Merge branch 'barry/2023-12-21/rm-unneeded-mansec' into 'main'

Remove MANSEC from makefiles it is not needed in, tutorials and tests

See merge request petsc/petsc!7137

Remove MANSEC from makefiles it is not needed in, tutorials and tests

Merge branch 'barry/2023-03-17/rm-unneeded-test-from-makefiles' into 'main'

simplify/cleanup makefile system

See merge request petsc/petsc!6201

Remove need for seperate lib/petsc/conf/test file by merging with rules file

Commit-type: maintainability

Merge branch 'barry/2023-02-22/rm-locdir' into 'main'

Remove need for hardwired LOCDIR in all makefiles

See merge request petsc/petsc!6113

Remove unneeded declarations of LOCDIR from all the makefiles

Commit-type:documentation

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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remove garbage from makefiles

Including
* unused FLAGS variables
* All: lib that did not work
* stray blank lines etc

Commit-type: housekeeping
/spend 1h

Merge branch 'haplav/snes-delete-empty-examples' into 'main'

SNES: delete empty examples

See merge request petsc/petsc!5024

SNES: delete empty examples

Merge branch 'balay/doc-fixes' into 'main'

doc fixes

See merge request petsc/petsc!5028

doc fixes

CI get 'manualpages.err' on stdout

sed: -e expression #1, char 34: Invalid range end
Error! No level info in file:
Could not open raja.c

Merge branch 'jed/plex-schwarz-p' into 'main'

DMPlexCreateTPSMesh: triply-periodic surface meshing

See merge request petsc/petsc!2709

DMPlexCreateTPSMesh: triply-periodic surface meshing

Mesh the surface of the Schwarz P surface with an arbitrary number of
refinements. Thanks to Nikita Simonian and Matthias Messner for
bringing t

DMPlexCreateTPSMesh: triply-periodic surface meshing

Mesh the surface of the Schwarz P surface with an arbitrary number of
refinements. Thanks to Nikita Simonian and Matthias Messner for
bringing these surfaces to my attention and for meshing discussion.

This commit squashes a line of development started in April 2020, with
some merges and conflict resolution with bug fixes and features needed
from upstream.

Add DMPlexCreateGyroidMesh(): will be folded into DMPlexCreateTPSMesh()

https://en.wikipedia.org/wiki/Gyroid

DMPlexCreateTPSMesh: add Face Sets and better output checking

DMPlexCreateTPSMesh: add edge sets for gyroid

DMPlexCreateTPSMesh: fix precision issues

DMPlexCreateTPSMesh: support extrusion to 3D mesh (broken because Face Sets are missing)

DMSetCoordinatesLocal: allow NULL to clear any prior coordinates

DMPlex: add -dm_plex_shape [schwarz_p|gyroid]

Skip distribution before extrusion due to parallel bug #1114.

Co-authored-by: Toby Isaac <tisaac@cc.gatech.edu>

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Merge branch 'psanan/2021-09-20/docs-fix-html-links' into 'main'

Docs: add new DMPlex tutorials to makefile example list

See merge request petsc/petsc!4331

Docs: add new DMPlex tutorials to makefile example list

Reported-by:Sergio Bengoechea <sergio.bengoechea@ovgu.de>
Thanks-to: Lawrence Mitchell <lawrence@wence.uk>

Merge remote-tracking branch 'origin/maint'

Merge remote-tracking branch 'origin/jolivet/fix-symlink-free' into maint

Single petscdir.mk

Merge branch 'barry/2020-03-17/add-gnumakefile' into 'master'

Provide support for not setting PETSC_DIR when gnumake is being used; this...

See merge request petsc/petsc!2604

Provide support for not setting PETSC_DIR when gnumake is being used; this will prevent some petsc-maint/petsc-users email threads

Commit-type: error-checking, testing-fix, feature, example
Thanks-t

Provide support for not setting PETSC_DIR when gnumake is being used; this will prevent some petsc-maint/petsc-users email threads

Commit-type: error-checking, testing-fix, feature, example
Thanks-to: Jed Brown <jed@jedbrown.org>
Thanks-to: Lisandro Dalcin <dalcinl@gmail.com>

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Merge branch 'jed/promote-examples-tests-tutorials' [petsc/petsc!2610]

* jed/promote-examples-tests-tutorials:
Promote examples/{tests,tutorials}/ to {tests,tutorials}/

Promote examples/{tests,tutorials}/ to {tests,tutorials}/

This shortens paths and improves consistency between test target names
and paths to the source and output files. Most of the work was
compl

Promote examples/{tests,tutorials}/ to {tests,tutorials}/

This shortens paths and improves consistency between test target names
and paths to the source and output files. Most of the work was
completed by this script, followed by mild cleanup of nonconforming
cases.

for makefile in `git ls-files 'src/*makefile'`; do
if rg -q 'DIRS.*\bexamples\b' $makefile; then
base=$(dirname $makefile)
dirs=$(cd $base/examples && ls -d tests tutorials 2>/dev/null | xargs echo)
perl -pi -e "s#^(DIRS.*)\bexamples\b#\1${dirs}#" $makefile
git rm $base/examples/makefile
for t in $dirs; do
git mv $base/examples/$t $base/
perl -pi -e "s#^(LOCDIR[[:space:]]*=).*#\1 $base/$t/#" $base/$t
done
fi
done

git grep -l -E -z 'examples/(tutorials|tests)' | xargs -0 perl -pi -e 's#examples/(tutorials|tests)#\1#g'
git checkout @ \
src/docs/website/documentation/changes/ \
src/benchmarks/results/

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