Fix manual pages in include files

Merge branch 'barry/2023-03-25/fix-more-manualpages' into 'main'

More manual page fixes

See merge request petsc/petsc!6233

More manual page fixes

Merge branch 'knepley/feature-hybrid-mass' into 'main'

Plex: Can now specify a mass weighting to hybrid residual

See merge request petsc/petsc!6210

DT: Add quadrature permutations and default quadrature
- Add integration domain to PetscQuadrature
- Add quadrature permutations to DS
- Add default quadrature to DT

Merge branch 'jacobf/2022-12-10/petscerrorcode-nodiscard' into 'main'

Feature: Non-discardable PetscErrorCode

See merge request petsc/petsc!5923

Make PetscErrorCode a non-discardable enum

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 '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 'tisaac/feature-small-simplex-quadrature' into 'main'

PetscDTSimplexQuadrature with minimal symmetry rules

See merge request petsc/petsc!5509

Create an interface for simplex quadrature that allows for minimum symmetric rules.

Rules are from published tabulations: citations have been added.

I checked in the script that created the headers

Create an interface for simplex quadrature that allows for minimum symmetric rules.

Rules are from published tabulations: citations have been added.

I checked in the script that created the headers, though I'm not sure where to put it.

A test has been adding verifying the integration of orthonormal polynomials.

The default behavior is to choose the minimum symmetric method if available,
and fall back to conic quadrature otherwise.

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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 'jacobf/2022-04-05/petscattrformat-all-the-rest' into 'main'

Enable PETSC_ATTRIBUTE_FORMAT()

See merge request petsc/petsc!5085

Enable PETSC_ATTRIBUTE_FORMAT()