Plex: Fix overeager protection of function

Merge branch 'knepley/fix-plex-docs'

* knepley/fix-plex-docs:
Plex: Fix the fix
fix -Wmaybe-uninitialized
Doc+Plex: Add PetscUnit to Fortran
Doc+Plex: Fix function name
Plex: Fix declarati

Merge branch 'knepley/fix-plex-docs'

* knepley/fix-plex-docs:
Plex: Fix the fix
fix -Wmaybe-uninitialized
Doc+Plex: Add PetscUnit to Fortran
Doc+Plex: Fix function name
Plex: Fix declaration
Doc+Plex: Added function docs
Doc+Plex: More function docs - Make functions static - Move internal declarations
Doc+Plex: More function docs
Doc+Plex: Document DMPlexGetOrientedFace() and DMPlexSetSubpointMap() - Make functions static
Doc+Plex: Document DMPlexCreateOverlapMigrationSF() - Make functions static
Plex: Make functions static - Move internal declarations to private header
Plex: Make functions internal
Plex+HDF5: Make functions internal
Plex: Make functions static
Plex: Make functions static
Doc+Plex: Document DMPlexCreateNeighborCSR() - Make functions static
Doc+Plex: Document DMPlexPreallocateOperator() - Make functions static
Plex: Make function static
Plex+VTK: Make functions static
Plex+VTK: Make DMPlexVTKGetCellType() internal

Conflicts:
src/dm/impls/plex/plexvtk.c

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The developer manual clearly states that MPI_Comm_size() returns size it doesn't return
numProcs or other nonsense. Pretty soon you'll start using mype instead of rank?

Using consistent names for va

The developer manual clearly states that MPI_Comm_size() returns size it doesn't return
numProcs or other nonsense. Pretty soon you'll start using mype instead of rank?

Using consistent names for variables makes code simpler to maintain

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Merge branch 'knepley/feature-plex-tests-new' into knepley/feature-fe-dual-apply

* knepley/feature-plex-tests-new:
fix accidently changed code
another fix for Plex for complex numbers
fix for

Merge branch 'knepley/feature-plex-tests-new' into knepley/feature-fe-dual-apply

* knepley/feature-plex-tests-new:
fix accidently changed code
another fix for Plex for complex numbers
fix for example that did not handle complex numbers correctly
mark example tests that do not work with complex, fix warning about use of possibly uninitialized values
Fix MPI type to match PetscReal
No Matt triangle is not by default installed on every machine in the world
Matt forgot to require triangle in many tests
fix incorrect requires, fix incorrect name for __float128
since hdf5 doesn't allow PETSc to be built with 16 or 128 bit floating point then say it
fix requires
removed unneeded change to test harness since already supports requires: double
bunch of fixes in plex tests and code for single precision
Many missing requires ctetgen
Certain test examples require ctetgen but it is not listed in test rules

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fix accidently changed code

another fix for Plex for complex numbers

Reported-by: nightly tests

Fix MPI type to match PetscReal

bunch of fixes in plex tests and code for single precision

Reported-by: nightly tests

Plex: Fix declaration

Doc+Plex: Added function docs

Doc+Plex: More function docs
- Make functions static
- Move internal declarations

Plex: Make functions static
- Move internal declarations to private header

Plex: Make functions internal

Merge branch 'master' of bitbucket.org:petsc/petsc

Merge branch 'mlange/feature-plex-med'

* mlange/feature-plex-med:
Plex+Fluent: Finally got warning working for me
Plex+Fluent: numFaces should not have been unsigned
fix sign-compare warning i

Merge branch 'mlange/feature-plex-med'

* mlange/feature-plex-med:
Plex+Fluent: Finally got warning working for me
Plex+Fluent: numFaces should not have been unsigned
fix sign-compare warning in arch-linux-pkgs-cxx-mlib_el6
plex+MED: fix -Wunused-variable
Plex+MED: Fix variable protection
Plex+MED: Fix unsigned ints in the Fluent format
Plex-MED: Adding test output
Plex-MED: Updating the MED version to download
Configure: Make MED configure with given HDF5 path
Plex-Med: Read, communicate and identify facets in parallel
Plex: Optionally return vertex SF from DMPlexCreateFromCellListParallel
Plex-Med: Switch to parallel facet reads from file
Plex: Cannot assume hash keys are sorted
Plex-Med: Adding partitioned reads of coordinates and cell-connectivity
Plex-Med: Apply facet IDs via vertex joins
Plex-Med: Build DM from cells and coordinated in the .med file
Plex-Med: Add skeleton reader for .med mesh files with simple tests
Plex-Med: Add .med mesh library to build system

Conflicts:
src/dm/impls/plex/makefile

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Merge branch 'barry/remove-funct'

Remove the use and definition of __FUNCT__ throughout the code

Since all modern C/C++ compilers provide this functionality we no longer need to provide it manually in PETSc
Time: 1.5 hours
Thanks-t

Remove the use and definition of __FUNCT__ throughout the code

Since all modern C/C++ compilers provide this functionality we no longer need to provide it manually in PETSc
Time: 1.5 hours
Thanks-to: Andreas Mang <andreas@ices.utexas.edu>

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Merge branch 'master' into stefano_zampini/feature-pcbddc-saddlepoint

This is needed to deal with some changes in MatNullSpace from commit 9d2471e

Merge branch 'tisaac/dmplex-fix-hex-box-periodicity'

* tisaac/dmplex-fix-hex-box-periodicity:
DMPlexCreateHexBoxMesh(): again, fix initialization for c89
DMPlexCreateHexBoxMesh: c86-compatible i

Merge branch 'tisaac/dmplex-fix-hex-box-periodicity'

* tisaac/dmplex-fix-hex-box-periodicity:
DMPlexCreateHexBoxMesh(): again, fix initialization for c89
DMPlexCreateHexBoxMesh: c86-compatible initializiation
DMPlexView_HDF5: use DMGetCoordinatesLocalized() instead of bad test
DMGetCoordinatesLocalized(): fix for change to localization strategy
DMPlex: set periodicity automatically in DMPlexCreateHexBoxMesh

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DMPlexCreateHexBoxMesh(): again, fix initialization for c89

DMPlexCreateHexBoxMesh: c86-compatible initializiation

DMPlex: set periodicity automatically in DMPlexCreateHexBoxMesh

Merge branch 'master' into tisaac/dmplex-feature-real-to-ref

I need updated PetscFE interfaces in what I'm going to do

* master: (603 commits)
parmetis: fix typo in testsuite
Added PETSC_HAVE_A

Merge branch 'master' into tisaac/dmplex-feature-real-to-ref

I need updated PetscFE interfaces in what I'm going to do

* master: (603 commits)
parmetis: fix typo in testsuite
Added PETSC_HAVE_ATTRIBUTEALIGNED flag to makefile
PCSetUp_SVD() used incorrect matrix for matrix size in parallel, also need to skip LAPACK call if matrix size is zero
strumpack: update to latest version 1.0.4
Remove valgrind warning about MPI_Allreduce() with uninitialized data
sed for test output that has atol convergence with quad precision
updated ex1_nest tests
fixed incorrect key value
fix: bad merge a69d34a
test: move runex78 to TESTEXAMPLES_C_NOTSINGLE
build: fix warnings
sys: update test to produce same result - irrespective of debug/opt build - and presence of ~/.petscrc
sys: src/sys/examples/tests/ex30.c -> src/sys/examples/tests/ex32.c to avoid conflict in master
Sed output, since quad precision reduces below atol on these tests
remove automatically generated matrix names from test output files since can be different
Fixes for MatMPIXXXSetPreallocation(), they were not reentrant, since they kept the information used for matrix-vector products
GAMG: fix PCView_GAMG() format - and update output/ex56_0.out
superlu_dist: 64-bit-indices fix https://github.com/xiaoyeli/superlu_dist/issues/4
Add SNESSetDivergenceTolerance / -snes_divergence_tolerance.
fixed unit read in Plex
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Merge branch 'knepley/feature-plex-bdfunc'

* knepley/feature-plex-bdfunc: (56 commits)
updated snes/ex56
updated snes/ex56
Plex: Goddamn it! Shadowing a variable name
PetscDS: Must be setup

Merge branch 'knepley/feature-plex-bdfunc'

* knepley/feature-plex-bdfunc: (56 commits)
updated snes/ex56
updated snes/ex56
Plex: Goddamn it! Shadowing a variable name
PetscDS: Must be setup in order to access field sizes and components
fix bad merge 44ac993612e1ca111ab14eba1c22039e0ba32a12 wrt src/snes/examples/tutorials/ex56.c [by attempting to redo the merge with kdiff3 - and then comparing the final result with the result in the above merge]
fixed snes/ex56 for PetscDSAddBoundary change
dmplexsnes: Remove more unused variables
Remove unused variables
SNES ex77: Must also set face quadrature
SNES ex12: No longer need boundary discretization orders
SNES ex62: Numerical flutter
SNES ex12: Numerical flutter
Plex: In projection, get Nc from DS instead of calculating it again
PetscFE: Added missing destroy
SNEX ex77: Update boundary args and FE creation
Plex: Update boundary integrals to new API
SNES ex12: Tests of bc from fields
SNES ex12: Added the ability to use finite element fields as boundary conditions
Plex: Need invJ for field projection
Plex: Fix bug with field projection - We must tabulate the FE on the dual basis quadrature points
...

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Merge branch 'stefano_zampini/feature-convert-matnest-matis' into stefano_zampini/feature-pcbddc-saddlepoint

I have to merge it here, since there's an API addition for MatIS in stefano_zampini/featu

Merge branch 'stefano_zampini/feature-convert-matnest-matis' into stefano_zampini/feature-pcbddc-saddlepoint

I have to merge it here, since there's an API addition for MatIS in stefano_zampini/feature-pcbddc-saddlepoint
that prevents me to smoothly merge stefano_zampini/feature-convert-matnest-matis into next.

This will also facilitate merging stefano_zampini/feature-pcbddc-saddlepoint into master

Conflicts:
src/docs/website/documentation/changes/dev.html

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