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Commit db98ecd1 authored by Peter Jentsch's avatar Peter Jentsch
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finally contact network done

parent 203b7a3d
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CovidAlertVaccinationModel/Manifest.toml
View file @ db98ecd1
......@@ -21,10 +21,10 @@ uuid = "ec485272-7323-5ecc-a04f-4719b315124d"
version = "0.1.0"
[[ArrayInterface]]
deps = ["IfElse", "LinearAlgebra", "Requires", "SparseArrays"]
git-tree-sha1 = "ee07ae00e3cc277dcfa5507ce25be522313ecc3e"
deps = ["IfElse", "LinearAlgebra", "Requires", "SparseArrays", "Static"]
git-tree-sha1 = "2fbfa5f372352f92191b63976d070dc7195f47a4"
uuid = "4fba245c-0d91-5ea0-9b3e-6abc04ee57a9"
version = "3.1.1"
version = "3.1.7"
[[Artifacts]]
uuid = "56f22d72-fd6d-98f1-02f0-08ddc0907c33"
......@@ -40,9 +40,9 @@ uuid = "2a0f44e3-6c83-55bd-87e4-b1978d98bd5f"
[[BenchmarkTools]]
deps = ["JSON", "Logging", "Printf", "Statistics", "UUIDs"]
git-tree-sha1 = "9e62e66db34540a0c919d72172cc2f642ac71260"
git-tree-sha1 = "068fda9b756e41e6c75da7b771e6f89fa8a43d15"
uuid = "6e4b80f9-dd63-53aa-95a3-0cdb28fa8baf"
version = "0.5.0"
version = "0.7.0"
[[Bzip2_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"]
......@@ -52,9 +52,9 @@ version = "1.0.6+5"
[[CSV]]
deps = ["Dates", "Mmap", "Parsers", "PooledArrays", "SentinelArrays", "Tables", "Unicode"]
git-tree-sha1 = "1f79803452adf73e2d3fc84785adb7aaca14db36"
git-tree-sha1 = "6d4242ef4cb1539e7ede8e01a47a32365e0a34cd"
uuid = "336ed68f-0bac-5ca0-87d4-7b16caf5d00b"
version = "0.8.3"
version = "0.8.4"
[[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"]
......@@ -64,39 +64,39 @@ version = "1.16.0+6"
[[CategoricalArrays]]
deps = ["DataAPI", "Future", "JSON", "Missings", "Printf", "Statistics", "StructTypes", "Unicode"]
git-tree-sha1 = "99809999c8ee01fa89498480b147f7394ea5450f"
git-tree-sha1 = "f713d583d10fc036252fd826feebc6c173c522a8"
uuid = "324d7699-5711-5eae-9e2f-1d82baa6b597"
version = "0.9.2"
version = "0.9.5"
[[ChainRulesCore]]
deps = ["Compat", "LinearAlgebra", "SparseArrays"]
git-tree-sha1 = "de4f08843c332d355852721adb1592bce7924da3"
git-tree-sha1 = "44e9f638aa9ed1ad58885defc568c133010140aa"
uuid = "d360d2e6-b24c-11e9-a2a3-2a2ae2dbcce4"
version = "0.9.29"
version = "0.9.37"
[[ColorSchemes]]
deps = ["ColorTypes", "Colors", "FixedPointNumbers", "Random", "StaticArrays"]
git-tree-sha1 = "3141757b5832ee7a0386db87997ee5a23ff20f4d"
git-tree-sha1 = "d3cf83862f70d430d4b34e43ed65e74bd50ae0e0"
uuid = "35d6a980-a343-548e-a6ea-1d62b119f2f4"
version = "3.10.2"
version = "3.11.0"
[[ColorTypes]]
deps = ["FixedPointNumbers", "Random"]
git-tree-sha1 = "4bffea7ed1a9f0f3d1a131bbcd4b925548d75288"
git-tree-sha1 = "32a2b8af383f11cbb65803883837a149d10dfe8a"
uuid = "3da002f7-5984-5a60-b8a6-cbb66c0b333f"
version = "0.10.9"
version = "0.10.12"
[[Colors]]
deps = ["ColorTypes", "FixedPointNumbers", "InteractiveUtils", "Reexport"]
git-tree-sha1 = "ac5f2213e56ed8a34a3dd2f681f4df1166b34929"
deps = ["ColorTypes", "FixedPointNumbers", "Reexport"]
git-tree-sha1 = "82f4e6ff9f847eca3e5ebc666ea2cd7b48e8b47e"
uuid = "5ae59095-9a9b-59fe-a467-6f913c188581"
version = "0.12.6"
version = "0.12.7"
[[Compat]]
deps = ["Base64", "Dates", "DelimitedFiles", "Distributed", "InteractiveUtils", "LibGit2", "Libdl", "LinearAlgebra", "Markdown", "Mmap", "Pkg", "Printf", "REPL", "Random", "SHA", "Serialization", "SharedArrays", "Sockets", "SparseArrays", "Statistics", "Test", "UUIDs", "Unicode"]
git-tree-sha1 = "919c7f3151e79ff196add81d7f4e45d91bbf420b"
git-tree-sha1 = "4fecfd5485d3c5de4003e19f00c6898cccd40667"
uuid = "34da2185-b29b-5c13-b0c7-acf172513d20"
version = "3.25.0"
version = "3.26.0"
[[CompilerSupportLibraries_jll]]
deps = ["Artifacts", "Libdl"]
......@@ -131,9 +131,9 @@ version = "1.6.0"
[[DataFrames]]
deps = ["CategoricalArrays", "Compat", "DataAPI", "Future", "InvertedIndices", "IteratorInterfaceExtensions", "LinearAlgebra", "Markdown", "Missings", "PooledArrays", "PrettyTables", "Printf", "REPL", "Reexport", "SortingAlgorithms", "Statistics", "TableTraits", "Tables", "Unicode"]
git-tree-sha1 = "b0db5579803eabb33f1274ca7ca2f472fdfb7f2a"
git-tree-sha1 = "d50972453ef464ddcebdf489d11885468b7b83a3"
uuid = "a93c6f00-e57d-5684-b7b6-d8193f3e46c0"
version = "0.22.5"
version = "0.22.7"
[[DataStructures]]
deps = ["Compat", "InteractiveUtils", "OrderedCollections"]
......@@ -165,9 +165,9 @@ uuid = "8ba89e20-285c-5b6f-9357-94700520ee1b"
[[Distributions]]
deps = ["FillArrays", "LinearAlgebra", "PDMats", "Printf", "QuadGK", "Random", "SparseArrays", "SpecialFunctions", "Statistics", "StatsBase", "StatsFuns"]
git-tree-sha1 = "5a9a742ae30f13d6172c7ea245988d932134e25b"
git-tree-sha1 = "e64debe8cd174cc52d7dd617ebc5492c6f8b698c"
uuid = "31c24e10-a181-5473-b8eb-7969acd0382f"
version = "0.24.13"
version = "0.24.15"
[[Downloads]]
deps = ["ArgTools", "LibCURL", "NetworkOptions"]
......@@ -210,9 +210,9 @@ version = "4.3.1+4"
[[FillArrays]]
deps = ["LinearAlgebra", "Random", "SparseArrays"]
git-tree-sha1 = "e384d3cff80ac79c7a541a817192841836e46331"
git-tree-sha1 = "31939159aeb8ffad1d4d8ee44d07f8558273120a"
uuid = "1a297f60-69ca-5386-bcde-b61e274b549b"
version = "0.11.2"
version = "0.11.7"
[[FixedPointNumbers]]
deps = ["Statistics"]
......@@ -250,27 +250,27 @@ uuid = "9fa8497b-333b-5362-9e8d-4d0656e87820"
[[GLFW_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl", "Libglvnd_jll", "Pkg", "Xorg_libXcursor_jll", "Xorg_libXi_jll", "Xorg_libXinerama_jll", "Xorg_libXrandr_jll"]
git-tree-sha1 = "a1bbf700b5388bffc3d882f4f4d625cf1c714fd7"
git-tree-sha1 = "bd1dbf065d7a4a0bdf7e74dd26cf932dda22b929"
uuid = "0656b61e-2033-5cc2-a64a-77c0f6c09b89"
version = "3.3.2+1"
version = "3.3.3+0"
[[GR]]
deps = ["Base64", "DelimitedFiles", "GR_jll", "HTTP", "JSON", "LinearAlgebra", "Pkg", "Printf", "Random", "Serialization", "Sockets", "Test", "UUIDs"]
git-tree-sha1 = "aaebdf5588281c2902f499b49e67953f2b409c9c"
git-tree-sha1 = "f74b42150042d11a1d94badf27c6125867c7e9bd"
uuid = "28b8d3ca-fb5f-59d9-8090-bfdbd6d07a71"
version = "0.54.0"
version = "0.57.1"
[[GR_jll]]
deps = ["Artifacts", "Bzip2_jll", "Cairo_jll", "FFMPEG_jll", "Fontconfig_jll", "GLFW_jll", "JLLWrappers", "JpegTurbo_jll", "Libdl", "Libtiff_jll", "Pixman_jll", "Pkg", "Qt_jll", "Zlib_jll", "libpng_jll"]
git-tree-sha1 = "8aee6fa096b0cbdb05e71750c978b96a08c78951"
deps = ["Artifacts", "Bzip2_jll", "Cairo_jll", "FFMPEG_jll", "Fontconfig_jll", "GLFW_jll", "JLLWrappers", "JpegTurbo_jll", "Libdl", "Libtiff_jll", "Pixman_jll", "Pkg", "Qt5Base_jll", "Zlib_jll", "libpng_jll"]
git-tree-sha1 = "578527027f2d6c29a8de3e2eb6887d8850ef755c"
uuid = "d2c73de3-f751-5644-a686-071e5b155ba9"
version = "0.53.0+0"
version = "0.57.1+0"
[[GeometryBasics]]
deps = ["EarCut_jll", "IterTools", "LinearAlgebra", "StaticArrays", "StructArrays", "Tables"]
git-tree-sha1 = "4d4f72691933d5b6ee1ff20e27a102c3ae99d123"
git-tree-sha1 = "4136b8a5668341e58398bb472754bff4ba0456ff"
uuid = "5c1252a2-5f33-56bf-86c9-59e7332b4326"
version = "0.3.9"
version = "0.3.12"
[[Gettext_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl", "Libiconv_jll", "Pkg", "XML2_jll"]
......@@ -290,10 +290,10 @@ uuid = "42e2da0e-8278-4e71-bc24-59509adca0fe"
version = "1.0.0"
[[HTTP]]
deps = ["Base64", "Dates", "IniFile", "MbedTLS", "Sockets", "URIs"]
git-tree-sha1 = "942c1a9c750bbe79912b7bd060a420932afd35b8"
deps = ["Base64", "Dates", "IniFile", "MbedTLS", "NetworkOptions", "Sockets", "URIs"]
git-tree-sha1 = "c9f380c76d8aaa1fa7ea9cf97bddbc0d5b15adc2"
uuid = "cd3eb016-35fb-5094-929b-558a96fad6f3"
version = "0.9.3"
version = "0.9.5"
[[IfElse]]
git-tree-sha1 = "28e837ff3e7a6c3cdb252ce49fb412c8eb3caeef"
......@@ -378,21 +378,21 @@ uuid = "dd4b983a-f0e5-5f8d-a1b7-129d4a5fb1ac"
version = "2.10.0+3"
[[LaTeXStrings]]
git-tree-sha1 = "c7aebfecb1a60d59c0fe023a68ec947a208b1e6b"
git-tree-sha1 = "c7f1c695e06c01b95a67f0cd1d34994f3e7db104"
uuid = "b964fa9f-0449-5b57-a5c2-d3ea65f4040f"
version = "1.2.0"
version = "1.2.1"
[[LabelledArrays]]
deps = ["ArrayInterface", "LinearAlgebra", "MacroTools", "StaticArrays"]
git-tree-sha1 = "5e288800819c323de5897fa6d5a002bdad54baf7"
git-tree-sha1 = "df09e970c816637191ef8794ef5c5c9f8950db88"
uuid = "2ee39098-c373-598a-b85f-a56591580800"
version = "1.5.0"
version = "1.6.0"
[[Latexify]]
deps = ["Formatting", "InteractiveUtils", "LaTeXStrings", "MacroTools", "Markdown", "Printf", "Requires"]
git-tree-sha1 = "3a0084cec7bf157edcb45a67fac0647f88fe5eaf"
git-tree-sha1 = "7c72983c6daf61393ee8a0b29a419c709a06cede"
uuid = "23fbe1c1-3f47-55db-b15f-69d7ec21a316"
version = "0.14.7"
version = "0.14.12"
[[LibCURL]]
deps = ["LibCURL_jll", "MozillaCACerts_jll"]
......@@ -573,9 +573,9 @@ uuid = "91d4177d-7536-5919-b921-800302f37372"
version = "1.3.1+3"
[[OrderedCollections]]
git-tree-sha1 = "d45739abcfc03b51f6a42712894a593f74c80a23"
git-tree-sha1 = "4fa2ba51070ec13fcc7517db714445b4ab986bdf"
uuid = "bac558e1-5e72-5ebc-8fee-abe8a469f55d"
version = "1.3.3"
version = "1.4.0"
[[PCRE_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"]
......@@ -584,16 +584,16 @@ uuid = "2f80f16e-611a-54ab-bc61-aa92de5b98fc"
version = "8.42.0+4"
[[PDMats]]
deps = ["LinearAlgebra", "SparseArrays", "SuiteSparse", "Test"]
git-tree-sha1 = "95a4038d1011dfdbde7cecd2ad0ac411e53ab1bc"
deps = ["LinearAlgebra", "SparseArrays", "SuiteSparse"]
git-tree-sha1 = "f82a0e71f222199de8e9eb9a09977bd0767d52a0"
uuid = "90014a1f-27ba-587c-ab20-58faa44d9150"
version = "0.10.1"
version = "0.11.0"
[[Parsers]]
deps = ["Dates"]
git-tree-sha1 = "50c9a9ed8c714945e01cd53a21007ed3865ed714"
git-tree-sha1 = "c8abc88faa3f7a3950832ac5d6e690881590d6dc"
uuid = "69de0a69-1ddd-5017-9359-2bf0b02dc9f0"
version = "1.0.15"
version = "1.1.0"
[[Pipe]]
git-tree-sha1 = "6842804e7867b115ca9de748a0cf6b364523c16d"
......@@ -624,15 +624,15 @@ version = "1.0.10"
[[Plots]]
deps = ["Base64", "Contour", "Dates", "FFMPEG", "FixedPointNumbers", "GR", "GeometryBasics", "JSON", "Latexify", "LinearAlgebra", "Measures", "NaNMath", "PlotThemes", "PlotUtils", "Printf", "REPL", "Random", "RecipesBase", "RecipesPipeline", "Reexport", "Requires", "Scratch", "Showoff", "SparseArrays", "Statistics", "StatsBase", "UUIDs"]
git-tree-sha1 = "cab13323a50caf17432793269677b289234f02ca"
git-tree-sha1 = "cc4eb1be2576984d7a0f7f51478827dee816138b"
uuid = "91a5bcdd-55d7-5caf-9e0b-520d859cae80"
version = "1.10.4"
version = "1.11.2"
[[PooledArrays]]
deps = ["DataAPI"]
git-tree-sha1 = "0e8f5c428a41a81cd71f76d76f2fc3415fe5a676"
deps = ["DataAPI", "Future"]
git-tree-sha1 = "cde4ce9d6f33219465b55162811d8de8139c0414"
uuid = "2dfb63ee-cc39-5dd5-95bd-886bf059d720"
version = "1.1.0"
version = "1.2.1"
[[PrettyTables]]
deps = ["Crayons", "Formatting", "Markdown", "Reexport", "Tables"]
......@@ -644,11 +644,11 @@ version = "0.11.1"
deps = ["Unicode"]
uuid = "de0858da-6303-5e67-8744-51eddeeeb8d7"
[[Qt_jll]]
[[Qt5Base_jll]]
deps = ["Artifacts", "CompilerSupportLibraries_jll", "Fontconfig_jll", "Glib_jll", "JLLWrappers", "Libdl", "Libglvnd_jll", "OpenSSL_jll", "Pkg", "Xorg_libXext_jll", "Xorg_libxcb_jll", "Xorg_xcb_util_image_jll", "Xorg_xcb_util_keysyms_jll", "Xorg_xcb_util_renderutil_jll", "Xorg_xcb_util_wm_jll", "Zlib_jll", "xkbcommon_jll"]
git-tree-sha1 = "588b799506f0b956a7e6e18f767dfa03cf333f26"
uuid = "ede63266-ebff-546c-83e0-1c6fb6d0efc8"
version = "5.15.2+2"
git-tree-sha1 = "16626cfabbf7206d60d84f2bf4725af7b37d4a77"
uuid = "ea2cea3b-5b76-57ae-a6ef-0a8af62496e1"
version = "5.15.2+0"
[[QuadGK]]
deps = ["DataStructures", "LinearAlgebra"]
......@@ -677,9 +677,9 @@ version = "1.1.1"
[[RecipesPipeline]]
deps = ["Dates", "NaNMath", "PlotUtils", "RecipesBase"]
git-tree-sha1 = "c4d54a78e287de7ec73bbc928ce5eb3c60f80b24"
git-tree-sha1 = "7a5026a6741c14147d1cb6daf2528a77ca28eb51"
uuid = "01d81517-befc-4cb6-b9ec-a95719d0359c"
version = "0.3.1"
version = "0.3.2"
[[Reexport]]
git-tree-sha1 = "57d8440b0c7d98fc4f889e478e80f268d534c9d5"
......@@ -687,27 +687,28 @@ uuid = "189a3867-3050-52da-a836-e630ba90ab69"
version = "1.0.0"
[[Referenceables]]
git-tree-sha1 = "4a32b1dd124a846580608eb347d4337f873c2499"
deps = ["Adapt"]
git-tree-sha1 = "e681d3bfa49cd46c3c161505caddf20f0e62aaa9"
uuid = "42d2dcc6-99eb-4e98-b66c-637b7d73030e"
version = "0.1.0"
version = "0.1.2"
[[Requires]]
deps = ["UUIDs"]
git-tree-sha1 = "cfbac6c1ed70c002ec6361e7fd334f02820d6419"
git-tree-sha1 = "4036a3bd08ac7e968e27c203d45f5fff15020621"
uuid = "ae029012-a4dd-5104-9daa-d747884805df"
version = "1.1.2"
version = "1.1.3"
[[Rmath]]
deps = ["Random", "Rmath_jll"]
git-tree-sha1 = "86c5647b565873641538d8f812c04e4c9dbeb370"
git-tree-sha1 = "bf3188feca147ce108c76ad82c2792c57abe7b1f"
uuid = "79098fc4-a85e-5d69-aa6a-4863f24498fa"
version = "0.6.1"
version = "0.7.0"
[[Rmath_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"]
git-tree-sha1 = "1b7bf41258f6c5c9c31df8c1ba34c1fc88674957"
git-tree-sha1 = "68db32dff12bb6127bac73c209881191bf0efbb7"
uuid = "f50d1b31-88e8-58de-be2c-1cc44531875f"
version = "0.2.2+2"
version = "0.3.0+0"
[[SHA]]
uuid = "ea8e919c-243c-51af-8825-aaa63cd721ce"
......@@ -739,9 +740,9 @@ uuid = "1a1011a3-84de-559e-8e89-a11a2f7dc383"
[[Showoff]]
deps = ["Dates", "Grisu"]
git-tree-sha1 = "ee010d8f103468309b8afac4abb9be2e18ff1182"
git-tree-sha1 = "236dd0ddad6e3764cce8d8b09c0bbba6df2e194f"
uuid = "992d4aef-0814-514b-bc4d-f2e9a6c4116f"
version = "0.3.2"
version = "1.0.2"
[[SimpleTraits]]
deps = ["InteractiveUtils", "MacroTools"]
......@@ -764,9 +765,9 @@ uuid = "2f01184e-e22b-5df5-ae63-d93ebab69eaf"
[[SpecialFunctions]]
deps = ["ChainRulesCore", "OpenSpecFun_jll"]
git-tree-sha1 = "75394dbe2bd346beeed750fb02baa6445487b862"
git-tree-sha1 = "5919936c0e92cff40e57d0ddf0ceb667d42e5902"
uuid = "276daf66-3868-5448-9aa4-cd146d93841b"
version = "1.2.1"
version = "1.3.0"
[[SplittablesBase]]
deps = ["Setfield", "Test"]
......@@ -774,11 +775,17 @@ git-tree-sha1 = "edef25a158db82f4940720ebada14a60ef6c4232"
uuid = "171d559e-b47b-412a-8079-5efa626c420e"
version = "0.1.13"
[[Static]]
deps = ["IfElse"]
git-tree-sha1 = "ddec5466a1d2d7e58adf9a427ba69763661aacf6"
uuid = "aedffcd0-7271-4cad-89d0-dc628f76c6d3"
version = "0.2.4"
[[StaticArrays]]
deps = ["LinearAlgebra", "Random", "Statistics"]
git-tree-sha1 = "9da72ed50e94dbff92036da395275ed114e04d49"
git-tree-sha1 = "2f01a51c23eed210ff4a1be102c4cc8236b66e5b"
uuid = "90137ffa-7385-5640-81b9-e52037218182"
version = "1.0.1"
version = "1.1.0"
[[Statistics]]
deps = ["LinearAlgebra", "SparseArrays"]
......@@ -786,15 +793,15 @@ uuid = "10745b16-79ce-11e8-11f9-7d13ad32a3b2"
[[StatsBase]]
deps = ["DataAPI", "DataStructures", "LinearAlgebra", "Missings", "Printf", "Random", "SortingAlgorithms", "SparseArrays", "Statistics"]
git-tree-sha1 = "7bab7d4eb46b225b35179632852b595a3162cb61"
git-tree-sha1 = "a83fa3021ac4c5a918582ec4721bc0cf70b495a9"
uuid = "2913bbd2-ae8a-5f71-8c99-4fb6c76f3a91"
version = "0.33.2"
version = "0.33.4"
[[StatsFuns]]
deps = ["Rmath", "SpecialFunctions"]
git-tree-sha1 = "3b9f665c70712af3264b61c27a7e1d62055dafd1"
git-tree-sha1 = "ced55fd4bae008a8ea12508314e725df61f0ba45"
uuid = "4c63d2b9-4356-54db-8cca-17b64c39e42c"
version = "0.9.6"
version = "0.9.7"
[[StructArrays]]
deps = ["Adapt", "DataAPI", "Tables"]
......@@ -804,9 +811,9 @@ version = "0.5.0"
[[StructTypes]]
deps = ["Dates", "UUIDs"]
git-tree-sha1 = "65a43f5218197bc7091b76bc273a5e323a1d7b0d"
git-tree-sha1 = "5eaf731e88587bb72a6c1262c0a014cd1859a08d"
uuid = "856f2bd8-1eba-4b0a-8007-ebc267875bd4"
version = "1.2.3"
version = "1.5.2"
[[SuiteSparse]]
deps = ["Libdl", "LinearAlgebra", "Serialization", "SparseArrays"]
......@@ -818,15 +825,15 @@ uuid = "fa267f1f-6049-4f14-aa54-33bafae1ed76"
[[TableTraits]]
deps = ["IteratorInterfaceExtensions"]
git-tree-sha1 = "b1ad568ba658d8cbb3b892ed5380a6f3e781a81e"
git-tree-sha1 = "c06b2f539df1c6efa794486abfb6ed2022561a39"
uuid = "3783bdb8-4a98-5b6b-af9a-565f29a5fe9c"
version = "1.0.0"
version = "1.0.1"
[[Tables]]
deps = ["DataAPI", "DataValueInterfaces", "IteratorInterfaceExtensions", "LinearAlgebra", "TableTraits", "Test"]
git-tree-sha1 = "a716dde43d57fa537a19058d044b495301ba6565"
git-tree-sha1 = "a9ff3dfec713c6677af435d6a6d65f9744feef67"
uuid = "bd369af6-aec1-5ad0-b16a-f7cc5008161c"
version = "1.3.2"
version = "1.4.1"
[[Tar]]
deps = ["ArgTools", "SHA"]
......@@ -850,9 +857,9 @@ version = "1.5.3"
[[Transducers]]
deps = ["ArgCheck", "BangBang", "CompositionsBase", "DefineSingletons", "Distributed", "InitialValues", "Logging", "Markdown", "MicroCollections", "Requires", "Setfield", "SplittablesBase", "Tables"]
git-tree-sha1 = "9550eba57ebc2f7677c4c946aaca56e149ca73ff"
git-tree-sha1 = "721dc0b917a43e6d191f07a6ea095ced164f08ce"
uuid = "28d57a85-8fef-5791-bfe6-a80928e7c999"
version = "0.4.59"
version = "0.4.62"
[[URIs]]
git-tree-sha1 = "7855809b88d7b16e9b029afd17880930626f54a2"
......
CovidAlertVaccinationModel/Project.toml
View file @ db98ecd1
......@@ -14,6 +14,7 @@ ImportAll = "c65182e5-40f4-518f-8165-175b85689199"
Intervals = "d8418881-c3e1-53bb-8760-2df7ec849ed5"
LabelledArrays = "2ee39098-c373-598a-b85f-a56591580800"
LightGraphs = "093fc24a-ae57-5d10-9952-331d41423f4d"
LinearAlgebra = "37e2e46d-f89d-539d-b4ee-838fcccc9c8e"
NamedTupleTools = "d9ec5142-1e00-5aa0-9d6a-321866360f50"
NetworkLayout = "46757867-2c16-5918-afeb-47bfcb05e46a"
Pipe = "b98c9c47-44ae-5843-9183-064241ee97a0"
......
CovidAlertVaccinationModel/scratch_code/model_cuda.jl 0 → 100644
View file @ db98ecd1
#testing some GPU implementations of the ABM model
function vaccinate_uniformly!(num_vaccines,u_next,u,graph,population_list,index_vectors) #vaccination_algorithm
vaccination_indices = rand(RNG,1:length(u),num_vaccines)
u_next[vaccination_indices] .= Immunized
end
function agents_step_cuda!(t,u_next,u,population_list,graph,params,index_vectors,vaccination_algorithm!)
@unpack p, recovery_rate, vaccines_per_day,vaccination_start_day = params
u_next .= u#keep state the same if nothing else happens
if t >= vaccination_start_day
vaccination_algorithm!(Int(floor(vaccines_per_day*length(u))),u_next,u,graph,population_list,index_vectors)
end
@inbounds for i in 1:length(u)
agent_status = u[i]
agent_demo = population_list[i]
if agent_status == Susceptible
@inbounds for j in 1:length(u)
if graph[i,j] != 0 && u[j] == Infected
if rand(RNG) < contact_weight(p,graph[i,j])
(u_next[i] = Infected)
end
end
end
elseif agent_status == Infected
if rand(RNG) < recovery_rate
u_next[i] = Recovered
end
end
end
end
function agents_step_gpu!(t,u_next,u,graph,params)
u_next .= u
function kernel(state, _, (t,u_next,u,g,params,randstate))
@unpack p, recovery_rate = params
i = linear_index(state)
if i <= length(u)
agent_status = u[i]
if agent_status == Susceptible
for j in 1:length(u)
if g[i,j] == 1 && u[j] == Infected && GPUArrays.gpu_rand(Float64, state, randstate) < p
u_next[i] = Infected
end
end
elseif agent_status == Infected
if GPUArrays.gpu_rand(Float64, state, randstate) < recovery_rate
u_next[i] = Recovered
end
end
end
return nothing
end
gpu_call(kernel, u, (t,u_next,u,graph,params, GPUArrays.default_rng(typeof(u)).state))
end
function solve_cuda!(u_0,params,steps,agent_model,vaccination_algorithm!; record = false)
solution = vcat([u_0], [fill(Susceptible,length(u_0)) for i in 1:steps])
population_list = cu(agent_model.demographics) #list of demographic status for each agent
index_vectors = cu.(agent_model.demographic_index_vectors) #lists of indices of each agent with a given demographic
base_network = cu(agent_model.base_network) #network with households and LTC homes
ws_contacts = cu(agent_model.ws_matrix_list)
rest_contacts = cu(agent_model.rest_matrix_list)
ws_daily_graph = MixingGraph(index_vectors,ws_contacts.daily,contact_time_distribution_matrix)
rest_daily_graph = MixingGraph(index_vectors,rest_contacts.daily,contact_time_distribution_matrix)
ws_weekly_graph = MixingGraph(index_vectors,ws_contacts.twice_a_week,contact_time_distribution_matrix)
rest_weekly_graph = MixingGraph(index_vectors,rest_contacts.twice_a_week,contact_time_distribution_matrix)
graph = similar(base_network)
graphlist = typeof(graph)[]
for t in 1:steps
day_of_week = mod(t,7)
graph .= 0
graph .= base_network
if !(day_of_week == 3 || day_of_week == 4)
apply_mixing_graph(graph, ws_daily_graph)
end
apply_mixing_graph(graph, rest_daily_graph)
if rand(RNG)<5/7
apply_mixing_graph(graph, ws_weekly_graph)
apply_mixing_graph(graph, rest_weekly_graph)
end
ws_once_graph = MixingGraph(index_vectors,ws_contacts.otherwise,contact_time_distribution_matrix)
rest_once_graph = MixingGraph(index_vectors,rest_contacts.otherwise,contact_time_distribution_matrix)
apply_mixing_graph(graph, ws_once_graph)
apply_mixing_graph(graph, rest_once_graph)
if record
push!(graphlist, deepcopy(graph))
end
agents_step!(t,solution[t+1],solution[t],population_list,graph,params,index_vectors,vaccination_algorithm!)
# advance agent states based on the new network, vaccination process given by vaccination_algorithm!, which is just a function defined as above
end
return solution, graphlist
end
\ No newline at end of file
CovidAlertVaccinationModel/scratch_code/other_model_implementation.jl 0 → 100644
View file @ db98ecd1
function agents_step_2!(t,S_indicator,R_indicator, I_indicies,I_indicies_next,population_list,graph,params,index_vectors,vaccination_algorithm!)
@unpack p, recovery_rate, vaccines_per_day,vaccination_start_day = params
# if t >= vaccination_start_day
# vaccination_algorithm!(Int(floor(vaccines_per_day*length(u))),u_next,u,graph,population_list,index_vectors)
# end
while !isempty(I_indicies)
u = dequeue!(I_indicies)
for v in 1:length(population_list)
if graph[u,v] != 0 && S_indicator[v] == true
if rand(RNG) < contact_weight(p,graph[u,v])
# display(v)
enqueue!(I_indicies_next,v)
S_indicator[v] = false
end
end
end
if rand(RNG) < recovery_rate
R_indicator[u] = true
else
enqueue!(I_indicies_next,u)
end
end
end
using BenchmarkTools
using DataStructures
function solve_2!(u_0,params,steps,agent_model,vaccination_algorithm!; record = false)
S_indicator = u_0 .== Susceptible
R_indicator = u_0 .== Recovered
I_indicies_next = Queue{Int}()
I_indicies = Queue{Int}()
for ind in findall(==(Infected), u_0)
enqueue!(I_indicies, ind)
end
population_list = agent_model.demographics #list of demographic status for each agent
index_vectors = agent_model.demographic_index_vectors #lists of indices of each agent with a given demographic
base_network = agent_model.base_network #network with households and LTC homes
ws_contacts = agent_model.ws_matrix_list
rest_contacts = agent_model.rest_matrix_list
ws_daily_graph = MixingGraph(index_vectors,ws_contacts.daily,contact_time_distribution_matrix)
rest_daily_graph = MixingGraph(index_vectors,rest_contacts.daily,contact_time_distribution_matrix)
ws_weekly_graph = MixingGraph(index_vectors,ws_contacts.twice_a_week,contact_time_distribution_matrix)
rest_weekly_graph = MixingGraph(index_vectors,rest_contacts.twice_a_week,contact_time_distribution_matrix)
graph = similar(base_network)
graphlist = typeof(graph)[]
for t in 1:steps
day_of_week = mod(t,7)
graph .= 0
graph .= base_network
if !(day_of_week == 3 || day_of_week == 4)
apply_mixing_graph(graph, ws_daily_graph)
end
apply_mixing_graph(graph, rest_daily_graph)