Plex: Now allow variable bounds along boundaries
- Add DM_BC_LOWER_BOUND and DM_BC_LOWER_BOUND
- Add DMHasBound()
- Add DMPlexInsertBounds() and implementation DMPlexInsertBounds_Plex()

Merge branch 'knepley/fix-plex-fem-funcs' into 'main'

Plex: Make integration functions public

See merge request petsc/petsc!8361

Plex: Make integration functions public
- Rename
DMPlexComputeResidual_Internal() --> DMPlexComputeResidualForKey()
DMPlexComputeJacobian_Internal() --> DMPlexComputeJacobianByKey()
DMPlexCompu

Plex: Make integration functions public
- Rename
DMPlexComputeResidual_Internal() --> DMPlexComputeResidualForKey()
DMPlexComputeJacobian_Internal() --> DMPlexComputeJacobianByKey()
DMPlexComputeJacobian_Action_Internal() --> DMPlexComputeJacobianActionByKey()
DMPlexComputeResidual_Hybrid_Internal() --> DMPlexComputeResidualHybridByKey()
DMPlexComputeJacobian_Hybrid_Internal() --> DMPlexComputeJacobianHybridByKey()

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Merge branch 'knepley/feature-plex-transform-cohesive' into 'main'

Plex: Fix cohesive cell integration

See merge request petsc/petsc!8175

Plex: Fix hybrid integration
- Add DMFieldCreateDefaultFaceQuadrature() and PetscFEExpandFaceQuadrature()
- Add neighbor geometry to PetscFEIntegrateHybridResidual_Basic(), PetscFEIntegrateHybridJaco

Plex: Fix hybrid integration
- Add DMFieldCreateDefaultFaceQuadrature() and PetscFEExpandFaceQuadrature()
- Add neighbor geometry to PetscFEIntegrateHybridResidual_Basic(), PetscFEIntegrateHybridJacobian_Basic() and PetscFEEvaluateFieldJets_Hybrid_Internal()
- Add cell geometry to PetscFEIntegrateHybridResidual() and PetscFEIntegrateHybridJacobian()

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Merge branch 'barry/2024-04-29/add-fortran-enums' into 'main'

Major updates to Fortran interface

See merge request petsc/petsc!7517

Fortran 90: fully embrace After 34 years!

- deprecate use of 'F90' in Fortran function names
- use Fortran pointers when appropriate
- the new Fortran API is not backward compatible with previous ve

Fortran 90: fully embrace After 34 years!

- deprecate use of 'F90' in Fortran function names
- use Fortran pointers when appropriate
- the new Fortran API is not backward compatible with previous versions!
- also clean up inconsistent PETSc code detected by new Fortran generation tools
- drop use of bfort
- automatically generate all the Fortran PETSc objects, enums etc from the include files
- generate most of the Fortran interface definitions and functions from the source code
- simplify the number and organization of Fortran modules

Co-authored-by: Jose E. Roman <jroman@dsic.upv.es>

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Merge branch 'knepley/feature-embedded-manifold' into 'main'

Plex+PetscFE: Fixes to allow embedded manifolds

See merge request petsc/petsc!8141

Plex+PetscFE: Fixes to allow embedded manifolds
- Add PetscFEGeomMode to describe geometry
- Reorganized PetscFEGeom
- PetscFEGeomCreate(), DMFieldCreateFEGeom() and DMSNESGetFEGeom() now take the Pe

Plex+PetscFE: Fixes to allow embedded manifolds
- Add PetscFEGeomMode to describe geometry
- Reorganized PetscFEGeom
- PetscFEGeomCreate(), DMFieldCreateFEGeom() and DMSNESGetFEGeom() now take the PetscFEGeomMode
- J and invJ have dE dimensions
- f1, g1, g2, g3 have dE dimensions
- FIX the dim argument of all point function is really dE because it is used to index the gradients
- Clarified behavior of PetscFEGeomGetCellPoint()
- Now -dm_plex_coordinate_dim can change the coordinate dimension of a mesh created by Plex
- Implicit cell geometry must be used when dim != cdim

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Merge branch 'knepley/feature-vi-example' into 'main'

VI Example

See merge request petsc/petsc!8135

SNES: Initialize local coordinates with grid sequencing, Automate bounds creation
- Add DMPlexSetSNESVariableBounds()
- Set bounds in PetscConvEst
- Added error viewer in PetscConvEst

Merge remote-tracking branch 'origin/release'

Merge branch 'knepley/fix-plex-leak-jacobian' into 'release'

Plex: Fix leak in ComputeJacobian when using aux fields and an empty domain

See merge request petsc/petsc!8126

Plex: Fix leak in ComputeJacobian when using aux fields and an empty domain

Merge branch 'jolivet/remove-unneeded-mpicast' into 'main'

Remove unneeded PetscMPIIntCast() for routines using PetscCount

Closes #1661

See merge request petsc/petsc!8099

Remove unneeded PetscMPIIntCast() for routines using PetscCount

Fix #1661

Merge branch 'knepley/feature-swarm-remap' into 'main'

Knepley/feature swarm remap

See merge request petsc/petsc!8054

Plex: Fix DMPlexComputeMoments()

Merge branch 'jrwrigh/deprecate_get_section' into 'main'

DM: Deprecate DM{Get,Set}Section

See merge request petsc/petsc!7997

DM: Deprecate DM{Get,Set}Section

They were already replaced by DM{Get,Set}LocalSection back in 3.12, but
weren't deprecated for some reason

Merge remote-tracking branch 'origin/release'

Merge branch 'jrwrigh/cleanup_malloc' into 'release'

sys: Cleanup PetscMalloc and PetscCalloc

See merge request petsc/petsc!7892

Address potential Malloc/Calloc ternary operator bugs

- Bug either by the argument of the ternary operator being cast
inappropriately to `size_t` or by the values themselves not being cast
to `s

Address potential Malloc/Calloc ternary operator bugs

- Bug either by the argument of the ternary operator being cast
inappropriately to `size_t` or by the values themselves not being cast
to `size_t` when necessary.

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Merge branch 'stefanozampini/useless-cast' into 'main'

Remove useless cast

See merge request petsc/petsc!7894

Brain dead fixes for useless casts