4.0.2

What's Changed

• Replace deprecated PETSc convergence codes by @guyer in #1168
• Add typing_extensions to dependencies by @guyer in #1181

Full Changelog: 4.0.1...4.0.2

4.0: Drop Python 2.7 and Pysparse

This release

• Drops support for Pysparse, which required Python 2.7.
• Drops support for Python 2.7, which is years beyond end of life.
• Updates the packaging and installation of FiPy.

Also see the coincident changes in version 3.99.

What's Changed

• Drop Pysparse by @guyer in #1145
• Drop Python 2.7 by @guyer in #1146
• Remove deprecated faceGradAverage by @guyer in #1149
• Issue891 - import warnings syntax & deprecation by @guyer in #1150
• Fix links by @guyer in #1152
• Migrate to pyproject.toml by @guyer in #1154

Curated Changelog: https://github.com/usnistgov/fipy/blob/4.0/CHANGELOG.rst

Full Changelog: 3.99...4.0

3.99: Harmonize Solvers

This release harmonizes the sparse solvers:

• Uses consistent interpretation of convergence criteria.
• Improves efficiency at building matrices.
• Supports more preconditioners.
• Logs solver status and performance.
• Greatly expands documentation of the configuration and performance of the supported solvers.
• Changes default tolerance to $10^{-5}$. This is adequate for most problems.
• Removes "pyamg" from FIPY_SOLVERS and --pyamg from the command-line flags. PyAMG is implemented as a preconditioner for SciPy, not as a solver suite in its own right.

What's Changed

• build(nix): update to using latest Nix master version by @wd15 in #1061
• Debug environment.yml installation by @guyer in #1064
• Prevent setuptools 72.x by @guyer in #1067
• Fix representation of dotted variables (and other method calls) by @guyer in #1074
• Handle exporting anonymous conda environment by @guyer in #1082
• Update byte-code for Python 3.13 by @guyer in #1095
• Generate root .rst files with sphinx_readme (#1104) by @obscurerichard in #1105
• Passing ax parameter explicitly to colorbar - fix issue #1087 by @cgadal in #1088
• issue1002-Setting nx, ny, nz to non-positive integer should generate an error by @sridhar-mani in #1083
• Resolve issues introduced by PETSc 3.23.0 by @guyer in #1116
• Patch sphinx-readme by @guyer in #1125
• Fix conda timeout on Azure CI by @guyer in #1129
• Improve URL check implementation by @arpitjain099 in #1130
• Link to proper CI for documentation by @guyer in #1134
• Deprecate fipy.steppers in favor of steppyngstounes by @guyer in #777
• Harmonize solvers by @guyer in #1030
• Reorganize Table of Contents by @guyer in #1143

New Contributors

• @obscurerichard made their first contribution in #1105
• @cgadal made their first contribution in #1088
• @sridhar-mani made their first contribution in #1083
• @arpitjain099 made their first contribution in #1130

Curated Changelog: https://github.com/usnistgov/fipy/blob/3.99/CHANGELOG.rst

Full Changelog: 3.4.5...3.99

3.4.5: maintenance - dependencies, conda-lock, documentation

What's Changed

• Migrate pkg_resources to importlib by @guyer in #945
• Fix sign error in documentation of Robin condition by @guyer in #968
• Environment pinning by @guyer in #985
• Change default coefficient of ImplicitSourceTerm to 1 by @guyer in #984
• Fix inclusion of environments/README.rst by @guyer in #988
• Tweak documentation by @guyer in #991
• Log much more information about FiPy environment by @guyer in #990
• Introduce Timer context manager by @guyer in #995
• Issue1000 examples.diffusion.mesh1D constrains a gradient but calls it a flux by @guyer in #1001
• Convert integer to string in operator variable represenation by @guyer in #1013
• switch nix recipe to flake by @wd15 in #992
• Fix explanation for no-flux steady-state failure by @guyer in #1015
• Fixes for Python 3.12, NumPy 2.0, and SciPy 1.14 by @guyer in #1050

Curated Changelog: https://github.com/usnistgov/fipy/blob/3.4.5/CHANGELOG.rst

Full Changelog: 3.4.4...3.4.5

3.4.4: maintenance - logging, dependencies

This maintenance release adds Logging and resolves compatibility issues with recent builds of PETSc and NumPy.

What's Changed

• Discourage StackOverflow by @guyer in #876
• Add Logging by @guyer in #875
• Add tests for the Nix build by @wd15 in #791
• Manually clean up PETSc objects by @guyer in #899
• Get CI working again by @guyer in #925
• Fix numpy 1.25 issues by @guyer in #930

Curated Changelog: https://github.com/usnistgov/fipy/blob/3.4.4/CHANGELOG.rst

Full Changelog: 3.4.3...3.4.4

3.4.3: maintenance - new example, documentation, Azure CI, wheels, matrix refactoring

This maintenance release adds a new example contributed by @Jon83Carvalho, clarifies many points in the documentation, migrates all CI to Azure, updates to using wheels for distribution, and substantially refactors matrices to work more consistently across solvers.

What's Changed

• Debug CI failures by @guyer in #749
• Stokes Cavity - non-newtonian by @Jon83Carvalho in #748
• Disable TVTK tests if its prerequisites aren't met by @guyer in #764
• Tabulate versions of FiPy dependencies when tests are run by @guyer in #763
• Refactor matrices by @guyer in #721
• Raise ImportError before trying to unpack solvers by @guyer in #768
• Introduce SharedTemporaryFile (bis) by @guyer in #769
• Get website documentation to display math by @guyer in #773
• Add future package to Binder environment by @guyer in #779
• Document parallel gmsh by @guyer in #793
• Remove future from setup.py and _setup commands by @guyer in #785
• Fix broken circleSquare with newer Gmsh by @guyer in #794
• Move trilinos tests to Py3k by @guyer in #797
• Replace deprecated numpy types by @guyer in #798
• Fix Python 2.7 conda environment by @wd15 in #795
• Speed up conda environment creation by @guyer in #804
• Fix python 3.9 represenation of abs by @guyer in #812
• Set up CI with Azure Pipelines by @guyer in #822
• fix: stop divide by zero warning in LU solvers by @wd15 in #790
• Change colorbar argument to valid value by @guyer in #829
• Get gmsh version from stderr or stdout by @guyer in #846
• Collect contact information on single page by @guyer in #847
• Debug CIs by @guyer in #848
• Refine azure runs by @guyer in #851
• Issue858 pysparse ci failure by @guyer in #859
• Fix missing Qt on headless CI by @guyer in #864
• Update CI documentation to refer only to Azure by @guyer in #863
• Shift CI from eggs to wheels by @guyer in #860
• Document the things by @guyer in #866
• Document viewer attributes by @guyer in #867
• Define _localNonOverlappingFaceIDs for Gmsh by @guyer in #857
• Update changelog by @guyer in #871

New Contributors

• @Jon83Carvalho made their first contribution in #748

Curated Changelog: https://github.com/usnistgov/fipy/blob/3.4.3/CHANGELOG.rst

Full Changelog: 3.4.2.1...3.4.3

3.4.2 - maintenance - moved mailing list

This release fixes assorted viewer issues, fixes a problem with convection
boundary conditions, and introduces spherical meshes.

3.4.1: maintenance - support numpy 1.18

Make compatible with numpy 1.18

Deprecated `order="FORTRAN"` has now been removed.

Other changes found during release of FiPy 3.4

3.4: PETSc

This release adds support for the PETSc solvers for solving in parallel.

Pulls

• Add support for PETSc solvers (#701)
• Assorted fixes while supporting PETSc (#700)
  • Fix print statements for Py3k
  • Resolve Gmsh issues
  • Dump only on processor 0
  • Only write timetests on processor 0
  • Fix conda-forge link
  • Upload PDF
  • Document print option of FIPY_DISPLAY_MATRIX
  • Use legacy numpy formatting when testing individual modules
  • Switch to matplotlib's built-in symlog scaling
  • Clean up tests
• Assorted fixes for benchmark 8 (#699)
  • Stipulate --force option for conda remove fipy
  • Update Miniconda installation url
  • Replace _CellVolumeAverageVariable class with Variable expression
  • Fix output for bad call stack
• Make CircleCI build docs on Py3k (#698)
• Fix link to Nick Croft's thesis (#681)
• Fix NIST header footer (#680)
• Use Nixpkgs version of FiPy expression (#661)
• Update the Nix recipe (#658)

Fixes

• #692: Can't copy example scripts with the command line
• #669: input() deadlock on parallel runs
• #643: Automate release process

3.3: Py3k

This release brings support for Python 2 and Python 3 from the same source,
without any translation. Thanks to @pya and @woodscn for getting things started.

Pulls

• Automate spell check (#657)
• Fix gmsh on windows (#648)
• Fix sphinx documentation (#647)
• Migrate to Py3k (#645)
• gmshMesh.py compatibility with Gmsh > 3.0.6 (#644)
  Thanks to @xfong.

Fixes

• #655: When Python 2 and 3 are installed, Mayavi wont work.
  Thanks to @Hendrik410.
• #646: Deprecate develop branch
• #643: Automate release process
• #601: contents.rst and manual.rst are a recursive mess
• #597: Use GitHub link for the compressed archive in documentation
• #557: faceGradAverage is stupid
• #552: documentation integration
• #458: Documentation wrong for precedence of Lx and dx for
  NonUniformGrids
• #457: Special methods are not included in Sphinx documentation
• #432: Python 3 issues
• #340: Don't upload packages to PyPi, just add the master url