Merge remote-tracking branch 'origin/master' into add-matrices

Project.toml

@@ -46,7 +46,7 @@ BifurcationKit = "0.4.4"
 CairoMakie = "0.12"
 Combinatorics = "1.0.2"
 DataStructures = "0.18"
-DiffEqBase = "< 6.159.0"
+DiffEqBase = "6.159.0"
 DocStringExtensions = "0.8, 0.9"
 DynamicPolynomials = "0.5, 0.6"
 DynamicQuantities = "0.13.2, 1"
@@ -62,7 +62,7 @@ Parameters = "0.12"
 Reexport = "0.2, 1.0"
 Requires = "1.0"
 RuntimeGeneratedFunctions = "0.5.12"
-SciMLBase = "< 2.57.2"
+SciMLBase = "2.57.2"
 Setfield = "1"
 # StructuralIdentifiability = "0.5.8"
 SymbolicUtils = "2.1.2, 3.3.0"

docs/Project.toml

@@ -50,7 +50,7 @@ BifurcationKit = "0.4.4"
 CairoMakie = "0.12"
 Catalyst = "14.4"
 DataFrames = "1.6"
-DiffEqBase = "< 6.159.0"
+DiffEqBase = "6.159.0"
 DiffEqParamEstim = "2.2"
 Distributions = "0.25"
 Documenter = "1.4.1"

test/upstream/mtk_structure_indexing.jl

@@ -208,10 +208,17 @@ end
 # Currently, `save_idxs` is broken with symbolic stuff (https://github.com/SciML/ModelingToolkit.jl/issues/1761).
 let 
     for (prob, solver) in zip(deepcopy([oprob, sprob, jprob]), [Tsit5(), ImplicitEM(), SSAStepper()])
+
         # Save single variable
-        @test_broken solve(prob, solver; seed, save_idxs=X)[X][1] == 4
-        @test_broken solve(prob, solver; seed, save_idxs=model.X)[X][1] == 4
-        @test_broken solve(prob, solver; seed, save_idxs=:X)[X][1] == 4
+        if !(solver isa SSAStepper)
+            @test solve(prob, solver; seed, save_idxs=X)[X][1] == 4
+            @test solve(prob, solver; seed, save_idxs=model.X)[X][1] == 4
+            @test solve(prob, solver; seed, save_idxs=:X)[X][1] == 4
+        else
+            @test_broken solve(prob, solver; seed, save_idxs=X)[X][1] == 4
+            @test_broken solve(prob, solver; seed, save_idxs=model.X)[X][1] == 4
+            @test_broken solve(prob, solver; seed, save_idxs=:X)[X][1] == 4
+        end    
 
         # Save observable.
         @test_broken solve(prob, solver; seed, save_idxs=XY)[XY][1] == 9