Use PETSCDUALSPACEBDM macro when registring bdm

Merge branch 'dalcinl/partitioner' into 'master'

PetscPartitioner: Reorganize code in a proper package subtree

See merge request petsc/petsc!2941

PetscPartitioner: Reorganize code in a proper package subtree

Merge branch 'bwhitchurch/feature-space-sum' into 'master'

Added feature PetscSpace_Sum

See merge request petsc/petsc!2765

Added feature PetscSpace_Sum

Merge branch 'tisaac/feature-dual-space-rework' into 'master'

Rework PetscDualSpace

See merge request petsc/petsc!2399

Add node location and trimmed space options to PETSCDUALSPACELAGRANGE

Ameliorate Lagrange setup time by reducing what gets created in recursive calls

Remove stubs of variable order code until it ca

Add node location and trimmed space options to PETSCDUALSPACELAGRANGE

Ameliorate Lagrange setup time by reducing what gets created in recursive calls

Remove stubs of variable order code until it can be handled by its own topic branch

Add trimmed to viewer description of lagrange spaces

Control trimmed status of lagrange spaces from command line

Fix errors in setting node types

Fix uninitialized flag

update some tests

update some tests

Don't compute symmetries if tensorCell != tensorSpace

Address pipline errors, squash uninitialized warnings and fixing complex builds

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Remove BDM

Merge branch 'stefanozampini/petscpartitioner-target-weights' into 'master'

Fix PetscPartitioner and add support for target partition weights

See merge request petsc/petsc!2333

PetscPartitioner: Fix the class in many ways

- DMPlex now weights owned local cells by summing all the local section dofs in the closure of the cell
- Add support for target partition weights via ad

PetscPartitioner: Fix the class in many ways

- DMPlex now weights owned local cells by summing all the local section dofs in the closure of the cell
- Add support for target partition weights via additional PetscSection
- Add centralized option to use vertex weights
- Update man pages
- Rename PetscPartitionerPartition to PetscPartitionerDMPlexPartition since the function is specific to DMPlex
- Add interface to properly partition a graph via PetscPartitionerPartition
- Skip empty processes for distributed graphs in ParMetis and PTSCOTCH
- MatPartitioningPTSCOTCH: match PetscPartitioner calls
- DMPLEX ex24: added target partitioning tests

Update output files

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Merged in knepley/feature-dualspace-bdm (pull request #1699)

Knepley/feature dualspace bdm

Merged in psanan/man-pages-remove-keywords (pull request #1717)

Man pages: Remove .keywords fields

Approved-by: BarryFSmith <bsmith@mcs.anl.gov>

Man pages: remove .keywords: fields

This field is recognized by doctext from Sowing (http://wgropp.cs.illinois.edu/projects/software/sowing/doctext/node20.htm#Node20),
but it doesn't seem to be unif

Man pages: remove .keywords: fields

This field is recognized by doctext from Sowing (http://wgropp.cs.illinois.edu/projects/software/sowing/doctext/node20.htm#Node20),
but it doesn't seem to be uniformly used or maintained.

Thus, remove all .keywords: fields, and a following blank line, if present.

This is accomplished with GNU sed (gsed on OS X), with the following commands.
*Warning* that this type of command can corrupt a .git directory,
so be cautious in reusing or modifying these commands. They first look
for and delete matching lines with a following line consisting of only whitespace,
and then delete any remaining matching lines.

find src/ -type f -exec gsed -i '/keywords:/ {N; /\n\s*$/d}' {} +
find src/ -type f -exec gsed -i '/keywords:/d' {} +
find include/ -type f -exec gsed -i '/keywords:/ {N; /\n\s*$/d}' {} +
find include/ -type f -exec gsed -i '/keywords:/d' {} +

Hints on the sed command obtained from: https://unix.stackexchange.com/questions/100754/how-to-delete-a-specific-line-and-the-following-blank-line-using-gnu-sed

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PetscDualSpace: Add a BDM implementation

Merge branch 'master' into jpusztay/feature-swarm-symplectic-example

Merge branch 'master' into jpustay/feature-swarm-example

Merged petsc/petsc into master

Merge branch 'master' into arcowie-rem/feature-error-logging

* master: (393 commits)
Bib: Update reference
Mat: Doc fix
Bib: Updated ref
PetscDS: Doc fixes
PC+LU: Do not try to refactor an

Merge branch 'master' into arcowie-rem/feature-error-logging

* master: (393 commits)
Bib: Update reference
Mat: Doc fix
Bib: Updated ref
PetscDS: Doc fixes
PC+LU: Do not try to refactor an already factored matrix
Mat: Small fix for checking and docs
Mat: Added MatSetFactorType() - Needed it when making a shell matrix look factored
PetscDS: Added PetscDSUpdateBoundary() - Lets the user change the boundary condition
single precision produces different convergence history
p4est: has a dependency on zlib - so handle it correctly
Add -mat_mffd_complex to use the Lyness complex number trick to compute J_u * v instead of differencing.
Replace VecWAXPY by VecAXPY if needed
Revert "Replace VecWAXPY by VecAXPY if needed"
Replace VecWAXPY by VecAXPY if needed
MatHermitianTransposeGetMat and MatCreateVecs
ex19: Updated test filter to avoid false positives.
DM: Improved Global-To-Natural docs Suggested-by: Josh L <ysjosh.lo@gmail.com>
Do not build shared openblas when doing static build
Upgrade OpenBLAS to 0.3.3
test: add alt output file for changes in OSX-10.14 and Xcode-10.0 [perhaps related to ML]
...

Conflicts:
src/vec/is/utils/vsectionis.c

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Merged petsc/petsc into master

Merge branch 'psanan/dmstag' [PR #1146]

* psanan/dmstag:
DMStag basic implementation
Basic implementations of DMStag and DMProduct, with some accompanying documentation and tests.

dmregall.c: remove duplicate declarations for DMProduct

DM: Add DMStag

Features include:
- 1d, 2d, 3d grids
- ghosted, periodic and "none" boundary conditions
- box and star communication patterns
- stencil-based setting of Vec and Mat entries
- direct a

DM: Add DMStag

Features include:
- 1d, 2d, 3d grids
- ghosted, periodic and "none" boundary conditions
- box and star communication patterns
- stencil-based setting of Vec and Mat entries
- direct array-based access to local vectors
- product coordinates
- helper functions for product coordinate arrays
- helper to split DMStag+Vec to a DMDA+Vec
- 4 tutorial examples
- 152+ test cases for the test suite (make -f gmakefile test globsearch="*stag*" to run them)

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DM: Add DMProduct

Merged petsc/petsc into master

Merge branch 'master' into arcowie-rem/feature-error-logging

* master: (345 commits)
Update dev notes for the coming release
Increase patchlevel to 3.9.4
doc fixes
Added some AIJSELL tests t

Merge branch 'master' into arcowie-rem/feature-error-logging

* master: (345 commits)
Update dev notes for the coming release
Increase patchlevel to 3.9.4
doc fixes
Added some AIJSELL tests that mirror the SELL tests.
Bib: More refs
Removed use of hardwired -1 to represent PETSC_NULL_XXX object, since the null value is now 0.
fix memleaks flagged by valgrind
ex62: disable long running test and workaround differences in iteration counts on various builds.
Add FAQ we can point to when users get error messages such as: "PETSc was configured with one OpenMPI mpi.h version but now appears to be compiling using a different OpenMPI mpi.h version"
swith test from mpich to openmpi as mpich ch3:sock is unuserable per PetscShmCommGet()
DM: Forgot to move include statement
fix nightlybuild issues - disable hypre [for openmp] and fix uninitialized variables
tests: enable openmp and hwloc with one of the mumps tests
Default BoomerAMG smoothers
Configure: Revert changes from debb90c, so that we are back to the original Libmesh
Configure: Reverted change for Libmesh from 83cd5d7
Split vecimpl.h into vecimpl.h and vecscatterimpl.h
SNES ex62: Turned off some tests for other precisions and shortened output of sensitive tests
Use mmap to allocate the shared pthread barrier if available
Add configure test for functional mmap
...

Conflicts:
include/petscconvest.h
src/snes/examples/tutorials/ex13.c
src/snes/interface/snes.c
src/snes/utils/convest.c

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