Cherry-pick init fix from 1015a2a477dd2695c1e05348307aec5fc5bfe5fb

Merge branch 'jacobf/2022-10-06/test-petscdevice-cli-init-controls' into 'main'

Add explicit test for PetscDevice command line init sequence controls

Closes #1262

See merge request petsc/petsc!5722

Add explicit test for PetscDevice command line init sequence controls

Merge remote-tracking branch 'origin/release'

Merge branch 'jolivet/fix-spacing-docs' into 'release'

Docs: remove or add space before back tick

See merge request petsc/petsc!5761

Docs: remove or add space before back tick

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

Merge branch 'jolivet/fix-implicit-fallthrough' into 'main'

Fix -Wimplicit-fallthrough

See merge request petsc/petsc!5655

Fix -Wimplicit-fallthrough

Merge branch 'jacobf/2022-08-29/petscdevicecontext-backend-update' into 'main'

Update PetscDevice and PetscDeviceContext backends

See merge request petsc/petsc!5566

Rework PetscDeviceContext backends and supporting code:
- Add PETSC_DEVICE_HOST
- Add PetscDeviceAllocate()
- Add PetscDeviceMalloc()
- Add PetscDeviceDeallocate()
- Add PetscDeviceFree()
- Add Petsc

Rework PetscDeviceContext backends and supporting code:
- Add PETSC_DEVICE_HOST
- Add PetscDeviceAllocate()
- Add PetscDeviceMalloc()
- Add PetscDeviceDeallocate()
- Add PetscDeviceFree()
- Add PetscDeviceMemcopy()
- Add PetscDeviceArraycopy()

- Split petscdevice.h into petscdevice_cuda.h and petscdevice_hip.h
- Add petscdevice_cupm.h
- Extend cupm::Interface and cupm::BlasInterface classes
- Add more C++ utility wrappers

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Merge branch 'barry/2022-08-23/fix-sys-man' into 'main'

Fix up all manual pages in src/sys directory

See merge request petsc/petsc!5559

Fix up all manual pages in src/sys directory

Commit-type: documentation
/spend 10h

Merge branch 'adams/device-getsharedmemsize' into 'main'

Move code to get device mem size to petscdevice.h

See merge request petsc/petsc!5552

Add PetscDeviceAttribute and PetscDeviceGetAttribute() to allow querying properties for a
particular PetscDevice

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/2022-06-28/add-petsccallmethod' into 'main'

Introduce PetscTryTypeMethod and PetscUseTypeMethod to replace ad hoc use of (*obj->ops->method) in source

See merge request petsc/

Merge branch 'barry/2022-06-28/add-petsccallmethod' into 'main'

Introduce PetscTryTypeMethod and PetscUseTypeMethod to replace ad hoc use of (*obj->ops->method) in source

See merge request petsc/petsc!5376

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Convert setfromoptions methods over to PetscTryTypeMethod() approach

Flipped the order of the arguments for the function pointers (*setfromoptions)(PetscOptionItem*,obj); and friends to make them co

Convert setfromoptions methods over to PetscTryTypeMethod() approach

Flipped the order of the arguments for the function pointers (*setfromoptions)(PetscOptionItem*,obj); and friends to make them consistent with PetscTryTypeMethod() and all the other methods

Commit-type: refactorization
/spend 4h

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Merge branch 'jacobf/2022-07-20/device-handles-on-demand' into 'main'

Decouple log_view and PetscDevice initialization

See merge request petsc/petsc!5458

No longer initialize PetscDevice greedily with -log_view (to front load handle costs), instead have separate log events for them

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 'barry/2022-03-30/turnoff-gpu-timing' into 'main'

Add support for -log_view with GPUs that does not time the kernels on the GPU

See merge request petsc/petsc!5056