Nathan Mannall
5fa3b25760
Merge branch 'devel' into mpi
2025-07-17 16:17:49 +01:00
Nathan Mannall
db00d14f2c
Log error and exit if MPI_COMM_WORLD is too small
2025-07-17 16:14:55 +01:00
Nathan Mannall
6805dee72e
Fix bug when removing builtin materials from read geometry object
2025-07-17 16:13:17 +01:00
Nathan Mannall
4946861951
Add geometry objects read to Python API docs
2025-07-17 15:53:49 +01:00
Nathan Mannall
1a7dcf4339
Fix bug when Snapshot file extension not specified
2025-07-17 15:22:03 +01:00
Nathan Mannall
a3f0a64cb8
Update requirements for building docs
...
- Mock requirements that are not needed using 'autodoc_mock_imports'
- Add necessary requirements to requirements.txt
- These changes should mean the docs can be built without first
installing gprMax
2025-07-17 15:18:48 +01:00
Craig Warren
856da0f19c
Commented out png saving, only PDF by default
2025-07-17 09:47:56 +01:00
Craig Warren
3ff400e6f8
Fixed bug with overlapping text on plots
2025-07-17 09:47:20 +01:00
Craig Warren
51a904e709
Corrected missing bracket
2025-07-16 22:01:51 +01:00
Craig Warren
4af2017297
Merge pull request #494 from gprMax/mpi
...
Improve MPI fractal surface generation performance
2025-07-07 16:52:32 +03:00
Nathan Mannall
5ef4fda0db
Add comments explaining failing ReFrame tests
...
- Some of the ReFrame tests fail on ARCHER2. This is due to differences
in floating point number errors in the MPI and non-MPI runs.
- FineGeometryViews fail as the tests do not support checking VTKHDF
unstructured grids with parallel partitions.
2025-07-07 11:18:30 +01:00
Nathan Mannall
fe0bc9bdf4
Restructure random number generation in MPIFractalVolume
...
- Better variable names to hopefully make it clearer how the algorithm
works
- Reduce the number of calls to `rng.standard_normal()` by combining
calls that were at the start and ends of the for loops
- Remove unnecessary calls to `rng.standard_normal()` at the end of the
final iteration of the for loops
2025-07-04 14:31:06 +01:00
Nathan Mannall
435f9afa35
Improve MPI fractal surface generation performance
2025-07-04 14:30:25 +01:00
Craig Warren
a07311dbd7
Corrected formatting in table
2025-07-04 14:11:36 +03:00
Craig Warren
dd2842fefe
Merge pull request #493 from gprMax/mpi
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Improve MPI fractal volume generation performance
2025-07-04 14:07:02 +03:00
Craig Warren
838d713a7d
Fixed a typo
2025-07-03 12:04:17 +03:00
Nathan Mannall
bc6513c81c
Improve MPI fractal volume generation performance
2025-07-02 14:47:27 +01:00
Craig Warren
2fd8984bb9
Added reframe to docs build
2025-07-02 16:32:10 +03:00
Craig Warren
809e3c5fa8
Try libfftw3-dev for docs
2025-07-01 17:05:16 +03:00
Craig Warren
9aa3cca514
Add fftw to docs buils
2025-07-01 16:33:41 +03:00
Craig Warren
9f3e541898
Merge pull request #492 from gprMax/mpi
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Update docs for MPI domain decomposition
2025-07-01 14:04:58 +01:00
Nathan Mannall
0724590925
Add mpi4py-fft to conda environment
2025-06-30 17:25:14 +01:00
Nathan Mannall
39040adde5
Remove sphinx :ref: command from README
2025-06-30 17:21:01 +01:00
Nathan Mannall
154370b8a0
Exclude generated docs from pre-commit hooks
2025-06-30 17:01:49 +01:00
Nathan Mannall
5122fe02d4
Add domain decomposition diagram to accerlator docs
2025-06-30 16:57:59 +01:00
Nathan Mannall
8bfbe63cb0
Clarify why FFTs cause fractal box decomposition limitations
2025-06-30 16:38:26 +01:00
Nathan Mannall
70497fe2a3
Add documentation about the reframe test suite
2025-06-30 16:30:48 +01:00
Nathan Mannall
2eac3b41dd
Add contributing guide to docs
2025-06-30 16:21:45 +01:00
Craig Warren
3fa3647de2
Fixed bug with number of parameters in Drude dispersion
2025-06-30 11:37:04 +02:00
Nathan Mannall
591dba9db8
Update HPC docs
2025-06-27 17:59:45 +01:00
Nathan Mannall
e9a247e4dc
Add -mpi deprecation warning and use console code blocks
2025-06-27 16:20:22 +01:00
Nathan Mannall
e040ef7bd4
Add FFTW and MPI to build requirements
2025-06-27 16:06:31 +01:00
Nathan Mannall
a020d9df35
Fix bug from assuming no MPI neighbour would always be -1
2025-06-27 12:39:30 +01:00
Craig Warren
0256f1bdd2
Merge pull request #491 from gprMax/mpi
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Add fractal objects to MPI implementation
2025-06-26 09:16:58 +01:00
Nathan Mannall
3c8d9e126a
Remove unused dependency from conda_env.yaml
2025-06-25 13:51:52 +01:00
Nathan Mannall
125492624d
Add note about VTKHDF change to docs
2025-06-25 13:47:26 +01:00
Nathan Mannall
8c72d033fc
Correct commandline help messages
2025-06-25 13:45:55 +01:00
Nathan Mannall
2ac675d589
Add instructions to build h5py with MPI support
2025-06-25 13:44:01 +01:00
Nathan Mannall
2706517b89
Update command line arguments table
2025-06-25 13:43:07 +01:00
Nathan Mannall
53f07ed821
Update package overview and wrap text
2025-06-25 13:34:01 +01:00
Nathan Mannall
5fe678fba3
Add guidance for using MPI domain decomposition
2025-06-25 13:27:46 +01:00
Nathan Mannall
b101bfe835
Remove unused dependencies from requirements.txt
...
- pytest is not used
- Dependency on PyEVTK has been removed by adopting VTKHDF
- reframe-hpc should be optional (only required to run the test suite)
2025-06-20 12:24:57 +01:00
Nathan Mannall
652da89ad4
Add support for VTKHDF snapshots
2025-06-20 12:17:07 +01:00
Nathan Mannall
3443071097
Log MPI + OpenMP configuration
2025-06-19 16:09:40 +01:00
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
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- 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
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- 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
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- 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
