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The pkg_resources package is slated for removal as early as 2025-11-30. Refrain from using this package or pin to Setuptools<81 #629

@danli349

Description

@danli349

Thanks for the great tool!
How should I solve this problem?
Thanks a lot

snakemake --cores 20

/home/dan/miniconda3/envs/scenicplus/lib/python3.11/site-packages/scenicplus/__init__.py:1: UserWarning: pkg_resources is deprecated as an API. See https://setuptools.pypa.io/en/latest/pkg_resources.html. The pkg_resources package is slated for removal as early as 2025-11-30. Refrain from using this package or pin to Setuptools<81.
  from pkg_resources import get_distribution, DistributionNotFound
/home/dan/miniconda3/envs/scenicplus/lib/python3.11/site-packages/numpy/core/getlimits.py:542: UserWarning: Signature b'\x00\xd0\xcc\xcc\xcc\xcc\xcc\xcc\xfb\xbf\x00\x00\x00\x00\x00\x00' for <class 'numpy.longdouble'> does not match any known type: falling back to type probe function.
This warnings indicates broken support for the dtype!
  machar = _get_machar(dtype)
2026-02-25 14:12:13,944 SCENIC+      INFO     Loading TF to gene adjacencies.
2026-02-25 14:12:14,851 SCENIC+      INFO     Loading region to gene adjacencies.
2026-02-25 14:12:15,595 SCENIC+      INFO     Loading cistromes.
2026-02-25 14:12:15,659 GSEA         INFO     Thresholding region to gene relationships
 43%|████████████████████████████████████                                                | 6/14 [00:52<01:22, 10.26s/it]/home/dan/miniconda3/envs/scenicplus/lib/python3.11/site-packages/scenicplus/__init__.py:1: UserWarning: pkg_resources is deprecated as an API. See https://setuptools.pypa.io/en/latest/pkg_resources.html. The pkg_resources package is slated for removal as early as 2025-11-30. Refrain from using this package or pin to Setuptools<81.
  from pkg_resources import get_distribution, DistributionNotFound

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