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SparseVariationalApproximation cleanup #86

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merged 20 commits into from
Jan 7, 2022
Merged

SparseVariationalApproximation cleanup #86

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c55ef11
prior KL
st-- Dec 22, 2021
fa516c3
unify Centered and NonCentered predictions
st-- Dec 22, 2021
4cc3dfa
Apply suggestions from code review
st-- Dec 22, 2021
96ee796
bugfix
st-- Dec 23, 2021
a186e7a
Merge branch 'st/sva_cleanup' of github.com:JuliaGaussianProcesses/Ap…
st-- Dec 23, 2021
43ce052
fix rename
st-- Dec 23, 2021
8b49e75
testsets
st-- Dec 23, 2021
cf0cece
Apply suggestions from code review
st-- Dec 23, 2021
90704a0
bugfix
st-- Dec 24, 2021
4fb5ea3
Merge branch 'st/sva_cleanup' of github.com:JuliaGaussianProcesses/Ap…
st-- Dec 24, 2021
d075138
tomls
st-- Dec 24, 2021
a05edf5
Merge branch 'master' of github.com:JuliaGaussianProcesses/Approximat…
st-- Jan 4, 2022
a4acb03
bugfix
st-- Jan 4, 2022
9250eb5
update comments
st-- Jan 5, 2022
a6b67fa
patch bump
st-- Jan 5, 2022
34a3b7a
consistent naming
st-- Jan 7, 2022
df308a3
minor cleanup
st-- Jan 7, 2022
55ece79
clean up imports
st-- Jan 7, 2022
69fc92f
clean up imports
st-- Jan 7, 2022
b6d9026
formatting
st-- Jan 7, 2022
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4 changes: 3 additions & 1 deletion Project.toml
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Original file line number Diff line number Diff line change
@@ -1,7 +1,7 @@
name = "ApproximateGPs"
uuid = "298c2ebc-0411-48ad-af38-99e88101b606"
authors = ["JuliaGaussianProcesses Team"]
version = "0.2.3"
version = "0.2.4"

[deps]
AbstractGPs = "99985d1d-32ba-4be9-9821-2ec096f28918"
Expand All @@ -13,6 +13,7 @@ ForwardDiff = "f6369f11-7733-5829-9624-2563aa707210"
GPLikelihoods = "6031954c-0455-49d7-b3b9-3e1c99afaf40"
KLDivergences = "3c9cd921-3d3f-41e2-830c-e020174918cc"
LinearAlgebra = "37e2e46d-f89d-539d-b4ee-838fcccc9c8e"
PDMats = "90014a1f-27ba-587c-ab20-58faa44d9150"
Reexport = "189a3867-3050-52da-a836-e630ba90ab69"
SpecialFunctions = "276daf66-3868-5448-9aa4-cd146d93841b"
Statistics = "10745b16-79ce-11e8-11f9-7d13ad32a3b2"
Expand All @@ -27,6 +28,7 @@ FillArrays = "0.12"
ForwardDiff = "0.10"
GPLikelihoods = "0.1, 0.2"
KLDivergences = "0.2.1"
PDMats = "0.11"
Reexport = "1"
SpecialFunctions = "1, 2"
StatsBase = "0.33"
Expand Down
4 changes: 2 additions & 2 deletions docs/Manifest.toml
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Original file line number Diff line number Diff line change
Expand Up @@ -12,10 +12,10 @@ uuid = "99985d1d-32ba-4be9-9821-2ec096f28918"
version = "0.5.3"

[[ApproximateGPs]]
deps = ["AbstractGPs", "ChainRulesCore", "Distributions", "FastGaussQuadrature", "FillArrays", "ForwardDiff", "GPLikelihoods", "KLDivergences", "LinearAlgebra", "Reexport", "SpecialFunctions", "Statistics", "StatsBase"]
deps = ["AbstractGPs", "ChainRulesCore", "Distributions", "FastGaussQuadrature", "FillArrays", "ForwardDiff", "GPLikelihoods", "KLDivergences", "LinearAlgebra", "PDMats", "Reexport", "SpecialFunctions", "Statistics", "StatsBase"]
path = ".."
uuid = "298c2ebc-0411-48ad-af38-99e88101b606"
version = "0.2.1"
version = "0.2.3"

[[ArgTools]]
uuid = "0dad84c5-d112-42e6-8d28-ef12dabb789f"
Expand Down
20 changes: 10 additions & 10 deletions examples/a-regression/Manifest.toml
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Original file line number Diff line number Diff line change
Expand Up @@ -24,10 +24,10 @@ uuid = "79e6a3ab-5dfb-504d-930d-738a2a938a0e"
version = "3.3.1"

[[ApproximateGPs]]
deps = ["AbstractGPs", "ChainRulesCore", "Distributions", "FastGaussQuadrature", "FillArrays", "ForwardDiff", "GPLikelihoods", "KLDivergences", "LinearAlgebra", "Reexport", "SpecialFunctions", "Statistics", "StatsBase"]
deps = ["AbstractGPs", "ChainRulesCore", "Distributions", "FastGaussQuadrature", "FillArrays", "ForwardDiff", "GPLikelihoods", "KLDivergences", "LinearAlgebra", "PDMats", "Reexport", "SpecialFunctions", "Statistics", "StatsBase"]
path = "../.."
uuid = "298c2ebc-0411-48ad-af38-99e88101b606"
version = "0.2.0"
version = "0.2.3"

[[ArgTools]]
uuid = "0dad84c5-d112-42e6-8d28-ef12dabb789f"
Expand Down Expand Up @@ -69,9 +69,9 @@ version = "3.5.0"

[[Cairo_jll]]
deps = ["Artifacts", "Bzip2_jll", "Fontconfig_jll", "FreeType2_jll", "Glib_jll", "JLLWrappers", "LZO_jll", "Libdl", "Pixman_jll", "Pkg", "Xorg_libXext_jll", "Xorg_libXrender_jll", "Zlib_jll", "libpng_jll"]
git-tree-sha1 = "f2202b55d816427cd385a9a4f3ffb226bee80f99"
git-tree-sha1 = "4b859a208b2397a7a623a03449e4636bdb17bcf2"
uuid = "83423d85-b0ee-5818-9007-b63ccbeb887a"
version = "1.16.1+0"
version = "1.16.1+1"

[[ChainRules]]
deps = ["ChainRulesCore", "Compat", "LinearAlgebra", "Random", "RealDot", "Statistics"]
Expand Down Expand Up @@ -336,9 +336,9 @@ version = "0.21.0+0"

[[Glib_jll]]
deps = ["Artifacts", "Gettext_jll", "JLLWrappers", "Libdl", "Libffi_jll", "Libiconv_jll", "Libmount_jll", "PCRE_jll", "Pkg", "Zlib_jll"]
git-tree-sha1 = "7bf67e9a481712b3dbe9cb3dac852dc4b1162e02"
git-tree-sha1 = "a32d672ac2c967f3deb8a81d828afc739c838a06"
uuid = "7746bdde-850d-59dc-9ae8-88ece973131d"
version = "2.68.3+0"
version = "2.68.3+2"

[[Graphite2_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"]
Expand All @@ -359,9 +359,9 @@ version = "0.9.16"

[[HarfBuzz_jll]]
deps = ["Artifacts", "Cairo_jll", "Fontconfig_jll", "FreeType2_jll", "Glib_jll", "Graphite2_jll", "JLLWrappers", "Libdl", "Libffi_jll", "Pkg"]
git-tree-sha1 = "8a954fed8ac097d5be04921d595f741115c1b2ad"
git-tree-sha1 = "129acf094d168394e80ee1dc4bc06ec835e510a3"
uuid = "2e76f6c2-a576-52d4-95c1-20adfe4de566"
version = "2.8.1+0"
version = "2.8.1+1"

[[IOCapture]]
deps = ["Logging", "Random"]
Expand Down Expand Up @@ -507,9 +507,9 @@ uuid = "8f399da3-3557-5675-b5ff-fb832c97cbdb"

[[Libffi_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"]
git-tree-sha1 = "761a393aeccd6aa92ec3515e428c26bf99575b3b"
git-tree-sha1 = "0b4a5d71f3e5200a7dff793393e09dfc2d874290"
uuid = "e9f186c6-92d2-5b65-8a66-fee21dc1b490"
version = "3.2.2+0"
version = "3.2.2+1"

[[Libgcrypt_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl", "Libgpg_error_jll", "Pkg"]
Expand Down
20 changes: 10 additions & 10 deletions examples/b-classification/Manifest.toml
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Original file line number Diff line number Diff line change
Expand Up @@ -19,10 +19,10 @@ uuid = "79e6a3ab-5dfb-504d-930d-738a2a938a0e"
version = "3.3.1"

[[ApproximateGPs]]
deps = ["AbstractGPs", "ChainRulesCore", "Distributions", "FastGaussQuadrature", "FillArrays", "ForwardDiff", "GPLikelihoods", "KLDivergences", "LinearAlgebra", "Reexport", "SpecialFunctions", "Statistics", "StatsBase"]
deps = ["AbstractGPs", "ChainRulesCore", "Distributions", "FastGaussQuadrature", "FillArrays", "ForwardDiff", "GPLikelihoods", "KLDivergences", "LinearAlgebra", "PDMats", "Reexport", "SpecialFunctions", "Statistics", "StatsBase"]
path = "../.."
uuid = "298c2ebc-0411-48ad-af38-99e88101b606"
version = "0.2.0"
version = "0.2.3"

[[ArgTools]]
uuid = "0dad84c5-d112-42e6-8d28-ef12dabb789f"
Expand All @@ -47,9 +47,9 @@ version = "1.0.8+0"

[[Cairo_jll]]
deps = ["Artifacts", "Bzip2_jll", "Fontconfig_jll", "FreeType2_jll", "Glib_jll", "JLLWrappers", "LZO_jll", "Libdl", "Pixman_jll", "Pkg", "Xorg_libXext_jll", "Xorg_libXrender_jll", "Zlib_jll", "libpng_jll"]
git-tree-sha1 = "f2202b55d816427cd385a9a4f3ffb226bee80f99"
git-tree-sha1 = "4b859a208b2397a7a623a03449e4636bdb17bcf2"
uuid = "83423d85-b0ee-5818-9007-b63ccbeb887a"
version = "1.16.1+0"
version = "1.16.1+1"

[[ChainRules]]
deps = ["ChainRulesCore", "Compat", "LinearAlgebra", "Random", "RealDot", "Statistics"]
Expand Down Expand Up @@ -291,9 +291,9 @@ version = "0.21.0+0"

[[Glib_jll]]
deps = ["Artifacts", "Gettext_jll", "JLLWrappers", "Libdl", "Libffi_jll", "Libiconv_jll", "Libmount_jll", "PCRE_jll", "Pkg", "Zlib_jll"]
git-tree-sha1 = "7bf67e9a481712b3dbe9cb3dac852dc4b1162e02"
git-tree-sha1 = "a32d672ac2c967f3deb8a81d828afc739c838a06"
uuid = "7746bdde-850d-59dc-9ae8-88ece973131d"
version = "2.68.3+0"
version = "2.68.3+2"

[[Graphite2_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"]
Expand All @@ -314,9 +314,9 @@ version = "0.9.16"

[[HarfBuzz_jll]]
deps = ["Artifacts", "Cairo_jll", "Fontconfig_jll", "FreeType2_jll", "Glib_jll", "Graphite2_jll", "JLLWrappers", "Libdl", "Libffi_jll", "Pkg"]
git-tree-sha1 = "8a954fed8ac097d5be04921d595f741115c1b2ad"
git-tree-sha1 = "129acf094d168394e80ee1dc4bc06ec835e510a3"
uuid = "2e76f6c2-a576-52d4-95c1-20adfe4de566"
version = "2.8.1+0"
version = "2.8.1+1"

[[IOCapture]]
deps = ["Logging", "Random"]
Expand Down Expand Up @@ -440,9 +440,9 @@ uuid = "8f399da3-3557-5675-b5ff-fb832c97cbdb"

[[Libffi_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"]
git-tree-sha1 = "761a393aeccd6aa92ec3515e428c26bf99575b3b"
git-tree-sha1 = "0b4a5d71f3e5200a7dff793393e09dfc2d874290"
uuid = "e9f186c6-92d2-5b65-8a66-fee21dc1b490"
version = "3.2.2+0"
version = "3.2.2+1"

[[Libgcrypt_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl", "Libgpg_error_jll", "Pkg"]
Expand Down
20 changes: 10 additions & 10 deletions examples/c-comparisons/Manifest.toml
View file
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Original file line number Diff line number Diff line change
Expand Up @@ -19,10 +19,10 @@ uuid = "79e6a3ab-5dfb-504d-930d-738a2a938a0e"
version = "3.3.1"

[[ApproximateGPs]]
deps = ["AbstractGPs", "ChainRulesCore", "Distributions", "FastGaussQuadrature", "FillArrays", "ForwardDiff", "GPLikelihoods", "KLDivergences", "LinearAlgebra", "Reexport", "SpecialFunctions", "Statistics", "StatsBase"]
deps = ["AbstractGPs", "ChainRulesCore", "Distributions", "FastGaussQuadrature", "FillArrays", "ForwardDiff", "GPLikelihoods", "KLDivergences", "LinearAlgebra", "PDMats", "Reexport", "SpecialFunctions", "Statistics", "StatsBase"]
path = "../.."
uuid = "298c2ebc-0411-48ad-af38-99e88101b606"
version = "0.2.0"
version = "0.2.3"

[[ArgTools]]
uuid = "0dad84c5-d112-42e6-8d28-ef12dabb789f"
Expand All @@ -47,9 +47,9 @@ version = "1.0.8+0"

[[Cairo_jll]]
deps = ["Artifacts", "Bzip2_jll", "Fontconfig_jll", "FreeType2_jll", "Glib_jll", "JLLWrappers", "LZO_jll", "Libdl", "Pixman_jll", "Pkg", "Xorg_libXext_jll", "Xorg_libXrender_jll", "Zlib_jll", "libpng_jll"]
git-tree-sha1 = "f2202b55d816427cd385a9a4f3ffb226bee80f99"
git-tree-sha1 = "4b859a208b2397a7a623a03449e4636bdb17bcf2"
uuid = "83423d85-b0ee-5818-9007-b63ccbeb887a"
version = "1.16.1+0"
version = "1.16.1+1"

[[ChainRules]]
deps = ["ChainRulesCore", "Compat", "LinearAlgebra", "Random", "RealDot", "Statistics"]
Expand Down Expand Up @@ -291,9 +291,9 @@ version = "0.21.0+0"

[[Glib_jll]]
deps = ["Artifacts", "Gettext_jll", "JLLWrappers", "Libdl", "Libffi_jll", "Libiconv_jll", "Libmount_jll", "PCRE_jll", "Pkg", "Zlib_jll"]
git-tree-sha1 = "7bf67e9a481712b3dbe9cb3dac852dc4b1162e02"
git-tree-sha1 = "a32d672ac2c967f3deb8a81d828afc739c838a06"
uuid = "7746bdde-850d-59dc-9ae8-88ece973131d"
version = "2.68.3+0"
version = "2.68.3+2"

[[Graphite2_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"]
Expand All @@ -314,9 +314,9 @@ version = "0.9.16"

[[HarfBuzz_jll]]
deps = ["Artifacts", "Cairo_jll", "Fontconfig_jll", "FreeType2_jll", "Glib_jll", "Graphite2_jll", "JLLWrappers", "Libdl", "Libffi_jll", "Pkg"]
git-tree-sha1 = "8a954fed8ac097d5be04921d595f741115c1b2ad"
git-tree-sha1 = "129acf094d168394e80ee1dc4bc06ec835e510a3"
uuid = "2e76f6c2-a576-52d4-95c1-20adfe4de566"
version = "2.8.1+0"
version = "2.8.1+1"

[[IOCapture]]
deps = ["Logging", "Random"]
Expand Down Expand Up @@ -440,9 +440,9 @@ uuid = "8f399da3-3557-5675-b5ff-fb832c97cbdb"

[[Libffi_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"]
git-tree-sha1 = "761a393aeccd6aa92ec3515e428c26bf99575b3b"
git-tree-sha1 = "0b4a5d71f3e5200a7dff793393e09dfc2d874290"
uuid = "e9f186c6-92d2-5b65-8a66-fee21dc1b490"
version = "3.2.2+0"
version = "3.2.2+1"

[[Libgcrypt_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl", "Libgpg_error_jll", "Pkg"]
Expand Down
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