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Merged
merged 13 commits into from
Aug 1, 2025
Merged

Add full-scale test for poroelasticity and prescribed fault slip #850

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05e4b02
FIX: Correct typo in comment.
baagaard-usgs Jun 3, 2025
0603bc3
DOCS: Add missing footnote.
baagaard-usgs Jul 24, 2025
5e93407
Allow checking of all time steps or just the final time step in full-…
baagaard-usgs Jul 29, 2025
e48384f
FIX: Compute solid_bulk_modulus from other fields in spatial database.
baagaard-usgs Jul 24, 2025
5828c24
Add full-scale test with poroelasticity and a fault.
baagaard-usgs Jun 3, 2025
84d1bdb
Clean up solver defaults and corresponding documentation.
baagaard-usgs Jul 29, 2025
9f8a9bb
DOCS: Fix description of fields in auxiliary field and input spatial …
baagaard-usgs Jul 24, 2025
90a8519
Allow Biot coefficient of 1.0.
baagaard-usgs Jul 29, 2025
f2f4388
Remove solid_bulk_modulus as material property from examples (compute…
baagaard-usgs Jul 29, 2025
d559b3a
DOCS: Add solution fields container for poroelasticity + fault.
baagaard-usgs Jul 31, 2025
818ec92
Improve organization of governing equations. Add poroelasticity+fault.
baagaard-usgs Jul 31, 2025
028c3f1
DOCS: Update list of changes.
baagaard-usgs Aug 1, 2025
d255fec
Update list of files in Makefiles for settings and governing equations.
baagaard-usgs Aug 1, 2025
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8 changes: 5 additions & 3 deletions CHANGES.md
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Expand Up @@ -17,16 +17,18 @@ The version numbers are in the form `MAJOR.MINOR.PATCH`, where major releases in
* Update PETSc to 3.23.1
* **Added**
* Improved documentation for `pylith_eqinfo` and illustrate use in `examples/strikdslip-2d`, `examples/crustal-strikeslip-2d`, and `examples/crustal-strikeslip-3d`.
* Add `pylith_convertmesh` for converting Cubit and Gmsh files to the PETSc HDF5 mesh format.
* Add support for specifying boundary conditions using marked boundaries rather than vertices.
* Added `pylith_convertmesh` for converting Cubit and Gmsh files to the PETSc HDF5 mesh format.
* Added support for specifying boundary conditions using marked boundaries rather than vertices.
* `MeshIOAscii`: Use `face-group` for specifying boundary conditions via cell and `face` vertices.
* `MeshIOCubit`: Read sidesets from ExodusII files (generated by Cubit).
* `MeshIOPetsc`
* `Gmsh`: Create physical groups only at the dimension of the boundary.
* Add compatibility for reading PETSc HDF5 format
* Added compatibility for reading PETSc HDF5 format
* Improved the organization of the governing equations section and added documentation for poroelasticity with prescribed fault slip, including governing equations and default PETSc solver settings. Also added a full-scale test.
* **Fixed**
* Account for processes without cells in initial condition patch when verifying configuration.
* Avoid divide by zero for `KinSrcRamp` when final slip is zero.
* Remove `solid_bulk_modulus` as a spatial database field for poroelasticity; compute it from the other fields.
* Fix pythia import in `pylith_eqinfo`.

## Version 4.2.0 (2025-01-15)
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1 change: 1 addition & 0 deletions configure.ac
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Expand Up @@ -266,6 +266,7 @@ AC_CONFIG_FILES([Makefile
tests/fullscale/viscoelasticity/nofaults-2d/Makefile
tests/fullscale/viscoelasticity/nofaults-3d/Makefile
tests/fullscale/poroelasticity/Makefile
tests/fullscale/poroelasticity/faults-2d/Makefile
tests/fullscale/poroelasticity/terzaghi/Makefile
tests/fullscale/poroelasticity/mandel/Makefile
tests/fullscale/poroelasticity/cryer/Makefile
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48 changes: 29 additions & 19 deletions docs/Makefile.am
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Expand Up @@ -594,28 +594,38 @@ dist_noinst_DATA = \
user/file-formats/meshio-ascii.md \
user/file-formats/points-list.md \
user/glossary/index.md \
user/governingeqns/elasticity-derivation.md \
user/governingeqns/elasticity-infstrain-prescribedslip/dynamic.md \
user/governingeqns/elasticity-infstrain-prescribedslip/index.md \
user/governingeqns/elasticity-infstrain-prescribedslip/quasistatic.md \
user/governingeqns/elasticity-infstrain/dynamic.md \
user/governingeqns/elasticity-infstrain/index.md \
user/governingeqns/elasticity-infstrain/quasistatic.md \
user/governingeqns/elasticity-infstrain/bulk-rheologies/index.md \
user/governingeqns/elasticity-infstrain/bulk-rheologies/elasticity-constitutive.md \
user/governingeqns/elasticity-infstrain/bulk-rheologies/effective-stress.md \
user/governingeqns/elasticity-infstrain/bulk-rheologies/linear-elastic.md \
user/governingeqns/elasticity-infstrain/bulk-rheologies/linear-genmaxwell.md \
user/governingeqns/elasticity-infstrain/bulk-rheologies/linear-maxwell.md \
user/governingeqns/elasticity-infstrain/bulk-rheologies/powerlaw.md \
user/governingeqns/elasticity-infstrain/bulk-rheologies/figs/viscoelastic-schematic.pdf \
user/governingeqns/elasticity-infstrain/bulk-rheologies/figs/viscoelastic-schematic.svg \
user/governingeqns/incompressible-elasticity.md \
user/governingeqns/index.md \
user/governingeqns/petsc-formulation.md \
user/governingeqns/poroelasticity/dynamic.md \
user/governingeqns/elasticity/index.md \
user/governingeqns/elasticity/derivation.md \
user/governingeqns/elasticity/infinitesimal-strain.md \
user/governingeqns/elasticity/infinitesimal-strain-quasistatic.md \
user/governingeqns/elasticity/infinitesimal-strain-dynamic.md \
user/governingeqns/elasticity/prescribed-slip.md \
user/governingeqns/elasticity/prescribed-slip-quasistatic.md \
user/governingeqns/elasticity/prescribed-slip-dynamic.md \
user/governingeqns/elasticity/bulk-rheologies/index.md \
user/governingeqns/elasticity/bulk-rheologies/elasticity-constitutive.md \
user/governingeqns/elasticity/bulk-rheologies/effective-stress.md \
user/governingeqns/elasticity/bulk-rheologies/linear-elastic.md \
user/governingeqns/elasticity/bulk-rheologies/linear-genmaxwell.md \
user/governingeqns/elasticity/bulk-rheologies/linear-maxwell.md \
user/governingeqns/elasticity/bulk-rheologies/powerlaw.md \
user/governingeqns/elasticity/bulk-rheologies/figs/viscoelastic-schematic.pdf \
user/governingeqns/elasticity/bulk-rheologies/figs/viscoelastic-schematic.svg \
user/governingeqns/incompressible-elasticity/index.md \
user/governingeqns/incompressible-elasticity/infinitesimal-strain.md \
user/governingeqns/incompressible-elasticity/infinitesimal-strain-quasistatic.md \
user/governingeqns/incompressible-elasticity/bulk-rheologies/index.md \
user/governingeqns/incompressible-elasticity/bulk-rheologies/linear-elastic.md \
user/governingeqns/poroelasticity/index.md \
user/governingeqns/poroelasticity/quasistatic.md \
user/governingeqns/poroelasticity/infinitesimal-strain.md \
user/governingeqns/poroelasticity/infinitesimal-strain-quasistatic.md \
user/governingeqns/poroelasticity/infinitesimal-strain-dynamic.md \
user/governingeqns/poroelasticity/prescribed-slip.md \
user/governingeqns/poroelasticity/prescribed-slip-quasistatic.md \
user/governingeqns/poroelasticity/bulk-rheologies/index.md \
user/governingeqns/poroelasticity/bulk-rheologies/linear-elastic.md \
user/index.md \
user/install/figs/install_choices.pdf \
user/install/figs/install_choices.svg \
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3 changes: 3 additions & 0 deletions docs/developer/ides/vs-code.md
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Expand Up @@ -20,6 +20,9 @@ If you are working in VS Code with local source code, then we recommend setting
| `PROJ_INCDIR` | Directory containing Proj header files [^vscode] |
| `CATCH_INCDIR` | Directory containing Catch2 header files [^vscode] |

[^vscode]: Used in VS Code tasks.


## Starting VS Code

If you have PyLith source code on your local machine, then it is best to start VS Code from a terminal in which you have activated the PyLith virtual environment.
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