format 341 + add a tiny simplification

src/analysis/modifications/optimizer.jl

@@ -83,13 +83,15 @@ function change_objective(
 
         # Construct objective_indices array
         if typeof(new_objective) == String
-            objective_indices = [first(indexin([new_objective], reactions(model)))]
+            objective_indices = indexin([new_objective], reactions(model))
         else
             objective_indices =
                 [first(indexin([rxnid], reactions(model))) for rxnid in new_objective]
         end
 
-        any(isnothing.(objective_indices)) && throw(DomainError(new_objective, "No matching reaction found for one or more ids."))
+        any(isnothing.(objective_indices)) && throw(
+            DomainError(new_objective, "No matching reaction found for one or more ids."),
+        )
 
         # Initialize weights
         opt_weights = spzeros(n_reactions(model))

src/reconstruction/community.jl

@@ -283,8 +283,7 @@ function join_with_exchanges(
     nnz_total =
         sum(length(first(nnz)) for nnz in nnzs) +
         length(models) * length(exchange_rxn_ids) +
-        length(exchange_met_ids) +
-        nnz_add
+        length(exchange_met_ids) + nnz_add
     n_reactions_metabolic = sum(reaction_lengths)
     n_reactions_total = n_reactions_metabolic + length(exchange_rxn_ids) + column_add
     n_metabolites_metabolic = sum(metabolite_lengths)

test/analysis/flux_balance_analysis.jl

@@ -69,28 +69,20 @@ end
     )
 
     @test_throws DomainError flux_balance_analysis_dict(
-                                model,
-                                Tulip.Optimizer;
-                                modifications = [
-                                    change_constraint("gbbrsh", -12, -12)
-                                ],
-                            )
+        model,
+        Tulip.Optimizer;
+        modifications = [change_constraint("gbbrsh", -12, -12)],
+    )
     @test_throws DomainError flux_balance_analysis_dict(
-                                model,
-                                Tulip.Optimizer;
-                                modifications = [
-                                    change_objective("gbbrsh")
-                                ],
-                            )
+        model,
+        Tulip.Optimizer;
+        modifications = [change_objective("gbbrsh")],
+    )
     @test_throws DomainError flux_balance_analysis_dict(
-                                model,
-                                Tulip.Optimizer;
-                                modifications = [
-                                    change_objective(
-                                        ["BIOMASS_Ecoli_core_w_GAM"; "gbbrsh"]
-                                    )
-                                ],
-                            )
+        model,
+        Tulip.Optimizer;
+        modifications = [change_objective(["BIOMASS_Ecoli_core_w_GAM"; "gbbrsh"])],
+    )
 end
 
 @testset "Flux balance analysis with CoreModelCoupled" begin