Merge branch 'main' into gd/diffwith

Author: gdalle

.github/workflows/Documentation.yml

@@ -36,7 +36,7 @@ jobs:
 
     steps:
       - uses: actions/checkout@v6
-      - uses: julia-actions/setup-julia@v2
+      - uses: julia-actions/setup-julia@v3
         with:
           version: '1'  # TODO: 1
       - uses: julia-actions/cache@v3

.github/workflows/PreCommit.yml

@@ -19,7 +19,7 @@ jobs:
     runs-on: ubuntu-latest
     steps:
       - uses: actions/checkout@v6
-      - uses: julia-actions/setup-julia@v2
+      - uses: julia-actions/setup-julia@v3
       - uses: julia-actions/cache@v3
       - run: julia -e 'using Pkg; Pkg.add("Runic")'
       - uses: astral-sh/setup-uv@v7

.github/workflows/Test.yml

@@ -50,7 +50,7 @@ jobs:
       JULIA_DI_PR_DRAFT: ${{ github.event.pull_request.draft }}
     steps:
       - uses: actions/checkout@v6
-      - uses: julia-actions/setup-julia@v2
+      - uses: julia-actions/setup-julia@v3
         with:
           version: ${{ matrix.version }}
           arch: x64
@@ -75,7 +75,7 @@ jobs:
       - uses: julia-actions/julia-processcoverage@v1
         with:
           directories: ./DifferentiationInterface/src,./DifferentiationInterface/ext,./DifferentiationInterface/test
-      - uses: codecov/codecov-action@v5
+      - uses: codecov/codecov-action@v6
         with:
           files: lcov.info
           flags: DI
@@ -135,7 +135,7 @@ jobs:
       JULIA_DI_PR_DRAFT: ${{ github.event.pull_request.draft }}
     steps:
       - uses: actions/checkout@v6
-      - uses: julia-actions/setup-julia@v2
+      - uses: julia-actions/setup-julia@v3
         with:
           version: ${{ matrix.version }}
           arch: x64
@@ -150,7 +150,7 @@ jobs:
       - uses: julia-actions/julia-processcoverage@v1
         with:
           directories: ./DifferentiationInterface/src,./DifferentiationInterface/ext,./DifferentiationInterface/test
-      - uses: codecov/codecov-action@v5
+      - uses: codecov/codecov-action@v6
         with:
           files: lcov.info
           flags: DI
@@ -191,7 +191,7 @@ jobs:
       JULIA_DI_PR_DRAFT: ${{ github.event.pull_request.draft }}
     steps:
       - uses: actions/checkout@v6
-      - uses: julia-actions/setup-julia@v2
+      - uses: julia-actions/setup-julia@v3
         with:
           version: ${{ matrix.version }}
           arch: x64
@@ -209,7 +209,7 @@ jobs:
       - uses: julia-actions/julia-processcoverage@v1
         with:
           directories: ./DifferentiationInterfaceTest/src,./DifferentiationInterfaceTest/ext,./DifferentiationInterfaceTest/test
-      - uses: codecov/codecov-action@v5
+      - uses: codecov/codecov-action@v6
         with:
           files: lcov.info
           flags: DIT

DifferentiationInterface/Project.toml

@@ -71,7 +71,7 @@ ForwardDiff = "0.10.36,1"
 GPUArraysCore = "0.2"
 GTPSA = "1.4.0"
 LinearAlgebra = "1"
-Mooncake = "0.5.1"
+Mooncake = "0.5.1 - 0.5.24"
 PolyesterForwardDiff = "0.1.2"
 ReverseDiff = "1.15.1"
 SparseArrays = "1"

DifferentiationInterface/ext/DifferentiationInterfaceSparseMatrixColoringsExt/DifferentiationInterfaceSparseMatrixColoringsExt.jl

@@ -19,20 +19,81 @@ import SparseMatrixColorings as SMC
 
 abstract type SMCSparseJacobianPrep{SIG} <: DI.SparseJacobianPrep{SIG} end
 
+"""
+    SMC.sparsity_pattern(prep::DI.SparseJacobianPrep)
+
+Return the sparsity pattern of a sparse `prep` object created by [`prepare_jacobian`](@ref).
+"""
 SMC.sparsity_pattern(prep::DI.SparseJacobianPrep) = prep.sparsity
+
+"""
+    SMC.column_colors(prep::DI.SparseJacobianPrep)
+
+Return the column colors of a sparse `prep` object created by [`prepare_jacobian`](@ref).
+"""
 SMC.column_colors(prep::DI.SparseJacobianPrep) = column_colors(prep.coloring_result)
+
+"""
+    SMC.column_groups(prep::DI.SparseJacobianPrep)
+
+Return the column groups of a sparse `prep` object created by [`prepare_jacobian`](@ref).
+"""
 SMC.column_groups(prep::DI.SparseJacobianPrep) = column_groups(prep.coloring_result)
+
+"""
+    SMC.row_colors(prep::DI.SparseJacobianPrep)
+
+Return the row colors of a sparse `prep` object created by [`prepare_jacobian`](@ref).
+"""
 SMC.row_colors(prep::DI.SparseJacobianPrep) = row_colors(prep.coloring_result)
+
+"""
+    SMC.row_groups(prep::DI.SparseJacobianPrep)
+
+Return the row groups of a sparse `prep` object created by [`prepare_jacobian`](@ref).
+"""
 SMC.row_groups(prep::DI.SparseJacobianPrep) = row_groups(prep.coloring_result)
+
+"""
+    SMC.ncolors(prep::DI.SparseJacobianPrep)
+
+Return the number of colors of a sparse `prep` object created by [`prepare_jacobian`](@ref).
+"""
 SMC.ncolors(prep::DI.SparseJacobianPrep) = ncolors(prep.coloring_result)
 
+
+"""
+    SMC.sparsity_pattern(prep::DI.SparseHessianPrep)
+
+Return the sparsity pattern of a sparse `prep` object created by [`prepare_hessian`](@ref).
+"""
 SMC.sparsity_pattern(prep::DI.SparseHessianPrep) = prep.sparsity
+
+"""
+    SMC.column_colors(prep::DI.SparseHessianPrep)
+
+Return the column colors of a sparse `prep` object created by [`prepare_hessian`](@ref).
+"""
 SMC.column_colors(prep::DI.SparseHessianPrep) = column_colors(prep.coloring_result)
+
+"""
+    SMC.column_groups(prep::DI.SparseHessianPrep)
+
+Return the column groups of a sparse `prep` object created by [`prepare_hessian`](@ref).
+"""
 SMC.column_groups(prep::DI.SparseHessianPrep) = column_groups(prep.coloring_result)
+
+"""
+    SMC.ncolors(prep::DI.SparseHessianPrep)
+
+Return the number of colors of a sparse `prep` object created by [`prepare_hessian`](@ref).
+"""
 SMC.ncolors(prep::DI.SparseHessianPrep) = ncolors(prep.coloring_result)
 
+
 include("jacobian.jl")
 include("jacobian_mixed.jl")
 include("hessian.jl")
 
+
 end

DifferentiationInterface/test/Back/Mooncake/test.jl

@@ -23,8 +23,20 @@ end
 
 test_differentiation(
     backends[3:4],
-    default_scenarios(;
-        include_constantified = true, include_cachified = true, use_tuples = true
+    default_scenarios();
+    excluded = SECOND_ORDER,
+    logging = LOGGING,
+);
+
+test_differentiation(
+    backends[3:4],
+    nomatrix(
+        default_scenarios(;
+            include_normal = false,
+            include_constantified = true,
+            include_cachified = true,
+            use_tuples = true
+        )
     );
     excluded = SECOND_ORDER,
     logging = LOGGING,
@@ -49,6 +61,7 @@ end
 # Test second-order differentiation (forward-over-reverse)
 test_differentiation(
     [SecondOrder(AutoMooncakeForward(), AutoMooncake())],
+    nomatrix(default_scenarios());
     excluded = EXCLUDED,
     logging = LOGGING,
 )