Merge branch 'jolivet/more-petscdefined' into 'main'

Minor housekeeping

See merge request petsc/petsc!9058

Switch some defined(PETSC_ to PetscDefined(

Merge branch 'barry/2025-10-18/optimize-aij-ops' into 'main'

Refactor handling of diagonal marking in *AIJ and SELL matrices

See merge request petsc/petsc!8797

- Replace MatMissingDiagonal() and MatMarkDiagonals_SeqXXX() with MatGetDiagonalMarkers_SeqXXX()

- Mat_SeqXXX->diag is not automatically created during MatAssemblyEnd() saving memory and time

- Replace MatMissingDiagonal() and MatMarkDiagonals_SeqXXX() with MatGetDiagonalMarkers_SeqXXX()

- Mat_SeqXXX->diag is not automatically created during MatAssemblyEnd() saving memory and time

- Accessing Mat_SeqXXX->diag now requires the use of MatGetDiagonalMarkers_SeqXXX() except when the current values are known to be correct; for example during numerical factorizations and solves

- Mat_SeqXXX->diag is now never shared among matrices; hence the free_diag flag is gone. That was always a risky proposition since any of the owning matrices could chang the values thus making them incorrect for other owners.

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Merge remote-tracking branch 'origin/release'

Merge branch 'jolivet/fix-arrays' into 'release'

Fix error in MatTransposeMatMultSymbolic() in case of empty rows

See merge request petsc/petsc!8773

Avoid extra allocation

Merge remote-tracking branch 'origin/release'

Merge branch 'jczhang/2025-04-18/fix-matmult-aij-openmp-inode' into 'release'

OpenMP: add OpenMP to MatMult_SeqAIJ with inode

See merge request petsc/petsc!8331

Mat: rename inode.size and change it to csr format to facilitate parallel computing

Merge branch 'release'

Merge branch 'jczhang/2025-02-26/fix-aijfact-aijgetarray' into 'release'

Use MatSeqAIJGetArrayRead/Write to access the value array of Mat_SeqAIJ

See merge request petsc/petsc!8169

Mat: use MatSeqAIJGetArrayRead/Write to access the value array of Mat_SeqAIJ

If the matrix's latest value is on device, the old "a->a[i]" style would get wrong data.
MatSeqAIJGetArray() ensures the

Mat: use MatSeqAIJGetArrayRead/Write to access the value array of Mat_SeqAIJ

If the matrix's latest value is on device, the old "a->a[i]" style would get wrong data.
MatSeqAIJGetArray() ensures the host has up to date values

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Merge branch 'jolivet/clang-format-19' into 'main'

clang-format-19

See merge request petsc/petsc!7644

Remove unneeded parentheses

Merge branch 'barry/2024-09-02/rebased-fix-conversion-warnings' into 'main'

Compiler finds (and forbid) casts from higher precision integers to lower

See merge request petsc/petsc!7806

Fixes for clang-tidy

Merge branch 'barry/2023-09-15/fix-log-pcmpi' into 'main'

add optimized shared memory PCMPI and add users manual section on comparing STREAMS performance to PETSc application performance

See merge

Merge branch 'barry/2023-09-15/fix-log-pcmpi' into 'main'

add optimized shared memory PCMPI and add users manual section on comparing STREAMS performance to PETSc application performance

See merge request petsc/petsc!6903

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Add shared memory support for PCMPI using both shmget() and MPI_Win_allocate_shared()

Merge branch 'jolivet/add-matmatsolvetranspose_seqaij' into 'main'

MatMatSolveTranspose_SeqAIJ and minor housekeeping

See merge request petsc/petsc!7386

Add MatMatSolveTranspose_SeqAIJ

Merge branch 'jolivet/clang-format-18' into 'main'

clang-format version 18

See merge request petsc/petsc!6902

Remove some unneeded parentheses

Remove carriage return in Petsc(Assert|Check)()

git grep -l -E "Petsc(Assert|Check)\(.*\\\n\"[,)]" | xargs sed -r -i'' 's#Petsc(Assert|Check)\((.*)\\n"([,)])#Petsc\1\(\2\"\3#g'

Suggested-by: Stefan

Remove carriage return in Petsc(Assert|Check)()

git grep -l -E "Petsc(Assert|Check)\(.*\\\n\"[,)]" | xargs sed -r -i'' 's#Petsc(Assert|Check)\((.*)\\n"([,)])#Petsc\1\(\2\"\3#g'

Suggested-by: Stefano Zampini

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Remove multiple parentheses and extra semicolon

git grep -l -E "\(\([a-zA-Z0-9_]+\)\(\*[a-zA-Z0-9_]+\)[, )]" | xargs sed -r -i'' 's#\(\(([a-zA-Z0-9_]+)\)\(\*([a-zA-Z0-9_]+)\)([, )])#\(\(\1\)\*\2\3#g

Remove multiple parentheses and extra semicolon

git grep -l -E "\(\([a-zA-Z0-9_]+\)\(\*[a-zA-Z0-9_]+\)[, )]" | xargs sed -r -i'' 's#\(\(([a-zA-Z0-9_]+)\)\(\*([a-zA-Z0-9_]+)\)([, )])#\(\(\1\)\*\2\3#g'
git grep -l -E "Petsc(.)*\(\(\*[a-zA-Z0-9_]*\)," | xargs sed -r -i'' 's#Petsc([a-zA-Z0-9_]*)\(\(\*([a-zA-Z0-9_]*)\), #Petsc\1(*\2, #g'
git grep -l -E "([\!\&\~\*\(]|\)\)|\([^,\*\(]+\**\))\(([a-zA-Z0-9_]+((\.|->)[a-zA-Z0-9_]+|\[[a-zA-Z0-9_ \%\+\*\-]+\])+)\)" | xargs sed -r -i'' 's#([\!\&\~\*\(]|\)\)|\([^,\*\(]+\**\))\(([a-zA-Z0-9_]+((\.|->)[a-zA-Z0-9_]+|\[[a-zA-Z0-9_ \%\+\*\-]+\])+)\)#\1\2#g'

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