Plex ex35: Fine-grained Plex memory tracking

Merge remote-tracking branch 'origin/maint' into master

DM: fix coordinate localization in physical space

The maxCell business is not robust at all wrt refinements.
This was already fixed, but reintroduced here 412e9a14abb

Turn on checkbadSource test to generate an error when found; fix all source code that causes errors

Commit-type: portability-fix, testing-fix, style-fix, feature, maintainability
/spend 1.5h

DMPlex: Add high-order geometry tests for the Gmsh reader

DMPlex: Support for high-order geometry in Gmsh reader

DMPlex: Add exhaustive tests for the Gmsh reader

DMPlex: Update Gmsh reader to support high-order meshes

DMPlexBuildFromCellList{,Parallel}: Improve vertex count handling.

* DMPlexBuildFromCellListParallel: add global vertex count argument
* DMPlexBuildFromCellList{,Parallel}: local and global vertex c

DMPlexBuildFromCellList{,Parallel}: Improve vertex count handling.

* DMPlexBuildFromCellListParallel: add global vertex count argument
* DMPlexBuildFromCellList{,Parallel}: local and global vertex count can be PETSC_DECIDE
* if both are PETSC_DECIDE, max vertex id in cells + 1 is used
* DMPlexLoad_HDF5_Xdmf_Internal: the check is no more needed

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Plex: Fix coordinates for sphere with quads

Plex: Need to add BC for the solution time derivative in TS problems
- Added DMPlexInsertTimeDerivativeBoundaryValues()
- Added time derivative of the solution argument to DMAddBoundary(),
DMGetBou

Plex: Need to add BC for the solution time derivative in TS problems
- Added DMPlexInsertTimeDerivativeBoundaryValues()
- Added time derivative of the solution argument to DMAddBoundary(),
DMGetBoundary(), PetscDSAddBoundary(), PetscDSUpdateBoundary(),
PetscDSGetBoundary()

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Plex: Label boundary of sphere mesh

Merge branch 'knepley/feature-plex-high-order-geom-example' into 'master'

Knepley/feature plex high order geom example

See merge request petsc/petsc!3008

Plex ex33: Test high order geometry using integrals

Co-Authored-by: Jed Brown <jed@jedbrown.org>

Plex: Turn on some options for extrusion

Add DMPlexCreateFromCellList[Parallel]Petsc and marked previous namesake as
deprecated. New function accpets only petsc datatypes, old function performs types conversions within. Affects tetgen, ctet

Add DMPlexCreateFromCellList[Parallel]Petsc and marked previous namesake as
deprecated. New function accpets only petsc datatypes, old function performs types conversions within. Affects tetgen, ctetgen, and any createfromcelllist[parallel] interfaces.

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Plex ex1: Added sphere and ball tests
- Updated Plex ex7

Plex: Move FEM assembly from dmplexsnes.c to plexfem.c, and fix DMCreateMassMatrix()
- Create regular mass matrix if we pass in the same DM to DMCreateMassMatrix()
- Changed DMPlexSNESGetGeometryFVM(

Plex: Move FEM assembly from dmplexsnes.c to plexfem.c, and fix DMCreateMassMatrix()
- Create regular mass matrix if we pass in the same DM to DMCreateMassMatrix()
- Changed DMPlexSNESGetGeometryFVM() to DMPlexGetGeometryFVM()
- Changed DMPlexSNESGetGradientDM() to DMPlexGetGradientDM()

Co-authored-by: Mark Adams <mfadams@lbl.gov>

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Merge branch 'dalcinl/partitioner' into 'master'

PetscPartitioner: Reorganize code in a proper package subtree

See merge request petsc/petsc!2941

Fix missing crucial error checking in one example, add trivial error checking in many other examples. Fix a few printf() to PetscPrintf()

Commit-type: error-checking, testing-fix, style-fix, example

Fix missing crucial error checking in one example, add trivial error checking in many other examples. Fix a few printf() to PetscPrintf()

Commit-type: error-checking, testing-fix, style-fix, example
/spend 45m

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PetscPartitioner: Reorganize code in a proper package subtree

DMPlex ex1: add boundary layer refiner tests

add option to extrude meshes from other constructors

sync with 5b72a2ce2e245e80f3c4d5fd294a594e197f5e74

Merge remote-tracking branch 'origin/maint'

Plex output changes