Nathan Mannall
c98915d3fe
Fix overflow bug for cell count with large models
2025-06-19 15:54:58 +01:00
Nathan Mannall
7bbe924283
Add PML objects and fix import locations in API docs
...
- Correct import location for 'output' user objects
- Add documentation for PMLFormulation and PMLThickness userobjects
2025-06-19 15:21:20 +01:00
Nathan Mannall
df8a6bd956
Merge branch 'devel' into mpi
2025-06-19 15:21:19 +01:00
Nathan Mannall
2295b71e78
Remove need for git lfs to store large files
...
- Reduce the size of the regression files for testing geometry objects
- Don't save geometry objects when testing geometry commands. This means
the regression check is done using the receiver output rather than
reading the geometry directly. Some tests still output the geometry
for reference (useful if tests fail to check the geometry that was
built).
2025-06-19 15:18:31 +01:00
Nathan Mannall
35ba0e2f6d
Use smaller regression files to test geometry views
...
- This removes the need to use git lfs to store the large files
2025-06-19 15:17:35 +01:00
Nathan Mannall
1759073c28
Use MPI to communicate partition sizes
...
- This was being read from the VTKHDF file, however, this causes a race
condition if not all ranks have written their partition sizes to the
file yet.
2025-06-19 15:17:35 +01:00
Nathan Mannall
447c484e53
Log closing VTKHDF file
2025-06-19 15:17:35 +01:00
Nathan Mannall
e842fcd949
Fix deadlock bug when some ranks finish early
...
- When some ranks finish quicker than others, if the ranks one of the
ranks still running encounters an error it will attempt to call
MPI.Abort. As some ranks will have already exited, this was causing
deadlock without the error actually appearing.
2025-06-19 15:17:35 +01:00
Nathan Mannall
5e8277ceff
Use Dim and Dir enums from utilities.mpi
2025-06-19 15:17:35 +01:00
Nathan Mannall
b71d1fb078
Remove unused geometry_objects.py
...
- Rename the output_controllers directory to geometry_outputs
2025-06-19 15:17:35 +01:00
Nathan Mannall
024cf46adb
Fix broken reference links
2025-06-19 15:17:35 +01:00
Nathan Mannall
b390a83266
Fix logo not displaying on getting started page
2025-06-19 15:17:35 +01:00
Nathan Mannall
0d4397f8b8
Fix input API documentation
...
- Minor corrections to some code documentation
2025-06-19 15:17:35 +01:00
Nathan Mannall
8adb2781bf
Allow docs to be built without pip install of gprmax
2025-06-19 15:17:35 +01:00
Nathan Mannall
ff1929754a
By default build docs in a build directory
2025-06-19 15:17:35 +01:00
Nathan Mannall
386d7517db
Merge branch '53-create-mpi-fractal-objects' into mpi
2025-06-19 15:17:34 +01:00
Nathan Mannall
e4766e22e2
Remove logger.exception from outside try except block
2025-06-19 15:17:34 +01:00
Nathan Mannall
ededfd6855
Update grass for parallel build
2025-06-19 15:17:34 +01:00
Nathan Mannall
bb8f998b38
Fix bug when restoring tests using ReceiverMixin
...
- 'output_file' is not stored in the run report by reframe. Therefore,
trying to access 'test_dependency.output_file' where 'test_dependency'
is a restored test case was returning None and causing an error.
- Instead, created a new function to build an output file path that
can be reused by the ReceiverMixin class.
2025-06-19 15:17:34 +01:00
Nathan Mannall
45222e62f4
Merge branch '27-mpi-geometry-views' into mpi
2025-06-19 15:17:33 +01:00
Nathan Mannall
183588a930
Update geometry view regression checks to vLEN strings
2025-06-19 15:17:32 +01:00
Nathan Mannall
ad34534291
Update old or missing copyright messages
2025-06-19 15:16:57 +01:00
Nathan Mannall
573c205cf3
Make add data functions private in VtkHdfFile class
...
- Adding cell and point data is very dependent on the type of the VTKHDF
file. Therefore these should be private in the base class so an
instance of the VtkHdfFile class can only add field data.
2025-06-19 15:16:57 +01:00
Nathan Mannall
1af5d69161
Update GeometryViewLines for parallel build
2025-06-19 15:16:57 +01:00
Nathan Mannall
84d88fcb7b
Merge branch 'devel' into mpi
2025-06-19 15:16:56 +01:00
Nathan Mannall
d9120db856
Prevent int overflow at large model sizes
2025-06-19 15:16:40 +01:00
Nathan Mannall
bec5e3277f
Remove print statements
2025-06-19 15:16:40 +01:00
Nathan Mannall
3433f116d8
Merge branch '26-mpi-geometry-objects' into mpi
2025-06-19 15:16:40 +01:00
Nathan Mannall
8e4f156595
Update reading geometry objects for parallel build
2025-06-19 15:16:38 +01:00
Nathan Mannall
6a754ca82f
Merge branch '53-create-mpi-fractal-objects' into mpi
2025-06-19 15:15:55 +01:00
Nathan Mannall
fbb73eb4ae
Update geometry tests to new geometry object mixin
2025-06-19 15:15:55 +01:00
Nathan Mannall
fa93dafcaf
Actually wait for Isend calls to distribute material IDs
2025-06-19 15:15:55 +01:00
Nathan Mannall
0d0615c164
Add factory functions to grids for fractal surfaces
2025-06-19 15:15:55 +01:00
nmannall
cb1ecd8d9b
Seperate write and read geometry object tests
2025-06-19 15:15:55 +01:00
Nathan Mannall
5f6656741b
Use asynchronous MPI calls for halo exchanges
2025-06-19 15:15:55 +01:00
Nathan Mannall
742678b705
Add some missing type hints
2025-06-19 15:15:54 +01:00
Nathan Mannall
8c15235f37
Add factory functions to grids for fractal volumes
2025-06-19 15:15:54 +01:00
Nathan Mannall
5ee013d9fe
Create shared MPI fractal functions
2025-06-19 15:15:54 +01:00
Nathan Mannall
548cf6599b
Remove add_surface_roughness_half test
...
- The functionality this tested is better tested by the new
add_surface_roughness_boundaries test
2025-06-19 15:15:54 +01:00
Nathan Mannall
17c05f5286
Fix bug when fractal surfaces at an MPI boundary
...
- Add a new test that better tests this scenario
2025-06-19 15:15:54 +01:00
Nathan Mannall
b73cd93d75
Fix bug when modifications applied to multiple fractal boxes
2025-06-19 15:15:54 +01:00
Nathan Mannall
33f8e097c8
Remove 'fractal_box_half' test
...
- The functionality this was supposed to test is better covered by the
new 'fractal_box_boundaries' test
2025-06-19 15:15:54 +01:00
Nathan Mannall
0c7c5447a3
Fix bug where fractal box at MPI boundary
2025-06-19 15:15:54 +01:00
Nathan Mannall
34188f8f3d
Update add_grass user object for parallel build
2025-06-19 15:15:54 +01:00
Nathan Mannall
ed76cfa4c6
Remove use of logger.exception outside try except block
2025-06-19 15:15:54 +01:00
Nathan Mannall
56fff1c38b
Fix bug when original_stop is less than original_start
...
- Add properties to access and set originalxs etc
- If original_stop is less than original_start (e.g. when both are less
than the lower extent of the local grid), it could cause the values of
maskxs etc in generate_volume_mask to be negative. This could cause
incorrect slicing of self.mask
2025-06-19 15:15:54 +01:00
Nathan Mannall
cdc209d90a
Update add_surface_water for parallel build
2025-06-19 15:15:54 +01:00
Nathan Mannall
88a4592764
Add MPI test for add_surface_water user object
2025-06-19 15:15:54 +01:00
Nathan Mannall
dd70f06b7b
Remove use of logger.exception outside try except block
2025-06-19 15:15:54 +01:00
Nathan Mannall
80db43bf6b
Limit original start and stop to local grid
...
- Remove unnecessary redefinition of original start and stop
2025-06-19 15:15:54 +01:00
