anndata and mudata only for typechecking

Author: niklasmueboe

pyproject.toml

@@ -16,14 +16,7 @@ authors = [
     { name = "Niklas Müller-Bötticher", email = "[email protected]" },
     { name = "Shashwat Sahay", email = "[email protected]" },
 ]
-dependencies = [
-    "anndata>=0.10",
-    "igraph",
-    "leidenalg~=0.10.2",
-    "mudata~=0.3",
-    "numpy>=1.21",
-    "scipy>=1.9",
-]
+dependencies = ["igraph", "leidenalg~=0.10.2", "numpy>=1.21", "scipy>=1.9"]
 classifiers = [
     "Intended Audience :: Science/Research",
     "Programming Language :: Python",
@@ -39,12 +32,13 @@ docs = [
     "sphinx",
     "sphinx-copybutton",
     "sphinx-rtd-theme",
+    "anndata>=0.10",
     "scanpy",
     "squidpy",
     "dask<2025",         # incompatibility of squidpy with dask >= 2025
     "myst-nb",
 ]
-dev = ["spatialleiden[docs]", "pre-commit"]
+dev = ["spatialleiden[docs]", "mudata~=0.3", "pre-commit"]
 
 [project.urls]
 Homepage      = "https://github.com/HiDiHlabs/SpatialLeiden"

spatialleiden/_multiplex_leiden.py

@@ -1,16 +1,20 @@
+from __future__ import annotations
+
 from collections.abc import Collection, Iterable, Mapping
 from types import NoneType
-from typing import Any, Type, TypeAlias, TypeVar
+from typing import TYPE_CHECKING, Any, Type, TypeAlias, TypeVar
 
 import leidenalg as la
 import numpy as np
-from anndata import AnnData
 from igraph import Graph
 from leidenalg.VertexPartition import MutableVertexPartition
-from mudata import MuData
 from numpy.typing import NDArray
 from scipy.sparse import find, sparray, spmatrix
 
+if TYPE_CHECKING:
+    from anndata import AnnData
+    from mudata import MuData
+
 _GraphArray: TypeAlias = sparray | spmatrix | np.ndarray
 
 

spatialleiden/_resolution_search.py

@@ -1,10 +1,14 @@
+from __future__ import annotations
+
 from collections.abc import Callable
+from typing import TYPE_CHECKING
 from warnings import warn
 
-from anndata import AnnData
-
 from ._multiplex_leiden import leiden, spatialleiden
 
+if TYPE_CHECKING:
+    from anndata import AnnData
+
 
 def _search_resolution(
     fn: Callable[[float], int],