Merge remote-tracking branch 'origin/release'

Merge branch 'jose/codespell-typos' into 'release'

A few more codespell fixes

See merge request petsc/petsc!5786

A few more codespell fixes

Merge branch 'knepley/feature-ephemeral-label' into 'main'

DMLabel: Added another implementation of DMLabel

See merge request petsc/petsc!5763

DMLabel: Added another implementation of DMLabel
- Now label has class methods
- Added readonly flag for DMLabel
- There are concrete and ephemeral implementations
- Fixed label handling when calling

DMLabel: Added another implementation of DMLabel
- Now label has class methods
- Added readonly flag for DMLabel
- There are concrete and ephemeral implementations
- Fixed label handling when calling DMPlexTransformApply()
- Register label constructors
- Stopped inlining some functions

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Merge branch 'jacobf/2022-09-21/2-bike-2-shed' into 'main'

Feature: Bicycle Storage Facility 2

See merge request petsc/petsc!5661

source code format changes due to .clang-format changes

Transform all header-guards into ifndefs to make clang-format ignore them for preprocessor indentation

Merge branch 'barry/2022-08-21/clang-format-source' into 'main'

format repository with clang-format

See merge request petsc/petsc!5541

clang-format: convert PETSc sources to comply with clang-format

Merge branch 'barry/2022-08-13/fix-man-include' into 'main'

Fix up manual pages in include/ including adding tick marks

See merge request petsc/petsc!5528

Fix up manual pages in include/ including adding tick marks

Commit-type: documentation
/spend 4h

Merge branch 'knepley/feature-dm-project-field-local' into 'main'

DM: Add DMProjectFieldLabel()

See merge request petsc/petsc!5431

DM: Add DMProjectFieldLabel()

Merge branch 'knepley/fix-dm-periodicity' into 'main'

Fixes for periodicity

See merge request petsc/petsc!5391

Plex: Instead of forcing periodic coordinates to [0, L], it should be [lower, lower + L]

Merge branch 'knepley/feature-plex-periodic-separation' into 'main'

Fix periodicity for higher order coordinates

See merge request petsc/petsc!5333

DM: Reorganized periodic coordinates into a separate representation
- Split coordinates into two representations
- No longer specify the boundary type for periodicity. We can tell if a
given boundary

DM: Reorganized periodic coordinates into a separate representation
- Split coordinates into two representations
- No longer specify the boundary type for periodicity. We can tell if a
given boundary is periodic by a positive L[d]
- Added DMPlexGetCellCoordinates_Internal() to get localized cell
coordinates automatically, and used in plexgeometry.c
- Moved coordinate functions into dmcoordinates.c
- Moved periodicity functions into dmperiodicity.c

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Merge branch 'barry/2022-05-03/cleanup-makefiles' into 'main'

remove unneeded stuff from makefiles

See merge request petsc/petsc!5211

Get values of makefile SOURCE etc from the file system instead of makefiles

Use SUBMANSEC from include files for manual sections instead of the makefile

Unfortunately this has to be one large commi

Get values of makefile SOURCE etc from the file system instead of makefiles

Use SUBMANSEC from include files for manual sections instead of the makefile

Unfortunately this has to be one large commit since the changes all have to be done at once

Commit-type: docs
/spend 10m

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Merge branch 'psanan/docs-sphinx-man-pages' into 'main'

Integrate Man Pages into Sphinx Docs

Closes #1132 and #1015

See merge request petsc/petsc!4989

Docs: bulk add backticks to .seealso man page fields

```python
import os
import re
import fileinput

def _process_word(word):
comma = "," if word.endswith(",") else ""
return "`%s`%s" % (wor

Docs: bulk add backticks to .seealso man page fields

```python
import os
import re
import fileinput

def _process_word(word):
comma = "," if word.endswith(",") else ""
return "`%s`%s" % (word.rstrip(","), comma)

def _process_stripped_line(line):
return " ".join(map(_process_word, line.split()))

start_pattern = re.compile(r"^( *\.seealso:? )(.*$)")

def process_file(filename_full):
with fileinput.FileInput(filename_full, inplace=True) as f:
in_block = False
for line in f:
line_stripped = line.strip()
# end ".seealso blocks" on a blank line or C-style comment close
line_modified = None
if not line_stripped:
in_block = False
elif line_stripped.endswith("*/"):
in_block = False
else:
match = re.match(start_pattern,
line) # not stripped line
if match:
indent = " " * len(match.group(1))
in_block = True
line_modified = match.group(
1) + _process_stripped_line(
match.group(2).strip())
elif in_block:
line_modified = indent + _process_stripped_line(
line_stripped)
if line_modified:
print(line_modified) # prints to the file
else:
print(line, end="") # prints to the file

BASE_DIRS = ["src", "include"]
EXT = [".c", ".cxx", ".cpp", ".cu", ".h", ".hpp", ".hxx"]
EXCLUDE_DIRS = ["tests", "tutorials", "ftn-auto", "ftn-custom", "benchmarks"]

def main():
""" Process everything """
for base in BASE_DIRS:
for root, dirs, files in os.walk(base):
for filename in files:
if os.path.splitext(filename)[1] in EXT:
filename_full = os.path.join(root, filename)
print("FILE ---", filename_full)
process_file(filename_full)
for exclude_dir in EXCLUDE_DIRS:
if exclude_dir in dirs:
dirs.remove(exclude_dir)

if __name__ == "__main__":
main()
```

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Merge branch 'knepley/feature-dm-aux-vec' into 'main'

DM: Add equation part to DM aux vector key

See merge request petsc/petsc!4995

DM: Add equation part to DM aux vector key

Merge branch 'jed/dm-prealloc-skip' into 'main'

DMSetMatrixPreallocateSkip: skip setup that will be discarded with MatSetPreallocationCOO()

See merge request petsc/petsc!4990