/python/demo.py

demo/plot/python/dolfin-2.xml.gz

demo/quadrature

demo/quadrature/cpp

demo/quadrature/cpp/main.cpp

demo/quadrature/python

demo/quadrature/python/demo.py

doc/SConscript

dolfin

dolfin/SConscript

dolfin/common

dolfin/common/Array.h

dolfin/common/List.h

dolfin/common/TimeDependent.cpp

dolfin/common/TimeDependent.h

dolfin/common/Variable.cpp

dolfin/common/Variable.h

dolfin/common/dolfin_common.h

dolfin/common/simple_array.h

dolfin/common/timing.cpp

dolfin/common/timing.h

dolfin/common/unittest.h

dolfin/common/utils.cpp

dolfin/common/utils.h

dolfin/dolfin.pc.in

dolfin/elements

dolfin/elements/ElementLibrary.cpp

dolfin/elements/ElementLibrary.h

dolfin/elements/dolfin_elements.h

dolfin/elements/elements.py

dolfin/elements/ffc_00.h

dolfin/elements/ffc_01.h

dolfin/elements/ffc_02.h

dolfin/elements/ffc_03.h

dolfin/elements/ffc_04.h

dolfin/elements/ffc_05.h

dolfin/elements/ffc_06.h

dolfin/elements/ffc_07.h

dolfin/elements/ffc_08.h

dolfin/elements/ffc_09.h

dolfin/elements/ffc_10.h

dolfin/elements/ffc_11.h

dolfin/elements/ffc_12.h

dolfin/elements/ffc_13.h

dolfin/elements/ffc_14.h

dolfin/elements/ffc_15.h

dolfin/elements/ffc_16.h

dolfin/elements/ffc_17.h

dolfin/elements/ffc_18.h

dolfin/elements/ffc_19.h

dolfin/elements/ffc_20.h

dolfin/elements/ffc_21.h

dolfin/elements/ffc_22.h

dolfin/elements/ffc_23.h

dolfin/elements/ffc_24.h

dolfin/elements/ffc_25.h

dolfin/elements/ffc_26.h

dolfin/elements/generate.py

dolfin/fem

dolfin/fem/Assembler.cpp

dolfin/fem/Assembler.h

dolfin/fem/BoundaryCondition.cpp

dolfin/fem/BoundaryCondition.h

dolfin/fem/DirichletBC.cpp

dolfin/fem/DirichletBC.h

dolfin/fem/DofMap.cpp

dolfin/fem/DofMap.h

dolfin/fem/DofMapSet.cpp

dolfin/fem/DofMapSet.h

dolfin/fem/Form.cpp

dolfin/fem/Form.h

dolfin/fem/PeriodicBC.cpp

dolfin/fem/PeriodicBC.h

dolfin/fem/SparsityPatternBuilder.cpp

dolfin/fem/SparsityPatternBuilder.h

dolfin/fem/SubSystem.cpp

dolfin/fem/SubSystem.h

dolfin/fem/UFC.cpp

dolfin/fem/UFC.h

dolfin/fem/UFCCell.h

dolfin/fem/UFCMesh.h

dolfin/fem/assemble.cpp

dolfin/fem/assemble.h

dolfin/fem/dolfin_fem.h

dolfin/fem/pAssembler.cpp

dolfin/fem/pAssembler.h

dolfin/function

dolfin/function/ConstantFunction.cpp

dolfin/function/ConstantFunction.h

dolfin/function/DiscreteFunction.cpp

dolfin/function/DiscreteFunction.h

dolfin/function/Function.cpp

dolfin/function/Function.h

dolfin/function/GenericFunction.h

dolfin/function/SpecialFunctions.h

dolfin/function/SubFunction.h

dolfin/function/UserFunction.cpp

dolfin/function/UserFunction.h

dolfin/function/dolfin_function.h

dolfin/graph

dolfin/graph/DirectedClique.cpp

dolfin/graph/DirectedClique.h

dolfin/graph/Graph.cpp

dolfin/graph/Graph.h

dolfin/graph/GraphEditor.cpp

dolfin/graph/GraphEditor.h

dolfin/graph/GraphPartition.cpp

dolfin/graph/GraphPartition.h

dolfin/graph/UndirectedClique.cpp

dolfin/graph/UndirectedClique.h

dolfin/graph/dolfin_graph.h

dolfin/io

dolfin/io/File.cpp

dolfin/io/File.h

dolfin/io/GenericFile.cpp

dolfin/io/GenericFile.h

dolfin/io/MFile.cpp

dolfin/io/MFile.h

dolfin/io/MatlabFile.cpp

dolfin/io/MatlabFile.h

dolfin/io/OctaveFile.cpp

dolfin/io/OctaveFile.h

dolfin/io/OpenDXFile.cpp

dolfin/io/OpenDXFile.h

dolfin/io/PythonFile.cpp

dolfin/io/PythonFile.h

dolfin/io/VTKFile.cpp

dolfin/io/VTKFile.h

dolfin/io/XMLBLASFormData.cpp

dolfin/io/XMLBLASFormData.h

dolfin/io/XMLDofMap.cpp

dolfin/io/XMLDofMap.h

dolfin/io/XMLFile.cpp

dolfin/io/XMLFile.h

dolfin/io/XMLFiniteElement.cpp

dolfin/io/XMLFiniteElement.h

dolfin/io/XMLFunction.cpp

dolfin/io/XMLFunction.h

dolfin/io/XMLGraph.cpp

dolfin/io/XMLGraph.h

dolfin/io/XMLMatrix.cpp

dolfin/io/XMLMatrix.h

dolfin/io/XMLMesh.cpp

dolfin/io/XMLMesh.h

dolfin/io/XMLMeshFunction.cpp

dolfin/io/XMLMeshFunction.h

dolfin/io/XMLObject.cpp

dolfin/io/XMLObject.h

dolfin/io/XMLParameterList.cpp

dolfin/io/XMLParameterList.h

dolfin/io/XMLVector.cpp

dolfin/io/XMLVector.h

dolfin/io/dolfin_io.h

dolfin/la

dolfin/la/AssemblyMatrix.h

dolfin/la/GMRES.cpp

dolfin/la/GMRES.h

dolfin/la/GenericMatrix.h

dolfin/la/GenericSparsityPattern.h

dolfin/la/GenericTensor.h

dolfin/la/GenericVector.h

dolfin/la/KrylovMethod.h

dolfin/la/KrylovSolver.h

dolfin/la/LU.cpp

dolfin/la/LU.h

dolfin/la/LUSolver.h

dolfin/la/LinearAlgebraFactory.h

dolfin/la/LinearSolver.h

dolfin/la/Matrix.h

dolfin/la/PETScFactory.cpp

dolfin/la/PETScFactory.h

dolfin/la/PETScKrylovMatrix.cpp

dolfin/la/PETScKrylovMatrix.h

dolfin/la/PETScKrylovSolver.cpp

dolfin/la/PETScKrylovSolver.h

dolfin/la/PETScLUSolver.cpp

dolfin/la/PETScLUSolver.h

dolfin/la/PETScLinearSolver.h

dolfin/la/PETScMatrix.cpp

dolfin/la/PETScMatrix.h

dolfin/la/PETScObject.h

dolfin/la/PETScPreconditioner.cpp

dolfin/la/PETScPreconditioner.h

dolfin/la/PETScVector.cpp

dolfin/la/PETScVector.h

dolfin/la/Preconditioner.h

dolfin/la/SLEPcEigenvalueSolver.cpp

dolfin/la/SLEPcEigenvalueSolver.h

dolfin/la/Scalar.h

dolfin/la/SparsityPattern.cpp

dolfin/la/SparsityPattern.h

dolfin/la/Vector.h

dolfin/la/VectorNormType.h

dolfin/la/default_la_types.h

dolfin/la/dolfin_la.h

dolfin/la/solve.cpp

dolfin/la/solve.h

dolfin/la/uBlasDenseMatrix.h

dolfin/la/uBlasDummyPreconditioner.cpp

dolfin/la/uBlasDummyPreconditioner.h

dolfin/la/uBlasFactory.cpp

dolfin/la/uBlasFactory.h

dolfin/la/uBlasILUPreconditioner.cpp

dolfin/la/uBlasILUPreconditioner.h

dolfin/la/uBlasKrylovMatrix.cpp

dolfin/la/uBlasKrylovMatrix.h

dolfin/la/uBlasKrylovSolver.cpp

dolfin/la/uBlasKrylovSolver.h

dolfin/la/uBlasLUSolver.cpp

dolfin/la/uBlasLUSolver.h

dolfin/la/uBlasLinearSolver.h

dolfin/la/uBlasMatrix.cpp

dolfin/la/uBlasMatrix.h

dolfin/la/uBlasPreconditioner.h

dolfin/la/uBlasSparseMatrix.h

dolfin/la/uBlasVector.cpp

dolfin/la/uBlasVector.h

dolfin/la/ublas.h

dolfin/log

dolfin/log/Event.cpp

dolfin/log/Event.h

dolfin/log/LogManager.cpp

dolfin/log/LogManager.h

dolfin/log/LogStream.cpp

dolfin/log/LogStream.h

dolfin/log/Logger.cpp

dolfin/log/Logger.h

dolfin/log/LoggerManager.cpp

dolfin/log/Progress.cpp

dolfin/log/Progress.h

dolfin/log/dolfin_log.h

dolfin/log/log.cpp

dolfin/log/log.h

dolfin/main

dolfin/main/MPI.cpp

dolfin/main/MPI.h

dolfin/main/SubSystemsManager.cpp

dolfin/main/SubSystemsManager.h

dolfin/main/constants.h

dolfin/main/dolfin.h

dolfin/main/dolfin_doc.h

dolfin/main/dolfin_main.h

dolfin/main/init.cpp

dolfin/main/init.h

dolfin/math

dolfin/math/Lagrange.cpp

dolfin/math/Lagrange.h

dolfin/math/Legendre.cpp

dolfin/math/Legendre.h

dolfin/math/basic.cpp

dolfin/math/basic.h

dolfin/math/dolfin_math.h

dolfin/mesh

dolfin/mesh/BoundaryComputation.cpp

dolfin/mesh/BoundaryComputation.h

dolfin/mesh/BoundaryMesh.cpp

dolfin/mesh/BoundaryMesh.h

dolfin/mesh/Cell.cpp

dolfin/mesh/Cell.h

dolfin/mesh/CellType.cpp

dolfin/mesh/CellType.h

dolfin/mesh/Edge.cpp

dolfin/mesh/Edge.h

dolfin/mesh/Face.cpp

dolfin/mesh/Face.h

dolfin/mesh/Facet.cpp

dolfin/mesh/Facet.h

dolfin/mesh/GTSInterface.cpp

dolfin/mesh/GTSInterface.h

dolfin/mesh/GeometricPredicates.cpp

dolfin/mesh/GeometricPredicates.h

dolfin/mesh/IntersectionDetector.cpp

dolfin/mesh/IntersectionDetector.h

dolfin/mesh/IntervalCell.cpp

dolfin/mesh/IntervalCell.h

dolfin/mesh/LocalMeshCoarsening.cpp

dolfin/mesh/LocalMeshCoarsening.h

dolfin/mesh/LocalMeshRefinement.cpp

dolfin/mesh/LocalMeshRefinement.h

dolfin/mesh/MPIMeshCommunicator.cpp

dolfin/mesh/MPIMeshCommunicator.h

dolfin/mesh/Mesh.cpp

dolfin/mesh/Mesh.h

dolfin/mesh/MeshConnectivity.cpp

dolfin/mesh/MeshConnectivity.h

dolfin/mesh/MeshData.cpp

dolfin/mesh/MeshData.h

dolfin/mesh/MeshEditor.cpp

dolfin/mesh/MeshEditor.h

dolfin/mesh/MeshEntity.cpp

dolfin/mesh/MeshEntity.h

dolfin/mesh/MeshEntityIterator.cpp

dolfin/mesh/MeshEntityIterator.h

dolfin/mesh/MeshFunction.h

dolfin/mesh/MeshGeometry.cpp

dolfin/mesh/MeshGeometry.h

dolfin/mesh/MeshHierarchy.cpp

dolfin/mesh/MeshHierarchy.h

dolfin/mesh/MeshHierarchyAlgorithms.cpp

dolfin/mesh/MeshHierarchyAlgorithms.h

dolfin/mesh/MeshOrdering.cpp

dolfin/mesh/MeshOrdering.h

dolfin/mesh/MeshPartition.cpp

dolfin/mesh/MeshPartition.h

dolfin/mesh/MeshTopology.cpp

dolfin/mesh/MeshTopology.h

dolfin/mesh/Point.cpp

dolfin/mesh/Point.h

dolfin/mesh/PointCell.cpp

dolfin/mesh/PointCell.h

dolfin/mesh/SubDomain.cpp

dolfin/mesh/SubDomain.h

dolfin/mesh/TetrahedronCell.cpp

dolfin/mesh/TetrahedronCell.h

dolfin/mesh/TopologyComputation.cpp

dolfin/mesh/TopologyComputation.h

dolfin/mesh/TriangleCell.cpp

dolfin/mesh/TriangleCell.h

dolfin/mesh/UniformMeshRefinement.cpp

dolfin/mesh/UniformMeshRefinement.h

dolfin/mesh/UnitCube.cpp

dolfin/mesh/UnitCube.h

dolfin/mesh/UnitInterval.cpp

dolfin/mesh/UnitInterval.h

dolfin/mesh/UnitSquare.cpp

dolfin/mesh/UnitSquare.h

dolfin/mesh/Vertex.cpp

dolfin/mesh/Vertex.h

dolfin/mesh/dolfin_mesh.h

dolfin/mesh/predicates_init.h

dolfin/mesh/rounding.h

dolfin/mf

dolfin/mf/ConvectionMatrix.h

dolfin/mf/LoadVector.h

dolfin/mf/MassMatrix.h

dolfin/mf/MatrixFactory.cpp

dolfin/mf/MatrixFactory.h

dolfin/mf/StiffnessMatrix.h

dolfin/mf/dolfin_mf.h

dolfin/mf/ffc-forms

dolfin/mf/ffc-forms/ConvectionMatrix2D.form

dolfin/mf/ffc-forms/ConvectionMatrix2D.h

dolfin/mf/ffc-forms/ConvectionMatrix3D.form

dolfin/mf/ffc-forms/ConvectionMatrix3D.h

dolfin/mf/ffc-forms/LoadVector2D.form

dolfin/mf/ffc-forms/LoadVector2D.h

dolfin/mf/ffc-forms/LoadVector3D.form

dolfin/mf/ffc-forms/LoadVector3D.h

dolfin/mf/ffc-forms/MassMatrix2D.form

dolfin/mf/ffc-forms/MassMatrix2D.h

dolfin/mf/ffc-forms/MassMatrix3D.form

dolfin/mf/ffc-forms/MassMatrix3D.h

dolfin/mf/ffc-forms/StiffnessMatrix2D.form

dolfin/mf/ffc-forms/StiffnessMatrix2D.h

dolfin/mf/ffc-forms/StiffnessMatrix3D.form

dolfin/mf/ffc-forms/StiffnessMatrix3D.h

dolfin/nls

dolfin/nls/NewtonSolver.cpp

dolfin/nls/NewtonSolver.h

dolfin/nls/NonlinearProblem.cpp

dolfin/nls/NonlinearProblem.h

dolfin/nls/dolfin_nls.h

dolfin/ode

dolfin/ode/Adaptivity.cpp

dolfin/ode/Adaptivity.h

dolfin/ode/Alloc.cpp

dolfin/ode/Alloc.h

dolfin/ode/ComplexODE.cpp

dolfin/ode/ComplexODE.h

dolfin/ode/Controller.cpp

dolfin/ode/Controller.h

dolfin/ode/Dependencies.cpp

dolfin/ode/Dependencies.h

dolfin/ode/Dual.cpp

dolfin/ode/Dual.h

dolfin/ode/Homotopy.cpp

dolfin/ode/Homotopy.h

dolfin/ode/HomotopyJacobian.cpp

dolfin/ode/HomotopyJacobian.h

dolfin/ode/HomotopyODE.cpp

dolfin/ode/HomotopyODE.h

dolfin/ode/Method.cpp

dolfin/ode/Method.h

dolfin/ode/MonoAdaptiveFixedPointSolver.cpp

dolfin/ode/MonoAdaptiveFixedPointSolver.h

dolfin/ode/MonoAdaptiveJacobian.cpp

dolfin/ode/MonoAdaptiveJacobian.h

dolfin/ode/MonoAdaptiveNewtonSolver.cpp

dolfin/ode/MonoAdaptiveNewtonSolver.h

dolfin/ode/MonoAdaptiveTimeSlab.cpp

dolfin/ode/MonoAdaptiveTimeSlab.h

dolfin/ode/MonoAdaptivity.cpp

dolfin/ode/MonoAdaptivity.h

dolfin/ode/MultiAdaptiveFixedPointSolver.cpp

dolfin/ode/MultiAdaptiveFixedPointSolver.h

dolfin/ode/MultiAdaptiveJacobian.cpp

dolfin/ode/MultiAdaptiveJacobian.h

dolfin/ode/MultiAdaptiveNewtonSolver.cpp

dolfin/ode/MultiAdaptiveNewtonSolver.h

dolfin/ode/MultiAdaptivePreconditioner.cpp

dolfin/ode/MultiAdaptivePreconditioner.h

dolfin/ode/MultiAdaptiveTimeSlab.cpp

dolfin/ode/MultiAdaptiveTimeSlab.h

dolfin/ode/MultiAdaptivity.cpp

dolfin/ode/MultiAdaptivity.h

dolfin/ode/ODE.cpp

dolfin/ode/ODE.h

dolfin/ode/ODESolver.cpp

dolfin/ode/ODESolver.h

dolfin/ode/Partition.cpp

dolfin/ode/Partition.h

dolfin/ode/README

dolfin/ode/ReducedModel.cpp

dolfin/ode/ReducedModel.h

dolfin/ode/Sample.cpp

dolfin/ode/Sample.h

dolfin/ode/TimeSlab.cpp

dolfin/ode/TimeSlab.h

dolfin/ode/TimeSlabJacobian.cpp

dolfin/ode/TimeSlabJacobian.h

dolfin/ode/TimeSlabSolver.cpp

dolfin/ode/TimeSlabSolver.h

dolfin/ode/TimeStepper.cpp

dolfin/ode/TimeStepper.h

dolfin/ode/UpdatedMultiAdaptiveJacobian.cpp

dolfin/ode/UpdatedMultiAdaptiveJacobian.h

dolfin/ode/cGqMethod.cpp

dolfin/ode/cGqMethod.h

dolfin/ode/dGqMethod.cpp

dolfin/ode/dGqMethod.h

dolfin/ode/dolfin_ode.h

dolfin/parameter

dolfin/parameter/DefaultParameters.h

dolfin/parameter/Parameter.cpp

dolfin/parameter/Parameter.h

dolfin/parameter/ParameterList.cpp

dolfin/parameter/ParameterList.h

dolfin/parameter/ParameterSystem.cpp

dolfin/parameter/ParameterSystem.h

dolfin/parameter/ParameterValue.cpp

dolfin/parameter/ParameterValue.h

dolfin/parameter/Parametrized.cpp

dolfin/parameter/Parametrized.h

dolfin/parameter/dolfin_parameter.h

dolfin/parameter/parameters.cpp

dolfin/parameter/parameters.h

dolfin/pde

dolfin/pde/LinearPDE.cpp

dolfin/pde/LinearPDE.h

dolfin/pde/NonlinearPDE.cpp

dolfin/pde/NonlinearPDE.h

dolfin/pde/dolfin_pde.h

dolfin/plot

dolfin/plot/dolfin_plot.h

dolfin/plot/plot.cpp

dolfin/plot/plot.h

dolfin/quadrature

dolfin/quadrature/GaussQuadrature.cpp

dolfin/quadrature/GaussQuadrature.h

dolfin/quadrature/GaussianQuadrature.cpp

dolfin/quadrature/GaussianQuadrature.h

dolfin/quadrature/LobattoQuadrature.cpp

dolfin/quadrature/LobattoQuadrature.h

dolfin/quadrature/Quadrature.cpp

dolfin/quadrature/Quadrature.h

dolfin/quadrature/RadauQuadrature.cpp

dolfin/quadrature/RadauQuadrature.h

dolfin/quadrature/dolfin_quadrature.h

dolfin/scons.cfg

dolfin/swig

dolfin/swig/README

dolfin/swig/directors.i

dolfin/swig/dolfin.i

dolfin/swig/dolfin_common_post.i

dolfin/swig/dolfin_docstrings.i

dolfin/swig/dolfin_exceptions.i

dolfin/swig/dolfin_fem_pre.i

dolfin/swig/dolfin_function_pre.i

dolfin/swig/dolfin_headers.h

dolfin/swig/dolfin_la_post.i

dolfin/swig/dolfin_la_pre.i

dolfin/swig/dolfin_log_post.i

dolfin/swig/dolfin_mesh_post.i

dolfin/swig/dolfin_mesh_pre.i

dolfin/swig/dolfin_pde_pre.i

dolfin/swig/generate.py

dolfin/swig/generate_docstrings.py

dolfin/swig/ignores.i

dolfin/swig/numpy_typemaps.i

dolfin/swig/renames.i

dolfin/swig/typemaps.i

misc

misc/gendoc.sh

misc/greeting

misc/greeting/greeting.sh

misc/petsc.conf

misc/slepc.conf

misc/utils

misc/utils/convert

misc/utils/convert/dolfin-convert

misc/utils/convert/test_diffpack.grid

misc/utils/convert/test_exodus.exo

misc/utils/convert/test_gmsh.msh

misc/utils/convert/test_old_xml.xml

misc/utils/convert/test_tetgen.mesh

misc/utils/emacs

misc/utils/emacs/macros

misc/utils/gid

misc/utils/gid/dolfin.bas

misc/utils/inp2dx

misc/utils/inp2dx/inp2dx.c

misc/utils/inp2dx/inp2dxanim.c

misc/utils/matlab

misc/utils/matlab/meshindex.m

misc/utils/matlab/plotcontroller.m

misc/utils/matlab/plotslab.m

misc/utils/matlab/writegid.m

misc/utils/matlab/writeinp.m

misc/utils/matlab/xmlmatrix.m

misc/utils/matlab/xmlmesh.m

misc/utils/matlab/xmlvector.m

misc/utils/octave

misc/utils/octave/README

misc/utils/octave/pdemesh.m

misc/utils/octave/pdeplot.m

misc/utils/octave/pdesurf.m

misc/utils/opendx

misc/utils/opendx/dolfin.cfg

misc/utils/opendx/dolfin.net

misc/utils/swig

misc/utils/swig/dolfin-swig

misc/utils/system

misc/utils/system/monitor

misc/utils/vim

misc/utils/vim/macros

misc/utils/xml

misc/utils/xml/convertall

misc/utils/xml/inp2xml

sandbox

sandbox/README

sandbox/bdm

sandbox/bdm/MixedPoisson.form

sandbox/bdm/MixedPoisson.h

sandbox/bdm/main.cpp

sandbox/dg

sandbox/dg/Poisson.form

sandbox/dg/Poisson.h

sandbox/dg/Projection.form

sandbox/dg/Projection.h

sandbox/dg/cg-dg-comparison

sandbox/dg/cg-dg-comparison/cg

sandbox/dg/cg-dg-comparison/cg/Poisson.form

sandbox/dg/cg-dg-comparison/cg/Poisson.h

sandbox/dg/cg-dg-comparison/cg/main.cpp

sandbox/dg/cg-dg-comparison/cg/poisson000000.vtu

sandbox/dg/cg-dg-comparison/cg/poissonCG_gamma100_mesh10000000.vtu

sandbox/dg/cg-dg-comparison/cg/poissonCG_gamma100_mesh5000000.vtu

sandbox/dg/cg-dg-comparison/cg/poissonCG_stabilised_gamma4_mesh10000000.vtu

sandbox/dg/cg-dg-comparison/cg/poissonCG_stabilised_gamma4_mesh5000000.vtu

sandbox/dg/cg-dg-comparison/dg

sandbox/dg/cg-dg-comparison/dg/Poisson.form

sandbox/dg/cg-dg-comparison/dg/Poisson.h

sandbox/dg/cg-dg-comparison/dg/Projection.form

sandbox/dg/cg-dg-comparison/dg/Projection.h

sandbox/dg/cg-dg-comparison/dg/main.cpp

sandbox/dg/cg-dg-comparison/dg/poissonDG_gamma12_alpha4_mesh10000000.vtu

sandbox/dg/cg-dg-comparison/dg/poissonDG_gamma24_alpha8_mesh10000000.vtu

sandbox/dg/cg-dg-comparison/dg/poissonDG_stabilised_gamma12_alpha4_mesh10000000.vtu

sandbox/dg/cg-dg-comparison/dg/poissonDG_stabilised_gamma12_alpha4_mesh5000000.vtu

sandbox/dg/cg-dg-comparison/dg/poissonDG_stabilised_gamma24_alpha8_mesh5000000.vtu

sandbox/dg/cg-dg-comparison/dg/poissonDG_stabilised_gamma4_alpha2_mesh10000000.vtu

sandbox/dg/cg-dg-comparison/dg/poissonDG_stabilised_gamma4_alpha2_mesh5000000.vtu

sandbox/dg/cg-dg-comparison/dg/poissonDG_stabilised_gamma4_alpha4_mesh10000000.vtu

sandbox/dg/cg-dg-comparison/dg/poissonDG_stabilised_gamma4_alpha4_mesh5000000.vtu

sandbox/dg/cg-dg-comparison/dg/poissonDG_stabilised_gamma8_alpha4_mesh10000000.vtu

sandbox/dg/cg-dg-comparison/dg/poissonDG_stabilised_gamma8_alpha4_mesh5000000.vtu

sandbox/dg/main.cpp

sandbox/dg/plot.py

sandbox/graph

sandbox/graph/main.cpp

sandbox/jit

sandbox/jit/test.py

sandbox/meshordering

sandbox/meshordering/main.cpp

sandbox/meshordering/meshreordering

sandbox/meshordering/test.form

sandbox/misc

sandbox/misc/main.cpp

sandbox/partitioning

sandbox/partitioning/bench1.sh

sandbox/partitioning/bench2.sh

sandbox/partitioning/bench3.sh

sandbox/partitioning/main.cpp

sandbox/partitioning/partition.h

sandbox/partitioning/plot.py

sandbox/partitioning/plot1a.sh

sandbox/partitioning/plot1b.sh

sandbox/partitioning/plot2a.sh

sandbox/partitioning/plot2b.sh

sandbox/partitioning/plot3a.sh

sandbox/partitioning/plot3b.sh

sandbox/partitioning/unitcube4.xml

sandbox/partitioning/unitsquare40.xml

sandbox/passembly

sandbox/passembly/PdofMap.h

sandbox/passembly/Poisson2D.form

sandbox/passembly/Poisson2D.h

sandbox/passembly/main.cpp

sandbox/passembly/partition.h

scons

scons/simula-scons

scons/simula-scons/AUTHORS

scons/simula-scons/README

scons/simula-scons/TODO

scons/simula-scons/setup.py

scons/simula-scons/simula_scons

scons/simula-scons/simula_scons/Customize.py

scons/simula-scons/simula_scons/Errors.py

scons/simula-scons/simula_scons/__init__.py

scons/simula-scons/simula_scons/_module.py

scons/simula-scons/simula_scons/latex.py

scons/simula-scons/simula_scons/pkgconfig.py

scons/simula-scons/simula_scons/pkgconfiggenerators

scons/simula-scons/simula_scons/pkgconfiggenerators/__init__.py

scons/simula-scons/simula_scons/pkgconfiggenerators/boost.py

scons/simula-scons/simula_scons/pkgconfiggenerators/commonPkgConfigUtils.py

scons/simula-scons/simula_scons/pkgconfiggenerators/dolfin.py

scons/simula-scons/simula_scons/pkgconfiggenerators/hypre.py

scons/simula-scons/simula_scons/pkgconfiggenerators/install_packages

scons/simula-scons/simula_scons/pkgconfiggenerators/install_packages/boost

scons/simula-scons/simula_scons/pkgconfiggenerators/install_packages/boost/install.sh

scons/simula-scons/simula_scons/pkgconfiggenerators/install_packages/cmake

scons/simula-scons/simula_scons/pkgconfiggenerators/install_packages/cmake/install.sh

scons/simula-scons/simula_scons/pkgconfiggenerators/install_packages/dolfin

scons/simula-scons/simula_scons/pkgconfiggenerators/install_packages/dolfin/install.sh

scons/simula-scons/simula_scons/pkgconfiggenerators/install_packages/hypre

scons/simula-scons/simula_scons/pkgconfiggenerators/install_packages/hypre/hypre-configure

scons/simula-scons/simula_scons/pkgconfiggenerators/install_packages/hypre/hypre-struct_overlap_innerprod.c

scons/simula-scons/simula_scons/pkgconfiggenerators/install_packages/hypre/install.sh

scons/simula-scons/simula_scons/pkgconfiggenerators/install_packages/pkgconfig

scons/simula-scons/simula_scons/pkgconfiggenerators/install_packages/pkgconfig/install.sh

scons/simula-scons/simula_scons/pkgconfiggenerators/install_packages/scotch

scons/simula-scons/simula_scons/pkgconfiggenerators/install_packages/scotch/install.sh

scons/simula-scons/simula_scons/pkgconfiggenerators/install_packages/trilinos

scons/simula-scons/simula_scons/pkgconfiggenerators/install_packages/trilinos/install.sh

scons/simula-scons/simula_scons/pkgconfiggenerators/install_packages/ufc

scons/simula-scons/simula_scons/pkgconfiggenerators/install_packages/ufc/install.sh

scons/simula-scons/simula_scons/pkgconfiggenerators/install_packages/vtk

scons/simula-scons/simula_scons/pkgconfiggenerators/install_packages/vtk/install.sh

scons/simula-scons/simula_scons/pkgconfiggenerators/numeric.py

scons/simula-scons/simula_scons/pkgconfiggenerators/numpy.py

scons/simula-scons/simula_scons/pkgconfiggenerators/petsc.py

scons/simula-scons/simula_scons/pkgconfiggenerators/python.py

scons/simula-scons/simula_scons/pkgconfiggenerators/scotch.py

scons/simula-scons/simula_scons/pkgconfiggenerators/slepc.py

scons/simula-scons/simula_scons/pkgconfiggenerators/superlu.py

scons/simula-scons/simula_scons/pkgconfiggenerators/trilinos.py

scons/simula-scons/simula_scons/pkgconfiggenerators/umfpack.py

site-packages

site-packages/dolfin

site-packages/dolfin/__init__.py

site-packages/dolfin/assemble.py

site-packages/dolfin/constants.py

site-packages/dolfin/plot.py

test

test/function

test/function/cpp

test/function/cpp/test.cpp

test/function/python

test/function/python/test.py

test/graph

test/graph/cpp

test/graph/cpp/test.cpp

test/graph/python

test/graph/python/test.py

test/mesh

test/mesh/cpp

test/mesh/cpp/test.cpp

test/mesh/python

test/mesh/python/test.py

test/test.py

files removed:
Makefile.am

Makefile.in

NEWS

aclocal.m4

config.guess

config.sub

configure

configure.ac

configure.local

depcomp

doc/manual/Makefile

dolfin.pc.in

gendoc.sh

install-sh

ltmain.sh

m4/ac_pkg_swig.m4

m4/ac_python_devel.m4

m4/ax_boost_base.m4

m4/ax_compiler_vendor.m4

m4/libtool.m4

m4/libxml.m4

missing

mkinstalldirs

numpy.conf

petsc.conf

py-compile

slepc.conf

src/Makefile.am

src/Makefile.in

src/bench

src/bench/Makefile.am

src/bench/Makefile.in

src/bench/README

src/bench/bench

src/bench/fem

src/bench/fem/Makefile.am

src/bench/fem/Makefile.in

src/bench/fem/assembly

src/bench/fem/assembly/Advection.form

src/bench/fem/assembly/Advection.h

src/bench/fem/assembly/Makefile

src/bench/fem/assembly/bench.log

src/bench/fem/assembly/bench.py

src/bench/fem/assembly/main.cpp

src/bench/fem/convergence

src/bench/fem/convergence/Makefile

src/bench/fem/convergence/Poisson2D_1.form

src/bench/fem/convergence/Poisson2D_1.h

src/bench/fem/convergence/Poisson2D_2.form

src/bench/fem/convergence/Poisson2D_2.h

src/bench/fem/convergence/Poisson2D_3.form

src/bench/fem/convergence/Poisson2D_3.h

src/bench/fem/convergence/Poisson2D_4.form

src/bench/fem/convergence/Poisson2D_4.h

src/bench/fem/convergence/Poisson2D_5.form

src/bench/fem/convergence/Poisson2D_5.h

src/bench/fem/convergence/Poisson3D_1.form

src/bench/fem/convergence/Poisson3D_1.h

src/bench/fem/convergence/Poisson3D_2.form

src/bench/fem/convergence/Poisson3D_2.h

src/bench/fem/convergence/Poisson3D_3.form

src/bench/fem/convergence/Poisson3D_3.h

src/bench/fem/convergence/Poisson3D_4.form

src/bench/fem/convergence/Poisson3D_4.h

src/bench/fem/convergence/Poisson3D_5.form

src/bench/fem/convergence/Poisson3D_5.h

src/bench/fem/convergence/README

src/bench/fem/convergence/bench.log

src/bench/fem/convergence/bench.py

src/bench/fem/convergence/main.cpp

src/bench/fem/passembly

src/bench/fem/passembly/Makefile

src/bench/fem/passembly/Nonlinear2D.form

src/bench/fem/passembly/Nonlinear2D.h

src/bench/fem/passembly/Poisson.form

src/bench/fem/passembly/Poisson.h

src/bench/fem/passembly/Poisson2D.h

src/bench/fem/passembly/Poisson3D_1.form

src/bench/fem/passembly/Poisson3D_1.h

src/bench/fem/passembly/assemble.h

src/bench/fem/passembly/getopts.cpp

src/bench/fem/passembly/getopts.h

src/bench/fem/passembly/main.cpp

src/bench/fem/passembly/parallel_poisson_cube.sh

src/bench/fem/passembly/plot.py

src/bench/fem/passembly/plot_parallel_assembly_time.sh

src/bench/fem/passembly/sequential_poisson_cube.sh

src/bench/la

src/bench/la/Makefile.am

src/bench/la/Makefile.in

src/bench/la/bench.log

src/bench/la/bench.py

src/bench/la/sparse-matrix

src/bench/la/sparse-matrix/Makefile

src/bench/la/sparse-matrix/Poisson.form.old

src/bench/la/sparse-matrix/Poisson.h

src/bench/la/sparse-matrix/VectorPoisson.form.old

src/bench/la/sparse-matrix/VectorPoisson.h

src/bench/la/sparse-matrix/main.cpp

src/bench/la/vector

src/bench/la/vector/Makefile

src/bench/la/vector/main.cpp

src/bench/mesh

src/bench/mesh/Makefile

src/bench/mesh/bench.log

src/bench/mesh/bench.py

src/bench/mesh/main.cpp

src/bench/ode

src/bench/ode/Makefile.am

src/bench/ode/Makefile.in

src/bench/ode/reaction

src/bench/ode/reaction/Makefile

src/bench/ode/reaction/README

src/bench/ode/reaction/bench-domain.log

src/bench/ode/reaction/bench-domain.py

src/bench/ode/reaction/bench-overhead.log

src/bench/ode/reaction/bench-overhead.py

src/bench/ode/reaction/bench-plot.py

src/bench/ode/reaction/bench-tol.log

src/bench/ode/reaction/bench-tol.py

src/bench/ode/reaction/bench.log

src/bench/ode/reaction/bench.py

src/bench/ode/reaction/benchutil.py

src/bench/ode/reaction/checkerror.py

src/bench/ode/reaction/main.cpp

src/bench/ode/reaction/parameters-bench.xml

src/bench/ode/reaction/parameters-plot.xml

src/bench/ode/reaction/parameters-reference.xml

src/bench/ode/reaction/reference_1000.data

src/bench/ode/reaction/reference_16000.data

src/bench/ode/reaction/reference_2000.data

src/bench/ode/reaction/reference_4000.data

src/bench/ode/reaction/reference_8000.data

src/bench/ode/wave

src/bench/ode/wave/Makefile

src/bench/ode/wave/bench.log

src/bench/ode/wave/bench.py

src/bench/ode/wave/main.cpp

src/bench/ode/wave/parameters-bench.xml

src/bench/ode/wave/slit.xml.gz

src/demo

src/demo/Makefile.am

src/demo/Makefile.in

src/demo/fem

src/demo/fem/assembly

src/demo/fem/assembly/cpp

src/demo/fem/assembly/cpp/Makefile

src/demo/fem/assembly/cpp/ReactionDiffusion.form

src/demo/fem/assembly/cpp/ReactionDiffusion.h

src/demo/fem/assembly/cpp/main.cpp

src/demo/fem/assembly/python

src/demo/fem/assembly/python/README

src/demo/fem/simple

src/demo/fem/simple/cpp

src/demo/fem/simple/cpp/Makefile

src/demo/fem/simple/cpp/main.cpp

src/demo/fem/simple/python

src/demo/fem/simple/python/demo.py

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src/kernel/math/dolfin/dolfin_math.h

src/kernel/mesh

src/kernel/mesh/BoundaryComputation.cpp

src/kernel/mesh/BoundaryMesh.cpp

src/kernel/mesh/Cell.cpp

src/kernel/mesh/CellType.cpp

src/kernel/mesh/Edge.cpp

src/kernel/mesh/Face.cpp

src/kernel/mesh/Facet.cpp

src/kernel/mesh/GTSInterface.cpp

src/kernel/mesh/GeometricPredicates.cpp

src/kernel/mesh/IntersectionDetector.cpp

src/kernel/mesh/IntervalCell.cpp

src/kernel/mesh/LocalMeshCoarsening.cpp

src/kernel/mesh/LocalMeshRefinement.cpp

src/kernel/mesh/MPIMeshCommunicator.cpp

src/kernel/mesh/Makefile.am

src/kernel/mesh/Makefile.in

src/kernel/mesh/Mesh.cpp

src/kernel/mesh/MeshConnectivity.cpp

src/kernel/mesh/MeshData.cpp

src/kernel/mesh/MeshEditor.cpp

src/kernel/mesh/MeshEntity.cpp

src/kernel/mesh/MeshEntityIterator.cpp

src/kernel/mesh/MeshGeometry.cpp

src/kernel/mesh/MeshHierarchy.cpp

src/kernel/mesh/MeshHierarchyAlgorithms.cpp

src/kernel/mesh/MeshOrdering.cpp

src/kernel/mesh/MeshPartition.cpp

src/kernel/mesh/MeshTopology.cpp

src/kernel/mesh/Point.cpp

src/kernel/mesh/PointCell.cpp

src/kernel/mesh/SubDomain.cpp

src/kernel/mesh/TetrahedronCell.cpp

src/kernel/mesh/TopologyComputation.cpp

src/kernel/mesh/TriangleCell.cpp

src/kernel/mesh/UniformMeshRefinement.cpp

src/kernel/mesh/UnitCube.cpp

src/kernel/mesh/UnitInterval.cpp

src/kernel/mesh/UnitSquare.cpp

src/kernel/mesh/Vertex.cpp

src/kernel/mesh/dolfin

src/kernel/mesh/dolfin/BoundaryComputation.h

src/kernel/mesh/dolfin/BoundaryMesh.h

src/kernel/mesh/dolfin/Cell.h

src/kernel/mesh/dolfin/CellType.h

src/kernel/mesh/dolfin/Edge.h

src/kernel/mesh/dolfin/Face.h

src/kernel/mesh/dolfin/Facet.h

src/kernel/mesh/dolfin/GTSInterface.h

src/kernel/mesh/dolfin/GeometricPredicates.h

src/kernel/mesh/dolfin/IntersectionDetector.h

src/kernel/mesh/dolfin/IntervalCell.h

src/kernel/mesh/dolfin/LocalMeshCoarsening.h

src/kernel/mesh/dolfin/LocalMeshRefinement.h

src/kernel/mesh/dolfin/MPIMeshCommunicator.h

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src/kernel/mesh/dolfin/MeshTopology.h

src/kernel/mesh/dolfin/Point.h

src/kernel/mesh/dolfin/PointCell.h

src/kernel/mesh/dolfin/SubDomain.h

src/kernel/mesh/dolfin/TetrahedronCell.h

src/kernel/mesh/dolfin/TopologyComputation.h

src/kernel/mesh/dolfin/TriangleCell.h

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src/kernel/ode/Dual.cpp

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src/kernel/ode/ODESolver.cpp

src/kernel/ode/Partition.cpp

src/kernel/ode/README

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src/kernel/ode/Sample.cpp

src/kernel/ode/TimeSlab.cpp

src/kernel/ode/TimeSlabJacobian.cpp

src/kernel/ode/TimeSlabSolver.cpp

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src/kernel/ode/UpdatedMultiAdaptiveJacobian.cpp

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src/kernel/ode/dolfin/Dependencies.h

src/kernel/ode/dolfin/Dual.h

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src/kernel/ode/dolfin/MonoAdaptiveFixedPointSolver.h

src/kernel/ode/dolfin/MonoAdaptiveJacobian.h

src/kernel/ode/dolfin/MonoAdaptiveNewtonSolver.h

src/kernel/ode/dolfin/MonoAdaptiveTimeSlab.h

src/kernel/ode/dolfin/MonoAdaptivity.h

src/kernel/ode/dolfin/MultiAdaptiveFixedPointSolver.h

src/kernel/ode/dolfin/MultiAdaptiveJacobian.h

src/kernel/ode/dolfin/MultiAdaptiveNewtonSolver.h

src/kernel/ode/dolfin/MultiAdaptivePreconditioner.h

src/kernel/ode/dolfin/MultiAdaptiveTimeSlab.h

src/kernel/ode/dolfin/MultiAdaptivity.h

src/kernel/ode/dolfin/ODE.h

src/kernel/ode/dolfin/ODESolver.h

src/kernel/ode/dolfin/Partition.h

src/kernel/ode/dolfin/ReducedModel.h

src/kernel/ode/dolfin/Sample.h

src/kernel/ode/dolfin/TimeSlab.h

src/kernel/ode/dolfin/TimeSlabJacobian.h

src/kernel/ode/dolfin/TimeSlabSolver.h

src/kernel/ode/dolfin/TimeStepper.h

src/kernel/ode/dolfin/UpdatedMultiAdaptiveJacobian.h

src/kernel/ode/dolfin/cGqMethod.h

src/kernel/ode/dolfin/dGqMethod.h

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src/kernel/parameter/ParameterSystem.cpp

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src/kernel/parameter/dolfin/parameters.h

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src/kernel/pde/LinearPDE.cpp

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src/kernel/plot/plot.cpp

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src/kernel/quadrature/GaussQuadrature.cpp

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misc/utils/octave/README

Notes about the pdeplot, pdesurf and pdemesh Octave functions:

These functions are Free Software reimplementations of the corresponding

functions in Matlab's PDE Toolbox.

They require the external program "ivview" included in the open source

Open Inventor distribution which can be obtained from

http://oss.sgi.com/projects/inventor/.

Open Inventor also exists in the package system of some Linux

distributions, such as Debian (the package inventor-clients).

They have been verified to work in Octave 2.1.50.

Example usage:

> pdemesh(points, edges, cells)

> pdesurf(points, cells, u)

Bugs and comments on features:

The functions use the "popen2" call in Octave to communicate with

"ivview", and this does not always work correctly, "ivview" can

sometimes hang. This is presumably an Octave bug.

The pdeplot function is a far from complete reimplementation of the

Matlab pdeplot.

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