Merge branch 'knepley/feature-plex-ceed-integration' into 'main'

Plex: Initial CEED integration

See merge request petsc/petsc!3918

Plex: Fix parallel bug in DMPlexCheckGeometry()
- Also Cannot check geometry of a pyramid

Plex: Hybrid dm must shared celltype label with coordinate dm
- Added DMSetLabel()

Plex: Now meshes can be created automatically from the command line, and some more fixes
- Changed internal mesh creation functions to operate on a DM instead of
creating a new one so that they can h

Plex: Now meshes can be created automatically from the command line, and some more fixes
- Changed internal mesh creation functions to operate on a DM instead of
creating a new one so that they can happen with options
- Fixed coordinates in CreateCubeBoundary_Internal()
- Added DMPlexShape for prebuilt meshes
- Added DMPlexIsSimplex()
- Added DMPlexCreateCoordinateSpace()
- DMPlexDistributeCoordinates() should copy the coordinate
discretization
- DMPlexInterpolateFaces_Internal() should be careful to preserve the
lower bound when resetting the chart
- PetscSectionSetChart() should ignore entries that match the current
ones
- Added DMPolytopeTypeSimpleShape()
- Do not require an EGADS model for TetGen
- Detail ASCII viewer shows all labels
- Default viewer shows periodicity

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Merge remote-tracking branch 'origin/release'

Merge branch 'balay/fix-gcc11' into 'release'

gcc11: fix build

See merge request petsc/petsc!3977

gcc11: fix build

/home/petsc/builds/SeumZ3eb/0/petsc/petsc/src/dm/impls/plex/plex.c: In function ‘DMPlexComputeOrthogonalQuality’:
/home/petsc/builds/SeumZ3eb/0/petsc/petsc/src/dm/impls/plex/plex.c:

gcc11: fix build

/home/petsc/builds/SeumZ3eb/0/petsc/petsc/src/dm/impls/plex/plex.c: In function ‘DMPlexComputeOrthogonalQuality’:
/home/petsc/builds/SeumZ3eb/0/petsc/petsc/src/dm/impls/plex/plex.c:8214:12: error: ‘VecSetValuesLocal’ reading 8 bytes from a region of size 4 [-Werror=stringop-overread]
8214 | ierr = VecSetValuesLocal(*OrthQual, 1, (const PetscInt *) &ix, (const PetscScalar *) &OQ, INSERT_VALUES);CHKERRQ(ierr);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/home/petsc/builds/SeumZ3eb/0/petsc/petsc/src/dm/impls/plex/plex.c:8214:12: note: referencing argument 4 of type ‘const _Complex float *’

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Merge branch 'jacobf/2021-03-26/clang-static-linter' into 'main'

Feature: libClang PETSc Macro Static Analyzer

See merge request petsc/petsc!3773

Linter using libClang that checks PetscValidHeaderSpecifcType, PetscValidHeaderSpecific, PetscValidHeader, PetscValid[XXX]Pointer, PetscValidType, PetscCheckSameComm, PetscValidLogicalCollectiveXXX f

Linter using libClang that checks PetscValidHeaderSpecifcType, PetscValidHeaderSpecific, PetscValidHeader, PetscValid[XXX]Pointer, PetscValidType, PetscCheckSameComm, PetscValidLogicalCollectiveXXX for validity. Automatically generates diff files for problems with a known solution.

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Merge remote-tracking branch 'origin/release'

Merge branch 'knepley/fix-forest-anchors' into 'release'

Forest: It is possible that anchor points are not in the local section - Small...

See merge request petsc/petsc!3894

Forest: It is possible that anchor points are not in the local section - Small bug with anchor offset

Merge branch 'jczhang/fix-kokkos-complex' into 'main'

Use Kokkos::complex when available

See merge request petsc/petsc!3904

Merge branch 'ksagiyam/plex_hdf5_refactor' into 'main'

Ksagiyam/plex hdf5 refactor

See merge request petsc/petsc!3934

plex: add DMPlexLabelsLoad

plex: add DMPlexCoordinatesLoad

plex: make DMPlexTopologyLoad return data migrationSF

plex: add DMPlexTopologyLoad

Fix wrong uses of PetscSqrtScalar that should be PetscSqrtReal

Merge remote-tracking branch 'origin/barry/2021-03-28/fix-mpiu-allreduce-mpi-failure'

Fix capture of MPI error code in MPIU_Allreduce()

See merge request petsc/petsc!3777

Merge branch 'bourdin/exodus-viewer' into 'main'

exodusii: viewer updates

See merge request petsc/petsc!3836

exodusii: viewer updates
- finished implementing PETSCVIEWEREXODUSII
- Call the proper exodusii function when VecView/Load and DMView/Load are invoked on a PETSCVIEWEREXODUSII viewer
- Added

exodusii: viewer updates
- finished implementing PETSCVIEWEREXODUSII
- Call the proper exodusii function when VecView/Load and DMView/Load are invoked on a PETSCVIEWEREXODUSII viewer
- Added interface to define second order exodusii meshes
- updated dm/impls/plex/tests/ex26.c

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All MPIU_ functions except MPIU_File return MPI error codes for checking

Update checkbadSource to find use of CHKERRQ with MPIU_ functions

Commit-type: i.e. error-checking, optimization, bug-fix, p

All MPIU_ functions except MPIU_File return MPI error codes for checking

Update checkbadSource to find use of CHKERRQ with MPIU_ functions

Commit-type: i.e. error-checking, optimization, bug-fix, portability-fix, testing-fix, style-fix, feature, documentation, example
Funded-by:
Project:
Time: hours
Reported-by:
Thanks-to:
Development Tools: Vim, Emacs, Eclipse

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Merge branch 'knepley/feature-plex-ds-traversals' into 'main'

DS: Moved management of pointwise functions into PetscWeakForm object - Added...

See merge request petsc/petsc!3726

Plex+DS: Moved management of pointwise functions into PetscWeakForm object
- Added PetscChunkBuffer to manage contiguous buffer space
- WeakForm can index functions by Label/val, field
- WeakForm

Plex+DS: Moved management of pointwise functions into PetscWeakForm object
- Added PetscChunkBuffer to manage contiguous buffer space
- WeakForm can index functions by Label/val, field
- WeakForm allows multiple kernels per key

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