Merge pull request #541 from opencobra/fix-boundary

Fix boundary
opencobra · Dec 10, 2018 · bb70952 · bb70952
2 parents 0a6e4f4 + f293d21
commit bb70952
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Showing 2 changed files with 5 additions and 4 deletions.
diff --git a/HISTORY.rst b/HISTORY.rst
@@ -3,6 +3,7 @@ History
 
 Next Release
 ------------
+* Adjust tests to the change in the ``add_boundary`` interface.
 * Identify blocked reactions using the cobrapy built-in function.
 
 0.8.7 (2018-11-21)

diff --git a/tests/test_for_support/test_for_biomass.py b/tests/test_for_support/test_for_biomass.py
@@ -139,7 +139,7 @@ def precursors_uptake_limited(base):
     rxn3 = cobra.Reaction("MET_Ctec", lower_bound=-1000, upper_bound=1000)
     rxn3.add_metabolites({met_c: 1, met_c1: -1})
     base.add_reactions([rxn, rxn1, rxn2, rxn3])
-    base.add_boundary(met_a1, ub=5)
+    base.add_boundary(met_a1, lb=-5, ub=5)
     base.add_boundary(met_b1)
     base.add_boundary(met_c1)
     base.objective = rxn
@@ -214,8 +214,8 @@ def precursors_not_in_medium(base):
     rxn3 = cobra.Reaction("MET_Ctec", lower_bound=-1000, upper_bound=1000)
     rxn3.add_metabolites({met_c: 1, met_c1: -1})
     base.add_reactions([rxn, rxn1, rxn2, rxn3])
-    base.add_boundary(met_a1, ub=0)
-    base.add_boundary(met_b1, ub=0)
+    base.add_boundary(met_a1, lb=0)
+    base.add_boundary(met_b1, lb=0)
     base.add_boundary(met_c1)
     base.objective = rxn
     return base
@@ -511,7 +511,7 @@ def test_production_biomass_precursors_default(model, num):
     """
     Expect that there are no biomass precursors that cannot be produced.
 
-    This is without changing the model"s default state.
+    This is without changing the model's default state.
     """
     biomass_rxns = helpers.find_biomass_reaction(model)
     for rxn in biomass_rxns: