Update devel tiny 20250901 #41
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Closes pyccel#476: * Do not restrict the maximum Python version to 3.12 in `pyproject.toml` * Require `Cython >= 3` to avoid `h5py` installation crash w/ Python 3.13 * Require `sympde == 0.19.2` which supports Python 3.13 * Run unit tests with Python 3.13 too
Currently, Psydac can not be used on Apple M4 computers since the `PSYDAC_BACKEND_GPYCCEL['flags']` is not set correctly. This change sets the flag for `Apple MX (etc.)` to `apple-mX`, which should work so long as the naming scheme stays unchanged. In addition, the regular expression used to find the GFortran version is now defined in a raw string instead of a standard Python UTF8 string. This avoids a `SyntaxWarning: invalid escape sequence`. --------- Co-authored-by: Yaman Güçlü <[email protected]>
* Use raw strings for docstrings with LaTeX to avoid UTF8 syntax warnings on escape sequences; * Use CSC matrices to avoid SciPy sparse solver warning. We do not address the NumPy warnings which arise in our MPI unit tests (see pyccel#353).
…yccel#484) Main changes -------------- * Rename the method `dot` of the base class `VectorSpace` as `inner`, and make it an abstract method (which must be implemented by the subclasses). * Rename the method `dot` of the base class `Vector` as `inner`. This is a concrete method which calls `self.space.inner` and does not need to be overridden by the subclasses. * Add `inner` methods to the classes `StencilVector`, `BlockVectorSpace`, and `DenseVectorSpace`. These methods override the abstract method of the base class as required, and are derived from the former functions `Stencil.dot`, `BlockVector.dot`, and `DenseVector.dot`, which have been removed (see next point). * Remove the property `dtype` and the method `dot` (now `inner`) from the classes `StencilVector`, `BlockVector`, and `DenseVector`, because the default methods of the base class already provide a sufficient implementation. This fixes pyccel#330. Necessary additional changes ------------------------------ * Update all linear solvers in `linalg.solvers` with the new method calls; * Update all unit tests with the new method calls, in files: - `api/tests/test_assembly.py` - `feec/tests/test_commuting_projections.py` - `feec/tests/test_global_projectors.py` - `linalg/tests/test_block.py` - `linalg/tests/test_linalg.py` - `linalg/tests/test_stencil_interface_matrix.py` - `linalg/tests/test_stencil_vector.py` Unrelated additional changes ----------------------------- * Rename the class `VectorDot` as `VectorInner` in module `api.ast.linalg`, although never used in Psydac. * Speed up 3D unit tests in: - `feec/tests/test_commuting_projectors.py` - `feec/tests/test_global_projectors.py`
--------- Co-authored-by: Yaman Güçlü <[email protected]>
…yccel#493) Implement `M.dot(u).inner(v)`, or `(M @ u).inner(v)`, without creating a temporary vector. The result of the dot product is written to a local work vector stored in the `LinearOperator` object. This work vector is then used to compute the inner product with the vector `v`. The subclasses do not need to override this method, unless a more efficient implementation which avoids writing to the work vector altogether (reducing memory pressure) is needed. A unit test is added: function `test_dot_inner` in file psydac/linalg/tests/test_linalg.py. Additionally, the helper function `get_StencilVectorSpace` defined in psydac/linalg/tests/test_linalg.py (only used in the same file and in test_matrix_free.py) has a new signature and now works in any number of dimensions. Fixes pyccel#491.
This PR changes the code generation involved in the `discretize` function to avoid calculating unnecessary derivatives. This allows for using constant spline (degree 0) discretizations, for which we have to make a special case in the calculation of ghost regions in `psydac/linalg/stencil.py`. Additionally, we add basic unit tests checking discretizations using zero-degree splines. This fixes pyccel#489 and fixes pyccel#307. On this occasion, we also do small changes in the `.github/workflows/testing.yml` script as some tests had complications without them. --------- Co-authored-by: Yaman Güçlü <[email protected]>
Always use the maximum padding between test and trial spaces in `allocate_matrices` in `DiscreteBilinearForm`. (Earlier this was not done in the case of scalar spaces.) Fixes pyccel#504.
Pyccel 2.0 was just released, which means some of the kernels in Psydac need to be updated: - Remove the `template` decorator (see pyccel/pyccel#2331) * Add `T` as `TypeVar` * Specify `T`, `T[:]`, `T[:,:]`, ... in function arguments. - Replace `@types` decorators (see pyccel/pyccel#2329) - Replace `const` with `Final` (see pyccel/pyccel#2340) Further changes: - Update import path for `epyccel` (fixes pyccel#426) - Update arguments to `epyccel` (see pyccel/pyccel#2348): * Rename `fflags` to `flags` * Replace `accelerators` list with `openmp` bool - Require Pyccel >= 2.0.1 (fixes pyccel#471) --------- Co-authored-by: Yaman Güçlü <[email protected]> Co-authored-by: Elena Moral Sánchez <[email protected]> Co-authored-by: Emily Bourne <[email protected]>
Recently the installation of `h5py` in parallel mode (i.e. with MPI support through `mpi4py`) seems to have been simplified. This may be due to the recent move of `mpi4py` to wheels, or other factors. Therefore we can now simplify our installation procedure as follows: ```sh pip install h5py --no-cache-dir --no-binary h5py pip install .[test] ``` We update here the CI workflows and completely rewrite our README file. **Commit summary** - Completely rewrite `README.md`: * Expand initial description * Add Citing and Contributing sections * Shorten Installation section * Reorganize documentation sections * Move detailed installation instructions to separate file `docs/installation.md` * Move mesh generation to separate file `docs/psydac-mesh.md` - Add BibTeX file `CITING.bib` with citation of 2022 ECCOMAS proceedings - Remove obsolete files `requirements.txt` and `requirements_extra.txt` - Rename (and move) `docs_requirements.txt` as `docs/requirements.txt` - Update installation procedure in `testing` CI workflow - Change name in `testing` workflow from "Run tests" to "Unit tests" - Modify `testing` and `documentation` workflows so that they only run when needed - Allow running workflows manually - Fix broken CI badge in `README.md`
spossann
approved these changes
Sep 3, 2025
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Updated with latest commits from upstream.
The biggest change that the
requirements.txtfile has been deleted.