JDBetteridge/merge upstream #22

PCFIELDSPLIT: implement PCSetUpOnBlocks See merge request petsc/petsc!7796

Knepley/fix plex extrusion normal See merge request petsc/petsc!7793

configure: update SuiteSparse/SuperLU/CMake/zstd See merge request petsc/petsc!7802

Knepley/fix orientation input See merge request petsc/petsc!7625

PCFIELDSPLIT: follow-up of !7796 Closes #1641 See merge request petsc/petsc!7800

Thanks-to: Junchao Zhang <[email protected]>

do not create a name if not present set maxnz to nz for proper display of allocated nonzeros

Minor docs fixes See merge request petsc/petsc!7803

Fixes #1604 Thanks-to: https://gitlab.com/sagitter

add extra information for PCView minimize messages for simple repartitioning minimize matrix permutations with simple redistribution expose API to set graph symmetrization (this can be useful in nested solvers when the GAMG block is symmetric but the monolithic matrix is not) update examples output

configure: python-3.13 does no have xdrlib, _parse_makefile in sysconfig Closes #1604 See merge request petsc/petsc!7790

build: 'make check' should work before 'make install' for a prefix build See merge request petsc/petsc!7789

PCGAMG: some optimizations See merge request petsc/petsc!7798

@prudhomm

Closes #1638. Reported-by: Christophe Prud'homme @prudhomm

Back-port !7787 in release See merge request petsc/petsc!7808

TSMonitorSolutionVTK: add dumping interval See merge request petsc/petsc!7807

Docs: wrong formula in gmres.c See merge request petsc/petsc!7810

configure: robustify isCrayPEWrapper() See merge request petsc/petsc!7797

PCHPDDMGetComplexities: fix missing petsc4py binding See merge request petsc/petsc!7809

small optimzation for block repartitioning See merge request petsc/petsc!7804

…nt() PetscSF: use PetscSFRegisterPersistent()/PetscSFDeregisterPeristent() in examples

- Use addresses to identify dynamic windows only with `PetscSFRegisterPersistent()`, otherwise address recycling makes this unsound. - Compress empty processes out of window communication, because with NULL for both the rootdata and leafdata a process cannot correcty identify which in-process communications to use. Unlike for PETSCSFBASIC, this problem is potentially fatal because ending a communication can involve collective operations.

…abiity in CI sys/tests/ex30_1 produces flamegraph output, which is sorted by (inclusive time) It has two stages which should take 0.5 and 0.3 seconds, but in CI there is enough noise in the runtime that the order of the stages will reverse. This lengthens the first stage to 0.7 seconds, which will reduce the number of false positives that are created.

Add PetscSFRegisterPersistent() and fix PETSCSFWINDOW for empty ranks See merge request petsc/petsc!7786

Also remove some /******************* comments Also remove some multiline comments with /* and */ at the beginning and end of each line

…number of variables (results) stored in an exodusII file. Cache this information to avoid repeated calls to exodusII functions. And update to use exodusII-v2024-06-27 Co-authored-by: Sarah Ahmed [email protected]

ExodusII: cache variable names See merge request petsc/petsc!7705

Simplify VecDuplicateVecs See merge request petsc/petsc!7668

…MGetGlobal/LocalVector() while doing DMCompositeAddDM As those stashed vectors might have stale types because DMSetVecType() has not yet set on the composite DM.

DM: avoid the side effect of stashing vectors on component DMs with DMGetGlobal/LocalVector() while doing DMCompositeAddDM See merge request petsc/petsc!7821

Remove empty comments from the source, that is /* */ See merge request petsc/petsc!7815

Reported-by: Pierre Jolivet <[email protected]>

generatefortranstubs: do not create unneeded (or empty) "ftn-auto" dirs See merge request petsc/petsc!7822

- Add degree bounds to DMCopyFields(), DMCopyDS(), PetscDSCopy(), and PetscDSSelectDiscretizations() - Add PetscFELimitDegree()

- When filtering labels, skip points in depths that are not present in the new (filtered) DM.

…ntIS

Use a different SNES object for TSRHSSplit so that the origina SNES DM still matches the TS DM.

The old SNESTSFormFunction/Jacobian is too overloaded.

IMEX solver for fast slow systems See merge request petsc/petsc!7722

Fixes for submesh handling See merge request petsc/petsc!7823

…reateBoxMesh()

…ization.

plexcreate: add localizationHeight and sparseLocalize args to DMPlexCreateBoxMesh() See merge request petsc/petsc!7677

This is with Intel oneAPI compiler 2024.2.1.

Fix compiler warnings when using MKL_PARDISO with 64-bit integers See merge request petsc/petsc!7827

This doesn't not rely on any notion of what the original natural ordering came from, but just updates the "global" side of the sfNatural instead.

warning: higher precision floating-point type size has the same size than floating-point type size [-Whigher-precision-fp]

plex: Add DMPlexMigrateGlobalToNaturalSF See merge request petsc/petsc!7756

This allows users to control whether hypre data/solves are on device/host

Extend hypre's ILU interface to be more complete See merge request petsc/petsc!7458

configure: update to MFEM 4.7 See merge request petsc/petsc!7812

Reported-by: Jose E. Roman <[email protected]>

Fix compiler warning in Intel oneAPI 2024.2.1 See merge request petsc/petsc!7830

src/sys/classes/viewer/impls/socket/send.c:186:29: error: variable length arrays in C++ are a Clang extension [-Werror,-Wvla-cxx-extension] 186 | char myname[MAXHOSTNAME + 1]; | ^~~~~~~~~~~~~~~ src/sys/classes/viewer/impls/socket/send.c:186:29: note: read of non-const variable 'MAXHOSTNAME' is not allowed in a constant expression src/sys/classes/viewer/impls/socket/send.c:185:22: note: declared here 185 | static size_t MAXHOSTNAME = 100; | ^

Update Kokkos to 4.4.01 See merge request petsc/petsc!7818

so that a shell matrix can return its own (variable) point blocks in a matrix for use in PC (V)PBJacobi

generatefortranstubs: fix 'delete' of 'f90module*.f90' files See merge request petsc/petsc!7834

The output of the full vector is redundant and not used by petsc_gen_xdmf.py

…no-float-conversion', '-Wno-implicit-float-conversion'] Also fix the code to repository to compile cleanly with these flags in the CI

…nteger argument

Commit-type: i.e. error-checking, optimization, bug-fix, portability-fix, testing-fix, style-fix, feature, documentation, example Funded-by: Project: Time: hours Reported-by: Thanks-to: Development Tools: Vim, Emacs, Eclipse

…le with PetscCallMPI() Introduce MPIU_Count to be used when MPI_Count is not available

…'main' Compiler finds (and forbid) casts from higher precision integers to lower See merge request petsc/petsc!7806

fix(kokkos): Use MPIInt for PetscSF calls Closes #1648 See merge request petsc/petsc!7841

DMPlex fixes for HDF5_VIZ and XDMF output See merge request petsc/petsc!7835

Add PetscRandomSetOptionsPrefix() and update TSMonitorSolution() See merge request petsc/petsc!7837

Add SNES options for the new ARKIMEX solver See merge request petsc/petsc!7840

Update ts.c - a few man pages See merge request petsc/petsc!7223

PCFIELDSPLIT: fix initialization of function pointers See merge request petsc/petsc!7838

make check: update to run hip test Closes #1650 See merge request petsc/petsc!7847

FEM housekeeping See merge request petsc/petsc!7848

- Add -dm_plex_transform_active to set active label - Normal computation now happens in extrusion setup and can involve communication - Add PlexNormalAlg to describe computation of normal - Create a normal field that can be completed

Minor docs fix See merge request petsc/petsc!7851

See also: https://gitlab.com/slepc/slepc/-/merge_requests/692

Plex: Fix normal computation in parallel extrusion See merge request petsc/petsc!7852

Minor fixes See merge request petsc/petsc!7842

this triggers: Possible error running C/C++ src/snes/tutorials/ex19 with 1 MPI process See https://petsc.org/release/faq/ lid velocity = 0.0016, prandtl # = 1., grashof # = 1. Number of SNES iterations = 2 [WARNING] yaksa: 1 leaked handle pool objects with: ./configure --with-64-bit-indices --with-fortran-bindings=0 --download-mpich --with-cuda=1 Change added in 6a210b7

pinit.c: remove duplicate MPIU_2INT code See merge request petsc/petsc!7853

MFEM: add in Superlu_DIST and NetCDF as optional dependencies See merge request petsc/petsc!7836

PC: add new mat ops MATOP_GET_{BLOCK, VBLOCK}_DIAGONAL See merge request petsc/petsc!7811

…vided MPI callpacks.

Add the missing event VEC_PointwiseDivide See merge request petsc/petsc!7846

Introduce PetscCallReturnMPI() to check for PETSc errors in PETSc provided MPI callpacks See merge request petsc/petsc!7844

src/mat/impls/aij/seq/mkl_pardiso/mkl_pardiso.c:893:49: warning: implicit conversion loses integer precision: 'PetscInt' (aka 'long') to 'int' [-Werror,-Wshorten-64-to-32] 893 | if (icntl == 65) PetscSetMKL_PARDISOThreads(ival); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ ^~~~

Reported-by: Alexandre Halbach <[email protected]>

Fix another compiler warning in Intel oneAPI 2024.2.1 See merge request petsc/petsc!7855

Fix another integer conversion warning See merge request petsc/petsc!7854

When user created MPI derived data types with large count routines, e.g., MPI_Type_contiguous_c(4, MPI_DOUBLE, &newtype), and passed newtype to PetscSF, is it legal to decode the datatype with MPI_Type_get_envelope()? The MPI Forum debated but has yet to resolve this issue. Our approach is to decode the datatype with MPI_Type_get_envelope_c() if available; otherwise with MPI_Type_get_envelope(). But currently we don't really support real big count values, say a type created by MPI_Type_contiguous_c(2^33, MPI_DOUBLE, &newtype). We could support that, but just see no needs for now. We will error out if this kind of types are given to PetscSF.

…o 'main' PetscSF: Support MPI derived data types created with large count Closes #1625 See merge request petsc/petsc!7825

src/mat/graphops/color/impls/greedy/greedy.c:479:3: warning: empty expression statement has no effect; remove unnecessary ';' to silence this warning [-Wextra-semi-stmt] 479 | ; | ^ See also: https://gitlab.com/petsc/petsc/-/merge_requests/7833

src/sys/fileio/sysio.c:469:13: warning: comparison of unsigned expression in ‘< 0’ is always false [-Wtype-limits] 469 | if (err < 0 && errno == EINTR) continue; | ^

It makes no sense to visualize high-order stuff otherwise

Fix -Wextra-semi-stmt See merge request petsc/petsc!7858

Fix -Wtype-limits See merge request petsc/petsc!7859

Use NULL or nullptr instead of casted 0 See merge request petsc/petsc!7857

…exec options to enable build of binaries

configure: add -download-triangle-build-exec, -download-tetgen-build-exec options to enable build of binaries See merge request petsc/petsc!7839

added DAMASK See merge request petsc/petsc!7861

fix(dm): Complete only unique BC labels See merge request petsc/petsc!7863

Fix plex hdf5 See merge request petsc/petsc!7860

- Parallel Plex building with `-dm_plex_cgns_parallel` - Parallel solution reading via `VecLoad()` - Added `PetscViewerCGNSOpen()` - Added `PetscViewerCGNSGetSolution{Time,Name}()`, `PetscViewerCGNSSetSolutionIndex()`

- skipping NULL callbacks - add dimension dependent kernels for g1, g2 and g3 - rework loops Sparse indices work left commented for possible future implementations

check for the presence of localrep, not nghost > 0

Update inherit.c See merge request petsc/petsc!7865

src/sys/objects/pinit.c:265:25: error: use of undeclared identifier 'MPIU___FLOAT128'; did you mean 'PETSC___FLOAT128'? 265 | else if (*datatype == MPIU___FLOAT128) { | ^~~~~~~~~~~~~~~ | PETSC___FLOAT128 include/petscsystypes.h:677:3: note: 'PETSC___FLOAT128' declared here 677 | PETSC___FLOAT128 = 10, | ^ src/sys/objects/pinit.c:269:27: error: use of undeclared identifier 'MPIU___COMPLEX128' 269 | } else if (*datatype == MPIU___COMPLEX128) { | ^ src/sys/objects/pinit.c:911:52: error: use of undeclared identifier 'MPIU___FLOAT128' 911 | PetscCallMPI(MPI_Type_contiguous(2, MPI_DOUBLE, &MPIU___FLOAT128)); | ^ src/sys/objects/pinit.c:912:33: error: use of undeclared identifier 'MPIU___FLOAT128' 912 | PetscCallMPI(MPI_Type_commit(&MPIU___FLOAT128)); | ^ src/sys/objects/pinit.c:914:52: error: use of undeclared identifier 'MPIU___COMPLEX128' 914 | PetscCallMPI(MPI_Type_contiguous(4, MPI_DOUBLE, &MPIU___COMPLEX128)); | ^ src/sys/objects/pinit.c:915:33: error: use of undeclared identifier 'MPIU___COMPLEX128' 915 | PetscCallMPI(MPI_Type_commit(&MPIU___COMPLEX128)); | ^ src/sys/objects/pinit.c:1339:31: error: use of undeclared identifier 'MPIU___FLOAT128' 1339 | PetscCallMPI(MPI_Type_free(&MPIU___FLOAT128)); | ^ src/sys/objects/pinit.c:1341:31: error: use of undeclared identifier 'MPIU___COMPLEX128' 1341 | PetscCallMPI(MPI_Type_free(&MPIU___COMPLEX128)); | ^ 8 errors generated. gmake[3]: *** [gmakefile:197: arch-debug/obj/src/sys/objects/pinit.o] Error 1

Fix some code issues exposed by make clang-tidy See merge request petsc/petsc!7845

Hierarchical LU factorization See merge request petsc/petsc!7817

Speedup computations of Jacobian for DMPLEX FEM See merge request petsc/petsc!7832

VecDuplicateVecs_MPI_GEMV: fix bug with ghosted vectors See merge request petsc/petsc!7866

…ck multi-level preconditioners The old link to http://chess.cs.umd.edu/~elman/papers/tax.pdf no longer works, so I have replaced it with a link to the technical report version archived at osti.gov.

Fix compilation with -DPETSC_SKIP_REAL___[FP16|FLOAT128] See merge request petsc/petsc!7868

Fix -Wshorten-64-to-32 See merge request petsc/petsc!7869

CGNS: Add parallel Plex building, VecLoad, and more See merge request petsc/petsc!7826

Fixing bug in generalized-alpha initialization See merge request petsc/petsc!7816

Allow the HAVE_MPI_LARGE_COUNT value to actually be set See merge request petsc/petsc!7867

Fix broken link to free version of Elman et al. 2008 reference on block multi-level preconditioners See merge request petsc/petsc!7871

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-I/scratch/svcpetsc/spack/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.4.0/mpich-4.2.2-hfuxxjfeqhy4uijbo2quhuiqsnwt27d4/include /scratch/svcpetsc/spack/spack-stage/spack-stage-petsc-3.22.0-kksfnsor2jxakiov7fk3genw56itsg7c/spack-src/src/ksp/pc/impls/bjacobi/bjkokkos/bjkokkos.kokkos.cxx -o arch-linux-c-opt/obj/src/ksp/pc/impls/bjacobi/bjkokkos/bjkokkos.o In file included from /scratch/svcpetsc/spack/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.4.0/cuda-12.6.0-rua76oeqklhyvuyunan4sg7gdru5pwoc/include/cub/detail/nvtx3.hpp:635, from /scratch/svcpetsc/spack/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.4.0/cuda-12.6.0-rua76oeqklhyvuyunan4sg7gdru5pwoc/include/cub/detail/nvtx.cuh:49, from /scratch/svcpetsc/spack/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.4.0/cuda-12.6.0-rua76oeqklhyvuyunan4sg7gdru5pwoc/include/cub/device/device_for.cuh:40, from /scratch/svcpetsc/spack/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.4.0/cuda-12.6.0-rua76oeqklhyvuyunan4sg7gdru5pwoc/include/thrust/system/cuda/detail/for_each.h:42, from /scratch/svcpetsc/spack/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.4.0/cuda-12.6.0-rua76oeqklhyvuyunan4sg7gdru5pwoc/include/thrust/system/detail/adl/for_each.h:50, from /scratch/svcpetsc/spack/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.4.0/cuda-12.6.0-rua76oeqklhyvuyunan4sg7gdru5pwoc/include/thrust/detail/for_each.inl:30, from /scratch/svcpetsc/spack/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.4.0/cuda-12.6.0-rua76oeqklhyvuyunan4sg7gdru5pwoc/include/thrust/for_each.h:266, from /scratch/svcpetsc/spack/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.4.0/cuda-12.6.0-rua76oeqklhyvuyunan4sg7gdru5pwoc/include/thrust/system/detail/generic/copy.inl:29, from /scratch/svcpetsc/spack/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.4.0/cuda-12.6.0-rua76oeqklhyvuyunan4sg7gdru5pwoc/include/thrust/system/detail/generic/copy.h:51, from /scratch/svcpetsc/spack/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.4.0/cuda-12.6.0-rua76oeqklhyvuyunan4sg7gdru5pwoc/include/thrust/detail/copy.inl:30, from /scratch/svcpetsc/spack/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.4.0/cuda-12.6.0-rua76oeqklhyvuyunan4sg7gdru5pwoc/include/thrust/detail/copy.h:72, from /scratch/svcpetsc/spack/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.4.0/cuda-12.6.0-rua76oeqklhyvuyunan4sg7gdru5pwoc/include/thrust/detail/allocator/copy_construct_range.inl:30, from /scratch/svcpetsc/spack/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.4.0/cuda-12.6.0-rua76oeqklhyvuyunan4sg7gdru5pwoc/include/thrust/detail/allocator/copy_construct_range.h:45, from /scratch/svcpetsc/spack/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.4.0/cuda-12.6.0-rua76oeqklhyvuyunan4sg7gdru5pwoc/include/thrust/detail/contiguous_storage.inl:29, from /scratch/svcpetsc/spack/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.4.0/cuda-12.6.0-rua76oeqklhyvuyunan4sg7gdru5pwoc/include/thrust/detail/contiguous_storage.h:190, from /scratch/svcpetsc/spack/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.4.0/cuda-12.6.0-rua76oeqklhyvuyunan4sg7gdru5pwoc/include/thrust/detail/temporary_array.h:47, from /scratch/svcpetsc/spack/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.4.0/cuda-12.6.0-rua76oeqklhyvuyunan4sg7gdru5pwoc/include/thrust/system/cuda/detail/internal/copy_cross_system.h:47, from /scratch/svcpetsc/spack/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.4.0/cuda-12.6.0-rua76oeqklhyvuyunan4sg7gdru5pwoc/include/thrust/system/cuda/detail/copy.h:79, from /scratch/svcpetsc/spack/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.4.0/cuda-12.6.0-rua76oeqklhyvuyunan4sg7gdru5pwoc/include/thrust/system/cuda/detail/assign_value.h:33, from /scratch/svcpetsc/spack/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.4.0/cuda-12.6.0-rua76oeqklhyvuyunan4sg7gdru5pwoc/include/thrust/system/detail/adl/assign_value.h:50, from /scratch/svcpetsc/spack/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.4.0/cuda-12.6.0-rua76oeqklhyvuyunan4sg7gdru5pwoc/include/thrust/detail/reference.h:35, from /scratch/svcpetsc/spack/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.4.0/cuda-12.6.0-rua76oeqklhyvuyunan4sg7gdru5pwoc/include/thrust/memory.h:35, from /scratch/svcpetsc/spack/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.4.0/cuda-12.6.0-rua76oeqklhyvuyunan4sg7gdru5pwoc/include/thrust/device_ptr.h:33, from /scratch/svcpetsc/spack/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.4.0/kokkos-4.4.01-ddgtpzxciyepnml2tj7sbodahj23im6k/include/sorting/./impl/Kokkos_SortImpl.hpp:58, from /scratch/svcpetsc/spack/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.4.0/kokkos-4.4.01-ddgtpzxciyepnml2tj7sbodahj23im6k/include/sorting/Kokkos_SortPublicAPI.hpp:20, from /scratch/svcpetsc/spack/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.4.0/kokkos-4.4.01-ddgtpzxciyepnml2tj7sbodahj23im6k/include/Kokkos_Sort.hpp:25, from /scratch/svcpetsc/spack/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.4.0/kokkos-kernels-4.4.01-4n5w673zfl5m5rulhpwxe2qfoa7ttale/include/KokkosSparse_sort_crs_impl.hpp:20, from /scratch/svcpetsc/spack/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.4.0/kokkos-kernels-4.4.01-4n5w673zfl5m5rulhpwxe2qfoa7ttale/include/KokkosSparse_SortCrs.hpp:19, from /scratch/svcpetsc/spack/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.4.0/kokkos-kernels-4.4.01-4n5w673zfl5m5rulhpwxe2qfoa7ttale/include/KokkosSparse_spiluk_symbolic_impl.hpp:26, from /scratch/svcpetsc/spack/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.4.0/kokkos-kernels-4.4.01-4n5w673zfl5m5rulhpwxe2qfoa7ttale/include/KokkosSparse_spiluk_symbolic_spec.hpp:27, from /scratch/svcpetsc/spack/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.4.0/kokkos-kernels-4.4.01-4n5w673zfl5m5rulhpwxe2qfoa7ttale/include/KokkosSparse_spiluk.hpp:32, from /scratch/svcpetsc/spack/spack-stage/spack-stage-petsc-3.22.0-kksfnsor2jxakiov7fk3genw56itsg7c/spack-src/include/../src/mat/impls/aij/seq/kokkos/aijkok.hpp:6, from /scratch/svcpetsc/spack/spack-stage/spack-stage-petsc-3.22.0-kksfnsor2jxakiov7fk3genw56itsg7c/spack-src/src/ksp/pc/impls/bjacobi/bjkokkos/bjkokkos.kokkos.cxx:6: /scratch/svcpetsc/spack/opt/spack/linux-ubuntu22.04-x86_64/gcc-11.4.0/cuda-12.6.0-rua76oeqklhyvuyunan4sg7gdru5pwoc/include/nvtx3/nvToolsExt.h:179:2: error: #error "Trying to #include NVTX version 3 in a source file where an older NVTX version has already been included. If you are not directly using NVTX (the NVIDIA Tools Extension library), you are getting this error because libraries you are using have included different versions of NVTX. Suggested solutions are: (1) reorder #includes so the newest NVTX version is included first, (2) avoid using the conflicting libraries in the same .c/.cpp file, or (3) update the library using the older NVTX version to use the newer version instead." 179 | #error "Trying to #include NVTX version 3 in a source file where an older NVTX version has already been included. If you are not directly using NVTX (the NVIDIA Tools Extension library), you are getting this error because libraries you are using have included different versions of NVTX. Suggested solutions are: (1) reorder #includes so the newest NVTX version is included first, (2) avoid using the conflicting libraries in the same .c/.cpp file, or (3) update the library using the older NVTX version to use the newer version instead." | ^~~~~ make[3]: *** [gmakefile:200: arch-linux-c-opt/obj/src/ksp/pc/impls/bjacobi/bjkokkos/bjkokkos.o] Error 1 Co-authored-by: Junchao Zhang <[email protected]>

…s/plex/tests/ex26 with 64bit build

exodusii: add PetscExodusIIInt, PetscExodusIIFloat, fixes src/dm/impls/plex/tests/ex26 with 64bit build See merge request petsc/petsc!7824

clang-format-19 See merge request petsc/petsc!7644

src/dm/dt/fe/interface/fe.c:2610:53: warning: empty expression statement has no effect; remove unnecessary ';' to silence this warning [-Wextra-semi-stmt] 2610 | petsc_elemmat_kernel_g1(NbI, NcI, NbJ, NcJ, 2); | ^ src/dm/dt/fe/interface/fe.c:2612:53: warning: empty expression statement has no effect; remove unnecessary ';' to silence this warning [-Wextra-semi-stmt] 2612 | petsc_elemmat_kernel_g1(NbI, NcI, NbJ, NcJ, 3); | ^ src/dm/dt/fe/interface/fe.c:2614:54: warning: empty expression statement has no effect; remove unnecessary ';' to silence this warning [-Wextra-semi-stmt] 2614 | petsc_elemmat_kernel_g1(NbI, NcI, NbJ, NcJ, dE); | ^ src/dm/dt/fe/interface/fe.c:2640:53: warning: empty expression statement has no effect; remove unnecessary ';' to silence this warning [-Wextra-semi-stmt] 2640 | petsc_elemmat_kernel_g2(NbI, NcI, NbJ, NcJ, 2); | ^ src/dm/dt/fe/interface/fe.c:2642:53: warning: empty expression statement has no effect; remove unnecessary ';' to silence this warning [-Wextra-semi-stmt] 2642 | petsc_elemmat_kernel_g2(NbI, NcI, NbJ, NcJ, 3); | ^ src/dm/dt/fe/interface/fe.c:2644:54: warning: empty expression statement has no effect; remove unnecessary ';' to silence this warning [-Wextra-semi-stmt] 2644 | petsc_elemmat_kernel_g2(NbI, NcI, NbJ, NcJ, dE); | ^ src/dm/dt/fe/interface/fe.c:2670:53: warning: empty expression statement has no effect; remove unnecessary ';' to silence this warning [-Wextra-semi-stmt] 2670 | petsc_elemmat_kernel_g3(NbI, NcI, NbJ, NcJ, 2); | ^ src/dm/dt/fe/interface/fe.c:2672:53: warning: empty expression statement has no effect; remove unnecessary ';' to silence this warning [-Wextra-semi-stmt] 2672 | petsc_elemmat_kernel_g3(NbI, NcI, NbJ, NcJ, 3); | ^ src/dm/dt/fe/interface/fe.c:2674:54: warning: empty expression statement has no effect; remove unnecessary ';' to silence this warning [-Wextra-semi-stmt] 2674 | petsc_elemmat_kernel_g3(NbI, NcI, NbJ, NcJ, dE); | | ^

In file included from src/petsc4py/PETSc.c:1224: In file included from src/lib-petsc/compat.h:16: src/lib-petsc/compat/plexexodusii.h:11:16: error: conflicting types for 'DMPlexCreateExodus' 11 | PetscErrorCode DMPlexCreateExodus(PETSC_UNUSED MPI_Comm comm, PETSC_UNUSED PetscInt n , PETSC_UNUSED PetscBool flg, PETSC_UNUSED DM *dm){PetscPlexExodusIIError;} | ^ include/petscdmplex.h:204:29: note: previous declaration is here 204 | PETSC_EXTERN PetscErrorCode DMPlexCreateExodus(MPI_Comm, PetscExodusIIInt, PetscBool, DM *); | ^

NVTX: fix build error with kokkos [and cuda 12.6.0] via spack See merge request petsc/petsc!7828

Mat: enable tests-ex108 See merge request petsc/petsc!7864

Fix regression from !7824 See merge request petsc/petsc!7876

Housekeeping before 3.22.0 See merge request petsc/petsc!7873

DMPLEXCGNS: fix maybe uninitialized warning See merge request petsc/petsc!7874

Have PetscSleep() return immediately for tests under the CI for faster tests

…x misuse

Newer MacOS versions with Xcode-15+ (esp. MUMPS/FreeFEM) require: --download-mpich --download-mpich-device=ch4:ofi LDFLAGS="-Wl,-ld_classic -Wl,-commons,use_dylibs" Thanks-to: Pierre Jolivet <[email protected]>

MPICH: update to version 4.3.2rc1 See merge request petsc/petsc!7878

MAT: fix MatIsSymmetric and MatIsHermitian See merge request petsc/petsc!7875

configure: fewer warnings See merge request petsc/petsc!7879

CI: update valgrind job to not rely on PATH for compatible MPICH See merge request petsc/petsc!7880

Have gmakegentest.py not generated unneeded scripts for faster runs See merge request petsc/petsc!7843

…llSectionParallel()

Fix HIPC compile warning in single precision See merge request petsc/petsc!7887

Minor fixes in manpages See merge request petsc/petsc!7886

…empt this at the same time rm: cannot remove '/home/svcpetsc/petsc-hash-pkgs/8ec328/include/suitesparse/SuiteSparse_config.h': Stale file handle

…into 'main' Add -mpiuni-allow-multiprocess-launch with MPIUni for special use case. See merge request petsc/petsc!7856

Add PetscOptionsGetBool3() See merge request petsc/petsc!7888

CI: update linux-pgi to use nvhpc/24.7 See merge request petsc/petsc!7890

…erlapping computation tests.

- Clarified storage versions

… I/O - Add DMPlexGetDepthStratumGlobalSize() - Add name and compression info to HDF5ReadCtx - Add compression argument to PetscViewerHDF5ReadSizes_Private() and PetscViewerHDF5Load_Internal() - Gather compressed info to all procs when loading - Set name for local coordinates - Add logging - Add -is_view_compress to turn off compression - Add -dm_plex_view_coordinate_section to just output coordinates - Add -dm_plex_view_labels to turn off label output - Support loading coordinates without section

CUVEC: fix copy from device to default to copy to device See merge request petsc/petsc!7889

…nto 'main' Add results for the mixed element types test for partitionning and ovelap... See merge request petsc/petsc!7877

IS+HDF5: Add run-length compression to IS I/O See merge request petsc/petsc!7862

Plex+HDF5: Now VIZ output is default in version 1.1.0 See merge request petsc/petsc!7885

sys: Add parens around PetscMalloc/PetscCalloc parameters Closes #1654 See merge request petsc/petsc!7891

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JDBetteridge/merge upstream #22

JDBetteridge/merge upstream #22

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