Clean up aoptions.c and options.c

Merge remote-tracking branch 'origin/release'

Docs: Add DOI for PETSc users manual

feat: Add PetscInt32 datatype

Co-Authored-By: Jed Brown <jed@jedbrown.org>

Fix PetscOptionsGetBool() so it sets ivalue to PETSC_FALSE if the option is not given

Merge remote-tracking branch 'origin/release'

Warn about unused options even in optimized builds

PETSc has warned since the dawn of time in debug mode about misspellings
like below, but this warning is suppressed in optimized mode and the
user

Warn about unused options even in optimized builds

PETSc has warned since the dawn of time in debug mode about misspellings
like below, but this warning is suppressed in optimized mode and the
user must use -options_left to activate it (which also prints all the
options). This commit causes the below to be printed whether or not
we're in optimized mode.

WARNING! There are options you set that were not used!
WARNING! could be spelling mistake, etc!
There is one unused database option. It is:
Option left: name:-ksp_type_gmres (no value) source: command line

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Very minor fix of docs in aoptions.c

Kokkos: fix a bug that we did not init PetscKokkosExecutionSpacePtr when kokkos is init'ed by users

Reported-by: "Fackler, Philip" <facklerpw@ornl.gov>

Fix gcc-13 warnings found by Pierre

Based-on-patch-by: Pierre Jolivet <pierre@joliv.et>

Fix imbalanced parenthesis

Merge branch 'barry/2023-05-26/allow-mpiaij-32bit-large-nz' into 'main'

Allow viewing and loading MATMPIAIJ matrices with a total number of nonzeros greater than PETSC_INT_MAX

See merge request pet

Merge branch 'barry/2023-05-26/allow-mpiaij-32bit-large-nz' into 'main'

Allow viewing and loading MATMPIAIJ matrices with a total number of nonzeros greater than PETSC_INT_MAX

See merge request petsc/petsc!6514

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Remove ifdef __cplusplus for cupmthrustutility.hpp

Wrap thrust timers in PetscFunctionBegin/End() so the stack trace is shown, include proper headers for THRUST_VERSION, and define PETSC_THRUST_HAS_ASYNC if we detect it

Disable high-traffic DCONTEXT_Mark event by default

remove ifdef __cplusplus from C++-only headers

If PetscMallocValidate() detects an error it must turn off validating before calling the error handlers

Also cleanup manual pages and comments in the PETSc malloc handling source files

Also change

If PetscMallocValidate() detects an error it must turn off validating before calling the error handlers

Also cleanup manual pages and comments in the PETSc malloc handling source files

Also change

[ 0] 16 bytes PetscFunctionListDLAllPush_Private() at /Users/barrysmith/Src/petsc/src/sys/dll/reg.c:190
[0] PetscMallocA() at /Users/barrysmith/Src/petsc/src/sys/memory/mal.c:190
[0] PetscFunctionListDLAllPush_Private() at /Users/barrysmith/Src/petsc/src/sys/dll/reg.c:190

to

[ 0] 16 bytes
[0] PetscFunctionListDLAllPush_Private() at /Users/barrysmith/Src/petsc/src/sys/dll/reg.c:190

no need to print duplicate function information or print the PetscMalloc() line

Commit-type: bug-fix

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Shorten error message about unused options when error

Commit-type: useability

fix formatting in output from PetscOptionsDeprecated_Private()

Commit-type: usability

Don't use PetscMemcpy() or PetscArraycpy() to copy the ops struct

Revert "Revert "Revert "Merge branch 'jacobf/2023-05-17/misc-cxx-fixups/release' into 'release'"""

This reverts commit 418dbbe5c294b713971823b0eef04bc220e11f0c.

Provide PetscOptionsBegin/End and friends for Fortran

Revert "Revert "Merge branch 'jacobf/2023-05-17/misc-cxx-fixups/release' into 'release'""

This reverts commit df799b48afdc2b9da2e7091d01d5c06978131d9d.

Revert "Merge branch 'jacobf/2023-05-17/misc-cxx-fixups/release' into 'release'"

This reverts commit ab82ac03bf5fd21ddf6c88f5b0e88c1ee438116f, reversing
changes made to 4a015fb72d15b0317252c3bd729c5

Revert "Merge branch 'jacobf/2023-05-17/misc-cxx-fixups/release' into 'release'"

This reverts commit ab82ac03bf5fd21ddf6c88f5b0e88c1ee438116f, reversing
changes made to 4a015fb72d15b0317252c3bd729c51826bbf9081.

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remove ifdef __cplusplus from C++-only headers