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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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-0.58778525229247303 2.1195900000000001 -0.80901699437494756 0

0.010919999999999999 7.3659999999999997 0 0

0.58778525229247325 2.1178720000000002 -0.80901699437494734 0

1.2246063538223773e-16 2.1185560000000003 -1 0

0.95105651629515364 2.11896 -0.30901699437494734 0

0.95105651629515364 2.1191970000000002 0 0

-1.2843144785702287 -2.7305630000000001 -0.93310908801430126 0

-0.93310908801430081 -2.7322760000000001 -1.2843144785702292 0

-1.5874999999999999 -2.7309649999999999 -2.9160938800395356e-16 0

-1.5098022196185561 -2.731792 -0.49056447857022928 0

-0.49056447857022878 -2.731128 -1.5098022196185563 0

1.9440625866930238e-16 -2.7309570000000001 -1.5874999999999999 0

0.49056447857022917 -2.7310789999999998 -1.5098022196185561 0

0.93310908801430115 -2.730162 -1.284314478570229 0

1.284314478570229 -2.7319309999999999 -0.93310908801430092 0

1.5098022196185563 -2.7308780000000001 -0.49056447857022889 0

-0.0057299999999999999 7.3659999999999997 -5.0800000000000001 0

0.0046899999999999997 5.0800000000000001 -5.0800000000000001 0

-11.43 7.3659999999999997 -2.5422750000000001 0

-11.43 5.0800000000000001 -2.541852 0

-11.43 0.0043889999999999997 -11.43 0

-13.716000000000001 -0.0017539999999999999 -11.43 0

0.0082900000000000005 5.0800000000000001 -13.715999999999999 0

-0.0083099999999999997 -5.0800000000000001 -13.715999999999999 0

# Set of Triangles

Triangles

453

21 75 3 0

21 22 75 0

75 22 3 0

3 22 21 0

23 75 22 0

23 55 75 0

75 55 22 0

100

22 55 23 0

101

65 75 1 0

102

65 22 75 0

103

75 22 1 0

104

1 22 65 0

105

15 72 14 0

106

15 57 72 0

107

72 57 14 0

108

14 57 15 0

109

1 77 76 0

110

1 49 77 0

111

77 49 76 0

112

76 49 1 0

113

23 73 24 0

114

23 45 73 0

115

73 45 24 0

116

24 45 23 0

117

52 70 46 0

118

52 69 70 0

119

70 69 46 0

120

46 69 52 0

121

23 73 56 0

122

73 24 56 0

123

56 24 23 0

124

73 56 45 0

125

45 56 23 0

126

57 13 10 0

127

57 9 13 0

128

13 9 10 0

129

10 9 57 0

130

18 58 19 0

131

18 27 58 0

132

58 27 19 0

133

19 27 18 0

134

73 55 11 0

135

73 45 55 0

136

55 45 11 0

137

11 45 73 0

138

28 69 46 0

139

28 29 69 0

140

69 29 46 0

141

46 29 28 0

142

52 53 78 0

143

52 46 53 0

144

53 46 78 0

145

78 46 52 0

146

11 57 9 0

147

11 12 57 0

148

57 12 9 0

149

9 12 11 0

150

14 72 13 0

151

72 57 13 0

152

13 57 14 0

153

55 12 73 0

154

73 12 11 0

155

11 12 55 0

156

59 73 14 0

157

59 58 73 0

158

73 58 14 0

159

14 58 59 0

160

62 45 22 0

161

62 23 45 0

162

45 23 22 0

163

22 23 62 0

164

56 17 24 0

165

56 25 17 0

166

17 25 24 0

167

24 25 56 0

168

55 56 73 0

169

73 56 12 0

170

12 56 55 0

171

36 63 79 0

172

36 35 63 0

173

63 35 79 0

174

79 35 36 0

175

46 30 29 0

176

46 4 30 0

177

30 4 29 0

178

29 4 46 0

179

20 60 7 0

180

20 31 60 0

181

60 31 7 0

182

7 31 20 0

183

72 75 74 0

184

72 45 75 0

185

75 45 74 0

186

74 45 72 0

187

14 10 57 0

188

13 10 14 0

189

23 17 56 0

190

23 16 17 0

191

17 16 56 0

192

56 16 23 0

193

69 52 28 0

194

28 52 46 0

195

52 70 40 0

196

52 4 70 0

197

70 4 40 0

198

40 4 52 0

199

12 13 57 0

200

9 13 12 0

201

11 72 57 0

202

11 12 72 0

203

72 12 57 0

204

62 23 24 0

205

62 76 23 0

206

23 76 24 0

207

24 76 62 0

208

13 73 14 0

209

13 59 73 0

210

14 59 13 0

211

63 62 49 0

212

63 34 62 0

213

62 34 49 0

214

49 34 63 0

215

46 70 29 0

216

70 69 29 0

217

15 46 73 0

218

15 44 46 0

219

46 44 73 0

220

73 44 15 0

221

1 2 45 0

222

1 77 2 0

223

2 77 45 0

224

45 77 1 0

225

18 59 27 0

226

18 26 59 0

227

59 26 27 0

228

27 26 18 0

229

31 46 5 0

230

31 4 46 0

231

46 4 5 0

232

5 4 31 0

233

69 39 52 0

234

52 39 70 0

235

70 39 69 0

236

79 28 73 0

237

79 27 28 0

238

28 27 73 0

239

73 27 79 0

240

29 73 58 0

241

29 46 73 0

242

73 46 58 0

243

58 46 29 0

244

63 76 49 0

245

49 76 62 0

246

62 76 63 0

247

62 76 1 0

248

62 45 76 0

249

76 45 1 0

250

1 45 62 0

251

65 62 34 0

252

65 1 62 0

253

62 1 34 0

254

34 1 65 0

255

46 31 30 0

256

31 4 30 0

257

71 70 29 0

258

71 4 70 0

259

70 4 29 0

260

29 4 71 0

261

5 60 15 0

262

5 46 60 0

263

60 46 15 0

264

15 46 5 0

265

5 61 60 0

266

5 31 61 0

267

61 31 60 0

268

60 31 5 0

269

15 44 72 0

270

72 44 57 0

271

57 44 15 0

272

76 78 79 0

273

76 54 78 0

274

78 54 79 0

275

79 54 76 0

276

45 65 62 0

277

45 22 65 0

278

65 22 62 0

279

73 27 58 0

280

58 27 59 0

281

59 27 73 0

282

13 73 72 0

283

73 14 72 0

284

22 64 21 0

285

22 1 64 0

286

64 1 21 0

287

21 1 22 0

288

72 75 11 0

289

75 74 11 0

290

11 74 72 0

291

11 57 6 0

292

57 9 6 0

293

6 9 11 0

294

40 39 70 0

295

40 52 39 0

296

11 74 6 0

297

6 74 57 0

298

57 74 11 0

299

60 73 15 0

300

60 46 73 0

301

79 73 76 0

302

79 25 73 0

303

73 25 76 0

304

76 25 79 0

305

58 19 28 0

306

58 29 19 0

307

19 29 28 0

308

28 29 58 0

309

60 73 58 0

310

60 14 73 0

311

58 14 60 0

312

5 44 46 0

313

5 15 44 0

314

21 55 16 0

315

21 22 55 0

316

55 22 16 0

317

16 22 21 0

318

21 1 75 0

319

52 78 73 0

320

78 46 73 0

321

73 46 52 0

322

46 58 60 0

323

73 28 52 0

324

46 28 73 0

325

3 55 21 0

326

3 22 55 0

327

28 52 79 0

328

79 52 73 0

329

69 79 39 0

330

69 68 79 0

331

79 68 39 0

332

39 68 69 0

333

27 79 69 0

334

27 68 79 0

335

69 68 27 0

336

11 75 6 0

337

6 75 74 0

338

24 79 63 0

339

24 76 79 0

340

79 76 63 0

341

63 76 24 0

342

59 26 73 0

343

73 26 27 0

344

3 75 1 0

345

3 2 75 0

346

75 2 1 0

347

1 2 3 0

348

21 8 16 0

349

16 8 55 0

350

55 8 21 0

351

45 47 76 0

352

45 77 47 0

353

47 77 76 0

354

76 77 45 0

355

24 63 62 0

356

18 17 59 0

357

18 25 17 0

358

17 25 59 0

359

59 25 18 0

360

15 57 10 0

361

15 5 57 0

362

57 5 10 0

363

10 5 15 0

364

14 10 15 0

365

73 50 78 0

366

73 76 50 0

367

50 76 78 0

368

78 76 73 0

369

5 61 15 0

370

61 60 15 0

371

19 28 27 0

372

27 28 58 0

373

44 5 57 0

374

24 25 73 0

375

73 25 56 0

376

29 60 20 0

377

29 30 60 0

378

60 30 20 0

379

20 30 29 0

380

18 26 25 0

381

25 26 59 0

382

47 45 2 0

383

2 77 47 0

384

54 76 51 0

385

76 79 51 0

386

51 79 54 0

387

56 73 59 0

388

73 25 59 0

389

59 25 56 0

390

68 79 38 0

391

68 37 79 0

392

79 37 38 0

393

38 37 68 0

394

58 73 28 0

395

73 78 79 0

396

73 72 15 0

397

44 72 73 0

398

23 45 76 0

399

12 73 72 0

400

12 13 73 0

401

72 13 12 0

402

32 65 1 0

403

32 64 65 0

404

65 64 1 0

405

1 64 32 0

406

56 45 55 0

407

3 55 75 0

408

3 11 55 0

409

55 11 75 0

410

75 11 3 0

411

74 43 72 0

412

72 43 45 0

413

45 43 74 0

414

55 23 16 0

415

23 22 16 0

416

11 6 3 0

417

6 9 3 0

418

3 9 11 0

419

6 3 75 0

420

69 79 52 0

421

79 39 52 0

422

79 37 66 0

423

79 36 37 0

424

37 36 66 0

425

66 36 79 0

426

41 71 42 0

427

41 4 71 0

428

71 4 42 0

429

42 4 41 0

430

55 9 3 0

431

55 21 9 0

432

9 21 3 0

433

9 11 55 0

434

19 58 20 0

435

58 29 20 0

436

20 29 19 0

437

17 24 23 0

438

59 17 56 0

439

59 58 18 0

440

56 55 23 0

441

56 16 55 0

442

73 13 56 0

443

13 59 56 0

444

60 58 29 0

445

20 58 60 0

446

11 73 72 0

447

45 55 23 0

448

15 73 14 0

449

24 76 45 0

450

24 73 76 0

451

76 73 45 0

452

29 46 60 0

453

60 46 30 0

454

29 28 73 0

455

62 49 1 0

456

35 63 49 0

457

35 34 63 0

458

49 34 35 0

459

60 31 46 0

460

7 61 31 0

461

7 60 61 0

462

20 31 30 0

463

30 31 60 0

464

34 49 1 0

465

5 61 10 0

466

10 61 15 0

467

65 33 1 0

468

1 33 34 0

469

34 33 65 0

470

22 65 64 0

471

45 65 1 0

472

32 33 1 0

473

32 65 33 0

474

63 49 79 0

475

49 35 79 0

476

52 78 79 0

477

67 79 37 0

478

67 66 79 0

479

37 66 67 0

480

76 79 49 0

481

79 51 49 0

482

49 51 76 0

483

63 79 66 0

484

66 36 63 0

485

42 31 4 0

486

42 71 31 0

487

31 71 4 0

488

67 79 68 0

489

68 37 67 0

490

40 70 41 0

491

70 4 41 0

492

41 4 40 0

493

26 79 27 0

494

26 67 79 0

495

79 67 27 0

496

27 67 26 0

497

24 79 25 0

498

24 66 79 0

499

79 66 25 0

500

25 66 24 0

501

73 26 79 0

502

30 71 29 0

503

4 71 30 0

504

46 70 4 0

505

4 46 52 0

506

41 70 71 0

507

30 31 71 0

508

25 26 73 0

509

74 72 57 0

510

13 56 12 0

511

68 67 27 0

512

60 14 15 0

513

26 25 79 0

514

79 25 67 0

515

67 25 26 0

516

65 75 45 0

517

75 1 45 0

518

45 75 2 0

519

73 75 45 0

520

73 11 75 0

521

75 11 45 0

522

45 75 55 0

523

23 75 45 0

524

75 22 45 0

525

1 3 21 0

526

75 73 72 0

527

45 73 72 0

528

50 45 47 0

529

50 76 45 0

530

47 76 50 0

531

50 73 45 0

532

25 76 24 0

533

54 50 76 0

534

78 50 54 0

535

28 79 69 0

536

69 27 28 0

537

24 66 63 0

538

48 77 1 0

539

48 49 77 0

540

1 49 48 0

541

67 66 25 0

542

38 39 79 0

543

68 39 38 0

544

9 55 8 0

545

8 21 9 0

546

547

# Set of Tetrahedra

548

Tetrahedra

549

188

550

21 75 3 22 0

551

23 75 22 55 0

552

65 75 1 22 0

553

15 72 14 57 0

554

1 77 76 49 0

555

23 73 24 45 0

556

52 70 46 69 0

557

23 73 56 24 0

558

23 73 45 56 0

559

57 13 10 9 0

560

18 58 19 27 0

561

73 55 11 45 0

562

28 69 46 29 0

563

52 53 78 46 0

564

11 57 9 12 0

565

14 72 13 57 0

566

55 73 11 12 0

567

59 73 14 58 0

568

62 45 22 23 0

569

56 17 24 25 0

570

55 73 12 56 0

571

36 63 79 35 0

572

46 30 29 4 0

573

20 60 7 31 0

574

72 75 74 45 0

575

14 57 13 10 0

576

23 17 56 16 0

577

69 28 46 52 0

578

52 70 40 4 0

579

12 57 9 13 0

580

11 72 57 12 0

581

62 23 24 76 0

582

13 73 14 59 0

583

63 62 49 34 0

584

46 70 29 69 0

585

15 46 73 44 0

586

1 2 45 77 0

587

18 59 27 26 0

588

31 46 5 4 0

589

69 52 70 39 0

590

79 28 73 27 0

591

29 73 58 46 0

592

63 49 62 76 0

593

62 76 1 45 0

594

65 62 34 1 0

595

46 31 30 4 0

596

71 70 29 4 0

597

5 60 15 46 0

598

5 61 60 31 0

599

15 72 57 44 0

600

76 78 79 54 0

601

45 65 62 22 0

602

73 58 59 27 0

603

13 73 72 14 0

604

22 64 21 1 0

605

72 75 11 74 0

606

11 57 6 9 0

607

40 39 70 52 0

608

11 6 57 74 0

609

60 73 15 46 0

610

79 73 76 25 0

611

58 19 28 29 0

612

60 73 58 14 0

613

5 44 46 15 0

614

21 55 16 22 0

615

21 75 22 1 0

616

52 78 73 46 0

617

60 73 46 58 0

618

73 52 46 28 0

619

3 55 21 22 0

620

28 79 73 52 0

621

69 79 39 68 0

622

27 79 69 68 0

623

74 11 6 75 0

624

24 79 63 76 0

625

59 73 27 26 0

626

3 75 1 2 0

627

21 16 55 8 0

628

45 47 76 77 0

629

76 24 62 63 0

630

18 17 59 25 0

631

15 57 10 5 0

632

15 57 14 10 0

633

73 50 78 76 0

634

5 61 15 60 0

635

58 19 27 28 0

636

44 57 15 5 0

637

24 73 56 25 0

638

29 60 20 30 0

639

59 18 25 26 0

640

47 45 2 77 0

641

54 76 51 79 0

642

56 73 59 25 0

643

68 79 38 37 0

644

58 73 28 27 0

645

73 79 76 78 0

646

73 15 44 72 0

647

62 23 76 45 0

648

12 73 72 13 0

649

32 65 1 64 0

650

55 73 56 45 0

651

3 55 75 11 0

652

74 72 45 43 0

653

55 23 16 22 0

654

11 6 3 9 0

655

75 11 6 3 0

656

69 79 52 39 0

657

79 37 66 36 0

658

41 71 42 4 0

659

55 9 3 21 0

660

9 55 3 11 0

661

19 58 20 29 0

662

56 17 23 24 0

663

59 56 25 17 0

664

55 3 75 22 0

665

59 18 27 58 0

666

56 55 23 16 0

667

73 13 56 59 0

668

60 29 20 58 0

669

11 73 72 12 0

670

23 56 45 55 0

671

15 73 14 72 0

672

24 76 45 73 0

673

29 60 30 46 0

674

29 73 46 28 0

675

76 62 1 49 0

676

35 63 49 34 0

677

29 73 28 58 0

678

5 60 46 31 0

679

7 61 31 60 0

680

60 20 30 31 0

681

34 49 1 62 0

682

31 60 46 30 0

683

29 60 46 58 0

684

5 10 15 61 0

685

65 1 34 33 0

686

22 64 1 65 0

687

45 65 1 62 0

688

32 33 1 65 0

689

63 49 79 35 0

690

52 79 73 78 0

691

67 79 37 66 0

692

76 79 49 51 0

693

63 79 66 36 0

694

42 31 4 71 0

695

67 79 68 37 0

696

40 70 41 4 0

697

26 79 27 67 0

698

24 79 25 66 0

699

73 79 27 26 0

700

30 29 4 71 0

701

46 70 4 29 0

702

52 70 4 46 0

703

41 71 4 70 0

704

30 71 4 31 0

705

12 72 57 13 0

706

25 73 59 26 0

707

74 57 11 72 0

708

12 73 13 56 0

709

27 79 68 67 0

710

73 60 15 14 0

711

26 79 67 25 0

712

65 75 45 1 0

713

45 2 1 75 0

714

73 75 45 11 0

715

45 55 11 75 0

716

23 75 45 22 0

717

21 75 1 3 0

718

65 75 22 45 0

719

75 72 11 73 0

720

23 75 55 45 0

721

72 75 45 73 0

722

50 45 47 76 0

723

50 73 45 76 0

724

25 76 24 73 0

725

54 76 78 50 0

726

28 79 69 27 0

727

23 76 45 24 0

728

79 24 63 66 0

729

79 63 76 49 0

730

76 77 1 45 0

731

48 77 1 49 0

732

79 67 25 66 0

733

73 79 26 25 0

734

24 79 76 25 0

735

38 79 68 39 0

736

28 79 52 69 0

737

9 55 8 21 0

738

739

Corners

740

741

742

743

744

745

746

747

748

749

750

751

752

753

754

755

756

757

758

759

760

761

762

763

764

765

766

767

768

769

770

771

772

773

774

775

776

777

778

779

780

781

782

783

784

785

786

787

788

789

790

791

792

793

794

795

796

Edges

797

106

798

1 2 0

799

2 3 0

800

6 3 0

801

6 57 0

802

5 4 0

803

42 4 0

804

31 42 0

805

7 31 0

806

10 61 0

807

9 10 0

808

9 8 0

809

21 8 0

810

21 64 0

811

32 1 0

812

10 15 0

813

15 14 0

814

14 13 0

815

13 12 0

816

12 11 0

817

11 9 0

818

11 55 0

819

16 8 0

820

12 56 0

821

17 16 0

822

13 59 0

823

18 17 0

824

14 58 0

825

19 18 0

826

15 60 0

827

20 19 0

828

7 20 0

829

31 30 0

830

30 29 0

831

29 28 0

832

28 27 0

833

27 26 0

834

26 25 0

835

25 24 0

836

24 23 0

837

23 22 0

838

22 21 0

839

22 65 0

840

33 32 0

841

23 62 0

842

34 33 0

843

24 63 0

844

35 34 0

845

25 66 0

846

36 35 0

847

26 67 0

848

37 36 0

849

27 68 0

850

38 37 0

851

28 69 0

852

39 38 0

853

29 70 0

854

40 39 0

855

30 71 0

856

41 40 0

857

42 41 0

858

78 53 0

859

43 45 0

860

45 73 0

861

46 44 0

862

44 72 0

863

6 74 0

864

72 43 0

865

44 5 0

866

70 40 0

867

73 46 0

868

46 53 0

869

53 52 0

870

52 4 0

871

3 75 0

872

75 45 0

873

71 41 0

874

47 77 0

875

48 49 0

876

49 76 0

877

50 47 0

878

2 47 0

879

62 34 0

880

54 50 0

881

54 78 0

882

69 39 0

883

74 43 0

884

66 36 0

885

67 37 0

886

52 79 0

887

49 51 0

888

64 32 0

889

48 1 0

890

79 51 0

891

77 48 0

892

76 50 0

893

56 17 0

894

65 33 0

895

61 7 0

896

63 35 0

897

57 5 0

898

51 54 0

899

60 20 0

900

55 16 0

901

58 19 0

902

68 38 0

903

59 18 0

904

905

End

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