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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Remove the no longer needed PetscCheck(a->ops->y...

Commit-type: error-checking, housekeeping
/spend 10m

Development Tools: Vim, Emacs, Eclipse

Merge branch 'jeremy/context-destroy-fns' into 'main'

Add user context destroy functions

See merge request petsc/petsc!5252

context - wrap context in PetscContainer, add user context destroy routines for MatShell, DMSNES/DMTS function and jacobian

Merge branch 'barry/2022-06-24/linenumbers-petscstack' into 'main'

Fixes/improvements for PETSc stack handling

See merge request petsc/petsc!5368

Fix several callbacks to properly use the PetscCallBack() mechanism

Commit-type: error-checking, housekeeping
/spend 10m
Reported-by: Jose E. Roman

Cleanup and unify naming of PetscCall routines

Commit-type: housekeeping
/spend 10m

Fix handling of PetscStack for callback functions and external package calls (and update slepc in sync)

Information was often wrong; incorrect filenames and line numbers removed

Also unified naming

Fix handling of PetscStack for callback functions and external package calls (and update slepc in sync)

Information was often wrong; incorrect filenames and line numbers removed

Also unified naming for callback function stack frames

Commit-type: error-checking, debugability
/spend 2h

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Merge branch 'barry/2022-06-27/docs-snesvi-domainerror' into 'main'

Improve manual pages and manual for SNES problems with domain errors or box constraints

See merge request petsc/petsc!5373

Improve manual pages and manual for SNES problems with domain errors or box constraints

Commit-type: docs
/spend 10m
Reported-by: Jacob Simon Merson <mersoj2@rpi.edu>

Merge branch 'barry/2022-06-13/make-one-line-if-call' into 'main'

Change if () { PetscCall() } three liner to one liner

See merge request petsc/petsc!5344

Change if () { PetscCall() } three liner and friends to one liners

for i in `git ls-files | grep "\.[ch]$"` ; do sed 's?\$?ZZZ?g' $i | tr '\n' '$' | sed 's?\([ ]*\)if (\([-;,.\*+=a-z0-9A-Z_>]*\)) {\

Change if () { PetscCall() } three liner and friends to one liners

for i in `git ls-files | grep "\.[ch]$"` ; do sed 's?\$?ZZZ?g' $i | tr '\n' '$' | sed 's?\([ ]*\)if (\([-;,.\*+=a-z0-9A-Z_>]*\)) {\$[ ]*PetscCall(\([- ._+=a-z0-9A-Z>*,()]*);\)\$[ ]*}\$?\1if (\2) PetscCall(\3$?g' | tr '$' '\n' | sed 's?ZZZ?$?g' > $i.joe ; mv $i.joe $i ; done

for i in `git ls-files | grep "\.[hc]$"` ; do sed 's?\$?ZZZ?g' $i | tr '\n' '$' | sed 's?\([ }else]*\)if (\([-;,.\*+=a-z0-9A-Z_>]*\)) {\$[ ]*PetscCall(\([- ._+=a-z0-9A-Z>*,()]*);\)\$\([ ]*\)} \([- ._+=a-z0-9A-Z>*,()]*);\)\$?\1if (\2) PetscCall(\3$\4\5$?g' | tr '$' '\n' | sed 's?ZZZ?$?g' > $i.joe ; mv $i.joe $i ; done

Yes, really ugly but Barry still cannot master awk

Commit-type: housekeeping

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Merge branch 'stefanozampini/fix-tao-destroy' into 'main'

TaoSetType: Do not destroy gradient and stepdirection vectors

See merge request petsc/petsc!5339

TaoSetType: Do not destroy gradient and stepdirection vectors

Defer KSPDestroy to those methods that actually creates a KSP
Leave linesearch destroy, since it may be solver dependent

Merge branch 'stefanozampini/tao-ew' into 'main'

TAO: add Support for Eisenstat and Walker

See merge request petsc/petsc!5311

TAO: add support for Eisenstat and Walker trick for KSP

Merge branch 'psanan/docs-seealso-formatting' into 'main'

Docs: Fix man page .seealso entries missing spaces after commas

Closes #1176

See merge request petsc/petsc!5202

Merge branch 'stefanozampini/fix-h2opus' into 'main'

PCH2OPUS fixes

See merge request petsc/petsc!5204

Allow PCH2OPUS with SNES MFFD

Merge remote-tracking branch 'origin/release'

Docs: Fix man page .seealso entries missing spaces after commas

```python

import os
import re
import fileinput

START_PATTERN = re.compile(r"^( *\.seealso:? )(.*$)")
FIX_PATTERN = re.compile(r",([^

Docs: Fix man page .seealso entries missing spaces after commas

```python

import os
import re
import fileinput

START_PATTERN = re.compile(r"^( *\.seealso:? )(.*$)")
FIX_PATTERN = re.compile(r",([^ $\n])")

def _fix_comma(matchobj):
return "`, `%s" % matchobj.group(1)

def process_file(filename_full):
""" Find/fix commas w/o trailing spaces or newlines in .seealso blocks """
with fileinput.FileInput(filename_full, inplace=True) as the_file:
in_block = False
for line in the_file:
line_stripped = line.strip()
# end ".seealso blocks" on a blank line or C-style comment close
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:
in_block = True
if in_block:
if re.search(FIX_PATTERN, line):
line_fixed = re.sub(FIX_PATTERN, _fix_comma, line)
print(line_fixed, end="") # prints to file
else:
print(line, end="") # prints to file
else:
print(line, end="") # prints to 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 files in local tree(s) """
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)
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 'jed/snes-convergence-test-doc' into 'release'

SNES doc: fixes and cross-references for -snes_convergence_test skip

See merge request petsc/petsc!5197

SNES doc: fixes and cross-references for -snes_convergence_test skip

-snes_no_convergence_test was removed in PETSc-3.0, but a documentation
relic was still hanging around confusing people.

Commit-

SNES doc: fixes and cross-references for -snes_convergence_test skip

-snes_no_convergence_test was removed in PETSc-3.0, but a documentation
relic was still hanging around confusing people.

Commit-type: documentation

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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