Added embedding tests for quads in 2d and quads and simplices in 3d.

Fixed a problem with exact sinusoidal solutions.

Renamed and reorganized residual and Jacobian functions to make it
more obvious

Added embedding tests for quads in 2d and quads and simplices in 3d.

Fixed a problem with exact sinusoidal solutions.

Renamed and reorganized residual and Jacobian functions to make it
more obvious which system they are associated with.

Removed method of manufactured solutions from dm_impls_plex-ex39.c

Cleaned up SNES convergence checks and added our own custom L2 error
for the divergence.

Added tests that include mesh transforms. Generated correct output
files for the tests that currently pass.

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Remove usage of PETSC_HAVE_FORTRAN_STDCALL, PETSC_BLASLAPACK_STDCALL, HAVE_FORTRAN_MIXED_STR_ARG flags - as Compaq f90 compiler is no longer supported

Merge remote-tracking branch 'origin/maint'

Typos in documentation

DMCreateLocalSection_Plex: use PETSC_COMM_SELF to prevent deadlock

The number of boundary conditions may be different after mesh
distribution, thus we cannot use a parallel communicator for the
boun

DMCreateLocalSection_Plex: use PETSC_COMM_SELF to prevent deadlock

The number of boundary conditions may be different after mesh
distribution, thus we cannot use a parallel communicator for the
boundary index sets.

Commit-type: bug-fix
Reported-by: Arash Mehraban <arashm81@gmail.com>

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Fix wrong copy-paste in plexexodusii.c

Merge branch 'knepley/feature-plex-bc-highorder' into 'master'

Knepley/feature plex bc highorder

See merge request petsc/petsc!2536

Merge branch 'knepley/feature-plex-exodusii-viewer' into 'master'

Knepley/feature plex exodusii viewer

See merge request petsc/petsc!2535

Merge branch 'jed/fix-dmplexclosureindices-local-section' into 'master'

DMPlexGetClosureIndices: fix indexing for local section

See merge request petsc/petsc!2526

Merge remote-tracking branch 'origin/balay/ftn-updates'

Balay/ftn updates

See merge request petsc/petsc!2528

Merge remote-tracking branch 'origin/maint'

Plex ex1: Added ball test

Plex: Added ExodusII viewer

Plex: Fix for setting boundary conditions on some components with high order discretizations

Plex+Section: When constraining only some components on a point, need to allow for multiple "nodes"

DMPlexGetIndicesPointFieldsSplit_Internal: remove setBC argument

This function uses global indices, thus setBC=TRUE is invalid.

Also make function static.

DMPlexGetIndicesPointFields_Internal: add islocal argument and docs

This fixes a serious bug in DMPlexGetClosureIndices (and likely many
other places) that returns corrupt local indices in case a co

DMPlexGetIndicesPointFields_Internal: add islocal argument and docs

This fixes a serious bug in DMPlexGetClosureIndices (and likely many
other places) that returns corrupt local indices in case a constrained
component is not last. See example in new comment for
DMPlexGetIndicesPointFields_Internal. The prior behavior was correct
for global sections, but many/all uses were with local sections.

The same bug applies to DMPlexGetIndicesPoint_Internal, which is also
updated in this commit.

Thanks-to: Matthew Knepley <knepley@gmail.com>

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Segfault in DMPlexCreateRankField()

more f90 fixes: remove PETSC_USING_F90 usage

Merge branch 'jolivet/fix-more-typos' into 'master'

Fix more typos and add missing examples

See merge request petsc/petsc!2511

Fix more typos and add missing examples

Merge branch 'maint'

DMPlex: fix cell refinement for 3D hex

Fix typos in docs

DMPlexVecSetFieldClosure_Internal: plex-native rather than user closure permutation

If a user sets DMPlexSetClosurePermutationTensor(), but still uses
DMPlexInsertBoundaryValues (or anything involvi

DMPlexVecSetFieldClosure_Internal: plex-native rather than user closure permutation

If a user sets DMPlexSetClosurePermutationTensor(), but still uses
DMPlexInsertBoundaryValues (or anything involving a projection), this
function would mangle the results by assuming that the input data was
in user-specified permutation when in fact it was in plex-native.

Commit-type: bug-fix
Reported-by: Arash Mehraban <arash.mehraban@colorado.edu>
Reporteb-by: Jeremy Thompson <jeremy.thompson@colorado.edu>

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