Merge branch 'master' into 'bugfixes/macos-compilation-documentation'
47828a35e671
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Authored by Hnat Lesiv <hnat@lesiv.org> on Feb 13 2025, 12:51.

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Merge branch 'master' into 'bugfixes/macos-compilation-documentation'

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Committed

Hnat Lesiv <hnat@lesiv.org>

Feb 13 2025, 12:51

Pushed

gitlab-richart

Feb 13 2025, 13:02

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rAKAf54488dde6c3: fixed type and added general MUMPS setup

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Hnat Lesiv <hnat@lesiv.org> committed rAKA47828a35e671: Merge branch 'master' into 'bugfixes/macos-compilation-documentation' (authored by Hnat Lesiv <hnat@lesiv.org>).Feb 13 2025, 12:51

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		Path
M		.clang-format
M		.clang-tidy
M		.gitignore
D		.gitlab-ci.d
D		.gitlab-ci.d/code-quality.yaml
D		.gitlab-ci.d/images.yaml
D		.gitlab-ci.d/templates.yaml
M		.gitlab-ci.yml
A	(dir)	.gitlab/ci.d/
A		.gitlab/ci.d/code-quality.yaml
A		.gitlab/ci.d/images.yaml
A		.gitlab/ci.d/templates.yaml
M		.gitpod.yml
M		.readthedocs.yaml
M	(sym)	CHANGELOG.md
M		CMakeLists.txt
M		README.md
M		cmake/AkantuConfig.cmake.in
M		cmake/AkantuExampleMacros.cmake
M		cmake/AkantuExtraCompilationProfiles.cmake
M		cmake/AkantuInstall.cmake
M		cmake/AkantuMacros.cmake
M		cmake/AkantuNeedPybind11.cmake
M		cmake/AkantuPackagesSystem.cmake
M		cmake/AkantuTestsMacros.cmake
M		cmake/Modules/CMakePackagesSystem.cmake
M		cmake/Modules/CMakePackagesSystemPrivateFunctions.cmake
M		cmake/Modules/CMakeVersionGenerator.cmake
M		cmake/Modules/FindMETIS.cmake
M		cmake/Modules/FindMumps.cmake
M		cmake/Modules/FindParMETIS.cmake
M		cmake/Modules/FindScotch.cmake
D		cmake/material_lister.cc
M		cmake/semver.py
M		dev-requirements.txt
M		doc/dev-doc/CMakeLists.txt
M		doc/dev-doc/akantu.dox.j2
A		doc/dev-doc/changelog.md
D		doc/dev-doc/changelog.rst
M		doc/dev-doc/conf.py
A		doc/dev-doc/examples.rst
M		doc/dev-doc/index.rst
A		doc/dev-doc/manual/basic_types.rst
D		doc/dev-doc/manual/conf.py
M		doc/dev-doc/manual/constitutive-laws.rst
M		doc/dev-doc/manual/contactmechanicsmodel.rst
A		doc/dev-doc/manual/diffusion.rst
A		doc/dev-doc/manual/extra.rst
D		doc/dev-doc/manual/fe_engine.rst
A	(dir)	doc/dev-doc/manual/figures/examples/
A		doc/dev-doc/manual/figures/examples/cohesive_extrinsic.gif
A		doc/dev-doc/manual/figures/examples/cohesive_extrinsic_ig_tg.gif
A		doc/dev-doc/manual/figures/examples/cohesive_intrinsic.png
M		doc/dev-doc/manual/getting_started.rst
D		doc/dev-doc/manual/heattransfermodel.rst
A		doc/dev-doc/manual/models.rst
A		doc/dev-doc/manual/models_commons.rst
M		doc/dev-doc/manual/new-constitutive-laws.rst
M		doc/dev-doc/manual/phasefieldmodel.rst
M		doc/dev-doc/manual/solidmechanicsmodel.rst
M		doc/dev-doc/manual/structuralmechanicsmodel.rst
M		doc/dev-doc/requirements.txt
A		doc/dev-doc/tutorials.rst
M		examples/CMakeLists.txt
M		examples/README.rst
D		examples/boundary_conditions
D		examples/boundary_conditions/CMakeLists.txt
D		examples/boundary_conditions/predefined_bc
V		examples/{ → c++/solid_mechanics_model}/boundary_conditions/predefined_bc/CMakeLists.txt
V		examples/{ → c++/solid_mechanics_model}/boundary_conditions/predefined_bc/material.dat
D		examples/boundary_conditions/predefined_bc/predefined_bc.cc
V		examples/{ → c++/solid_mechanics_model}/boundary_conditions/predefined_bc/square.geo
D		examples/boundary_conditions/python_user_defined_bc
V		examples/{ → c++/solid_mechanics_model}/boundary_conditions/python_user_defined_bc/CMakeLists.txt
D		examples/boundary_conditions/python_user_defined_bc/boundary_condition.py
V		examples/{ → c++/solid_mechanics_model}/boundary_conditions/python_user_defined_bc/fine_mesh.geo
V		examples/{ → c++/solid_mechanics_model}/boundary_conditions/python_user_defined_bc/material.dat
D		examples/boundary_conditions/python_user_defined_bc/python_user_defined_bc.cc
D		examples/boundary_conditions/user_defined_bc
V		examples/{ → c++/solid_mechanics_model}/boundary_conditions/user_defined_bc/CMakeLists.txt
V		examples/{ → c++/solid_mechanics_model}/boundary_conditions/user_defined_bc/fine_mesh.geo
V		examples/{ → c++/solid_mechanics_model}/boundary_conditions/user_defined_bc/material.dat
D		examples/boundary_conditions/user_defined_bc/user_defined_bc.cc
A	(dir)	examples/c++/
A		examples/c++/CMakeLists.txt
A		examples/c++/README.rst
A	(dir)	examples/c++/contact_mechanics_model/
A		examples/c++/contact_mechanics_model/CMakeLists.txt
A		examples/c++/contact_mechanics_model/README.rst
A	(dir)	examples/c++/contact_mechanics_model/friction/
A		examples/c++/contact_mechanics_model/friction/CMakeLists.txt
A		examples/c++/contact_mechanics_model/friction/README.rst
A		examples/c++/contact_mechanics_model/friction/bloc.geo
A		examples/c++/contact_mechanics_model/friction/bloc_friction.cc
A	(dir)	examples/c++/contact_mechanics_model/friction/images/
A		examples/c++/contact_mechanics_model/friction/images/bloc_friction.gif
A		examples/c++/contact_mechanics_model/friction/material.dat
A	(dir)	examples/c++/contact_mechanics_model/hertz/
V		examples/{c++/contact_mechanics_model/hertz ← contact_mechanics}/CMakeLists.txt
A		examples/c++/contact_mechanics_model/hertz/README.rst
V		examples/{c++/contact_mechanics_model/hertz ← contact_mechanics}/cohesive-contact.geo
A		examples/c++/contact_mechanics_model/hertz/cohesive_contact_explicit_dynamic.cc
A		examples/c++/contact_mechanics_model/hertz/contact_explicit_dynamic.cc
A		examples/c++/contact_mechanics_model/hertz/contact_explicit_static.cc
V		examples/{c++/contact_mechanics_model/hertz ← contact_mechanics}/hertz.geo
A	(dir)	examples/c++/contact_mechanics_model/hertz/images/
A		examples/c++/contact_mechanics_model/hertz/images/hertz.png
A		examples/c++/contact_mechanics_model/hertz/images/hertz.svg
V		examples/{c++/contact_mechanics_model/hertz ← contact_mechanics}/material-cohesive.dat
V		examples/{c++/contact_mechanics_model/hertz ← contact_mechanics}/material.dat
A	(dir)	examples/c++/diffusion_model/
A		examples/c++/diffusion_model/CMakeLists.txt
A		examples/c++/diffusion_model/README.rst
V		examples/{c++/diffusion_model ← heat_transfer}/cube.geo
V		examples/{c++/diffusion_model ← heat_transfer}/cube_tet.geo
A		examples/c++/diffusion_model/heat_diffusion_dynamics_2d.cc
A		examples/c++/diffusion_model/heat_diffusion_dynamics_3d.cc
A		examples/c++/diffusion_model/heat_diffusion_static_2d.cc
A	(dir)	examples/c++/diffusion_model/images/
A		examples/c++/diffusion_model/images/diffusion_3d.gif
A		examples/c++/diffusion_model/images/diffusion_static.png
A		examples/c++/diffusion_model/images/hot-point-1.png
A		examples/c++/diffusion_model/images/hot-point-2.png
A		examples/c++/diffusion_model/material.dat
V		examples/{c++/diffusion_model ← heat_transfer}/square.geo
V	(dir)	examples/{c++/embedded_model/ ← embedded}
V		examples/{c++/embedded_model ← embedded}/CMakeLists.txt
V		examples/{c++/embedded_model ← embedded}/concrete.geo
V		examples/{c++/embedded_model ← embedded}/embedded.cc
V		examples/{c++/embedded_model ← embedded}/material.dat
V		examples/{c++/embedded_model ← embedded}/reinforcement.geo
A	(dir)	examples/c++/phase_field_model/
V		examples/{c++/phase_field_model ← phase_field}/CMakeLists.txt
A		examples/c++/phase_field_model/README.rst
A	(dir)	examples/c++/phase_field_model/images/
A		examples/c++/phase_field_model/images/phase_field_clusters.png
V		examples/{c++/phase_field_model ← phase_field}/material_notch.dat
A		examples/c++/phase_field_model/phase_field_notch.cc
A		examples/c++/phase_field_model/phase_field_parallel.cc
V		examples/{c++/phase_field_model ← phase_field}/square_notch.geo
A	(dir)	examples/c++/scalability_test/
A		examples/c++/scalability_test/CMakeLists.txt
A		examples/c++/scalability_test/README.rst
A		examples/c++/scalability_test/cohesive_extrinsic.cc
A		examples/c++/scalability_test/cube.geo
A		examples/c++/scalability_test/cube.msh
A	(dir)	examples/c++/scalability_test/images/
A		examples/c++/scalability_test/images/TTS.svg
A		examples/c++/scalability_test/images/cube.svg
A		examples/c++/scalability_test/material-cohesive.dat
A		examples/c++/scalability_test/material-elastic.dat
A		examples/c++/scalability_test/plot.py
A		examples/c++/scalability_test/run.sh
A		examples/c++/scalability_test/scalability.sh
A	(dir)	examples/c++/solid_mechanics_cohesive_model/
V		examples/{c++/solid_mechanics_cohesive_model ← cohesive_element}/CMakeLists.txt
A		examples/c++/solid_mechanics_cohesive_model/README.rst
A	(dir)	examples/c++/solid_mechanics_cohesive_model/cohesive_extrinsic/
V		examples/{c++/solid_mechanics_cohesive_model ← cohesive_element}/cohesive_extrinsic/CMakeLists.txt
A		examples/c++/solid_mechanics_cohesive_model/cohesive_extrinsic/README.rst
A		examples/c++/solid_mechanics_cohesive_model/cohesive_extrinsic/cohesive_extrinsic.cc
A	(dir)	examples/c++/solid_mechanics_cohesive_model/cohesive_extrinsic/images/
A		examples/c++/solid_mechanics_cohesive_model/cohesive_extrinsic/images/cohesive_extrinsic.gif
V		examples/{c++/solid_mechanics_cohesive_model ← cohesive_element}/cohesive_extrinsic/material.dat
V		examples/{c++/solid_mechanics_cohesive_model ← cohesive_element}/cohesive_extrinsic/triangle.geo
V		examples/{c++/solid_mechanics_cohesive_model ← cohesive_element}/cohesive_extrinsic/triangle.msh
A	(dir)	examples/c++/solid_mechanics_cohesive_model/cohesive_extrinsic_ig_tg/
V		examples/{c++/solid_mechanics_cohesive_model ← cohesive_element}/cohesive_extrinsic_ig_tg/CMakeLists.txt
A		examples/c++/solid_mechanics_cohesive_model/cohesive_extrinsic_ig_tg/README.rst
A		examples/c++/solid_mechanics_cohesive_model/cohesive_extrinsic_ig_tg/cohesive_extrinsic_ig_tg.cc
A	(dir)	examples/c++/solid_mechanics_cohesive_model/cohesive_extrinsic_ig_tg/images/
A		examples/c++/solid_mechanics_cohesive_model/cohesive_extrinsic_ig_tg/images/cohesive_extrinsic_ig_tg.gif
V		examples/{c++/solid_mechanics_cohesive_model ← cohesive_element}/cohesive_extrinsic_ig_tg/material.dat
V		examples/{c++/solid_mechanics_cohesive_model ← cohesive_element}/cohesive_extrinsic_ig_tg/triangle.geo
A	(dir)	examples/c++/solid_mechanics_cohesive_model/cohesive_intrinsic/
V		examples/{c++/solid_mechanics_cohesive_model ← cohesive_element}/cohesive_intrinsic/CMakeLists.txt
A		examples/c++/solid_mechanics_cohesive_model/cohesive_intrinsic/README.rst
A		examples/c++/solid_mechanics_cohesive_model/cohesive_intrinsic/cohesive_intrinsic.cc
A	(dir)	examples/c++/solid_mechanics_cohesive_model/cohesive_intrinsic/images/
A		examples/c++/solid_mechanics_cohesive_model/cohesive_intrinsic/images/cohesive_intrinsic.png
V		examples/{c++/solid_mechanics_cohesive_model ← cohesive_element}/cohesive_intrinsic/material.dat
V		examples/{c++/solid_mechanics_cohesive_model ← cohesive_element}/cohesive_intrinsic/triangle.geo
V		examples/{c++/solid_mechanics_cohesive_model ← cohesive_element}/cohesive_intrinsic/triangle.msh
A	(dir)	examples/c++/solid_mechanics_model/
A		examples/c++/solid_mechanics_model/CMakeLists.txt
A		examples/c++/solid_mechanics_model/README.rst
A	(dir)	examples/c++/solid_mechanics_model/boundary_conditions/
A		examples/c++/solid_mechanics_model/boundary_conditions/CMakeLists.txt
A		examples/c++/solid_mechanics_model/boundary_conditions/README.rst
A	(dir)	examples/c++/solid_mechanics_model/boundary_conditions/images/
A		examples/c++/solid_mechanics_model/boundary_conditions/images/predefined_bc.svg
A		examples/c++/solid_mechanics_model/boundary_conditions/images/user_defined_bc_displ_mag.png
A	(dir)	examples/c++/solid_mechanics_model/boundary_conditions/predefined_bc/
V		examples/{c++/solid_mechanics_model ← }/boundary_conditions/predefined_bc/CMakeLists.txt
V		examples/{c++/solid_mechanics_model ← }/boundary_conditions/predefined_bc/material.dat
A		examples/c++/solid_mechanics_model/boundary_conditions/predefined_bc/predefined_bc.cc
V		examples/{c++/solid_mechanics_model ← }/boundary_conditions/predefined_bc/square.geo
A	(dir)	examples/c++/solid_mechanics_model/boundary_conditions/python_user_defined_bc/
V		examples/{c++/solid_mechanics_model ← }/boundary_conditions/python_user_defined_bc/CMakeLists.txt
A		examples/c++/solid_mechanics_model/boundary_conditions/python_user_defined_bc/boundary_condition.py
V		examples/{c++/solid_mechanics_model ← }/boundary_conditions/python_user_defined_bc/fine_mesh.geo
V		examples/{c++/solid_mechanics_model ← }/boundary_conditions/python_user_defined_bc/material.dat
A		examples/c++/solid_mechanics_model/boundary_conditions/python_user_defined_bc/python_user_defined_bc.cc
A	(dir)	examples/c++/solid_mechanics_model/boundary_conditions/user_defined_bc/
V		examples/{c++/solid_mechanics_model ← }/boundary_conditions/user_defined_bc/CMakeLists.txt
V		examples/{c++/solid_mechanics_model ← }/boundary_conditions/user_defined_bc/fine_mesh.geo
V		examples/{c++/solid_mechanics_model ← }/boundary_conditions/user_defined_bc/material.dat
A		examples/c++/solid_mechanics_model/boundary_conditions/user_defined_bc/user_defined_bc.cc
A	(dir)	examples/c++/solid_mechanics_model/explicit/
V		examples/{c++/solid_mechanics_model ← }/explicit/CMakeLists.txt
A		examples/c++/solid_mechanics_model/explicit/README.rst
V		examples/{c++/solid_mechanics_model ← }/explicit/bar.geo
A		examples/c++/solid_mechanics_model/explicit/explicit_dynamic.cc
A	(dir)	examples/c++/solid_mechanics_model/explicit/images/
A		examples/c++/solid_mechanics_model/explicit/images/bar_pulse.gif
A		examples/c++/solid_mechanics_model/explicit/images/explicit.svg
A		examples/c++/solid_mechanics_model/explicit/images/sphx_glr_explicit.png
V		examples/{c++/solid_mechanics_model ← }/explicit/material.dat
A	(dir)	examples/c++/solid_mechanics_model/implicit/
V		examples/{c++/solid_mechanics_model ← }/implicit/CMakeLists.txt
A		examples/c++/solid_mechanics_model/implicit/README.rst
V		examples/{c++/solid_mechanics_model ← }/implicit/beam.geo
A	(dir)	examples/c++/solid_mechanics_model/implicit/images/
A		examples/c++/solid_mechanics_model/implicit/images/dynamic_analysis.png
A		examples/c++/solid_mechanics_model/implicit/images/implicit_dynamic.svg
A		examples/c++/solid_mechanics_model/implicit/implicit_dynamic.cc
V		examples/{c++/solid_mechanics_model ← }/implicit/material_dynamic.dat
A	(dir)	examples/c++/solid_mechanics_model/io/
V		examples/{c++/solid_mechanics_model ← }/io/CMakeLists.txt
A		examples/c++/solid_mechanics_model/io/README.rst
A	(dir)	examples/c++/solid_mechanics_model/io/dumper/
V		examples/{c++/solid_mechanics_model ← }/io/dumper/CMakeLists.txt
A		examples/c++/solid_mechanics_model/io/dumper/dumpable_interface.cc
A		examples/c++/solid_mechanics_model/io/dumper/dumper_low_level.cc
V		examples/{c++/solid_mechanics_model ← }/io/dumper/locomotive_tools.cc
V		examples/{c++/solid_mechanics_model ← }/io/dumper/locomotive_tools.hh
V		examples/{c++/solid_mechanics_model ← }/io/dumper/swiss_train.geo
A	(dir)	examples/c++/solid_mechanics_model/io/images/
A		examples/c++/solid_mechanics_model/io/images/train.gif
A	(dir)	examples/c++/solid_mechanics_model/io/parser/
V		examples/{c++/solid_mechanics_model ← }/io/parser/CMakeLists.txt
A		examples/c++/solid_mechanics_model/io/parser/example_parser.cc
V		examples/{c++/solid_mechanics_model ← }/io/parser/input_file.dat
V		examples/{c++/solid_mechanics_model ← }/io/parser/swiss_cheese.geo
A	(dir)	examples/c++/solid_mechanics_model/new_material/
V		examples/{c++/solid_mechanics_model ← }/new_material/CMakeLists.txt
A		examples/c++/solid_mechanics_model/new_material/README.rst
V		examples/{c++/solid_mechanics_model ← }/new_material/barre_trou.geo
A	(dir)	examples/c++/solid_mechanics_model/new_material/images/
A		examples/c++/solid_mechanics_model/new_material/images/barre_trou.svg
A		examples/c++/solid_mechanics_model/new_material/local_material_damage.cc
A		examples/c++/solid_mechanics_model/new_material/local_material_damage.hh
V		examples/{c++/solid_mechanics_model ← }/new_material/local_material_damage_inline_impl.hh
V		examples/{c++/solid_mechanics_model ← }/new_material/material.dat
A		examples/c++/solid_mechanics_model/new_material/new_local_material.cc
V	(dir)	examples/{c++/solid_mechanics_model/new_material/viscoelastic_maxwell/ ← new_material/viscoelastic_maxwell}
V		examples/{c++/solid_mechanics_model ← }/new_material/viscoelastic_maxwell/CMakeLists.txt
V		examples/{c++/solid_mechanics_model ← }/new_material/viscoelastic_maxwell/material_viscoelastic_maxwell.dat
V		examples/{c++/solid_mechanics_model ← }/new_material/viscoelastic_maxwell/material_viscoelastic_maxwell_energies.cc
V		examples/{c++/solid_mechanics_model ← }/new_material/viscoelastic_maxwell/material_viscoelastic_maxwell_mesh.geo
A	(dir)	examples/c++/solid_mechanics_model/parallel/
V		examples/{c++/solid_mechanics_model ← }/parallel/CMakeLists.txt
A		examples/c++/solid_mechanics_model/parallel/README.rst
A	(dir)	examples/c++/solid_mechanics_model/parallel/images/
A		examples/c++/solid_mechanics_model/parallel/images/parallel.png
V		examples/{c++/solid_mechanics_model ← }/parallel/material.dat
A		examples/c++/solid_mechanics_model/parallel/parallel_2d.cc
V		examples/{c++/solid_mechanics_model ← }/parallel/square_2d.geo
A	(dir)	examples/c++/solid_mechanics_model/static/
V		examples/{c++/solid_mechanics_model ← }/static/CMakeLists.txt
A		examples/c++/solid_mechanics_model/static/README.rst
A	(dir)	examples/c++/solid_mechanics_model/static/images/
A		examples/c++/solid_mechanics_model/static/images/static_BC.svg
A		examples/c++/solid_mechanics_model/static/images/static_displ_mag.png
V		examples/{c++/solid_mechanics_model ← }/static/material.dat
A		examples/c++/solid_mechanics_model/static/square.geo
A		examples/c++/solid_mechanics_model/static/static.cc
V	(dir)	examples/{c++/structural_mechanics_model/ ← structural_mechanics}
V		examples/{c++/structural_mechanics_model ← structural_mechanics}/CMakeLists.txt
V		examples/{c++/structural_mechanics_model ← structural_mechanics}/bernoulli_beam_2_example.cc
D		examples/cohesive_element
V		examples/{cohesive_element → c++/solid_mechanics_cohesive_model}/CMakeLists.txt
D		examples/cohesive_element/cohesive_extrinsic
V		examples/{cohesive_element → c++/solid_mechanics_cohesive_model}/cohesive_extrinsic/CMakeLists.txt
D		examples/cohesive_element/cohesive_extrinsic/cohesive_extrinsic.cc
V		examples/{cohesive_element → c++/solid_mechanics_cohesive_model}/cohesive_extrinsic/material.dat
V		examples/{cohesive_element → c++/solid_mechanics_cohesive_model}/cohesive_extrinsic/triangle.geo
V		examples/{cohesive_element → c++/solid_mechanics_cohesive_model}/cohesive_extrinsic/triangle.msh
D		examples/cohesive_element/cohesive_extrinsic_ig_tg
V		examples/{cohesive_element → c++/solid_mechanics_cohesive_model}/cohesive_extrinsic_ig_tg/CMakeLists.txt
D		examples/cohesive_element/cohesive_extrinsic_ig_tg/cohesive_extrinsic_ig_tg.cc
V		examples/{cohesive_element → c++/solid_mechanics_cohesive_model}/cohesive_extrinsic_ig_tg/material.dat
V		examples/{cohesive_element → c++/solid_mechanics_cohesive_model}/cohesive_extrinsic_ig_tg/triangle.geo
D		examples/cohesive_element/cohesive_intrinsic
V		examples/{cohesive_element → c++/solid_mechanics_cohesive_model}/cohesive_intrinsic/CMakeLists.txt
D		examples/cohesive_element/cohesive_intrinsic/cohesive_intrinsic.cc
V		examples/{cohesive_element → c++/solid_mechanics_cohesive_model}/cohesive_intrinsic/material.dat
V		examples/{cohesive_element → c++/solid_mechanics_cohesive_model}/cohesive_intrinsic/triangle.geo
V		examples/{cohesive_element → c++/solid_mechanics_cohesive_model}/cohesive_intrinsic/triangle.msh
D		examples/contact_mechanics
V		examples/{contact_mechanics → c++/contact_mechanics_model/hertz}/CMakeLists.txt
V		examples/{contact_mechanics → c++/contact_mechanics_model/hertz}/cohesive-contact.geo
D		examples/contact_mechanics/cohesive_contact_explicit_dynamic.cc
D		examples/contact_mechanics/contact_explicit_dynamic.cc
D		examples/contact_mechanics/contact_explicit_static.cc
V		examples/{contact_mechanics → c++/contact_mechanics_model/hertz}/hertz.geo
V		examples/{contact_mechanics → c++/contact_mechanics_model/hertz}/material-cohesive.dat
V		examples/{contact_mechanics → c++/contact_mechanics_model/hertz}/material.dat
V	(dir)	examples/{embedded/ → c++/embedded_model}
V		examples/{embedded → c++/embedded_model}/CMakeLists.txt
V		examples/{embedded → c++/embedded_model}/concrete.geo
V		examples/{embedded → c++/embedded_model}/embedded.cc
V		examples/{embedded → c++/embedded_model}/material.dat
V		examples/{embedded → c++/embedded_model}/reinforcement.geo
D		examples/explicit
V		examples/{ → c++/solid_mechanics_model}/explicit/CMakeLists.txt
V		examples/{ → c++/solid_mechanics_model}/explicit/bar.geo
D		examples/explicit/explicit_dynamic.cc
V		examples/{ → c++/solid_mechanics_model}/explicit/material.dat
D		examples/heat_transfer
D		examples/heat_transfer/CMakeLists.txt
V		examples/{heat_transfer → c++/diffusion_model}/cube.geo
V		examples/{heat_transfer → c++/diffusion_model}/cube_tet.geo
D		examples/heat_transfer/heat_transfer_dynamics_2d.cc
D		examples/heat_transfer/heat_transfer_dynamics_3d.cc
D		examples/heat_transfer/heat_transfer_static_2d.cc
D		examples/heat_transfer/material.dat
V		examples/{heat_transfer → c++/diffusion_model}/square.geo
D		examples/implicit
V		examples/{ → c++/solid_mechanics_model}/implicit/CMakeLists.txt
V		examples/{ → c++/solid_mechanics_model}/implicit/beam.geo
D		examples/implicit/implicit_dynamic.cc
V		examples/{ → c++/solid_mechanics_model}/implicit/material_dynamic.dat
D		examples/io
V		examples/{ → c++/solid_mechanics_model}/io/CMakeLists.txt
D		examples/io/dumper
V		examples/{ → c++/solid_mechanics_model}/io/dumper/CMakeLists.txt
D		examples/io/dumper/dumpable_interface.cc
D		examples/io/dumper/dumper_low_level.cc
V		examples/{ → c++/solid_mechanics_model}/io/dumper/locomotive_tools.cc
V		examples/{ → c++/solid_mechanics_model}/io/dumper/locomotive_tools.hh
V		examples/{ → c++/solid_mechanics_model}/io/dumper/swiss_train.geo
D		examples/io/parser
V		examples/{ → c++/solid_mechanics_model}/io/parser/CMakeLists.txt
D		examples/io/parser/example_parser.cc
V		examples/{ → c++/solid_mechanics_model}/io/parser/input_file.dat
V		examples/{ → c++/solid_mechanics_model}/io/parser/swiss_cheese.geo
D		examples/new_material
V		examples/{ → c++/solid_mechanics_model}/new_material/CMakeLists.txt
V		examples/{ → c++/solid_mechanics_model}/new_material/barre_trou.geo
D		examples/new_material/local_material_damage.cc
D		examples/new_material/local_material_damage.hh
V		examples/{ → c++/solid_mechanics_model}/new_material/local_material_damage_inline_impl.hh
V		examples/{ → c++/solid_mechanics_model}/new_material/material.dat
D		examples/new_material/new_local_material.cc
V	(dir)	examples/{new_material/viscoelastic_maxwell/ → c++/solid_mechanics_model/new_material/viscoelastic_maxwell}
V		examples/{ → c++/solid_mechanics_model}/new_material/viscoelastic_maxwell/CMakeLists.txt
V		examples/{ → c++/solid_mechanics_model}/new_material/viscoelastic_maxwell/material_viscoelastic_maxwell.dat
V		examples/{ → c++/solid_mechanics_model}/new_material/viscoelastic_maxwell/material_viscoelastic_maxwell_energies.cc
V		examples/{ → c++/solid_mechanics_model}/new_material/viscoelastic_maxwell/material_viscoelastic_maxwell_mesh.geo
D		examples/parallel
V		examples/{ → c++/solid_mechanics_model}/parallel/CMakeLists.txt
V		examples/{ → c++/solid_mechanics_model}/parallel/material.dat
D		examples/parallel/parallel_2d.cc
V		examples/{ → c++/solid_mechanics_model}/parallel/square_2d.geo
D		examples/phase_field
V		examples/{phase_field → c++/phase_field_model}/CMakeLists.txt
V		examples/{phase_field → c++/phase_field_model}/material_notch.dat
D		examples/phase_field/phase_field_notch.cc
D		examples/phase_field/phase_field_parallel.cc
V		examples/{phase_field → c++/phase_field_model}/square_notch.geo
M		examples/python/CMakeLists.txt
M		examples/python/README.rst
D		examples/python/cohesive
V		examples/python/{ → solid_mechanics_cohesive_model}/cohesive/CMakeLists.txt
D		examples/python/cohesive/custom_material.py
V		examples/python/{ → solid_mechanics_cohesive_model}/cohesive/local_material.dat
V		examples/python/{ → solid_mechanics_cohesive_model}/cohesive/material.dat
V		examples/python/{ → solid_mechanics_cohesive_model}/cohesive/plate.geo
V		examples/python/{ → solid_mechanics_cohesive_model}/cohesive/plate.py
D		examples/python/contact-mechanics
V		examples/python/{contact-mechanics → contact_mechanics_model/compression}/CMakeLists.txt
V		examples/python/{contact-mechanics → contact_mechanics_model/compression}/compression.dat
V		examples/python/{contact-mechanics → contact_mechanics_model/compression}/compression.geo
V		examples/python/{contact-mechanics → contact_mechanics_model/compression}/compression.py
V		examples/python/{contact-mechanics → contact_mechanics_model/compression}/detection-explicit.dat
V		examples/python/{contact-mechanics → contact_mechanics_model/compression}/detection-explicit.msh
V		examples/python/{contact-mechanics → contact_mechanics_model/compression}/detection-explicit.py
A	(dir)	examples/python/contact_mechanics_model/
A		examples/python/contact_mechanics_model/CMakeLists.txt
A		examples/python/contact_mechanics_model/README.rst
A	(dir)	examples/python/contact_mechanics_model/compression/
V		examples/python/{contact_mechanics_model/compression ← contact-mechanics}/CMakeLists.txt
A		examples/python/contact_mechanics_model/compression/README.rst
V		examples/python/{contact_mechanics_model/compression ← contact-mechanics}/compression.dat
V		examples/python/{contact_mechanics_model/compression ← contact-mechanics}/compression.geo
V		examples/python/{contact_mechanics_model/compression ← contact-mechanics}/compression.py
V		examples/python/{contact_mechanics_model/compression ← contact-mechanics}/detection-explicit.dat
V		examples/python/{contact_mechanics_model/compression ← contact-mechanics}/detection-explicit.msh
V		examples/python/{contact_mechanics_model/compression ← contact-mechanics}/detection-explicit.py
A	(dir)	examples/python/contact_mechanics_model/compression/images/
A		examples/python/contact_mechanics_model/compression/images/compression.svg
A		examples/python/contact_mechanics_model/compression/images/contact.gif
A	(dir)	examples/python/contact_mechanics_model/friction/
A		examples/python/contact_mechanics_model/friction/CMakeLists.txt
A		examples/python/contact_mechanics_model/friction/README.rst
A		examples/python/contact_mechanics_model/friction/bloc.geo
A		examples/python/contact_mechanics_model/friction/bloc_friction.py
A		examples/python/contact_mechanics_model/friction/material.dat
D		examples/python/custom-material
V		examples/python/{ → solid_mechanics_model}/custom-material/CMakeLists.txt
V		examples/python/{ → solid_mechanics_model}/custom-material/bar.geo
D		examples/python/custom-material/bi-material.py
V		examples/python/{ → solid_mechanics_model}/custom-material/custom-material.py
V		examples/python/{ → solid_mechanics_model}/custom-material/material.dat
V		examples/python/{ → solid_mechanics_model}/custom-material/square.geo
D		examples/python/dynamics
V		examples/python/{ → solid_mechanics_model}/dynamics/CMakeLists.txt
V		examples/python/{ → solid_mechanics_model}/dynamics/bar.geo
V		examples/python/{ → solid_mechanics_model}/dynamics/dynamics.py
V		examples/python/{ → solid_mechanics_model}/dynamics/material.dat
D		examples/python/eigen_modes
V		examples/python/{ → solid_mechanics_model}/eigen_modes/CMakeLists.txt
V		examples/python/{ → solid_mechanics_model}/eigen_modes/eigen_modes.py
V		examples/python/{ → solid_mechanics_model}/eigen_modes/image_saver.py
V		examples/python/{ → solid_mechanics_model}/eigen_modes/material.dat
D		examples/python/fragmentation
V		examples/python/{ → solid_mechanics_cohesive_model}/fragmentation/CMakeLists.txt
V		examples/python/{ → solid_mechanics_cohesive_model}/fragmentation/fragmentation.py
V		examples/python/{ → solid_mechanics_cohesive_model}/fragmentation/fragmentation_mesh.geo
V		examples/python/{ → solid_mechanics_cohesive_model}/fragmentation/material.dat
D		examples/python/phase-field
V		examples/python/{phase-field → phase_field_model}/CMakeLists.txt
V		examples/python/{phase-field → phase_field_model}/material.dat
V		examples/python/{phase-field → phase_field_model}/material_static.dat
D		examples/python/phase-field/phasefield-dynamic.py
D		examples/python/phase-field/phasefield-static.py
V		examples/python/{phase-field → phase_field_model}/plate.geo
V		examples/python/{phase-field → phase_field_model}/plate_static.geo
A	(dir)	examples/python/phase_field_model/
V		examples/python/{phase_field_model ← phase-field}/CMakeLists.txt
A		examples/python/phase_field_model/README.rst
A	(dir)	examples/python/phase_field_model/images/
A		examples/python/phase_field_model/images/phasefield-dynamic-geo.svg
A		examples/python/phase_field_model/images/phasefield-dynamic.png
A		examples/python/phase_field_model/images/phasefield-static-geo.svg
A		examples/python/phase_field_model/images/phasefield-static.png
V		examples/python/{phase_field_model ← phase-field}/material.dat
V		examples/python/{phase_field_model ← phase-field}/material_static.dat
A		examples/python/phase_field_model/phasefield-dynamic.py
A		examples/python/phase_field_model/phasefield-static.py
V		examples/python/{phase_field_model ← phase-field}/plate.geo
V		examples/python/{phase_field_model ← phase-field}/plate_static.geo
D		examples/python/plate-hole
V		examples/python/{ → solid_mechanics_model}/plate-hole/CMakeLists.txt
V		examples/python/{plate-hole → solid_mechanics_model/stiffness_matrix}/material.dat
V		examples/python/{ → solid_mechanics_model}/plate-hole/plate.geo
V		examples/python/{ → solid_mechanics_model}/plate-hole/plate.py
A	(dir)	examples/python/solid_mechanics_cohesive_model/
A		examples/python/solid_mechanics_cohesive_model/CMakeLists.txt
A		examples/python/solid_mechanics_cohesive_model/README.rst
A	(dir)	examples/python/solid_mechanics_cohesive_model/cohesive/
V		examples/python/{solid_mechanics_cohesive_model ← }/cohesive/CMakeLists.txt
A		examples/python/solid_mechanics_cohesive_model/cohesive/README.rst
A		examples/python/solid_mechanics_cohesive_model/cohesive/custom_material.py
A	(dir)	examples/python/solid_mechanics_cohesive_model/cohesive/images/
A		examples/python/solid_mechanics_cohesive_model/cohesive/images/plate.gif
A		examples/python/solid_mechanics_cohesive_model/cohesive/images/plate.svg
V		examples/python/{solid_mechanics_cohesive_model ← }/cohesive/local_material.dat
V		examples/python/{solid_mechanics_cohesive_model ← }/cohesive/material.dat
V		examples/python/{solid_mechanics_cohesive_model ← }/cohesive/plate.geo
V		examples/python/{solid_mechanics_cohesive_model ← }/cohesive/plate.py
A	(dir)	examples/python/solid_mechanics_cohesive_model/fragmentation/
V		examples/python/{solid_mechanics_cohesive_model ← }/fragmentation/CMakeLists.txt
A		examples/python/solid_mechanics_cohesive_model/fragmentation/README.rst
V		examples/python/{solid_mechanics_cohesive_model ← }/fragmentation/fragmentation.py
V		examples/python/{solid_mechanics_cohesive_model ← }/fragmentation/fragmentation_mesh.geo
A	(dir)	examples/python/solid_mechanics_cohesive_model/fragmentation/images/
A		examples/python/solid_mechanics_cohesive_model/fragmentation/images/fragmentation.gif
V		examples/python/{solid_mechanics_cohesive_model ← }/fragmentation/material.dat
A	(dir)	examples/python/solid_mechanics_cohesive_model/multi-material/
A		examples/python/solid_mechanics_cohesive_model/multi-material/CMakeLists.txt
A		examples/python/solid_mechanics_cohesive_model/multi-material/README.rst
A		examples/python/solid_mechanics_cohesive_model/multi-material/material.dat
A		examples/python/solid_mechanics_cohesive_model/multi-material/plate.geo
A		examples/python/solid_mechanics_cohesive_model/multi-material/plate.py
A	(dir)	examples/python/solid_mechanics_model/
A		examples/python/solid_mechanics_model/CMakeLists.txt
A		examples/python/solid_mechanics_model/README.rst
A	(dir)	examples/python/solid_mechanics_model/custom-material/
V		examples/python/{solid_mechanics_model ← }/custom-material/CMakeLists.txt
A		examples/python/solid_mechanics_model/custom-material/README.rst
V		examples/python/{solid_mechanics_model ← }/custom-material/bar.geo
A		examples/python/solid_mechanics_model/custom-material/bi-material.py
V		examples/python/{solid_mechanics_model ← }/custom-material/custom-material.py
A	(dir)	examples/python/solid_mechanics_model/custom-material/images/
A		examples/python/solid_mechanics_model/custom-material/images/pulse_bar_custom.gif
A		examples/python/solid_mechanics_model/custom-material/images/square_displ.png
V		examples/python/{solid_mechanics_model ← }/custom-material/material.dat
V		examples/python/{solid_mechanics_model ← }/custom-material/square.geo
A	(dir)	examples/python/solid_mechanics_model/dynamics/
V		examples/python/{solid_mechanics_model ← }/dynamics/CMakeLists.txt
A		examples/python/solid_mechanics_model/dynamics/README.rst
V		examples/python/{solid_mechanics_model ← }/dynamics/bar.geo
V		examples/python/{solid_mechanics_model ← }/dynamics/dynamics.py
A	(dir)	examples/python/solid_mechanics_model/dynamics/images/
A		examples/python/solid_mechanics_model/dynamics/images/bar.gif
A		examples/python/solid_mechanics_model/dynamics/images/bar_geom.svg
V		examples/python/{solid_mechanics_model ← }/dynamics/material.dat
A	(dir)	examples/python/solid_mechanics_model/eigen_modes/
V		examples/python/{solid_mechanics_model ← }/eigen_modes/CMakeLists.txt
A		examples/python/solid_mechanics_model/eigen_modes/README.rst
V		examples/python/{solid_mechanics_model ← }/eigen_modes/eigen_modes.py
V		examples/python/{solid_mechanics_model ← }/eigen_modes/image_saver.py
A	(dir)	examples/python/solid_mechanics_model/eigen_modes/images/
A		examples/python/solid_mechanics_model/eigen_modes/images/eigen_modes.png
V		examples/python/{solid_mechanics_model ← }/eigen_modes/material.dat
A	(dir)	examples/python/solid_mechanics_model/plate-hole/
V		examples/python/{solid_mechanics_model ← }/plate-hole/CMakeLists.txt
A		examples/python/solid_mechanics_model/plate-hole/README.rst
A	(dir)	examples/python/solid_mechanics_model/plate-hole/images/
A		examples/python/solid_mechanics_model/plate-hole/images/plate_hole.svg
A		examples/python/solid_mechanics_model/plate-hole/images/plate_hole_displ_mag.png
A		examples/python/solid_mechanics_model/plate-hole/material.dat
V		examples/python/{solid_mechanics_model ← }/plate-hole/plate.geo
V		examples/python/{solid_mechanics_model ← }/plate-hole/plate.py
A	(dir)	examples/python/solid_mechanics_model/solver_callback/
V		examples/python/{solid_mechanics_model ← }/solver_callback/CMakeLists.txt
A		examples/python/solid_mechanics_model/solver_callback/README.rst
V		examples/python/{solid_mechanics_model ← }/solver_callback/bar.geo
V		examples/python/{solid_mechanics_model ← }/solver_callback/material.dat
V		examples/python/{solid_mechanics_model ← }/solver_callback/solver_callback.py
A	(dir)	examples/python/solid_mechanics_model/stiffness_matrix/
V		examples/python/{solid_mechanics_model ← }/stiffness_matrix/CMakeLists.txt
A		examples/python/solid_mechanics_model/stiffness_matrix/README.rst
V		examples/python/{solid_mechanics_model/stiffness_matrix ← plate-hole}/material.dat
V		examples/python/{solid_mechanics_model ← }/stiffness_matrix/plate.geo
V		examples/python/{solid_mechanics_model ← }/stiffness_matrix/plate.msh
V		examples/python/{solid_mechanics_model ← }/stiffness_matrix/stiffness_matrix.py
D		examples/python/solver_callback
V		examples/python/{ → solid_mechanics_model}/solver_callback/CMakeLists.txt
V		examples/python/{ → solid_mechanics_model}/solver_callback/bar.geo
V		examples/python/{ → solid_mechanics_model}/solver_callback/material.dat
V		examples/python/{ → solid_mechanics_model}/solver_callback/solver_callback.py
D		examples/python/stiffness_matrix
V		examples/python/{ → solid_mechanics_model}/stiffness_matrix/CMakeLists.txt
D		examples/python/stiffness_matrix/material.dat
V		examples/python/{ → solid_mechanics_model}/stiffness_matrix/plate.geo
V		examples/python/{ → solid_mechanics_model}/stiffness_matrix/plate.msh
V		examples/python/{ → solid_mechanics_model}/stiffness_matrix/stiffness_matrix.py
D		examples/python/structural_mechanics
V		examples/python/{structural_mechanics → structural_mechanics_model}/CMakeLists.txt
V		examples/python/{structural_mechanics → structural_mechanics_model}/structural_mechanics.py
V		examples/python/{structural_mechanics → structural_mechanics_model}/structural_mechanics_dynamics.py
V		examples/python/{structural_mechanics → structural_mechanics_model}/structural_mechanics_softening.py
A	(dir)	examples/python/structural_mechanics_model/
V		examples/python/{structural_mechanics_model ← structural_mechanics}/CMakeLists.txt
A	(dir)	examples/python/structural_mechanics_model/images/
A		examples/python/structural_mechanics_model/images/displacements.png
A		examples/python/structural_mechanics_model/images/displacements_softening.png
V		examples/python/{structural_mechanics_model ← structural_mechanics}/structural_mechanics.py
V		examples/python/{structural_mechanics_model ← structural_mechanics}/structural_mechanics_dynamics.py
V		examples/python/{structural_mechanics_model ← structural_mechanics}/structural_mechanics_softening.py
D		examples/static
V		examples/{ → c++/solid_mechanics_model}/static/CMakeLists.txt
V		examples/{ → c++/solid_mechanics_model}/static/material.dat
D		examples/static/square.geo
D		examples/static/static.cc
V	(dir)	examples/{structural_mechanics/ → c++/structural_mechanics_model}
V		examples/{structural_mechanics → c++/structural_mechanics_model}/CMakeLists.txt
V		examples/{structural_mechanics → c++/structural_mechanics_model}/bernoulli_beam_2_example.cc
M		extra_packages/extra-materials/package.cmake
M		extra_packages/extra-materials/src/material_FE2/solid_mechanics_model_RVE.cc
M		extra_packages/igfem/package.cmake
M		extra_packages/igfem/src/material_igfem/material_igfem_inline_impl.hh
A	(dir)	joss/
A		joss/.gitignore
A		joss/compile.sh
A		joss/paper.bib
A		joss/paper.md
A	(dir)	joss/results/
A		joss/results/TTS.svg
A		joss/results/cohesive_insertion.png
A		joss/results/cube.svg
A		joss/results/plot.py
A		joss/results/timmings_cohesive_gcc_jed_v4.0.1.csv
A		joss/results/timmings_cohesive_gcc_jed_v5.0.4.csv
A		joss/results/timmings_elastic_gcc_jed_v4.0.1.csv
A		joss/results/timmings_elastic_gcc_jed_v5.0.4.csv
M		packages/boost.cmake
M		packages/cohesive_element.cmake
M		packages/contact_mechanics.cmake
M		packages/core.cmake
M		packages/damage_non_local.cmake
A		packages/diffusion.cmake
M		packages/embedded.cmake
D		packages/heat_transfer.cmake
M		packages/implicit.cmake
M		packages/solid_mechanics.cmake
M		packages/z_mumps.cmake
M		pyproject.toml
M		python/CMakeLists.txt
M		python/akantu/__init__.py
M		python/py_aka_array.hh
M		python/py_aka_common.cc
M		python/py_aka_error.cc
M		python/py_akantu.cc
M		python/py_boundary_conditions.cc
A		python/py_constitutive_law.cc
A		python/py_constitutive_law.hh
A		python/py_constitutive_law_selector.cc
A		python/py_constitutive_law_selector.hh
A		python/py_constitutive_laws_handler.hh
M		python/py_contact_mechanics_model.hh
M		python/py_fe_engine.cc
M		python/py_group_manager.cc
M		python/py_heat_transfer_model.cc
M		python/py_material.cc
D		python/py_material_selector.cc
D		python/py_material_selector.hh
M		python/py_mesh.cc
M		python/py_model.cc
M		python/py_model_couplers.cc
M		python/py_model_couplers.hh
M		python/py_parser.cc
M		python/py_phase_field_model.cc
M		python/py_phase_field_model.hh
M		python/py_solid_mechanics_model.cc
M		python/py_solid_mechanics_model_cohesive.cc
M		setup.cfg
M		setup.py
M		src/CMakeLists.txt
M		src/common/aka_array.hh
M		src/common/aka_array_tmpl.hh
M		src/common/aka_bbox.hh
M		src/common/aka_common.hh
M		src/common/aka_config.cc.in
M		src/common/aka_config.hh.in
M		src/common/aka_element_classes_info.hh
D		src/common/aka_element_classes_info.hh.in
M		src/common/aka_element_classes_info_inline_impl.hh
M		src/common/aka_error.cc
M		src/common/aka_error.hh
M		src/common/aka_extern.cc
M		src/common/aka_random_generator.hh
M		src/common/aka_types.hh
M		src/common/aka_types_eigen_matrix_base_plugin.hh
M		src/common/aka_types_eigen_plain_object_base_plugin.hh
M		src/common/aka_view_iterators.hh
D		src/common/aka_voigthelper.cc
M		src/common/aka_voigthelper.hh
M		src/common/aka_voigthelper_tmpl.hh
M		src/fe_engine/element_class_structural.hh
M		src/fe_engine/element_classes/element_class_hermite_inline_impl.hh
M		src/fe_engine/element_classes/element_class_quadrangle_4_inline_impl.hh
M		src/fe_engine/element_type_conversion.hh
M		src/fe_engine/fe_engine.hh
M		src/fe_engine/fe_engine_inline_impl.hh
M		src/fe_engine/fe_engine_template.hh
M		src/fe_engine/fe_engine_template_tmpl.hh
M		src/fe_engine/integration_point.hh
M		src/fe_engine/integrator_gauss.hh
M		src/fe_engine/integrator_gauss_inline_impl.hh
M		src/fe_engine/shape_functions.cc
M		src/fe_engine/shape_functions_inline_impl.hh
M		src/fe_engine/shape_lagrange.hh
M		src/fe_engine/shape_lagrange_inline_impl.hh
M		src/fe_engine/shape_structural_inline_impl.hh
M		src/io/dumper/dumpable.hh
M		src/io/dumper/dumpable_iohelper.hh
M		src/io/dumper/dumper_nodal_field.hh
M		src/io/mesh_io/mesh_io_msh.cc
M		src/io/parser/algebraic_parser.hh
A		src/io/parser/algebraic_parser_x3.cc
A		src/io/parser/algebraic_parser_x3.hh
M		src/io/parser/input_file_parser.hh
M		src/io/parser/parser.hh
D		src/io/parser/parser_random.cc
M		src/io/parser/parser_real.cc
D		src/io/parser/parser_types.cc
M		src/mesh/element_group.cc
M		src/mesh/element_group.hh
M		src/mesh/element_type_map.cc
M		src/mesh/element_type_map.hh
M		src/mesh/element_type_map_tmpl.hh
M		src/mesh/mesh.cc
M		src/mesh/mesh.hh
M		src/mesh/mesh_accessor.hh
M		src/mesh/mesh_inline_impl.hh
M		src/mesh/node_group.hh
M		src/mesh/node_group_inline_impl.hh
M		src/mesh_utils/cohesive_element_inserter_helper.cc
M		src/mesh_utils/cohesive_element_inserter_helper.hh
M		src/mesh_utils/mesh_partition/mesh_partition_scotch.cc
M		src/mesh_utils/mesh_utils.cc
M		src/mesh_utils/mesh_utils_distribution.cc
M		src/mesh_utils/mesh_utils_distribution.hh
M		src/model/common/boundary_condition/boundary_condition.hh
M		src/model/common/boundary_condition/boundary_condition_functor.hh
M		src/model/common/boundary_condition/boundary_condition_functor_inline_impl.hh
M		src/model/common/boundary_condition/boundary_condition_tmpl.hh
A	(dir)	src/model/common/constitutive_laws/
A		src/model/common/constitutive_laws/constitutive_law.hh
A		src/model/common/constitutive_laws/constitutive_law_non_local_interface.hh
A		src/model/common/constitutive_laws/constitutive_law_non_local_interface_tmpl.hh
A		src/model/common/constitutive_laws/constitutive_law_selector.hh
A		src/model/common/constitutive_laws/constitutive_law_selector_tmpl.hh
A		src/model/common/constitutive_laws/constitutive_law_tmpl.hh
A		src/model/common/constitutive_laws/constitutive_laws_handler.hh
A		src/model/common/constitutive_laws/constitutive_laws_handler_tmpl.hh
A		src/model/common/constitutive_laws/internal_field.hh
A		src/model/common/constitutive_laws/internal_field_tmpl.hh
A		src/model/common/constitutive_laws/random_internal_field.hh
A		src/model/common/constitutive_laws/random_internal_field_tmpl.hh
M		src/model/common/dof_manager/dof_manager.cc
M		src/model/common/dof_manager/dof_manager_default.cc
M		src/model/common/dof_manager/dof_manager_default_inline_impl.hh
M		src/model/common/dof_manager/dof_manager_inline_impl.hh
M		src/model/common/integration_scheme/generalized_trapezoidal.cc
M		src/model/common/model_solver.cc
M		src/model/common/model_solver.hh
M		src/model/common/non_linear_solver/non_linear_solver_default.hh
M		src/model/common/non_linear_solver/non_linear_solver_linear.cc
M		src/model/common/non_linear_solver/non_linear_solver_linear.hh
M		src/model/common/non_linear_solver/non_linear_solver_newton_raphson.cc
M		src/model/common/non_linear_solver/non_linear_solver_newton_raphson.hh
M		src/model/common/non_local_toolbox/neighborhood_base.cc
M		src/model/common/non_local_toolbox/neighborhood_base.hh
M		src/model/common/non_local_toolbox/neighborhood_base_inline_impl.hh
M		src/model/common/non_local_toolbox/neighborhoods_criterion_evaluation/neighborhood_max_criterion.cc
M		src/model/common/non_local_toolbox/neighborhoods_criterion_evaluation/neighborhood_max_criterion_inline_impl.hh
M		src/model/common/non_local_toolbox/non_local_manager.cc
M		src/model/common/non_local_toolbox/non_local_manager.hh
M		src/model/common/non_local_toolbox/non_local_manager_callback.hh
M		src/model/common/non_local_toolbox/non_local_neighborhood.hh
M		src/model/common/non_local_toolbox/non_local_neighborhood_base.cc
M		src/model/common/non_local_toolbox/non_local_neighborhood_base.hh
M		src/model/common/non_local_toolbox/non_local_neighborhood_tmpl.hh
M		src/model/common/solver_callback.cc
M		src/model/common/solver_callback.hh
M		src/model/contact_mechanics/contact_detector.hh
D		src/model/contact_mechanics/contact_detector_inline_impl.cc
A		src/model/contact_mechanics/contact_detector_inline_impl.hh
M		src/model/contact_mechanics/contact_element.hh
M		src/model/contact_mechanics/contact_mechanics_model.cc
M		src/model/contact_mechanics/contact_mechanics_model.hh
M		src/model/contact_mechanics/geometry_utils.hh
V		src/model/contact_mechanics/{geometry_utils_inline_impl.cc → geometry_utils_inline_impl.hh}
V		src/model/contact_mechanics/{geometry_utils_inline_impl.hh ← geometry_utils_inline_impl.cc}
M		src/model/contact_mechanics/resolution.cc
M		src/model/contact_mechanics/resolution.hh
M		src/model/contact_mechanics/resolution_utils.hh
M		src/model/contact_mechanics/resolutions/resolution_penalty.cc
M		src/model/contact_mechanics/resolutions/resolution_penalty.hh
M		src/model/contact_mechanics/resolutions/resolution_penalty_quadratic.hh
M		src/model/contact_mechanics/surface_selector.hh
A	(dir)	src/model/diffusion_model/
A		src/model/diffusion_model/diffusion_law.cc
A		src/model/diffusion_model/diffusion_law.hh
A		src/model/diffusion_model/diffusion_model.cc
A		src/model/diffusion_model/diffusion_model.hh
A		src/model/diffusion_model/heat_diffusion.cc
A		src/model/diffusion_model/heat_diffusion.hh
A		src/model/diffusion_model/heat_transfer_model.hh
D		src/model/heat_transfer
D		src/model/heat_transfer/heat_transfer_model.cc
D		src/model/heat_transfer/heat_transfer_model.hh
M		src/model/model.cc
M		src/model/model.hh
M		src/model/model_couplers/cohesive_contact_solvercallback.hh
M		src/model/model_couplers/coupler_solid_cohesive_contact.cc
M		src/model/model_couplers/coupler_solid_cohesive_contact.hh
M		src/model/model_couplers/coupler_solid_contact.cc
M		src/model/model_couplers/coupler_solid_contact.hh
M		src/model/model_couplers/coupler_solid_contact_tmpl.hh
M		src/model/model_couplers/coupler_solid_phasefield.cc
M		src/model/model_couplers/coupler_solid_phasefield.hh
M		src/model/model_inline_impl.hh
M		src/model/model_options.hh
M		src/model/phase_field/phase_field_element_filter.hh
M		src/model/phase_field/phase_field_model.cc
M		src/model/phase_field/phase_field_model.hh
M		src/model/phase_field/phase_field_model_inline_impl.hh
M		src/model/phase_field/phasefield.cc
M		src/model/phase_field/phasefield.hh
M		src/model/phase_field/phasefield_inline_impl.hh
M		src/model/phase_field/phasefield_selector.hh
M		src/model/phase_field/phasefield_selector_tmpl.hh
M		src/model/phase_field/phasefields/phasefield_exponential.cc
M		src/model/phase_field/phasefields/phasefield_exponential.hh
M		src/model/phase_field/phasefields/phasefield_exponential_inline_impl.hh
M		src/model/solid_mechanics/material.cc
M		src/model/solid_mechanics/material.hh
M		src/model/solid_mechanics/material_inline_impl.hh
D		src/model/solid_mechanics/material_list.hh.in
M		src/model/solid_mechanics/material_selector.hh
M		src/model/solid_mechanics/material_selector_tmpl.hh
D		src/model/solid_mechanics/materials/internal_field.hh
D		src/model/solid_mechanics/materials/internal_field_tmpl.hh
D		src/model/solid_mechanics/materials/material_core_includes.hh
M		src/model/solid_mechanics/materials/material_damage/material_anisotropic_damage.cc
M		src/model/solid_mechanics/materials/material_damage/material_anisotropic_damage.hh
M		src/model/solid_mechanics/materials/material_damage/material_anisotropic_damage_tmpl.hh
M		src/model/solid_mechanics/materials/material_damage/material_damage.hh
M		src/model/solid_mechanics/materials/material_damage/material_damage_non_local.hh
M		src/model/solid_mechanics/materials/material_damage/material_damage_tmpl.hh
M		src/model/solid_mechanics/materials/material_damage/material_marigo.cc
M		src/model/solid_mechanics/materials/material_damage/material_marigo.hh
M		src/model/solid_mechanics/materials/material_damage/material_marigo_inline_impl.hh
M		src/model/solid_mechanics/materials/material_damage/material_marigo_non_local.cc
M		src/model/solid_mechanics/materials/material_damage/material_marigo_non_local.hh
M		src/model/solid_mechanics/materials/material_damage/material_mazars.cc
M		src/model/solid_mechanics/materials/material_damage/material_mazars.hh
M		src/model/solid_mechanics/materials/material_damage/material_mazars_inline_impl.hh
M		src/model/solid_mechanics/materials/material_damage/material_mazars_non_local.hh
M		src/model/solid_mechanics/materials/material_damage/material_mazars_non_local_tmpl.hh
M		src/model/solid_mechanics/materials/material_damage/material_phasefield.cc
M		src/model/solid_mechanics/materials/material_damage/material_phasefield.hh
M		src/model/solid_mechanics/materials/material_damage/material_phasefield_inline_impl.hh
M		src/model/solid_mechanics/materials/material_damage/material_von_mises_mazars.hh
M		src/model/solid_mechanics/materials/material_damage/material_von_mises_mazars_non_local.cc
M		src/model/solid_mechanics/materials/material_elastic.cc
M		src/model/solid_mechanics/materials/material_elastic.hh
M		src/model/solid_mechanics/materials/material_elastic_linear_anisotropic.cc
M		src/model/solid_mechanics/materials/material_elastic_linear_anisotropic.hh
M		src/model/solid_mechanics/materials/material_elastic_linear_anisotropic_inline_impl.hh
M		src/model/solid_mechanics/materials/material_elastic_orthotropic.cc
D		src/model/solid_mechanics/materials/material_embedded/material_embedded_includes.hh
M		src/model/solid_mechanics/materials/material_embedded/material_reinforcement.hh
M		src/model/solid_mechanics/materials/material_embedded/material_reinforcement_tmpl.hh
M		src/model/solid_mechanics/materials/material_finite_deformation/material_neohookean.cc
M		src/model/solid_mechanics/materials/material_finite_deformation/material_neohookean.hh
M		src/model/solid_mechanics/materials/material_finite_deformation/material_neohookean_inline_impl.hh
M		src/model/solid_mechanics/materials/material_non_local.hh
D		src/model/solid_mechanics/materials/material_non_local_includes.hh
D		src/model/solid_mechanics/materials/material_non_local_tmpl.hh
M		src/model/solid_mechanics/materials/material_plastic/material_drucker_prager.cc
M		src/model/solid_mechanics/materials/material_plastic/material_drucker_prager.hh
M		src/model/solid_mechanics/materials/material_plastic/material_linear_isotropic_hardening.cc
M		src/model/solid_mechanics/materials/material_plastic/material_plastic.cc
M		src/model/solid_mechanics/materials/material_plastic/material_plastic.hh
M		src/model/solid_mechanics/materials/material_thermal.cc
M		src/model/solid_mechanics/materials/material_thermal.hh
M		src/model/solid_mechanics/materials/material_viscoelastic/material_standard_linear_solid_deviatoric.cc
M		src/model/solid_mechanics/materials/material_viscoelastic/material_standard_linear_solid_deviatoric.hh
M		src/model/solid_mechanics/materials/material_viscoelastic/material_viscoelastic_maxwell.cc
M		src/model/solid_mechanics/materials/material_viscoelastic/material_viscoelastic_maxwell.hh
M		src/model/solid_mechanics/materials/plane_stress_toolbox.hh
M		src/model/solid_mechanics/materials/plane_stress_toolbox_tmpl.hh
D		src/model/solid_mechanics/materials/random_internal_field.hh
D		src/model/solid_mechanics/materials/random_internal_field_tmpl.hh
M		src/model/solid_mechanics/materials/weight_functions/remove_damaged_weight_function_inline_impl.hh
M		src/model/solid_mechanics/solid_mechanics_model.cc
M		src/model/solid_mechanics/solid_mechanics_model.hh
M		src/model/solid_mechanics/solid_mechanics_model_cohesive/material_selector_cohesive.cc
M		src/model/solid_mechanics/solid_mechanics_model_cohesive/material_selector_cohesive.hh
M		src/model/solid_mechanics/solid_mechanics_model_cohesive/materials/cohesive_internal_field.hh
M		src/model/solid_mechanics/solid_mechanics_model_cohesive/materials/cohesive_internal_field_tmpl.hh
M		src/model/solid_mechanics/solid_mechanics_model_cohesive/materials/constitutive_laws/material_cohesive_bilinear.cc
M		src/model/solid_mechanics/solid_mechanics_model_cohesive/materials/constitutive_laws/material_cohesive_exponential.cc
M		src/model/solid_mechanics/solid_mechanics_model_cohesive/materials/constitutive_laws/material_cohesive_linear.cc
M		src/model/solid_mechanics/solid_mechanics_model_cohesive/materials/constitutive_laws/material_cohesive_linear.hh
M		src/model/solid_mechanics/solid_mechanics_model_cohesive/materials/constitutive_laws/material_cohesive_linear_fatigue.cc
M		src/model/solid_mechanics/solid_mechanics_model_cohesive/materials/constitutive_laws/material_cohesive_linear_fatigue.hh
M		src/model/solid_mechanics/solid_mechanics_model_cohesive/materials/constitutive_laws/material_cohesive_linear_friction.cc
M		src/model/solid_mechanics/solid_mechanics_model_cohesive/materials/constitutive_laws/material_cohesive_linear_friction.hh
M		src/model/solid_mechanics/solid_mechanics_model_cohesive/materials/constitutive_laws/material_cohesive_linear_inline_impl.hh
M		src/model/solid_mechanics/solid_mechanics_model_cohesive/materials/constitutive_laws/material_cohesive_linear_uncoupled.cc
M		src/model/solid_mechanics/solid_mechanics_model_cohesive/materials/constitutive_laws/material_cohesive_linear_uncoupled.hh
M		src/model/solid_mechanics/solid_mechanics_model_cohesive/materials/material_cohesive.cc
M		src/model/solid_mechanics/solid_mechanics_model_cohesive/materials/material_cohesive.hh
D		src/model/solid_mechanics/solid_mechanics_model_cohesive/materials/material_cohesive_includes.hh
M		src/model/solid_mechanics/solid_mechanics_model_cohesive/materials/material_cohesive_inline_impl.hh
M		src/model/solid_mechanics/solid_mechanics_model_cohesive/solid_mechanics_model_cohesive.cc
M		src/model/solid_mechanics/solid_mechanics_model_cohesive/solid_mechanics_model_cohesive.hh
M		src/model/solid_mechanics/solid_mechanics_model_cohesive/solid_mechanics_model_cohesive_inline_impl.hh
M		src/model/solid_mechanics/solid_mechanics_model_cohesive/solid_mechanics_model_cohesive_parallel.cc
D		src/model/solid_mechanics/solid_mechanics_model_inline_impl.hh
M		src/model/solid_mechanics/solid_mechanics_model_io.cc
D		src/model/solid_mechanics/solid_mechanics_model_material.cc
D		src/model/solid_mechanics/solid_mechanics_model_tmpl.hh
M		src/model/structural_mechanics/structural_mechanics_model.hh
M		src/solver/solver_vector.hh
M		src/solver/solver_vector_default.hh
M		src/solver/solver_vector_default_tmpl.hh
M		src/solver/solver_vector_petsc.cc
M		src/solver/solver_vector_petsc.hh
M		src/solver/sparse_matrix_aij.hh
A		src/solver/sparse_solver_eigen.cc
A		src/solver/sparse_solver_eigen.hh
M		src/solver/sparse_solver_mumps.cc
M		src/synchronizer/communication_buffer.hh
M		src/synchronizer/communication_buffer_inline_impl.hh
M		src/synchronizer/communicator.cc
M		src/synchronizer/communicator.hh
M		src/synchronizer/communicator_dummy_inline_impl.hh
M		src/synchronizer/communicator_mpi_inline_impl.hh
D		src/synchronizer/data_accessor.cc
M		src/synchronizer/data_accessor.hh
A		src/synchronizer/data_accessor_tmpl.hh
M		test/CMakeLists.txt
A	(dir)	test/ci/debian:bookworm/
V	(dir)	test/ci/{debian:bookworm/.openmpi/ ← debian:bullseye/.openmpi}
V		test/ci/{debian:bookworm ← debian:bullseye}/.openmpi/mca-params.conf
A		test/ci/debian:bookworm/Dockerfile
D		test/ci/debian:bullseye
V	(dir)	test/ci/{debian:bullseye/.openmpi/ → debian:bookworm/.openmpi}
V		test/ci/{debian:bullseye → debian:bookworm}/.openmpi/mca-params.conf
D		test/ci/debian:bullseye/Dockerfile
A	(dir)	test/ci/debian:testing/
A		test/ci/debian:testing/Dockerfile
A	(dir)	test/ci/macosx/
A		test/ci/macosx/build_env.sh
A		test/ci/macosx/configure_env.sh
A		test/ci/macosx/make-wheels.sh
A		test/ci/macosx/spack.yaml
D		test/ci/make-wheels.sh
D		test/ci/manylinux:2014_x86_64
D		test/ci/manylinux:2014_x86_64/Dockerfile
D		test/ci/manylinux:2014_x86_64/Toolchain.cmake
V		test/ci/{manylinux:2014_x86_64 → manylinux_2_28_x86_64:latest}/compilers.yaml
V		test/ci/{manylinux:2014_x86_64 → manylinux_2_28_x86_64:latest}/install-pip.sh
D		test/ci/manylinux:2014_x86_64/packages.yaml
V		test/ci/{manylinux:2014_x86_64 → manylinux_2_28_x86_64:latest}/repos.yaml
D		test/ci/manylinux:2014_x86_64/spack.yaml
A	(dir)	test/ci/manylinux_2_28_x86_64:latest/
A		test/ci/manylinux_2_28_x86_64:latest/Dockerfile
A		test/ci/manylinux_2_28_x86_64:latest/Toolchain.cmake
A		test/ci/manylinux_2_28_x86_64:latest/build_env.sh
V		test/ci/{manylinux_2_28_x86_64:latest ← manylinux:2014_x86_64}/compilers.yaml
A		test/ci/manylinux_2_28_x86_64:latest/configure_env.sh
V		test/ci/{manylinux_2_28_x86_64:latest ← manylinux:2014_x86_64}/install-pip.sh
A		test/ci/manylinux_2_28_x86_64:latest/make-wheels.sh
A		test/ci/manylinux_2_28_x86_64:latest/packages.yaml
V		test/ci/{manylinux_2_28_x86_64:latest ← manylinux:2014_x86_64}/repos.yaml
A		test/ci/manylinux_2_28_x86_64:latest/spack.yaml
M		test/ci/ubuntu:lts/Dockerfile
M		test/test_common/test_array.cc
M		test/test_common/test_voigt_helper.cc
M		test/test_fe_engine/test_inverse_map.cc
M		test/test_io/test_parser/CMakeLists.txt
A		test/test_io/test_parser/test_parser_gtest.cc
M		test/test_mesh_utils/test_buildfacets/test_buildfacets.cc
M		test/test_model/patch_tests/data/heat_transfer_input.dat
M		test/test_model/patch_tests/patch_test_linear_fixture.hh
M		test/test_model/patch_tests/patch_test_linear_heat_transfer_fixture.hh
M		test/test_model/patch_tests/patch_test_linear_heat_transfer_fixture.py
M		test/test_model/patch_tests/test_patch_linear_heat_transfer_explicit.py
M		test/test_model/patch_tests/test_patch_linear_heat_transfer_implicit.py
M		test/test_model/patch_tests/test_patch_linear_heat_transfer_static.py
M		test/test_model/test_common/test_model_solver/test_dof_manager_default.cc
M		test/test_model/test_common/test_model_solver/test_model_solver_dynamic.cc
M		test/test_model/test_common/test_non_local_toolbox/my_model.hh
M		test/test_model/test_common/test_non_local_toolbox/test_material.cc
M		test/test_model/test_common/test_non_local_toolbox/test_material.hh
M		test/test_model/test_common/test_non_local_toolbox/test_material_damage.cc
M		test/test_model/test_common/test_non_local_toolbox/test_material_damage.hh
M		test/test_model/test_common/test_non_local_toolbox/test_remove_damage_weight_function.cc
M		test/test_model/test_contact_mechanics_model/test_detector/test_detection_fixture.hh
M		test/test_model/test_contact_mechanics_model/test_explicit_dynamic.cc
M		test/test_model/test_contact_mechanics_model/test_explicit_friction.cc
M		test/test_model/test_phase_field_model/CMakeLists.txt
M		test/test_model/test_phase_field_model/material_coupling.dat
A		test/test_model/test_phase_field_model/material_hybrid.dat
M		test/test_model/test_phase_field_model/test_phase_field_anisotropic.cc
M		test/test_model/test_phase_field_model/test_phase_solid_coupling.cc
M		test/test_model/test_phase_field_model/test_phasefield_selector.cc
M		test/test_model/test_solid_mechanics_model/test_cohesive/test_cohesive_fixture.hh
M		test/test_model/test_solid_mechanics_model/test_cohesive/test_cohesive_insertion/test_cohesive_insertion_along_physical_surfaces.cc
M		test/test_model/test_solid_mechanics_model/test_material_selector.cc
M		test/test_model/test_solid_mechanics_model/test_materials/local_material_damage.cc
M		test/test_model/test_solid_mechanics_model/test_materials/local_material_damage.hh
M		test/test_model/test_solid_mechanics_model/test_materials/local_material_damage_inline_impl.hh
M		test/test_model/test_solid_mechanics_model/test_materials/test_damage_materials.cc
M		test/test_model/test_solid_mechanics_model/test_materials/test_elastic_materials.cc
M		test/test_model/test_solid_mechanics_model/test_materials/test_finite_deformation.cc
M		test/test_model/test_solid_mechanics_model/test_materials/test_local_material.cc
M		test/test_model/test_solid_mechanics_model/test_materials/test_material_non_local/custom_non_local_test_material.cc
M		test/test_model/test_solid_mechanics_model/test_materials/test_material_non_local/custom_non_local_test_material.hh
M		test/test_model/test_solid_mechanics_model/test_solid_mechanics_model_dynamics.cc
M		test/test_model/test_solid_mechanics_model/test_solid_mechanics_model_reassign_material.cc
M		third-party/akantu_iterators/CMakeLists.txt
M		third-party/akantu_iterators/include/aka_compatibilty_with_cpp_standard.hh
M		third-party/akantu_iterators/include/aka_named_tuple.hh
M		third-party/akantu_iterators/include/aka_str_hash.hh
M		third-party/akantu_iterators/include/iterators/aka_filter_iterator.hh
M		third-party/akantu_iterators/test/test_tuples.cc
M		third-party/iohelper/CMakeLists.txt
M		third-party/iohelper/src/CMakeLists.txt
M		third-party/iohelper/src/base64.hh
M		third-party/iohelper/src/file_manager.hh
M		third-party/iohelper/src/iohelper_common.hh