Plex: Fix package initializer in PlexPartitionCreate()

Merge branch 'knepley/fix-plex-regression'

* knepley/fix-plex-regression:
SNES ex62: Solver jitter
SNES ex62: Newline at the end of output
TS ex11: It looks like Toby's fixes have slightly cha

Merge branch 'knepley/fix-plex-regression'

* knepley/fix-plex-regression:
SNES ex62: Solver jitter
SNES ex62: Newline at the end of output
TS ex11: It looks like Toby's fixes have slightly changed the shallow water example
TS ex32: Add output
Plex ex17: Updated to new point location interface
Plex: Must initialize interpolation elemMat since I only set the component diagonal
SNES ex12: Fixed tolerance in FAS runs
SNES ex12: Why did the ASM regression change?
SNES ex12: Corrected cheby options
SNES ex12: Added p4est output
SNES ex12: Updated output for changed GAMG settings
SNES ex12: Updated output for newline at end
Fortran: Missing if body in #define
Draw: Missing 'do' in incomprehensible #define

show more ...

Plex ex6: Added 3D tests

Plex: Add in 3D spectral ordering for closure

Plex tests ex6: remove bad semicolons

DMLabel: add regression test for clearing label values

Merge branch 'knepley/feature-plex-particle-example'

* knepley/feature-plex-particle-example: (103 commits)
PetscTypes: * Added newly types into fortran definition
DMSwarmMigrate: printf fix for

Merge branch 'knepley/feature-plex-particle-example'

* knepley/feature-plex-particle-example: (103 commits)
PetscTypes: * Added newly types into fortran definition
DMSwarmMigrate: printf fix for __float128
fix c++ comments for c89
fix scanf warnings using PetscInt_FMT
Sys+DM: Fixing 64-bit format strings
Swarm: Fixed 64-bit integer problems
Swarm: Fixed PetscFree() usage
Swarm: Correct format in scanf
Plex: Small cleanup
Plex: Fixes to draw for complex
Plex: Fixed type for GetNeighbors
Swarm: Cleanup of Dave's code - Guy has a kid and think he doesn't have to play by the rules anymore
SNES ex63: Stokes example with Particles
Swarm: Fixed prototypes
Swarm: Added missing PetscFunctionBegin
Swarm: Fixed DMGetLocalVecTor_Swarm()
Swarm: Added DMSwarmCreate/DestroyLocalVectorFromField()
Swarm: Added missing prototype
Plex: Since we are using an SF, ranks that are not found default to 0, not -1 - You need to check the index for the negative value
Plex: Added a new point location type to remove entries which are not found - This was the default, but its not what DMSwarm wanted and its non-intuitive I agree
...

Conflicts:
src/dm/impls/plex/plexcreate.c
src/dm/interface/dm.c

show more ...

Merge branch 'pr500/knepley/fix-plex-gmsh/master'

* pr500/knepley/fix-plex-gmsh/master:
Plex: set block size on local coordinates when creating mesh from gmsh file
Plex: invert read tetrahedra a

Merge branch 'pr500/knepley/fix-plex-gmsh/master'

* pr500/knepley/fix-plex-gmsh/master:
Plex: set block size on local coordinates when creating mesh from gmsh file
Plex: invert read tetrahedra and hexahedra from gmsh file

show more ...

Plex ex17: Updated to new point location interface

Plex: Must initialize interpolation elemMat since I only set the component diagonal

Plex tests ex20: add names to output meshes

DMPlex tests ex20: fix bad dev/null'd output in makefile test

DMPlex: gotta root out that c99 before it corrupts our kids

DMPlex test ex20: added triangle and ctetgen regression tests for DMLabelAdapt()

DMRefine_Plex_Label(): move DMPlexRestoreTransitiveClosure() after loop

DMPlex: added test ex20 for DMAdaptLabel()

DMPlex: put ifdef guards around static function only used when packages present.

DMPlex: fix __FUNC__ of recent change

DMAdaptFlag: added DM_ADAPT_DETERMINE

- This way the default label value is DM_ADAPT_DETERMINE
- Removes some ambiguity about what DM_ADAPT_KEEP means

DMPlex: added DMAdaptLabel implementation for DMPlex

It just sets max volumes based on flags and calls the existing
refinement options.

DMAdaptLabel: change second argument to actual label

Also move DM_FOREST_REFINE/COARSEN to DM_ADAPT_REFINE/COARSEN

Merge branch 'tisaac/dmp4est-fix-overlap'

This branch makes a lot of fixes that fix PetscFV and DMP4est for
parallel. At the root of the issues were discrepencies related to the
overlapping cells t

Merge branch 'tisaac/dmp4est-fix-overlap'

This branch makes a lot of fixes that fix PetscFV and DMP4est for
parallel. At the root of the issues were discrepencies related to the
overlapping cells that are currently required for finite volume
calculations.

* tisaac/dmp4est-fix-overlap: (23 commits)
TS tutorial ex11: make p4est example parallel
TS tutorial ex11: globalize maxspeed before cfl computation
DMPlexTransferVecTree_Inject(): sum child to parent contributions
DMP4est: do not cause error if overlap > 1 in serial run
TS tutorial ex11: fix memory leaks
DMPlexTSComputeRHSFunctionFVM: ADD_VALUES from locF to F instead of INSERT_VALUES
DMPlexComputeResidual_Internal: global/local function mismatch
DMPlexShiftLabels_Internal: not-a-ghost is indicated by -1, not 0
DMPlexComputeResidual_Internal(): do not add contributions of ghost cells
DMPlexTree: do proper vector assembly
DMPlexReconstructGradients_Internal(): clarify ternary operator terms
DMPlexConstructGhostCells_Internal(): correct error message communicator
DMPforestGetTransferSF_Point: only compute covers for owned quads
TS tutorial ex11: only read gradients from local vectors
DMPlex: fix point migration / hybrid point interaction
DMPlex: fix PetscPartitionerPartition() to deal with overlap
DMPlexComputeInterpolatorTree: fix loop variables from recent change
DMP4est: search _both_ directions of tree for match
DMP4est: update regression tests for parallel
DMP4est: remove unused cell sf loop
...

show more ...

DMPlexTransferVecTree_Inject(): sum child to parent contributions

In switching from ADD_VALUES to INSERT_VALUES, I forgot to sum the child contributions before
they are inserted to the vector

DMPlexShiftLabels_Internal: not-a-ghost is indicated by -1, not 0

DMPlexTree: do proper vector assembly

This is necessary once we assemble in parallel