├── .azure ├── pipelines.yml └── templates │ └── install.yml ├── .codacy.yml ├── .en-custom.txt ├── .gitattributes ├── .github └── workflows │ ├── Docs4NIST.yml │ └── nix.yml ├── .gitignore ├── .pyspelling.yml ├── CHANGELOG.rst ├── DISCLAIMER.rst ├── INSTALLATION.rst ├── LICENSE.rst ├── MANIFEST.in ├── README.rst ├── binder ├── environment.yml └── runtime.txt ├── docs ├── Makefile ├── environment.yml ├── make.bat ├── requirements.txt └── source │ ├── .gitignore │ ├── ADMINISTRATA.rst │ ├── API.rst │ ├── CHANGELOG.rst │ ├── CONTACT.rst │ ├── CREDITS.rst │ ├── DISCLAIMER.rst │ ├── EFFICIENCY.rst │ ├── EXAMPLES.rst │ ├── FAQ.rst │ ├── GIT.rst │ ├── GUIDELINES.rst │ ├── INSTALLATION.rst │ ├── LICENSE.rst │ ├── NIX-README.rst │ ├── PUBLICATIONS.rst │ ├── README.rst │ ├── SOLVERS.rst │ ├── USAGE.rst │ ├── VIEWERS.rst │ ├── VKML.rst │ ├── _static │ ├── examples │ │ ├── cahnHilliard │ │ │ └── CH.png │ │ ├── levelSet │ │ │ └── electroChem │ │ │ │ ├── experimentalSuperfill.png │ │ │ │ └── superfillImage.png │ │ └── phase │ │ │ └── anisotropy │ │ │ └── dendrite.png │ ├── favicon.ico │ ├── fipy.bib │ ├── fipy.png │ ├── fipy.ris │ ├── logo.png │ ├── residuals.csv │ ├── solver_convergence.csv │ ├── solver_divergence.csv │ ├── solver_features.csv │ └── widetable.css │ ├── _templates │ ├── empty.tex │ ├── example.rst │ ├── index.html │ └── indexsidebar.html │ ├── _themes │ └── nist │ │ ├── basic_layout.html │ │ ├── contact.html │ │ ├── layout.html │ │ ├── localtoc.html │ │ ├── relations.html │ │ ├── searchbox.html │ │ ├── sourcelink.html │ │ ├── static │ │ ├── contents.png │ │ ├── css_Wmk7cHp8tUe6LbVg3R63qxW01aH9Q-8Q4W2Hu6mxCwE.css │ │ ├── css_upsjsFTrh_luQ_mkVG8bvtY6hJP2qeBdVsxUinYrGlI.css │ │ ├── css_xHLfTKufnRskE-WS-MHFRZw0xTl5z5FmoqUO5xrVbv0.css │ │ ├── envelope.svg │ │ ├── navigation.png │ │ ├── nist.css │ │ ├── sitemap.svg │ │ ├── sphinxdoc.css │ │ └── user.svg │ │ └── theme.conf │ ├── conf.py │ ├── contents.rst │ ├── design.rst │ ├── external_definitions.rst │ ├── figures │ ├── examples │ │ ├── cahnHilliard │ │ │ ├── .gitignore │ │ │ ├── mesh2D-early.pdf │ │ │ ├── mesh2D-late.pdf │ │ │ ├── mesh2D-mid.pdf │ │ │ ├── mesh2D.pdf │ │ │ ├── mesh2D.png │ │ │ ├── mesh2DCoupled.png │ │ │ ├── mesh3D.pdf │ │ │ ├── mesh3D.png │ │ │ ├── sphere.pdf │ │ │ └── sphere.png │ │ ├── diffusion │ │ │ ├── .gitignore │ │ │ ├── circleMesh.pdf │ │ │ ├── circleMesh.png │ │ │ ├── circleSteadyState.pdf │ │ │ ├── circleSteadyState.png │ │ │ ├── circleTSV.pdf │ │ │ ├── circleTSV.png │ │ │ ├── circleTransient.pdf │ │ │ ├── circleTransient.png │ │ │ ├── electrostatics │ │ │ │ ├── left.pdf │ │ │ │ ├── left.png │ │ │ │ ├── right.pdf │ │ │ │ ├── right.png │ │ │ │ ├── uniform.pdf │ │ │ │ └── uniform.png │ │ │ ├── input4thOrder1D.pdf │ │ │ ├── input4thOrder1D.png │ │ │ ├── mesh1D-noflux_initial.pdf │ │ │ ├── mesh1D-noflux_initial.png │ │ │ ├── mesh1D-noflux_steady.pdf │ │ │ ├── mesh1D-noflux_steady.png │ │ │ ├── mesh1D-noflux_steady_fail.pdf │ │ │ ├── mesh1D-noflux_steady_fail.png │ │ │ ├── mesh1D-noflux_transient.pdf │ │ │ ├── mesh1D-noflux_transient.png │ │ │ ├── mesh1DCrankNicholson.pdf │ │ │ ├── mesh1DCrankNicholson.png │ │ │ ├── mesh1Dalpha.pdf │ │ │ ├── mesh1Dalpha.png │ │ │ ├── mesh1Dexplicit.pdf │ │ │ ├── mesh1Dexplicit.png │ │ │ ├── mesh1Dimplicit.pdf │ │ │ ├── mesh1Dimplicit.png │ │ │ ├── mesh1Dnon-uniform.pdf │ │ │ ├── mesh1Dnon-uniform.png │ │ │ ├── mesh1DsteadyState.pdf │ │ │ ├── mesh1DsteadyState.png │ │ │ ├── mesh1DtimedBC.pdf │ │ │ ├── mesh1DtimedBC.png │ │ │ ├── mesh1Dvariable.pdf │ │ │ ├── mesh1Dvariable.png │ │ │ ├── mesh20x20steadyState.pdf │ │ │ ├── mesh20x20steadyState.png │ │ │ ├── mesh20x20transient.pdf │ │ │ ├── mesh20x20transient.png │ │ │ └── myTSV.tsv │ │ ├── elphf │ │ │ ├── phase │ │ │ │ ├── error.pdf │ │ │ │ └── error.png │ │ │ └── phaseDiffusion │ │ │ │ ├── binary.pdf │ │ │ │ ├── binary.png │ │ │ │ ├── quaternary.pdf │ │ │ │ ├── quaternary.png │ │ │ │ ├── ternaryAndElectrons.pdf │ │ │ │ └── ternaryAndElectrons.png │ │ ├── flow │ │ │ ├── .gitignore │ │ │ ├── cavity.pdf │ │ │ └── cavity.png │ │ ├── levelSet │ │ │ └── electroChem │ │ │ │ ├── accelerator.pdf │ │ │ │ ├── accelerator.png │ │ │ │ ├── experimentalSuperfill.pdf │ │ │ │ ├── experimentalSuperfill.png │ │ │ │ ├── inputGold.pdf │ │ │ │ ├── inputGold.png │ │ │ │ ├── inputSimpleTrenchSystem.pdf │ │ │ │ ├── inputSimpleTrenchSystem.png │ │ │ │ ├── leveler.pdf │ │ │ │ ├── leveler.png │ │ │ │ ├── schematicOfEquations.pdf │ │ │ │ ├── schematicOfEquations.png │ │ │ │ ├── superfillImage.pdf │ │ │ │ └── superfillImage.png │ │ └── phase │ │ │ ├── anisotropy.pdf │ │ │ ├── anisotropy.png │ │ │ ├── binary │ │ │ ├── binary-0.000080.pdf │ │ │ ├── binary-0.000080.png │ │ │ ├── binary-0.000899.pdf │ │ │ ├── binary-0.000899.png │ │ │ ├── binary-1080000.000000.pdf │ │ │ ├── binary-1080000.000000.png │ │ │ ├── binary-8.949963.pdf │ │ │ ├── binary-8.949963.png │ │ │ ├── binaryCoupled-0.000080.pdf │ │ │ ├── binaryCoupled-0.000080.png │ │ │ ├── binaryCoupled-0.000899.pdf │ │ │ ├── binaryCoupled-0.000899.png │ │ │ ├── binaryCoupled-1080000.000000.pdf │ │ │ ├── binaryCoupled-1080000.000000.png │ │ │ ├── binaryCoupled-8.949963.pdf │ │ │ ├── binaryCoupled-8.949963.png │ │ │ ├── coupled-stationary.pdf │ │ │ ├── coupled-stationary.png │ │ │ ├── stationary.pdf │ │ │ └── stationary.png │ │ │ ├── polyxtal.png │ │ │ ├── quaternary.pdf │ │ │ ├── quaternary.png │ │ │ └── simple │ │ │ ├── dimensional.pdf │ │ │ ├── dimensional.png │ │ │ ├── explicit.pdf │ │ │ ├── explicit.png │ │ │ ├── relaxation.pdf │ │ │ ├── relaxation.png │ │ │ ├── step.pdf │ │ │ └── step.png │ ├── fipy │ │ ├── meshes │ │ │ └── numMesh │ │ │ │ ├── orthoerrorcoarsegraph.pdf │ │ │ │ ├── orthoerrorcoarsegraph.png │ │ │ │ ├── orthoerrorgraph.pdf │ │ │ │ └── orthoerrorgraph.png │ │ └── variables │ │ │ ├── beta-histogram.pdf │ │ │ ├── beta-histogram.png │ │ │ ├── beta.jpg │ │ │ ├── exp-histogram.pdf │ │ │ ├── exp-histogram.png │ │ │ ├── exp.jpg │ │ │ ├── gamma-histogram.pdf │ │ │ ├── gamma-histogram.png │ │ │ ├── gamma.jpg │ │ │ ├── gauss-histogram.pdf │ │ │ ├── gauss-histogram.png │ │ │ ├── gaussian.jpg │ │ │ ├── uni-histogram.pdf │ │ │ ├── uni-histogram.png │ │ │ └── uniform.jpg │ └── nistident_flright_vec.pdf │ ├── fipy.bst │ ├── glossary.rst │ ├── introduction.rst │ ├── logo │ └── logo.tex │ ├── manual.rst │ ├── nist.sty │ ├── nitpick-exceptions │ ├── numerical │ ├── discret.rst │ ├── equation.rst │ ├── index.rst │ ├── meshcartoon.pdf │ ├── meshcartoon.png │ ├── scheme.rst │ ├── vc-cc-fv.pdf │ └── vc-cc-fv.png │ ├── objects.pdf │ ├── objects.png │ ├── pyplots │ ├── all_73655cb.json │ ├── cpus_vs_threads.py │ ├── parallel_initial.npz │ ├── parallel_scaling.json │ ├── parallel_scaling.mtx │ ├── parallel_scaling.py │ ├── parallel_scaling.rhs.npz │ ├── plot_scaling.py │ ├── plot_sparse.py │ ├── serial_fraction.py │ ├── serial_initial.npz │ ├── serial_scaling.json │ ├── serial_scaling.mtx │ ├── serial_scaling.py │ ├── serial_scaling.rhs.npz │ └── threading.csv │ ├── references.rst │ ├── refs.bib │ ├── requirements.txt │ └── tutorial │ ├── index.rst │ └── package │ ├── __init__.py │ └── subpackage │ ├── __init__.py │ ├── base.py │ └── object.py ├── environments ├── README.rst ├── locks │ ├── conda-petsc-linux-64.lock │ ├── conda-petsc-lock.yml │ ├── conda-petsc-osx-64.lock │ ├── conda-petsc-osx-arm64.lock │ ├── conda-scipy-linux-64.lock │ ├── conda-scipy-lock.yml │ ├── conda-scipy-osx-64.lock │ ├── conda-scipy-osx-arm64.lock │ ├── conda-scipy-win-64.lock │ ├── conda-trilinos-linux-64.lock │ ├── conda-trilinos-lock.yml │ └── conda-trilinos-osx-64.lock ├── petsc-environment.yml ├── scipy-environment.yml └── trilinos-environment.yml ├── examples ├── README.rst ├── __init__.py ├── benchmarking │ ├── __init__.py │ ├── benchmarker.py │ ├── size.py │ ├── steps.py │ ├── utils.py │ └── versions.py ├── cahnHilliard │ ├── __init__.py │ ├── mesh2D.py │ ├── mesh2DCoupled.py │ ├── mesh3D.py │ ├── sphere.py │ ├── sphereDaemon.py │ ├── tanh1D.py │ └── test.py ├── chemotaxis │ ├── __init__.py │ ├── input.py │ ├── input2D.py │ ├── parameters.py │ └── test.py ├── convection │ ├── .gitignore │ ├── __init__.py │ ├── advection │ │ ├── __init__.py │ │ ├── explicitUpwind.py │ │ ├── implicitUpwind.py │ │ └── vanLeerUpwind.py │ ├── exponential1D │ │ ├── __init__.py │ │ ├── cylindricalMesh1D.py │ │ ├── cylindricalMesh1DNonUniform.py │ │ ├── mesh1D.py │ │ └── tri2D.py │ ├── exponential1DBack │ │ ├── __init__.py │ │ └── mesh1D.py │ ├── exponential1DSource │ │ ├── __init__.py │ │ ├── mesh1D.py │ │ └── tri2D.py │ ├── exponential2D │ │ ├── __init__.py │ │ ├── cylindricalMesh2D.py │ │ ├── cylindricalMesh2DNonUniform.py │ │ ├── mesh2D.py │ │ └── tri2D.py │ ├── peclet.py │ ├── powerLaw1D │ │ ├── __init__.py │ │ ├── mesh1D.py │ │ └── tri2D.py │ ├── robin.py │ ├── source.py │ └── test.py ├── diffusion │ ├── __init__.py │ ├── anisotropy.msh │ ├── anisotropy.py │ ├── circle.py │ ├── circleQuad.py │ ├── coupled.py │ ├── electrostatics.py │ ├── explicit │ │ ├── __init__.py │ │ ├── mesh1D.py │ │ ├── mixedelement.py │ │ ├── test.py │ │ └── tri2D.py │ ├── mesh1D.py │ ├── mesh20x20.py │ ├── mesh20x20Coupled.py │ ├── nthOrder │ │ ├── __init__.py │ │ ├── input4thOrder1D.py │ │ ├── input4thOrder_line.py │ │ └── test.py │ ├── steadyState │ │ ├── __init__.py │ │ ├── mesh1D │ │ │ ├── __init__.py │ │ │ ├── inputPeriodic.py │ │ │ └── tri2Dinput.py │ │ ├── mesh20x20 │ │ │ ├── __init__.py │ │ │ ├── gmshinput.py │ │ │ ├── isotropy.py │ │ │ ├── modifiedMeshInput.py │ │ │ ├── orthoerror.py │ │ │ └── tri2Dinput.py │ │ ├── mesh50x50 │ │ │ ├── __init__.py │ │ │ ├── input.py │ │ │ └── tri2Dinput.py │ │ ├── otherMeshes │ │ │ ├── __init__.py │ │ │ ├── cubicalProblem.py │ │ │ ├── generated │ │ │ │ ├── inputCircle.pdf │ │ │ │ └── inputCircle.png │ │ │ ├── grid3Dinput.py │ │ │ └── prism.py │ │ └── test.py │ ├── test.py │ └── variable.py ├── elphf │ ├── __init__.py │ ├── diffusion │ │ ├── __init__.py │ │ ├── mesh1D.py │ │ ├── mesh1Ddimensional.py │ │ └── mesh2D.py │ ├── input.py │ ├── phase.py │ ├── phaseDiffusion.py │ ├── poisson.py │ └── test.py ├── flow │ ├── __init__.py │ ├── stokesCavity.py │ ├── stokesNonNewtonian.ipynb │ └── test.py ├── index.ipynb ├── levelSet │ ├── __init__.py │ ├── advection │ │ ├── __init__.py │ │ ├── circle.py │ │ ├── mesh1D.py │ │ ├── test.py │ │ └── trench.py │ ├── distanceFunction │ │ ├── __init__.py │ │ ├── circle.py │ │ ├── interior.py │ │ ├── mesh1D.py │ │ ├── square.py │ │ └── test.py │ ├── electroChem │ │ ├── README.rst │ │ ├── __init__.py │ │ ├── adsorbingSurfactantEquation.py │ │ ├── adsorption.py │ │ ├── gapFillDistanceVariable.py │ │ ├── gapFillMesh.py │ │ ├── gold.py │ │ ├── howToWriteAScript.py │ │ ├── leveler.py │ │ ├── lines.py │ │ ├── matplotlibSurfactantViewer.py │ │ ├── mayaviSurfactantViewer.py │ │ ├── metalIonDiffusionEquation.py │ │ ├── simpleTrenchSystem.gz │ │ ├── simpleTrenchSystem.py │ │ ├── surfactantBulkDiffusionEquation.py │ │ ├── test.py │ │ └── trenchMesh.py │ ├── generated │ │ └── .gitignore │ ├── surfactant │ │ ├── __init__.py │ │ ├── circle.py │ │ ├── expandingCircle.py │ │ ├── square.py │ │ └── test.py │ └── test.py ├── meshing │ ├── __init__.py │ ├── gmshRefinement.py │ ├── inputGrid2D.py │ ├── sphere.gmsh │ ├── sphere.py │ └── test.py ├── parallel.py ├── phase │ ├── __init__.py │ ├── anisotropy.py │ ├── anisotropyOLD.gz │ ├── anisotropyOLD.py │ ├── binary.py │ ├── binaryCoupled.py │ ├── generated │ │ └── .gitignore │ ├── impingement │ │ ├── __init__.py │ │ ├── mesh20x20.gz │ │ ├── mesh20x20.py │ │ ├── mesh40x1.gz │ │ ├── mesh40x1.py │ │ └── test.py │ ├── missOrientation │ │ ├── __init__.py │ │ ├── circle.gz │ │ ├── circle.py │ │ ├── mesh1D.gz │ │ ├── mesh1D.py │ │ ├── modCircle.gz │ │ ├── modCircle.py │ │ └── test.py │ ├── phaseViewer.py │ ├── polyxtal.py │ ├── polyxtalCoupled.py │ ├── quaternary.py │ ├── simple.py │ ├── symmetry.py │ └── test.py ├── reactiveWetting │ ├── __init__.py │ ├── liquidVapor1D.py │ ├── liquidVapor2D.py │ └── test.py ├── riemann │ ├── __init__.py │ ├── acoustics.py │ └── test.py ├── sanitize.cfg ├── test.py └── updating │ ├── .gitignore │ ├── __init__.py │ ├── update0_1to1_0.py │ ├── update1_0to2_0.py │ └── update2_0to3_0.py ├── fipy ├── __init__.py ├── _version.py ├── boundaryConditions │ ├── __init__.py │ ├── boundaryCondition.py │ ├── constraint.py │ ├── fixedFlux.py │ ├── fixedValue.py │ ├── nthOrderBoundaryCondition.py │ └── test.py ├── generated │ └── .gitignore ├── matrices │ ├── __init__.py │ ├── offsetSparseMatrix.py │ ├── petscMatrix.py │ ├── scipyMatrix.py │ ├── sparseMatrix.py │ ├── test.py │ └── trilinosMatrix.py ├── meshes │ ├── __init__.py │ ├── abstractMesh.py │ ├── builders │ │ ├── __init__.py │ │ ├── abstractGridBuilder.py │ │ ├── grid1DBuilder.py │ │ ├── grid2DBuilder.py │ │ ├── grid3DBuilder.py │ │ ├── periodicGrid1DBuilder.py │ │ └── utilityClasses.py │ ├── cylindricalGrid1D.py │ ├── cylindricalGrid2D.py │ ├── cylindricalNonUniformGrid1D.py │ ├── cylindricalNonUniformGrid2D.py │ ├── cylindricalUniformGrid1D.py │ ├── cylindricalUniformGrid2D.py │ ├── factoryMeshes.py │ ├── gmshMesh.py │ ├── grid1D.py │ ├── grid2D.py │ ├── grid3D.py │ ├── mesh.py │ ├── mesh1D.py │ ├── mesh2D.py │ ├── nonUniformGrid1D.py │ ├── nonUniformGrid2D.py │ ├── nonUniformGrid3D.py │ ├── periodicGrid1D.py │ ├── periodicGrid2D.py │ ├── periodicGrid3D.py │ ├── representations │ │ ├── __init__.py │ │ ├── abstractRepresentation.py │ │ ├── gridRepresentation.py │ │ └── meshRepresentation.py │ ├── skewedGrid2D.py │ ├── sphericalNonUniformGrid1D.py │ ├── sphericalUniformGrid1D.py │ ├── test.py │ ├── topologies │ │ ├── __init__.py │ │ ├── abstractTopology.py │ │ ├── gridTopology.py │ │ └── meshTopology.py │ ├── tri2D.py │ ├── uniformGrid.py │ ├── uniformGrid1D.py │ ├── uniformGrid2D.py │ └── uniformGrid3D.py ├── solvers │ ├── __init__.py │ ├── convergence.py │ ├── petsc │ │ ├── __init__.py │ │ ├── comms │ │ │ ├── __init__.py │ │ │ ├── parallelPETScCommWrapper.py │ │ │ ├── petscCommWrapper.py │ │ │ └── serialPETScCommWrapper.py │ │ ├── dummySolver.py │ │ ├── linearBicgSolver.py │ │ ├── linearCGSSolver.py │ │ ├── linearCGSolver.py │ │ ├── linearGMRESSolver.py │ │ ├── linearLUSolver.py │ │ ├── petscConvergence.py │ │ ├── petscKrylovSolver.py │ │ ├── petscSolver.py │ │ └── preconditioners │ │ │ ├── __init__.py │ │ │ ├── defaultPreconditioner.py │ │ │ ├── hyprePreconditioner.py │ │ │ ├── icPreconditioner.py │ │ │ ├── iluPreconditioner.py │ │ │ ├── jacobiPreconditioner.py │ │ │ ├── luPreconditioner.py │ │ │ ├── petscPreconditioner.py │ │ │ └── ssorPreconditioner.py │ ├── preconditioner.py │ ├── pyAMG │ │ ├── __init__.py │ │ └── preconditioners │ │ │ ├── __init__.py │ │ │ └── smoothedAggregationPreconditioner.py │ ├── pyamgx │ │ ├── __init__.py │ │ ├── aggregationAMGSolver.py │ │ ├── classicalAMGSolver.py │ │ ├── linearBiCGStabSolver.py │ │ ├── linearCGSolver.py │ │ ├── linearFGMRESSolver.py │ │ ├── linearGMRESSolver.py │ │ ├── linearLUSolver.py │ │ ├── preconditioners.py │ │ ├── pyAMGXSolver.py │ │ ├── pyamgxConvergence.py │ │ └── smoothers.py │ ├── scipy │ │ ├── __init__.py │ │ ├── linearBicgstabSolver.py │ │ ├── linearCGSSolver.py │ │ ├── linearCGSolver.py │ │ ├── linearGMRESSolver.py │ │ ├── linearLUSolver.py │ │ ├── preconditioners │ │ │ ├── __init__.py │ │ │ ├── iluPreconditioner.py │ │ │ ├── jacobiPreconditioner.py │ │ │ └── scipyPreconditioner.py │ │ ├── scipyConvergence.py │ │ ├── scipyKrylovSolver.py │ │ └── scipySolver.py │ ├── solver.py │ ├── test.py │ └── trilinos │ │ ├── __init__.py │ │ ├── aztecConvergence.py │ │ ├── comms │ │ ├── __init__.py │ │ ├── epetraCommWrapper.py │ │ ├── parallelEpetraCommWrapper.py │ │ └── serialEpetraCommWrapper.py │ │ ├── linearBicgstabSolver.py │ │ ├── linearCGSSolver.py │ │ ├── linearCGSolver.py │ │ ├── linearGMRESSolver.py │ │ ├── linearLUSolver.py │ │ ├── preconditioners │ │ ├── __init__.py │ │ ├── domDecompPreconditioner.py │ │ ├── icPreconditioner.py │ │ ├── iluPreconditioner.py │ │ ├── jacobiPreconditioner.py │ │ ├── multilevelDDMLPreconditioner.py │ │ ├── multilevelDDPreconditioner.py │ │ ├── multilevelNSSAPreconditioner.py │ │ ├── multilevelPreconditioner.py │ │ ├── multilevelSAPreconditioner.py │ │ ├── multilevelSGSPreconditioner.py │ │ ├── multilevelSolverSmootherPreconditioner.py │ │ └── trilinosPreconditioner.py │ │ ├── trilinosAztecOOSolver.py │ │ ├── trilinosMLTest.py │ │ ├── trilinosNonlinearSolver.py │ │ └── trilinosSolver.py ├── steppers │ ├── __init__.py │ ├── pidStepper.py │ ├── pseudoRKQSStepper.py │ └── stepper.py ├── terms │ ├── __init__.py │ ├── abstractBinaryTerm.py │ ├── abstractConvectionTerm.py │ ├── abstractDiffusionTerm.py │ ├── abstractUpwindConvectionTerm.py │ ├── advectionTerm.py │ ├── asymmetricConvectionTerm.py │ ├── binaryTerm.py │ ├── cellTerm.py │ ├── centralDiffConvectionTerm.py │ ├── coupledBinaryTerm.py │ ├── diffusionTerm.py │ ├── diffusionTermCorrection.py │ ├── diffusionTermNoCorrection.py │ ├── explicitDiffusionTerm.py │ ├── explicitSourceTerm.py │ ├── explicitUpwindConvectionTerm.py │ ├── exponentialConvectionTerm.py │ ├── faceTerm.py │ ├── firstOrderAdvectionTerm.py │ ├── hybridConvectionTerm.py │ ├── implicitDiffusionTerm.py │ ├── implicitSourceTerm.py │ ├── nonDiffusionTerm.py │ ├── powerLawConvectionTerm.py │ ├── residualTerm.py │ ├── sourceTerm.py │ ├── term.py │ ├── test.py │ ├── transientTerm.py │ ├── unaryTerm.py │ ├── upwindConvectionTerm.py │ └── vanLeerConvectionTerm.py ├── testFiPy.py ├── tests │ ├── __init__.py │ ├── doctestPlus.py │ ├── lateImportTest.py │ ├── test.py │ └── testProgram.py ├── tools │ ├── __init__.py │ ├── changelog.py │ ├── comms │ │ ├── __init__.py │ │ ├── commWrapper.py │ │ └── dummyComm.py │ ├── copy_script.py │ ├── debug.py │ ├── decorators.py │ ├── dimensions │ │ ├── DictWithDefault.py │ │ ├── LICENSE │ │ ├── NumberDict.py │ │ ├── __init__.py │ │ └── physicalField.py │ ├── dump.py │ ├── inline.py │ ├── logging │ │ ├── __init__.py │ │ ├── environment.py │ │ ├── gathered_config.json │ │ ├── scattered_config.json │ │ └── serial_config.json │ ├── numerix.py │ ├── parser.py │ ├── sharedtempfile.py │ ├── test.py │ ├── timer.py │ └── vector.py ├── variables │ ├── __init__.py │ ├── addOverFacesVariable.py │ ├── arithmeticCellToFaceVariable.py │ ├── betaNoiseVariable.py │ ├── binaryOperatorVariable.py │ ├── cellToFaceVariable.py │ ├── cellVariable.py │ ├── constant.py │ ├── constraintMask.py │ ├── coupledCellVariable.py │ ├── distanceVariable.py │ ├── exponentialNoiseVariable.py │ ├── faceGradContributionsVariable.py │ ├── faceGradVariable.py │ ├── faceVariable.py │ ├── gammaNoiseVariable.py │ ├── gaussCellGradVariable.py │ ├── gaussianNoiseVariable.py │ ├── harmonicCellToFaceVariable.py │ ├── histogramVariable.py │ ├── interfaceAreaVariable.py │ ├── interfaceFlagVariable.py │ ├── leastSquaresCellGradVariable.py │ ├── levelSetDiffusionVariable.py │ ├── meshVariable.py │ ├── minmodCellToFaceVariable.py │ ├── modCellGradVariable.py │ ├── modCellToFaceVariable.py │ ├── modFaceGradVariable.py │ ├── modPhysicalField.py │ ├── modularVariable.py │ ├── noiseVariable.py │ ├── operatorVariable.py │ ├── scharfetterGummelFaceVariable.py │ ├── surfactantConvectionVariable.py │ ├── surfactantVariable.py │ ├── test.py │ ├── unaryOperatorVariable.py │ ├── uniformNoiseVariable.py │ └── variable.py └── viewers │ ├── __init__.py │ ├── matplotlibViewer │ ├── __init__.py │ ├── abstractMatplotlib2DViewer.py │ ├── abstractMatplotlibViewer.py │ ├── matplotlib1DViewer.py │ ├── matplotlib2DContourViewer.py │ ├── matplotlib2DGridContourViewer.py │ ├── matplotlib2DGridViewer.py │ ├── matplotlib2DViewer.py │ ├── matplotlibSparseMatrixViewer.py │ ├── matplotlibStreamViewer.py │ ├── matplotlibVectorViewer.py │ └── test.py │ ├── mayaviViewer │ ├── __init__.py │ ├── mayaviClient.py │ ├── mayaviDaemon.py │ └── test.py │ ├── multiViewer.py │ ├── test.py │ ├── testinteractive.py │ ├── tsvViewer.py │ ├── viewer.py │ └── vtkViewer │ ├── __init__.py │ ├── test.py │ ├── vtkCellViewer.py 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