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test(backed): add regression for filename=None after read_h5ad #2517

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test(backed): add regression for filename=None after read_h5ad #2517

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677fb8f
test(backed): regress filename=None after read_h5ad
SID-6921 Jun 27, 2026
00c4376
test(backed): satisfy lint in filename=None regression test
SID-6921 Jun 27, 2026
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26 changes: 26 additions & 0 deletions tests/test_backed_hdf5.py
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Original file line number Diff line number Diff line change
Expand Up @@ -318,6 +318,32 @@ def test_return_to_memory_mode(adata: ad.AnnData, backing_h5ad: Path):
bdata.filename = None


@pytest.mark.parametrize(
"x",
[
pytest.param(np.arange(12).reshape(3, 4), id="dense"),
pytest.param(sparse.csr_matrix(np.arange(12).reshape(3, 4)), id="csr"),
pytest.param(sparse.csc_matrix(np.arange(12).reshape(3, 4)), id="csc"),
],
)
def test_return_to_memory_mode_after_read_h5ad(
tmp_path: Path, x: np.ndarray | sparse.spmatrix
):
pth = tmp_path / "tmp.h5ad"
expected = np.arange(12).reshape(3, 4)
ad.AnnData(X=x).write_h5ad(pth)

backed = ad.read_h5ad(pth, backed="r+")
assert backed.isbacked

backed.filename = None
assert not backed.isbacked
assert backed.X is not None

got = backed.X.toarray() if sparse.issparse(backed.X) else backed.X
np.testing.assert_array_equal(got, expected)


def test_backed_modification(adata: ad.AnnData, backing_h5ad: Path):
adata.X[:, 1] = 0 # Make it a little sparse
adata.X = sparse.csr_matrix(adata.X)
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