v5.2.0

This is feature release, with a ton of new features. We've now switched entirely to CMake for our build system.

Breaking changes

• The autotools ./configure build system has been removed
• Parsing of booleans has changed [#2828][https://github.com//pull/2828] ([bendudson][https://github.com/bendudson]).
  See the manual page for details.
• Previously, the Solver implementations passed the loop counter to
  the iter argument of call_monitors, but since the iteration has
  already been completed when the monitors are called, this results in
  iter always being one less than the number of completed
  monitor-steps at the point when the moniters are called, which is
  confusing. Now, monitors are called with the current number of
  completed monitor-steps.

What's Changed

• Switch (partially) to regions by @dschwoerer in #2439
• Allow static builds with Sundials by @bendudson in #2740
• Merge v5.1.0 into next by @ZedThree in #2756
• Fix sphinx configuration (next) by @dschwoerer in #2763
• Bump required C++ standard to 17 by @ZedThree in #2719
• Merge recent CI and maintenance fixes back into next by @ZedThree in #2768
• Remove deprecated autotools build system by @ZedThree in #2769
• Refactor PetscVector to use buffered writes by @ZedThree in #2713
• Merge recent CI and maintenance fixes back into next again by @dschwoerer in #2783
• Add BOUT_HOST_DEVICE to accessor operators for GPU by @ggeorgakoudis in #2806
• Fix hypre compilation in next branch by @bendudson in #2791
• Some recent maintenance fixes back into next from master by @dschwoerer in #2815
• ADIOS 2 I/O by @bendudson in #2766
• More consistent parsing of boolean inputs (Breaking change) by @bendudson in #2828
• Updating README by @bendudson in #2826
• Remove propietary data (next) by @dschwoerer in #2831
• Work around pip changes by @dschwoerer in #2824
• Track regions that fields are valid over by @dschwoerer in #2324
• Fixing elm-pb example to match v3 results by @bendudson in #2809
• Remove tools/pylib/post_bout by @ZedThree in #2843
• Fix a bunch of clang-tidy issues in Options by @ZedThree in #2841
• Remove unused format.hxx header by @ZedThree in #2848
• Replace MAYBE_UNUSED macro with C++17 [[maybe_unused]] by @ZedThree in #2849
• Remove Options::OptionValue nested class by @ZedThree in #2852
• Use C++17 inline variables to remove some linker hacks by @ZedThree in #2850
• Read fields from ADIOS2 restart files by @bendudson in #2857
• Update CUDA standard to cxx17, add CI build test by @ggeorgakoudis in #2856
• Cleanup Parallel BoundaryCode by @dschwoerer in #2629
• Tweak clang-tidy config by @ZedThree in #2865
• Remove backtrace example, move into docs instead by @ZedThree in #2842
• Various minor C++17 fixes and improvements by @ZedThree in #2862
• Options: Delete copy constructor and copy assignment by @bendudson in #2861
• Do not specify redundant class in ctor by @dschwoerer in #2869
• Make check for zoidberg much faster by @dschwoerer in #2870
• Fix all header guards by @ZedThree in #2872
• Fix a bunch of clang-tidy warnings in region.hxx by @ZedThree in #2871
• Add number of OpenMP threads to dump file by @dschwoerer in #2868
• elm-pb model fix sheath boundary by @bendudson in #2876
• Some minor fixes, docs, ... by @dschwoerer in #2886
• Reintroduce removed copy function marked deprecated by @dschwoerer in #2891
• CI: Adopt for no sudo in container by @dschwoerer in #2883
• Fixes for the python interface by @dschwoerer in #2892
• Update SUNDIALS support (rebase onto next) by @ZedThree in #2896
• Prefer ADIOS2 over ADIOS in more cases by @dschwoerer in #2905
• Improve parallel boundary regions by @dschwoerer in #2648
• Improve ParallelBoundary code by @dschwoerer in #2649
• Fix metrics in Laplace inversion by @bendudson in #2914
• Fix some include issues by @ZedThree in #2919
• Fix version checking for SUNDIALS by @Steven-Roberts in #2922
• CI: Bump python dependencies by @ZedThree in #2929
• Add getters for Laplacian flags by @ZedThree in #2916
• MPCDF update by @dschwoerer in #2921
• CVODE solver: Pass linear flag to rhs() by @bendudson in #2932
• Add CVODE mxorder option back, now deprecated by @Steven-Roberts in #2949
• Fmt update by @dschwoerer in #2961
• Fix typos in laplacian inversion documentation (credit @MigMadeira) by @bshanahan in #2965
• Next IMEX issue by @maggul in #2930
• CMake: Replace include SourceRuns with SourceCompiles by @bendudson in #2970
• Some more examples fixes by @tomc271 in #2951
• Bump externalpackages/googletest from 0953a17 to 6dae7eb by @dependabot[bot] in #2981
• Update numpy requirement from ~=2.0.0 to ~=2.1.1 by @dependabot[bot] in #2973
• naulin laplace: Acceptance tolerances after maxits by @bendudson in #2983
• Use consistently signed char by @dschwoerer in #2987
• BoutMask non-const operator by @bendudson in #2988
• Add LC gitlab CI for GPU build/run tests by @ggeorgakoudis in #2989
• Fix exception message by @dschwoerer in #3003
• Update numpy requirement from ~=2.1.1 to ~=2.1.2 by @dependabot[bot] in #2984
• Ensure pointer is checked before dereferencing by @dschwoerer in #3002
• Fix: preserve regionID by @dschwoerer in #3000
• Try to do the right thing for linking netCDF::netcdf by @dschwoerer in #2995
• master branch will be 5.1.2 not 5.2.0 by @dschwoerer in #2994
• Read 2D variables into Field3D by @bendudson in #2975
• Add .zpm for sign-independent coding by @dschwoerer in #2888
• Fix iteration counts change all iter rebase by @dschwoerer in #2882
• Fix or delete examples by @bendudson in #2811
• CI: Bump all ubuntu images by @ZedThree in #2977
• Fix circular header dependency: mesh.hxx <-> griddata.hxx by @ZedThree in #3008
• Add isFci also to mesh by @dschwoerer in #3001
• CI: clang-tidy-review tweaks by @ZedThree in #3016
• Replace deprecated boututils.file_import by @ZedThree in #3017
• Merge v5.1.1 into next by @ZedThree in #2978
• Bump externalpackages/googletest from 6dae7eb to d144031 by @dependabot[bot] in #3019
• Backward Euler solver improvements by @bendudson in #3009
• Fix compilation warnings with SUNDIALS 7.1.0 by @Steven-Roberts in #2990
• Lazy grid loading by @dschwoerer in #2991
• Fix recompilation cascade by @ZedThree in #3021
• Ensure PETSc headers are included after bout/petsclib.hxx by @ZedThree in #3024
• Avoid #define conflict with sundials by @dschwoerer in #3031
• Bump codecov/codecov-action from 4 to 5 by @dependabot[bot] in #3029
• Bump ZedThree/clang-tidy-review from 0.19.0 to 0.20.1 by @dependabot[bot] in #3028
• Move invert3x3 out of general purpose utils.hxx header by @ZedThree in #3018
• Use PEP 625 compatible archive name by @dschwoerer in #3034
• Use PEP 625 compatible archive name (next) by @dschwoerer in #3035
• CI: Increase check level for debug run + unit test fixes by @dschwoerer in #3033
• Avoid using the wrong grid by accident by @dschwoerer in #3036
• Fixes zoidberg by @dschwoerer in #3054
• Fix finalise in boutpp by @dschwoerer in #3053
• Avoid some warnings for 3D Metrics by @dschwoerer in #3052
• Minor fixes for the python backend by @dschwoerer in #3051
• Make iteration more robust and give more options in LaplaceNaulin by @johnomotani in #3061
• Bump externalpackages/googletest from d144031 to 504ea69 by @dependabot[bot] in #3059
• Update numpy requirement from ~=2.1.2 to ~=2.2.1 by @dependabot[bot] in #3048
• Cleanup BOUT_HOST_DEVICE qualifiers by @ggeorgakoudis in #3040
• Use isfinite, fix pvode linking by @bendudson in #3063
• Deprecate options that are only used as default for other options by @dschwoerer in #3038
• Bump externalpackages/googletest from 504ea69 to 2b6b042 by @dependabot[bot] in #3066
• CMake: Bump downloaded SUNDIALS version by @ZedThree in #3067
• Fix minor HYPRE and ADIOS2 compilation issues by @ZedThree in #3022
• Fix clang tidy review by @ZedThree in #3070
• CI: Show more output of dnf5 to help debugging by @dschwoerer in #3071
• Update pygithub requirement from ~=2.4 to ~=2.6 by @dependabot[bot] in #3074
• Fix Finalise (#3053 for master) by @dschwoerer in #3076
• Fixes zoidberg by @dschwoerer in #3075
• CI: Fix clang format by @dschwoerer in #3086
• Small updates for FCI output by @bendudson in #3085
• Elm-pb example with relaxing phi by @bendudson in #3081
• Add isFci for fields by @dschwoerer in #2887
• Add attributes to ADIOS2 output to "define" dimensions as names. We n… by @pnorbert in #3098
• Update CMakeLists.txt to enable build with C by @tbody-cfs in #3101
• Bump ZedThree/clang-tidy-review from 0.20.1 to 0.21.0 by @dependabot[bot] in #3100
• Feature/snes stencil by @seimtpow in #3104
• periodicX communication fixes by @bendudson in #3109
• Bump externalpackages/googletest from 2b6b042 to bac6a8f by @dependabot[bot] in #3110
• Bump externalpackages/boutdata from e458cf0 to 0aaef41 by @dependabot[bot] in #3072
• cvode: Add linear_solver option by @bendudson in #3112
• CI: Avoid issues with special characters by @dschwoerer in #3090
• Fix bug where ARKODE considered all problems linear by @Steven-Roberts in #3114
• Bump externalpackages/boutdata from 0aaef41 to a7a372d by @dependabot[bot] in #3123
• Fixes for ELM-PB preconditioner by @Steven-Roberts in #3128
• Fix cast for new petsc by @dschwoerer in #3117
• beuler solver timestep and Jacobian calculation by @bendudson in #3107
• Eliminate boundary equations to improve HYPRE solves by @rfalgout in #3082
• Generalise FakeMeshFixture to allow configurable grid spacing via templating by @tomc271 in #3132
• CI: Switch to released fedora by @dschwoerer in #3134
• Revert eliminate hypre boundary equations by @ZedThree in #3136
• Replace deprecated boututils.file_import by @dschwoerer in #3137
• CI: Backport various fixes by @ZedThree in #3141
• Handle absolute paths to options file by @bendudson in #3142
• Bump ZedThree/clang-tidy-review from 0.20.1 to 0.21.0 by @ZedThree in #3150
• Cmake fix from master by @oparry-ukaea in #3152
• Fix name clash in some examples and MMS tests by @ZedThree in #3145
• SNES solver: Added a PID controller to update the timestep by @malamast in #3146
• Bump actions/checkout from 4 to 5 by @dependabot[bot] in #3158
• snes: Print a warning if the coloring is non-symmetric. by @bendudson in #3159
• Update pygithub requirement from ~=2.6 to ~=2.7 by @dependabot[bot] in #3153
• Bump externalpackages/googletest from bac6a8f to 244cec8 by @dependabot[bot] in #3157
• Bump externalpackages/boutdata from a7a372d to 7164a89 by @dependabot[bot] in #3143
• Update pygithub requirement from ~=2.7 to ~=2.8 by @dependabot[bot] in #3165
• Bump actions/setup-python from 5 to 6 by @dependabot[bot] in #3169
• Better pypi package (master) by @dschwoerer in #3167
• Release V5.2.0 by @ZedThree in #3176

New Contributors

• @ggeorgakoudis made their first contribution in #2806
• @maggul made their first contribution in #2930
• @pnorbert made their first contribution in #3098
• @tbody-cfs made their first contribution in #3101
• @seimtpow made their first contribution in #3104
• @rfalgout made their first contribution in #3082
• @oparry-ukaea made their first contribution in #3152
• @malamast made their first contribution in #3146

Full Changelog: v5.1.1...v5.2.0