sowing: update bfort to version that handles string arguments

and sync with version fixes in sowing

Build: fix the command to do separate .c link with sycl

The old code failed to link in -lslepc when doing with sycl

CI: add lib/petsc/bin/maint/runjobs.py script that allows developers to select exact jobs to run within a pipeline

Typo in checkbadSource

Merge branch 'jczhang/2024-03-25/fix-cuda-compile-single' into 'main'

Pass C++ flags to nvcc via --compiler-options

See merge request petsc/petsc!7410

Merge branch 'knepley/fix-dt-fortran' into 'main'

DT: Fix Fortran binding

See merge request petsc/petsc!7396

Build: pass C++ flags to nvcc via --compiler-options

Otherwise in a CUDA + OpenMP build, we met errors in "make ex47cu": nvcc fatal : Unknown option '-fopenmp'

Merge branch 'barry/2024-03-15/feature-petscviewerasciiworldsetunit' into 'main'

Add PetscViewerASCIIWORLDSetFileUnit() to allow saving PETSc output in a users Fortran file

See merge request petsc

Merge branch 'barry/2024-03-15/feature-petscviewerasciiworldsetunit' into 'main'

Add PetscViewerASCIIWORLDSetFileUnit() to allow saving PETSc output in a users Fortran file

See merge request petsc/petsc!7374

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DT: Fix Fortran binding
- Add finclude/petscdt.h
- Add PetscDTNodeType to Fortran
- Turn off binding for PetscFEGeomComplete()

Merge remote-tracking branch 'origin/release'

CI: add in a test with CFLAGS="-flto=4 -Werror=odr -Werror=lto-type-mismatch"

Portability fix for make lint

gcov.py: don't try to git blame datafiles

Merge branch 'jose/filter-warnings' into 'main'

Filter out linker warnings in macOS with latest CLT

See merge request petsc/petsc!7353

Filter out linker warnings in macOS with latest CLT

$ make check
...
*******************Error detected during compile or link!*******************
See https://petsc.org/release/faq/
...
ld: warning:

Filter out linker warnings in macOS with latest CLT

$ make check
...
*******************Error detected during compile or link!*******************
See https://petsc.org/release/faq/
...
ld: warning: duplicate -rpath '/usr/local/Cellar/gcc/13.2.0/lib/gcc/current/gcc/x86_64-apple-darwin23/13' ignored
ld: warning: duplicate -rpath '/usr/local/Cellar/gcc/13.2.0/lib/gcc/current' ignored
ld: warning: duplicate -rpath '/Library/Developer/CommandLineTools/SDKs/MacOSX14.4.sdk/usr/lib' ignored
ld: warning: duplicate -rpath '/usr/local/Cellar/gcc/13.2.0/lib/gcc/current/gcc' ignored

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checkbadSource: fix grep warnings

$ make checkbadSource
grep: warning: stray \ before -
grep: warning: stray \ before -
grep: warning: stray \ before -

Merge branch 'barry/2024-03-09/fix-lint-re-compile-warning' into 'main'

Fixes make lint warning...

See merge request petsc/petsc!7351

Fixes make lint warning /Users/barrysmith/Src/petsc/lib/petsc/bin/maint/petsclinter/petsclinter/util/_utility.py:215: SyntaxWarning: invalid escape sequence 's' with newer Python versions

Fix for linker warnings that appear with latest macOS XCode release

ld: warning: -commons use_dylibs is no longer supported, using error treatment instead
ld: warning: -bind_at_load is deprecated on

Fix for linker warnings that appear with latest macOS XCode release

ld: warning: -commons use_dylibs is no longer supported, using error treatment instead
ld: warning: -bind_at_load is deprecated on macOS

ld: warning: duplicate -rpath '/Users/barrysmith/Src/petsc/arch-fix-macos-latest-configure/lib' ignored

For this fix we need to always pass the libraries through self.libraries.toStringNoDupes() with fully resolved strings
(no ${PETSC_ARCH}/${PETSC_DIR}) so the generation of the library lists is now done ONLY in config/PETSc/Configure.py
and not in variables. Tested both single and multiple libraries with --download-hypre which previously would produce a
duplicate.

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Remove PETSC_CONTRIB and use of -lcontribe since PETSc has not had a contribe library in a long time

Commit-type: housekeeping

CI: update to clang-format-18

Remove extra "" after format specifier ending a string

git grep -l -E "_FMT \"\"," | xargs sed -r -i'' 's#_FMT \"\",#_FMT,#g'

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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checkbadSource: rules for PetscFunctionBegin and derivatives