Merge branch 'knepley/fix-plex-mf-prec'

* knepley/fix-plex-mf-prec: (26 commits)
Plex: Symbol is shared between DM and SNES, so must be EXTERN
Plex: Remove unused variables
Plex: Updated examp

Merge branch 'knepley/fix-plex-mf-prec'

* knepley/fix-plex-mf-prec: (26 commits)
Plex: Symbol is shared between DM and SNES, so must be EXTERN
Plex: Remove unused variables
Plex: Updated examples to new DMPlexCreateBoxMesh()
TS ex11: Fixed output for new ROSW
Plex: Forgot internal declaration
Plex: Fixed ComputeIntegral() to work with FVM - May still have a bug, not sure
Plex: Fixed ResconstructGradients_Internal() to take an FVM and to work in multifield problems - ApplyLimiter_Internal() now can limit an FV field within a multifield problem
PetscFV: Added -petscfv_compute_gradients
SNES ex12: Fixed output for NGS
PetscDS: Added GetFieldIndex() and GetFieldSize() - Fix to accept FV as well
Plex: Forgot to eliminate PetscRealPart() after type change
Plex: fix line geometry for localized
Plex: fix section access to last commit
DMPlex: fix rectanlge geometry for localized
DMConvert_p4est_plex: set projection height early, so it passes to coordinate dm
DMLocalizeCoordinates(): make more flexible and targeted
Plex: When forming Jacobian, just use identity for FV fields
Plex+FE: Added missing FV dual space
PetscFE: If all Jac pointwise functions are NULL, do not evaluate
DMP4est: change order of setting projection height and localizing coordinates
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DMP4est: construct plex data in setup

Ideally (if there are every optimized routines that don't depend of plex
data), the plex data would only be constructed as needed. But right now
labels don't t

DMP4est: construct plex data in setup

Ideally (if there are every optimized routines that don't depend of plex
data), the plex data would only be constructed as needed. But right now
labels don't transfer until plex data is constructed, and we would like
labels to be transfered right away, so that the adaptivity forest can be
cleared right afer DMSetUp() is called on the new forest.

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DMP4est: allocation fixes in transfer SFs

DMPlex: uses BCs, FV gradient reconstruction in DMPlexTransferVecTree()

The reason these can be in the tranfer function but not in the tranfer
matrix constructors (interpolate or inject) is that the

DMPlex: uses BCs, FV gradient reconstruction in DMPlexTransferVecTree()

The reason these can be in the tranfer function but not in the tranfer
matrix constructors (interpolate or inject) is that these are nonlinear
(either affine from boundary conditions or whatever from gradient
limiting)

WIP: reconstruct gradients when interpolating

Plex: introduce gradient reconstruction into DMPlexTransferVecTree

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DMForest: make it possible to clear stale dms when adapting

DMP4est: sync the existence of adaptivity labels

Merge branch 'maint'

* maint:
DMP4est: fix coarseEdge calculation in transfer_Point

DMP4est: fix coarseEdge calculation in transfer_Point

DMP4est: fix coarseEdge calculation in transfer_Point

DMConvert_p4est_plex: set projection height early, so it passes to coordinate dm

DMP4est: change order of setting projection height and localizing coordinates

DMP4est: prefer [0,L) for periodic coordinates

Merge branch 'knepley/fix-plex-namespace'

* knepley/fix-plex-namespace: (24 commits)
PlexTree: Fixed declaration for function which produce indices for assembly
Plex: Forgot to zero out Jacobian

Merge branch 'knepley/fix-plex-namespace'

* knepley/fix-plex-namespace: (24 commits)
PlexTree: Fixed declaration for function which produce indices for assembly
Plex: Forgot to zero out Jacobian
Plex: Changed every *_Internal() function to PETSC_INTERN - Except the residual and Jacobian computation which should not be internal
Plex: Fixed declaration for function which produce indices for assembly
Plex: clarify precedence
DMForest tests ex2: typo fixes
DMP4est: cleanup for DMForestTransferVec()
DMP4est: fixes to DMPlexTranserVecTree_Inject()
DMP4est: fixes to DMPlexTranserVecTree_Interpolate()
DMPlex: correct usage of PetscSFCreateEmbeddedLeafSF()
DMP4est: address extra vertices in transfers
DMP4est: address missing vertices in transfers
DMP4est: fix array initialization
DMP4est: fix interface to nonuniform refinement
DMP4est: interface to nonuniform refinement
DMForest test ex2: leave data until end for debugging
DMForest: added test for DMForestTransferVec()
Plex: first pass at tree transfer interpolator. FVM missing
Plex: finish first pass at injection component of transer
DMPlex: further refactoring in injection code
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DMP4est: access data after setup

DMP4est: cleanup for DMForestTransferVec()

DMP4est: address extra vertices in transfers

DMP4est: address missing vertices in transfers

DMP4est: fix array initialization

DMP4est: fix interface to nonuniform refinement

DMP4est: interface to nonuniform refinement

DMPlex: refactor injector code for reuse

DMForestTransferVec_p4est(): shift work to plex

DMForest: start stub of DMForestTransferVec()

DMP4est: uncrustify

DMP4est: remove memset()