From 03c54a767b4d262ae914caa76c3121d5ce511fdf Mon Sep 17 00:00:00 2001 From: malmans2 Date: Mon, 15 Dec 2025 17:46:04 +0100 Subject: [PATCH] add support for pydap --- pyproject.toml | 2 + tests/test_20_open_dataset.py | 28 ++++ uv.lock | 247 ++++++++++++++++++++++++++++++++++ xarray_esgf/client.py | 38 +++++- xarray_esgf/engine.py | 2 + 5 files changed, 315 insertions(+), 2 deletions(-) diff --git a/pyproject.toml b/pyproject.toml index c3d701d..cd2f27b 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -21,6 +21,8 @@ dependencies = [ "dask", "esgpull>=0.9.3", "h5netcdf", + "jinja2", # See: https://github.com/pydap/pydap/issues/596 + "pydap", "requests", "tqdm", "xarray", diff --git a/tests/test_20_open_dataset.py b/tests/test_20_open_dataset.py index 98f9b1a..90d848a 100644 --- a/tests/test_20_open_dataset.py +++ b/tests/test_20_open_dataset.py @@ -83,3 +83,31 @@ def test_open_dataset(tmp_path: Path, index_node: str, download: bool) -> None: "CMIP6.ScenarioMIP.EC-Earth-Consortium.EC-Earth3-CC.ssp585.r1i1p1f1.Amon.tas.gr.v20210113", "CMIP6.ScenarioMIP.EC-Earth-Consortium.EC-Earth3-CC.ssp585.r1i1p1f1.fx.areacella.gr.v20210113", ] + + +def test_open_dataset_identical(tmp_path: Path, index_node: str) -> None: + esgpull_path = tmp_path / "esgpull" + selection = { + "query": [ + '"tas_Amon_EC-Earth3-CC_ssp245_r1i1p1f1_gr_201901-201912.nc"', + ] + } + ds_pydap = xr.open_dataset( + selection, # type: ignore[arg-type] + esgpull_path=esgpull_path, + engine="esgf", + index_node=index_node, + download=False, + chunks={}, + use_pydap=True, + ) + ds_h5netcdf = xr.open_dataset( + selection, # type: ignore[arg-type] + esgpull_path=esgpull_path, + engine="esgf", + index_node=index_node, + download=False, + chunks={}, + use_pydap=False, + ) + xr.testing.assert_identical(ds_pydap, ds_h5netcdf) diff --git a/uv.lock b/uv.lock index 717e3c6..8768509 100644 --- a/uv.lock +++ b/uv.lock @@ -180,6 +180,19 @@ wheels = [ { url = 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use_new_combine_kwarg_defaults[**P, T](func: Callable[P, T]) -> Callable[P, T]: def wrapper(*args: P.args, **kwds: P.kwargs) -> T: @@ -47,6 +52,17 @@ def check_dimensions(datasets: dict[str, Dataset]) -> None: raise ValueError(msg) +def pop_pydap_attrs(ds: Dataset) -> None: + for key in PYDAP_GLOBAL_ATTRS: + if key in ds.attrs: + ds.attrs.pop(key) + + for da in ds.variables.values(): + for key in list(da.attrs): + if key.startswith("_"): + da.attrs.pop(key) + + @dataclasses.dataclass class Client: selection: dict[str, str | list[str]] @@ -111,14 +127,31 @@ def download(self) -> list[File]: raise ExceptionGroup(msg, exceptions) return files + def get_filename(self, file: File, download: bool, use_pydap: bool) -> str: + if download and use_pydap: + msg = "download and use_pydap are mutually exclusive." + raise ValueError(msg) + + filename = str(self._client.fs[file].drs if download else file.url) + if use_pydap: + for k, v in PYDAP_PREFIXES.items(): + if filename.startswith(k): + filename = filename.replace(k, v) + break + else: + filename = filename.replace("fileServer", "dodsC") + return filename + @use_new_combine_kwarg_defaults def open_dataset( self, concat_dims: DATASET_ID_KEYS | Iterable[DATASET_ID_KEYS] | None, drop_variables: str | Iterable[str] | None = None, download: bool = False, + use_pydap: bool = False, show_progress: bool = True, ) -> Dataset: + if isinstance(concat_dims, str): concat_dims = [concat_dims] concat_dims = concat_dims or [] @@ -131,11 +164,12 @@ def open_dataset( self.files, disable=not show_progress, desc="Opening datasets" ): ds = xr.open_dataset( - self._client.fs[file].drs if download else file.url, + self.get_filename(file, download=download, use_pydap=use_pydap), chunks=-1, - engine="h5netcdf", + engine="pydap" if use_pydap else "h5netcdf", drop_variables=drop_variables, ) + pop_pydap_attrs(ds) grouped_objects[file.dataset_id].append(ds.drop_encoding()) combined_datasets = {} diff --git a/xarray_esgf/engine.py b/xarray_esgf/engine.py index 954a7c2..9349896 100644 --- a/xarray_esgf/engine.py +++ b/xarray_esgf/engine.py @@ -18,6 +18,7 @@ def open_dataset( # type: ignore[override] index_node: str | None = None, concat_dims: DATASET_ID_KEYS | Iterable[DATASET_ID_KEYS] | None = None, download: bool = False, + use_pydap: bool = False, show_progress: bool = True, retries: int = 0, ) -> Dataset: @@ -31,6 +32,7 @@ def open_dataset( # type: ignore[override] concat_dims=concat_dims, drop_variables=drop_variables, download=download, + use_pydap=use_pydap, show_progress=show_progress, )