code review changes

Author: jedforrest

src/cobra/core/reaction.py

@@ -5,7 +5,7 @@
 from collections import defaultdict
 from copy import copy, deepcopy
 from functools import partial
-from math import isinf, isclose
+from math import isclose, isinf
 from operator import attrgetter
 from typing import (
     TYPE_CHECKING,
@@ -1451,7 +1451,11 @@ def check_mass_balance(self) -> Dict[str, float]:
             for element, amount in metabolite.elements.items():
                 reaction_element_dict[element] += coefficient * amount
         # filter out 0 values
-        return {k: v for k, v in reaction_element_dict.items() if not isclose(v, 0.0, abs_tol=1e-12)}
+        return {
+            k: v
+            for k, v in reaction_element_dict.items()
+            if not isclose(v, 0.0, abs_tol=config.tolerance)
+        }
 
     @property
     def compartments(self) -> Set:

tests/test_core/test_core_reaction.py

@@ -336,7 +336,7 @@ def test_mass_balance(model: Model) -> None:
     # Should be balanced even when coefficients are non-integer
     reaction_scaled = model.reactions.get_by_id("ATPS4r") * 1.3
     assert len(reaction_scaled.check_mass_balance()) == 0
-    
+
 
 def test_build_from_string(model: Model) -> None:
     """Test reaction building from string evaluation."""