From 8f7d48fc5696b442597bb80481868d4cd90fef1b Mon Sep 17 00:00:00 2001 From: sneakers-the-rat Date: Thu, 26 Sep 2024 19:58:27 -0700 Subject: [PATCH] close hdf5 files, use hdfpy 3.12 --- .gitignore | 3 +- pdm.lock | 89 ++++++++++++++++++++++++++--------------------- pyproject.toml | 3 +- tests/fixtures.py | 22 +++++------- 4 files changed, 61 insertions(+), 56 deletions(-) diff --git a/.gitignore b/.gitignore index 1470b8c..36c33b0 100644 --- a/.gitignore +++ b/.gitignore @@ -161,4 +161,5 @@ cython_debug/ .pdm-python ndarray.pyi -prof/ \ No newline at end of file +prof/ +__tmp__ diff --git a/pdm.lock b/pdm.lock index 50e444b..8fa42d5 100644 --- a/pdm.lock +++ b/pdm.lock @@ -5,7 +5,7 @@ groups = ["default", "arrays", "dask", "dev", "docs", "hdf5", "tests", "video", "zarr"] strategy = ["cross_platform", "inherit_metadata"] lock_version = "4.5.0" -content_hash = "sha256:dee4ba1fabeacedf80f85b145bcb2ef83a2005cac6454f9672eb9a873cadd70b" +content_hash = "sha256:cc2b0fb32896c6df0ad747ddb5dee89af22f5c4c4643ee7a52db47fef30da936" [[metadata.targets]] requires_python = "~=3.9" @@ -731,31 +731,40 @@ files = [ [[package]] name = "h5py" -version = "3.11.0" -requires_python = ">=3.8" +version = "3.12.1" +requires_python = ">=3.9" summary = "Read and write HDF5 files from Python" groups = ["arrays", "dev", "docs", "hdf5", "tests"] dependencies = [ - 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return H5ArrayPath(Path(hdf5_file.filename), array_path) + + h5path = H5ArrayPath(hdf5_file, array_path) else: if dtype is str: dt = np.dtype([("data", np.dtype("S10")), ("extra", "i8")]) @@ -148,8 +141,11 @@ def hdf5_array( else: dt = np.dtype([("data", dtype), ("extra", "i8")]) data = np.zeros(shape, dtype=dt) - _ = hdf5_file.create_dataset(array_path, data=data) - return H5ArrayPath(Path(hdf5_file.filename), array_path, "data") + h5path = H5ArrayPath(hdf5_file, array_path, "data") + + with h5py.File(hdf5_file, "w") as h5f: + _ = h5f.create_dataset(array_path, data=data) + return h5path return _hdf5_array