Merge pull request #14803 from masterleinad/bundled_includes_system

Include bundled include directories as CMake SYSTEM paths

Remove one more comment

Merge pull request #14811 from masterleinad/fix_tpetra

Fix Tpetra detection and unit tests

Don't use DEAL_II_DISABLE_EXTRA_DIAGNOSTICS for dependencies

Include bundled include directories as CMake SYSTEM paths

Introduce signed_global_dof_index

Fix Tpetra detection and unit tests

Merge pull request #14810 from masterleinad/fix_mesh_loop_dg_pbc

Fix using mesh_loop with DG and periodic boundary conditions

Merge pull request #14805 from tjhei/manifold-warn

Merge pull request #14801 from bangerth/6

Fix description of assemble_system() in step-40.

The discussion there references what step-6 used to do, but not what it does
today. While there, also update the text a bit for clarity.

Merge pull request #14781 from marcfehling/hpsoltrans

Added test for SolutionTransfer with hp-refinement and manually set flags.

Merge pull request #14808 from tjhei/jenkins_more_time

Merge pull request #14802 from sebproell/field-transfer-coarsening

CI: Jenkins increase timeout

With all MPI tests we are now often close to the 2 hour mark (depends on
test ordering). Increase the timeout to avoid problems like in #14803.

fix unused variable warning

It turns out that ``iteration`` is never read from in release mode
because Assert() only triggers in debug mode.

I am not sure what behavior we would like to have in release mode here,
but this proposed change will get rid of the warning.

FieldTransfer: enable coarsening

Merge pull request #14800 from bangerth/grammar

Fix a grammar mistake.

Merge pull request #14797 from tjhei/signed_char

Fix a grammar mistake.

While there, also use mark-up that's a bit easier to read.

Merge pull request #14796 from tjhei/remove_comment

remove useless comment

fix wrong sign of char in MF

On ARM char defaults to unsigned char, which will break the matrix free
face loop. Fix this by being explicit.

Fixes:
/home/ubuntu/dealii-9.4.2/include/deal.II/matrix_free/face_setup_internal.h:522:35:
warning: comparison is always false due to limited range of data type
[-Wtype-limits]

remove useless comment

Merge pull request #14771 from masterleinad/use_try_compile_check_compiler_setup

Use try_compile in macro_check_compiler_setup.cmake

Merge pull request #14790 from tjhei/doc_grid_gen_simplex

doc: fix GridGenerator::convert_hypercube_to_simplex_mesh

Merge pull request #14792 from tjhei/doc_simplex2

doc: move simplex function from module

Merge pull request #14793 from tjhei/doc_fe_dgrt

doc: replace FE_DGRT with correct name

Use try_compile in macro_check_compiler_setup.cmake

Merge pull request #14770 from bangerth/undepr

Replace a ReferenceCell function call by a non-deprecated one.

doc: replace FE_DGRT with correct name

doc: move simplex function from module

The function should be in GridGenerator...

doc: fix GridGenerator::convert_hypercube_to_simplex_mesh

Merge pull request #14780 from drwells/simplex-volume

Merge pull request #14789 from tjhei/mf_doc_mapping_update_flags

document MatrixFree mapping_update_flags

Merge pull request #14788 from marcfehling/coarsen-bug

Fix hp decision on coarse level cells.

document MatrixFree mapping_update_flags

Merge pull request #14786 from masterleinad/fix_check_for_always_inline

Fix DEAL_II_COMPILER_HAS_ATTRIBUTE_ALWAYS_INLINE with -Werror

Merge pull request #14716 from luca-heltai/stefanozampini/tests

Minor fixes for PETSc testing

Fix hp decision bug on coarse level cells.

Merge pull request #14775 from bangerth/comment-2

Merge pull request #14787 from dealii/tjhei-patch-1

update CI badges in README

Merge pull request #14782 from bangerth/step-2

Minor clarification in step-2.

Merge pull request #14785 from masterleinad/cmake_version_update

Remove checks for CMake versions prior to 3.13.4

update CI badges in README

Standardize 2D/3D -> 2d/3d in documentation comments.

Merge pull request #14776 from bangerth/comment-3

Merge pull request #14777 from bangerth/comment-4

Try -diag-disable=16219

Make GridTools::volume() work with simplices.

Merge pull request #14774 from bangerth/comment

Standardize 2D/3D -> 2d/3d in comments.

Fix DEAL_II_COMPILER_HAS_ATTRIBUTE_ALWAYS_INLINE with -Werror

Remove checks for CMake versions prior to 3.13.4

Added test for SolutionTransfer with hp-refinement and manually set flags.

Merge pull request #14754 from bangerth/DerivativeForm

Fixes https://github.com/dealii/dealii/issues/14748

Adjust a test output.

Merge pull request #14779 from singima/more_kinsol_edits

Merge pull request #14773 from masterleinad/fix_clang_15_cuda_warnings

Fix warnings with Clang-15+Cuda

Minor clarification.

Merge pull request #14769 from bangerth/fixed-power

Fix an assertion.

doc edits for KINSol

Use Utilities::fixed_power in one place.

Co-authored-by: Wolfgang Bangerth <bangerth@colostate.edu>

Merge pull request #14778 from bangerth/types

Fix a comment for types::boundary_id.

Merge pull request #14766 from mschreter/find_all_active_cells_around_point_2

Extend test `find_all_active_cells_around_point_04`

Fix a comment for types::boundary_id.

Standardize 2D/3D -> 2d/3d in a few strings.

Standardize 2D/3D -> 2d/3d in the tutorials.

Standardize 2D/3D -> 2d/3d in comments.

Fix warnings with Clang-15+Cuda

Merge pull request #14759 from Darth-Veidim/darth-branch

changed std::pow to Utilities::pow in include/ source/

Merge pull request #14736 from luca-heltai/stefanozampini/petscsf

Add support for partitioning with PetscSF

Merge pull request #14760 from tjhei/diag-ignore-cast-function-type

ignore external cast-function-type warnings

Merge pull request #14761 from drwells/fe-dgp-regularity

Fix the support points for FE_SimplexDGP.

Replace a function call by a non-deprecated one.

Merge pull request #14762 from drwells/qprojector-orientation

QProjector: minor orientation fixes.

Fix an assertion.

changed std::pow to Utilities::fixed_power in include/ source/

Merge pull request #14767 from bangerth/cleanups

Minor cleanups in PETSc interfaces.

Merge pull request #14765 from pengfej/fixing_random_number_generator

Minor cleanups in PETSc interfaces.

Specifically, silence a warning about an unused variable. While there,
mark a couple more variables as 'const'.

Add test.

extend find_all_active_cells_around_point_04.cc

Update source/base/mu_parser_internal.cc

Co-authored-by: Timo Heister <timo.heister@gmail.com>

indent

Adding tests and fixing comments

Fixing random number generator function parser

Merge pull request #14728 from peterrum/find_all_active_cells_around_point

Fix find_all_active_cells_around_point()

Co-authored-by: Magdalena Schreter <schreter.magdalena@gmail.com>

Merge pull request #14763 from Rombur/static_tests

Don't use static variables in tests

Don't use static variables in tests

QProjector: minor orientation fixes.

Fix the support points for FE_SimplexDGP.

ignore external cast-function-type warnings

When building on Ubuntu 22.04 (gcc 11.3) with OpenMPI I am getting the
following warnings:
```
[ 58%] Building CXX object
source/base/CMakeFiles/obj_base_release.dir/symbolic_function.cc.o
In file included from
/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/ompi/mpi/cxx/mpicxx.h:277,
from
/usr/lib/x86_64-linux-gnu/openmpi/include/mpi.h:2887,
from
/home/runner/dealii-candi/tmp/build/deal.II-master/include/deal.II/base/config.h:576,
from
/home/runner/dealii-candi/tmp/unpack/deal.II-master/include/deal.II/base/symbolic_function.templates.h:19,
from
/home/runner/dealii-candi/tmp/unpack/deal.II-master/source/base/symbolic_function.cc:16:
/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/ompi/mpi/cxx/op_inln.h:
In member function ‘virtual void MPI::Op::Init(void (*)(const void*,
void*, int, const MPI::Datatype&), bool)’:
/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/ompi/mpi/cxx/op_inln.h:121:25:
warning: cast between incompatible function types from ‘void (*)(void*,
void*, int*, ompi_datatype_t**, void (*)(void*, void*, int*,
ompi_datatype_t**))’ to ‘void (*)(void*, void*, int*,
ompi_datatype_t**)’ [-Wcast-function-type]
  121 |     (void)MPI_Op_create((MPI_User_function*)
```
The code in question doesn't look correct, but we are not using the c++
wrappers anyways.

Merge pull request #14756 from dealii/dependabot/github_actions/docker/build-push-action-4

Bump docker/build-push-action from 3 to 4

Bump docker/build-push-action from 3 to 4

Bumps [docker/build-push-action](https://github.com/docker/build-push-action) from 3 to 4.
- [Release notes](https://github.com/docker/build-push-action/releases)
- [Commits](https://github.com/docker/build-push-action/compare/v3...v4)

---
updated-dependencies:
- dependency-name: docker/build-push-action
  dependency-type: direct:production
  update-type: version-update:semver-major
...

Signed-off-by: dependabot[bot] <support@github.com>

Merge pull request #14755 from Rombur/kokko_mpi

Add Kokkos::initialize and finalize to MPI_InitFinalize

Add Kokkos::initalize and finalize to MPI_InitFinalize

Remove Kokkos::initialize and finalize

Merge pull request #14753 from masterleinad/kokkos_clean_up

Avoid __CUDA_ARCH__ in source code

Wrap Kokkos::abort