Add tiling QC metric for tile-boundary segmentation artifacts

pyproject.toml

@@ -67,7 +67,7 @@ dependencies = [
   # due to https://github.com/scikit-image/scikit-image/issues/6850 breaks rescale ufunc
   "scikit-learn>=0.24",
   "spatialdata>=0.7.1",
-  "spatialdata-plot",
+  "spatialdata-plot>=0.3.3",
   "statsmodels>=0.12",
   # https://github.com/scverse/squidpy/issues/526
   "tifffile!=2022.4.22",

src/squidpy/_utils.py

@@ -4,11 +4,12 @@
 
 import functools
 import inspect
+import os
 import warnings
 from collections.abc import Callable, Generator, Hashable, Iterable, Sequence
 from contextlib import contextmanager
 from enum import Enum
-from multiprocessing import Manager, cpu_count
+from multiprocessing import Manager
 from queue import Queue
 from threading import Thread
 from typing import TYPE_CHECKING, Any, Literal
@@ -45,6 +46,19 @@ def wrapper(*args: Any, **kw: Any) -> Any:
 NDArrayA = NDArray[Any]
 
 
+def cpu_count() -> int:
+    """Number of CPUs available to this process.
+
+    Uses :func:`os.sched_getaffinity` to respect cgroup limits set by
+    SLURM, Docker, or ``taskset``.  Falls back to :func:`os.cpu_count`
+    on platforms where affinity queries are unavailable (e.g. macOS).
+    """
+    try:
+        return len(os.sched_getaffinity(0))
+    except (AttributeError, OSError):
+        return os.cpu_count() or 1
+
+
 class SigQueue(Queue["Signal"] if TYPE_CHECKING else Queue):  # type: ignore[misc]
     """Signalling queue."""
 

src/squidpy/experimental/__init__.py

@@ -6,6 +6,6 @@
 
 from __future__ import annotations
 
-from . import im, pl
+from . import im, pl, tl
 
-__all__ = ["im", "pl"]
+__all__ = ["im", "pl", "tl"]