rename MatMumpsGetMatInverse() -> MatMumpsGetInverse

add MatMumpsGetMatInverse() -- works in sequential

Add MatDenseGetColumn and MatDenseRestoreColumn

This allows one to modify a column of a dense matrix.

Funded-by:
Project: PETSc for Theta
Time: 4.0 hours
Reported-by:
Thanks-to:

Merge branch 'barry/fix-matdensegetarray'

Merge branch 'barry/fix-matsolvertype'

change MatSolverType to be a const char* typedef to match other XXType

Commit-type: style-fix
Reported-by: Franck Houssen <franck.houssen@inria.fr>

Merge branch 'barry/matsolverpackage-matsolvertype'

Fix name MatSolverPackage since it is better to be consistent and use the terminology Type.

Commit-type: style-fix, documentation

MatPartitioning uses default ptscotch strategy

Add MatMPIAdjToSeq() that creates a copy of the MPIAdj matrix on each process

ex24.c with the Chaco option crashes with this even though it appears the sequantial matrices are dorrect. Possible caus

Add MatMPIAdjToSeq() that creates a copy of the MPIAdj matrix on each process

ex24.c with the Chaco option crashes with this even though it appears the sequantial matrices are dorrect. Possible causes

Chaco needs columns sorted in matrix?
Results from Chaco are not properly put back into parallel form?

Commit-type: feature

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Introduce MatDenseGetArrayRead(), add object state update to MatDenseGetArray(), adding missing MatDenseRestoreArray() to MKL_CPardiso

Commit-type: bug-fix, feature
Reported-by: Pierre Jolivet <Pier

Introduce MatDenseGetArrayRead(), add object state update to MatDenseGetArray(), adding missing MatDenseRestoreArray() to MKL_CPardiso

Commit-type: bug-fix, feature
Reported-by: Pierre Jolivet <Pierre.Jolivet@enseeiht.fr>

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Merge branch 'barry/tao-to-new-test-harness' into barry/all-new-test-harness-branches

Merge branch 'barry/move-to-new-test-harness' into barry/all-new-test-harness-branches

Merge branch 'master' into knepley/feature-plex-adjoint-prelim

* master: (60 commits)
petsc4py: update to use latest 3.8 snapshot
petsc4py: update to snapshot that syncs with 276c550
fix warni

Merge branch 'master' into knepley/feature-plex-adjoint-prelim

* master: (60 commits)
petsc4py: update to use latest 3.8 snapshot
petsc4py: update to snapshot that syncs with 276c550
fix warning
Plex ex26: Protect ExodusII stuff
DM: DMCreateSubDM() field argument should be const
TS ex46: Newlines and some numerical jitter
TS ex45: Newlines and some numerical jitter
TS ex11: Fixed indentation and time step numbering
SNES ex12: Update for DM view changes
Plex tests: Update to new DM output
Plex ex23: Use Nc not dim for vector fields
Plex: Default section now ignores cells hanging off boundary meshes
Plex: Viewer now reports the cell Height
Increase patchlevel to 3.8.3
Plex: Fixed DMPlexInterpolate() bugs - Do not copy associated data if we are not interpolating - Do not interpolate if we already have full depth
fix valgrind errors with using PetscObjectGetName()/SetName() with the same object - resulting in a free() before copy.
ex4: fix compile warning and update makefile
Minor fixes
Improving report_tests
PetscDS: Must initialize the default adjacency
...

Conflicts:
include/petsc/private/dmimpl.h
include/petscdm.h
include/petscis.h
src/dm/impls/plex/plexcreate.c

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Merge remote-tracking branch 'origin/Fande-Kong/MatResetPreallocation'

Merge branch 'master' into knepley/feature-plex-adjoint-prelim

* master: (251 commits)
yaml: add a backup download URL
Fix documentation of MatSetRandom function
Ignore -malloc-hbw option if m

Merge branch 'master' into knepley/feature-plex-adjoint-prelim

* master: (251 commits)
yaml: add a backup download URL
Fix documentation of MatSetRandom function
Ignore -malloc-hbw option if malloc is already set
Plex: Fixed array initialization
pgi: compile fix
knl: update test to use memkind and remove option that worked arround a bug with intel 17
Check the return value for memkind_posix_memalign
Change the default behavour for -malloc_hbw
Bib: More refs
test: remove runex13f90 as its now converted to new test suite
fix win32 crash. This test was previously run with '-n 4' - so restoring it
Fix petscsfgetgraph_ to work for all Fortran compilers by directly using array of PetscSFNodes
bugfix for MatDuplicate_MPIAIJ_PtAP Reported-by: Samuel Lanthaler <s.lanthaler@gmail.com>
strip out dead sundials usage code; change sundials test to only run 5 timesteps to prevent different number of steps on different systems.
Remove extra lines of output file
Example uses C99 constructs so must mark with requires: c99
fix const missmatch for DMDAVecRestoreArrayRead()
remove conflict between function name in example and new PETSc TS function
builds: attempt to do maint/master/next test builds in separate clones
ex62: it turned out that CHACO partioning is not deterministic. Use a prescribed partition instead
...

Conflicts:
src/dm/interface/dm.c
src/snes/examples/tutorials/ex13.c

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Merge remote-tracking branch 'origin/hongzh/remove-bitarray-ell'

Merge branch 'master' into knepley/fix-plex-bc-multiple

* master: (347 commits)
tests: add 'PETSC_HAVE_C99' flag - so that 'requires: c99' can be used in the test suite
PGI: fix build error with

Merge branch 'master' into knepley/fix-plex-bc-multiple

* master: (347 commits)
tests: add 'PETSC_HAVE_C99' flag - so that 'requires: c99' can be used in the test suite
PGI: fix build error with updated 17.10 compilers
Fix for test dirs that are not tutorials/tests
fix use of double in PetscAbsReal() which produces compiler warnings with single precision build
elemental: remove info on conflict of -with-cxx-dialect=C++11 on osx - it works now.
Cleanup .bib files
Fix allfortranstubs rule to rm generated files from correct directory, not outdated location
ierr set but not checked
Remove initial refine so test runs faster and does not time out on some machines
Gail's copyedits for bibtex items
Docs: manual: add further description of 3 different current testing options
DM: check for ops->localtolocalbegin/end before calling
PetscSF: fix typo in tutorial ex1
Vec+HDF5: Fix output for complex - Need to check for empty group name
SNES: SNESDestroy() can be called with snes->dm == NULL
SNES: SNESDestroy() can be called with snes->dm == NULL
Vec+HDF5: Fix output for complex - Need to check for empty group name
Docs: Manual: Update tests section
gmakegentest: also exclude .#filenames created by emacs
DMPlex: Fix output of test ex1 after changes to Gmsh reader
...

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Merge remote-tracking branch 'origin/pr795/pieter_ghysels/update-strumpack-2.1.0/master'

Enable the fortran interface for MatSTRUMPACKSetReordering,
by defining the enumeration in the fortran interface.

Remove routines to set HSS minimum front size
(not supported in strumpack yet).

Update to some strumpack functions.
Add a routine to set the HSS leaf size.

update the strumpack interface

Merge commit 'd47bf9aaf1e5266cc3f0ff499f934c85788965a9' into jed/fix-matcreatempibaij/maint

Obtain changed (v3.5) handling of MatMPIBAIJSetPreallocationCSR to match
documentation.

Merge remote-tracking branch 'origin/tristan/mat-invert-block-diagonal-mat'