diff --git a/.gitattributes b/.gitattributes index 887a2c18..997504b4 100644 --- a/.gitattributes +++ b/.gitattributes @@ -1,2 +1,2 @@ # SCM syntax highlighting & preventing 3-way merges -pixi.lock merge=binary linguist-language=YAML linguist-generated=true +pixi.lock merge=binary linguist-language=YAML linguist-generated=true -diff diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml index 972628ba..7f5e07b3 100644 --- a/.pre-commit-config.yaml +++ b/.pre-commit-config.yaml @@ -13,12 +13,12 @@ repos: - id: check-yaml - repo: https://github.com/codespell-project/codespell - rev: 'v2.4.1' + rev: v2.4.2 hooks: - id: codespell - repo: https://github.com/psf/black-pre-commit-mirror - rev: 26.1.0 + rev: 26.5.1 hooks: - id: black - id: black-jupyter @@ -27,20 +27,21 @@ repos: rev: v0.4.6 hooks: - id: blackdoc - additional_dependencies: ['black==26.1.0'] + additional_dependencies: ['black==26.5.1'] - id: blackdoc-autoupdate-black - repo: https://github.com/astral-sh/ruff-pre-commit - rev: v0.15.15 + rev: v0.15.20 hooks: - id: ruff-check args: ['--fix', '--show-fixes'] - repo: https://github.com/rbubley/mirrors-prettier - rev: v3.8.3 + rev: v3.9.4 hooks: - id: prettier args: ['--cache-location=.prettier_cache/cache'] + exclude: 'pixi.lock' - repo: https://github.com/ComPWA/taplo-pre-commit rev: v0.9.3 diff --git a/advanced/backends/imageio_.py b/advanced/backends/imageio_.py new file mode 100644 index 00000000..95c33e1f --- /dev/null +++ b/advanced/backends/imageio_.py @@ -0,0 +1,119 @@ +from __future__ import annotations + +from dataclasses import dataclass +from typing import TYPE_CHECKING + +import numpy as np +import pandas as pd +import xarray as xr + +if TYPE_CHECKING: + import os + from typing import Any, Literal, Protocol + + import numpy.typing as npt + + class FileLike(Protocol): ... + + class LockType(Protocol): + def __enter__(self) -> Any: ... + + def acquire(self, blocking: bool = True, timeout: int = -1) -> bool: ... + def release(self) -> None: ... + + IndexerType = int | slice | npt.NDArray[np.integer] + FilenameOrObjectType = str | os.PathLike | bytes | FileLike + + +@dataclass +class ImageIOBackendArray(xr.backends.BackendArray): + filename_or_obj: FilenameOrObjectType + + shape: tuple[int] + dtype: npt.DtypeLike + + lock: LockType + + def __getitem__(self, key: tuple[IndexerType]): + return xr.core.indexing.explicit_indexing_adapter( + key, + self.shape, + xr.core.indexing.IndexingSupport.BASIC, + self.basic_indexing, + ) + + def basic_indexing(self, key: tuple[IndexerType]) -> npt.NDArray: + import imageio.v3 as iio + + with self.lock, iio.imopen(self.filename_or_obj, io_mode="r") as f: + if key == (slice(None),) * len(self.shape): + return f.read() + + first_indexer = key[0] + if isinstance(first_indexer, int): + data = f.read(index=first_indexer, mode="P", writable=True) + + remaining_indexers = key[1:] + else: + if isinstance(first_indexer, slice): + indices = range(*first_indexer.indices(self.shape[0])) + else: + indices = first_indexer + + data = np.concatenate([f.read(index=index, mode="P") for index in indices], axis=0) + + remaining_indexers = (..., *key[1:]) + + return data[remaining_indexers] + + +class ImageIOBackend(xr.backends.BackendEntrypoint): + def open_dataset( + self, + filename_or_obj: FilenameOrObjectType, + *, + drop_variables: bool | None = None, + mode: Literal["grayscale", "color"] = "color", + ) -> xr.Dataset: + import imageio.v3 as iio + + with iio.imopen(filename_or_obj, io_mode="r") as f: + properties = f.properties() + metadata = f.metadata() + + dims = ["time", "height", "width", "color"] + + background = metadata["background"] + duration = metadata["duration"] + loop = metadata["loop"] + + shape = properties.shape + dtype = properties.dtype + + if isinstance(duration, (int, float)): + time_values = np.timedelta64(duration, "ms") * np.arange(shape[0]) + else: + time_values = np.array(duration, dtype="timedelta64[ms]") + + time = xr.indexes.PandasIndex(pd.Index(time_values), dim="time") + + backend_array = ImageIOBackendArray( + filename_or_obj=filename_or_obj, + shape=shape, + dtype=dtype, + lock=xr.backends.locks.SerializableLock(), + ) + data = xr.core.indexing.LazilyIndexedArray(backend_array) + + var = xr.Variable( + dims=dims, + data=data, + attrs={"loop": loop}, + encoding={ + "preferred_chunks": dict(zip(dims, (1, *shape[1:]))), + "fill_value": background, + }, + ) + coords = xr.Coordinates.from_xindex(time).assign(color=["red", "green", "blue"]) + + return xr.Dataset({"data": var}, coords=coords) diff --git a/advanced/backends/ocean.gif b/advanced/backends/ocean.gif new file mode 100644 index 00000000..bfbe061a Binary files /dev/null and b/advanced/backends/ocean.gif differ diff --git a/pixi.lock b/pixi.lock index a5ab6fc6..94a9dd6e 100644 --- a/pixi.lock +++ b/pixi.lock @@ -1,13340 +1,15959 @@ version: 7 platforms: - 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