The following python code: from sklearn import preprocessing from sklearn.cluster import AffinityPropagation Produces this trace back after installing py37-scikit-sparse: Traceback (most recent call last): File "./network", line 6, in <module> from sklearn import preprocessing File "/usr/local/lib/python3.7/site-packages/sklearn/__init__.py", line 74, in <module> from .base import clone File "/usr/local/lib/python3.7/site-packages/sklearn/base.py", line 20, in <module> from .utils import _IS_32BIT File "/usr/local/lib/python3.7/site-packages/sklearn/utils/__init__.py", line 25, in <module> from .fixes import np_version File "/usr/local/lib/python3.7/site-packages/sklearn/utils/fixes.py", line 18, in <module> import scipy.stats File "/usr/local/lib/python3.7/site-packages/scipy/stats/__init__.py", line 367, in <module> from .stats import * File "/usr/local/lib/python3.7/site-packages/scipy/stats/stats.py", line 173, in <module> from . import distributions File "/usr/local/lib/python3.7/site-packages/scipy/stats/distributions.py", line 10, in <module> from ._distn_infrastructure import (entropy, rv_discrete, rv_continuous, File "/usr/local/lib/python3.7/site-packages/scipy/stats/_distn_infrastructure.py", line 24, in <module> from scipy import optimize File "/usr/local/lib/python3.7/site-packages/scipy/optimize/__init__.py", line 387, in <module> from ._minimize import * File "/usr/local/lib/python3.7/site-packages/scipy/optimize/_minimize.py", line 30, in <module> from ._trustregion_constr import _minimize_trustregion_constr File "/usr/local/lib/python3.7/site-packages/scipy/optimize/_trustregion_constr/__init__.py", line 4, in <module> from .minimize_trustregion_constr import _minimize_trustregion_constr File "/usr/local/lib/python3.7/site-packages/scipy/optimize/_trustregion_constr/minimize_trustregion_constr.py", line 11, in <module> from .equality_constrained_sqp import equality_constrained_sqp File "/usr/local/lib/python3.7/site-packages/scipy/optimize/_trustregion_constr/equality_constrained_sqp.py", line 5, in <module> from .projections import projections File "/usr/local/lib/python3.7/site-packages/scipy/optimize/_trustregion_constr/projections.py", line 9, in <module> from sksparse.cholmod import cholesky_AAt File "sksparse/cholmod.pyx", line 240, in init sksparse.cholmod AssertionError [tmp]$ This was discovered after installing py37-networkx which depends on py37-scikit-sparse.