BUG: avoid triggering numpy deprecation warning in assert functions for nested array with empty array/list (#59778)

Author: jorisvandenbossche

pandas/_libs/lib.pyx

@@ -600,6 +600,8 @@ def array_equivalent_object(ndarray left, ndarray right) -> bool:
                     if not array_equivalent(x, y):
                         return False
 
+            elif PyArray_Check(x) or PyArray_Check(y):
+                return False
             elif (x is C_NA) ^ (y is C_NA):
                 return False
             elif not (

pandas/tests/dtypes/test_missing.py

@@ -1,4 +1,3 @@
-from contextlib import nullcontext
 from datetime import datetime
 from decimal import Decimal
 
@@ -7,7 +6,6 @@
 
 from pandas._libs import missing as libmissing
 from pandas._libs.tslibs import iNaT
-from pandas.compat.numpy import np_version_gte1p25
 
 from pandas.core.dtypes.common import (
     is_float,
@@ -458,15 +456,7 @@ def test_array_equivalent_dti(dtype_equal):
 )
 def test_array_equivalent_series(val):
     arr = np.array([1, 2])
-    msg = "elementwise comparison failed"
-    cm = (
-        # stacklevel is chosen to make sense when called from .equals
-        tm.assert_produces_warning(FutureWarning, match=msg, check_stacklevel=False)
-        if isinstance(val, str) and not np_version_gte1p25
-        else nullcontext()
-    )
-    with cm:
-        assert not array_equivalent(Series([arr, arr]), Series([arr, val]))
+    assert not array_equivalent(Series([arr, arr]), Series([arr, val]))
 
 
 def test_array_equivalent_array_mismatched_shape():

pandas/tests/series/methods/test_equals.py

@@ -1,11 +1,9 @@
-from contextlib import nullcontext
 import copy
 
 import numpy as np
 import pytest
 
 from pandas._libs.missing import is_matching_na
-from pandas.compat.numpy import np_version_gte1p25
 
 from pandas.core.dtypes.common import is_float
 
@@ -14,7 +12,6 @@
     MultiIndex,
     Series,
 )
-import pandas._testing as tm
 
 
 @pytest.mark.parametrize(
@@ -48,14 +45,7 @@ def test_equals_list_array(val):
     assert s1.equals(s2)
 
     s1[1] = val
-
-    cm = (
-        tm.assert_produces_warning(FutureWarning, check_stacklevel=False)
-        if isinstance(val, str) and not np_version_gte1p25
-        else nullcontext()
-    )
-    with cm:
-        assert not s1.equals(s2)
+    assert not s1.equals(s2)
 
 
 def test_equals_false_negative():

pandas/tests/util/test_assert_almost_equal.py

@@ -534,6 +534,10 @@ def test_assert_almost_equal_iterable_values_mismatch():
         np.array([np.array([1, 2, 3]), np.array([4, 5])], dtype=object),
         np.array([[1, 2, 3], [4, 5]], dtype=object),
     ),
+    (
+        np.array([np.array([], dtype=object), None], dtype=object),
+        np.array([[], None], dtype=object),
+    ),
     (
         np.array(
             [