Support for combining duplicate elements in sparse matrices

[agdestein]

Describe the bug

On the CPU, calling sparse(I, J, V) allows for repeated (i, j) pairs, and the corresponding values v are added.
This is very useful for creating discretizations in 2D and 3D.
With CUDA, the entries are kept separate. Only the first value with repeated index is displayed.

To reproduce

The Minimal Working Example (MWE) for this bug:

julia> using CUDA, SparseArrays

julia> I = [1, 3, 4, 4]
4-element Vector{Int64}:
 1
 3
 4
 4

julia> J = [1, 2, 3, 3]
4-element Vector{Int64}:
 1
 2
 3
 3

julia> V = [1f0, 2f0, 3f0, 10f0]
4-element Vector{Float32}:
  1.0
  2.0
  3.0
 10.0

julia> sparse(I, J, V)
4×3 SparseMatrixCSC{Float32, Int64} with 3 stored entries:
 1.0   ⋅     ⋅
  ⋅    ⋅     ⋅
  ⋅   2.0    ⋅
  ⋅    ⋅   13.0

julia> sparse(cu(I), cu(J), cu(V))
4×3 CUDA.CUSPARSE.CuSparseMatrixCSC{Float32, Int32} with 4 stored entries:
 1.0   ⋅    ⋅
  ⋅    ⋅    ⋅
  ⋅   2.0   ⋅
  ⋅    ⋅   3.0
julia> sparse(cu(I), cu(J), cu(V)) * cu([0f0, 0, 1])
4-element CuArray{Float32, 1, CUDA.Mem.DeviceBuffer}:
  0.0
  0.0
  0.0
 13.0
julia> sparse(cu(I), cu(J), cu(V)).nzVal
4-element CuArray{Float32, 1, CUDA.Mem.DeviceBuffer}:
  1.0
  2.0
  3.0
 10.0

Manifest.toml

(jl_cBqjWQ) pkg> st
Status `/tmp/jl_cBqjWQ/Project.toml`
  [052768ef] CUDA v5.1.1
  [2f01184e] SparseArrays v1.10.0

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version = "1.2.0"

[[deps.SparseArrays]]
deps = ["Libdl", "LinearAlgebra", "Random", "Serialization", "SuiteSparse_jll"]
uuid = "2f01184e-e22b-5df5-ae63-d93ebab69eaf"
version = "1.10.0"

[[deps.StaticArrays]]
deps = ["LinearAlgebra", "PrecompileTools", "Random", "StaticArraysCore"]
git-tree-sha1 = "5ef59aea6f18c25168842bded46b16662141ab87"
uuid = "90137ffa-7385-5640-81b9-e52037218182"
version = "1.7.0"
weakdeps = ["Statistics"]

    [deps.StaticArrays.extensions]
    StaticArraysStatisticsExt = "Statistics"

[[deps.StaticArraysCore]]
git-tree-sha1 = "36b3d696ce6366023a0ea192b4cd442268995a0d"
uuid = "1e83bf80-4336-4d27-bf5d-d5a4f845583c"
version = "1.4.2"

[[deps.Statistics]]
deps = ["LinearAlgebra", "SparseArrays"]
uuid = "10745b16-79ce-11e8-11f9-7d13ad32a3b2"
version = "1.10.0"

[[deps.StringManipulation]]
deps = ["PrecompileTools"]
git-tree-sha1 = "a04cabe79c5f01f4d723cc6704070ada0b9d46d5"
uuid = "892a3eda-7b42-436c-8928-eab12a02cf0e"
version = "0.3.4"

[[deps.SuiteSparse_jll]]
deps = ["Artifacts", "Libdl", "Pkg", "libblastrampoline_jll"]
uuid = "bea87d4a-7f5b-5778-9afe-8cc45184846c"
version = "7.2.1+1"

[[deps.TOML]]
deps = ["Dates"]
uuid = "fa267f1f-6049-4f14-aa54-33bafae1ed76"
version = "1.0.3"

[[deps.TableTraits]]
deps = ["IteratorInterfaceExtensions"]
git-tree-sha1 = "c06b2f539df1c6efa794486abfb6ed2022561a39"
uuid = "3783bdb8-4a98-5b6b-af9a-565f29a5fe9c"
version = "1.0.1"

[[deps.Tables]]
deps = ["DataAPI", "DataValueInterfaces", "IteratorInterfaceExtensions", "LinearAlgebra", "OrderedCollections", "TableTraits"]
git-tree-sha1 = "cb76cf677714c095e535e3501ac7954732aeea2d"
uuid = "bd369af6-aec1-5ad0-b16a-f7cc5008161c"
version = "1.11.1"

[[deps.Tar]]
deps = ["ArgTools", "SHA"]
uuid = "a4e569a6-e804-4fa4-b0f3-eef7a1d5b13e"
version = "1.10.0"

[[deps.Test]]
deps = ["InteractiveUtils", "Logging", "Random", "Serialization"]
uuid = "8dfed614-e22c-5e08-85e1-65c5234f0b40"

[[deps.TimerOutputs]]
deps = ["ExprTools", "Printf"]
git-tree-sha1 = "f548a9e9c490030e545f72074a41edfd0e5bcdd7"
uuid = "a759f4b9-e2f1-59dc-863e-4aeb61b1ea8f"
version = "0.5.23"

[[deps.UUIDs]]
deps = ["Random", "SHA"]
uuid = "cf7118a7-6976-5b1a-9a39-7adc72f591a4"

[[deps.Unicode]]
uuid = "4ec0a83e-493e-50e2-b9ac-8f72acf5a8f5"

[[deps.UnsafeAtomics]]
git-tree-sha1 = "6331ac3440856ea1988316b46045303bef658278"
uuid = "013be700-e6cd-48c3-b4a1-df204f14c38f"
version = "0.2.1"

[[deps.UnsafeAtomicsLLVM]]
deps = ["LLVM", "UnsafeAtomics"]
git-tree-sha1 = "323e3d0acf5e78a56dfae7bd8928c989b4f3083e"
uuid = "d80eeb9a-aca5-4d75-85e5-170c8b632249"
version = "0.1.3"

[[deps.Zlib_jll]]
deps = ["Libdl"]
uuid = "83775a58-1f1d-513f-b197-d71354ab007a"
version = "1.2.13+1"

[[deps.libblastrampoline_jll]]
deps = ["Artifacts", "Libdl"]
uuid = "8e850b90-86db-534c-a0d3-1478176c7d93"
version = "5.8.0+1"

[[deps.nghttp2_jll]]
deps = ["Artifacts", "Libdl"]
uuid = "8e850ede-7688-5339-a07c-302acd2aaf8d"
version = "1.52.0+1"

[[deps.p7zip_jll]]
deps = ["Artifacts", "Libdl"]
uuid = "3f19e933-33d8-53b3-aaab-bd5110c3b7a0"
version = "17.4.0+2"

Expected behavior

I would expect sparse(cu(I), cu(J), cu(V)) to display the same matrix as sparse(I, J, V), i.e. the value at position [4, 3] should be 13.0, not 3.0. It seems the CUDA version does not merge the entries, but keeps them separate.

Version info

Details on Julia:

julia> versioninfo()
Julia Version 1.10.0-rc1
Commit 5aaa9485436 (2023-11-03 07:44 UTC)
Build Info:
  Official https://julialang.org/ release
Platform Info:
  OS: Linux (x86_64-linux-gnu)
  CPU: 32 × 13th Gen Intel(R) Core(TM) i9-13900K
  WORD_SIZE: 64
  LIBM: libopenlibm
  LLVM: libLLVM-15.0.7 (ORCJIT, goldmont)
  Threads: 1 on 32 virtual cores

Details on CUDA:

julia> CUDA.versioninfo()
CUDA runtime 12.3, artifact installation
CUDA driver 12.3
NVIDIA driver 545.29.6

CUDA libraries:
- CUBLAS: 12.3.4
- CURAND: 10.3.4
- CUFFT: 11.0.12
- CUSOLVER: 11.5.4
- CUSPARSE: 12.2.0
- CUPTI: 21.0.0
- NVML: 12.0.0+545.29.6

Julia packages:
- CUDA: 5.1.1
- CUDA_Driver_jll: 0.7.0+0
- CUDA_Runtime_jll: 0.10.1+0

Toolchain:
- Julia: 1.10.0-rc1
- LLVM: 15.0.7

1 device:
  0: NVIDIA GeForce RTX 4090 (sm_89, 21.189 GiB / 23.988 GiB available)

Additional context

Same issue on Julia v1.9.4.

[maleadt]

Please test #2213