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Commit 55a5dc8b authored by Javier's avatar Javier
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fit_routine with Optim

parent ea53b63c
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Showing with 358 additions and 181 deletions
Manifest.toml
View file @ 55a5dc8b
......@@ -2,12 +2,17 @@
[[ADerrors]]
deps = ["BDIO", "FFTW", "FastGaussQuadrature", "ForwardDiff", "LaTeXStrings", "LinearAlgebra", "Nettle", "PGFPlotsX", "Plots", "Printf", "QuadGK", "Roots", "Statistics", "Test", "UnicodePlots"]
git-tree-sha1 = "2d3b701de1b206f497c632413b5a783fbd65d714"
git-tree-sha1 = "dbd07b2feb31ec25de3887c3bb704b7056cc682c"
repo-rev = "master"
repo-url = "https://gitlab.ift.uam-csic.es/alberto/aderrors.jl"
uuid = "5e92007d-7bf1-471c-8ceb-4591b8b567a9"
version = "0.1.0"
[[ANSIColoredPrinters]]
git-tree-sha1 = "574baf8110975760d391c710b6341da1afa48d8c"
uuid = "a4c015fc-c6ff-483c-b24f-f7ea428134e9"
version = "0.0.1"
[[AbstractFFTs]]
deps = ["LinearAlgebra"]
git-tree-sha1 = "485ee0867925449198280d4af84bdb46a2a404d0"
......@@ -16,20 +21,25 @@ version = "1.0.1"
[[Adapt]]
deps = ["LinearAlgebra"]
git-tree-sha1 = "ffcfa2d345aaee0ef3d8346a073d5dd03c983ebe"
git-tree-sha1 = "84918055d15b3114ede17ac6a7182f68870c16f7"
uuid = "79e6a3ab-5dfb-504d-930d-738a2a938a0e"
version = "3.2.0"
version = "3.3.1"
[[ArgCheck]]
git-tree-sha1 = "dedbbb2ddb876f899585c4ec4433265e3017215a"
uuid = "dce04be8-c92d-5529-be00-80e4d2c0e197"
version = "2.1.0"
[[ArgTools]]
git-tree-sha1 = "bdf73eec6a88885256f282d48eafcad25d7de494"
uuid = "0dad84c5-d112-42e6-8d28-ef12dabb789f"
version = "1.1.1"
[[ArrayInterface]]
deps = ["LinearAlgebra", "Requires", "SparseArrays"]
git-tree-sha1 = "91f95e873f0e53d8f5e6603516fa8ec3dc312859"
deps = ["Compat", "IfElse", "LinearAlgebra", "Requires", "SparseArrays", "Static"]
git-tree-sha1 = "265b06e2b1f6a216e0e8f183d28e4d354eab3220"
uuid = "4fba245c-0d91-5ea0-9b3e-6abc04ee57a9"
version = "2.14.14"
version = "3.2.1"
[[Artifacts]]
deps = ["Pkg"]
......@@ -60,23 +70,40 @@ git-tree-sha1 = "e2f47f6d8337369411569fd45ae5753ca10394c6"
uuid = "83423d85-b0ee-5818-9007-b63ccbeb887a"
version = "1.16.0+6"
[[ChainRulesCore]]
deps = ["Compat", "LinearAlgebra", "SparseArrays"]
git-tree-sha1 = "4c26b4e9e91ca528ea212927326ece5918a04b47"
uuid = "d360d2e6-b24c-11e9-a2a3-2a2ae2dbcce4"
version = "1.11.2"
[[ChangesOfVariables]]
deps = ["LinearAlgebra", "Test"]
git-tree-sha1 = "9a1d594397670492219635b35a3d830b04730d62"
uuid = "9e997f8a-9a97-42d5-a9f1-ce6bfc15e2c0"
version = "0.1.1"
[[ColorSchemes]]
deps = ["ColorTypes", "Colors", "FixedPointNumbers", "Random", "StaticArrays"]
git-tree-sha1 = "3141757b5832ee7a0386db87997ee5a23ff20f4d"
deps = ["ColorTypes", "Colors", "FixedPointNumbers", "Random"]
git-tree-sha1 = "a851fec56cb73cfdf43762999ec72eff5b86882a"
uuid = "35d6a980-a343-548e-a6ea-1d62b119f2f4"
version = "3.10.2"
version = "3.15.0"
[[ColorTypes]]
deps = ["FixedPointNumbers", "Random"]
git-tree-sha1 = "4bffea7ed1a9f0f3d1a131bbcd4b925548d75288"
git-tree-sha1 = "024fe24d83e4a5bf5fc80501a314ce0d1aa35597"
uuid = "3da002f7-5984-5a60-b8a6-cbb66c0b333f"
version = "0.10.9"
version = "0.11.0"
[[Colors]]
deps = ["ColorTypes", "FixedPointNumbers", "InteractiveUtils", "Reexport"]
git-tree-sha1 = "ac5f2213e56ed8a34a3dd2f681f4df1166b34929"
deps = ["ColorTypes", "FixedPointNumbers", "Reexport"]
git-tree-sha1 = "417b0ed7b8b838aa6ca0a87aadf1bb9eb111ce40"
uuid = "5ae59095-9a9b-59fe-a467-6f913c188581"
version = "0.12.6"
version = "0.12.8"
[[CommonSolve]]
git-tree-sha1 = "68a0743f578349ada8bc911a5cbd5a2ef6ed6d1f"
uuid = "38540f10-b2f7-11e9-35d8-d573e4eb0ff2"
version = "0.2.0"
[[CommonSubexpressions]]
deps = ["MacroTools", "Test"]
......@@ -86,9 +113,9 @@ version = "0.3.0"
[[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 = "dce3e3fea680869eaa0b774b2e8343e9ff442313"
uuid = "34da2185-b29b-5c13-b0c7-acf172513d20"
version = "3.25.0"
version = "3.40.0"
[[CompilerSupportLibraries_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"]
......@@ -97,10 +124,16 @@ uuid = "e66e0078-7015-5450-92f7-15fbd957f2ae"
version = "0.3.4+0"
[[Conda]]
deps = ["JSON", "VersionParsing"]
git-tree-sha1 = "c0647249d785f1d5139c0cc96db8f6b32f7ec416"
deps = ["Downloads", "JSON", "VersionParsing"]
git-tree-sha1 = "6cdc8832ba11c7695f494c9d9a1c31e90959ce0f"
uuid = "8f4d0f93-b110-5947-807f-2305c1781a2d"
version = "1.5.0"
version = "1.6.0"
[[ConstructionBase]]
deps = ["LinearAlgebra"]
git-tree-sha1 = "f74e9d5388b8620b4cee35d4c5a618dd4dc547f4"
uuid = "187b0558-2788-49d3-abe0-74a17ed4e7c9"
version = "1.3.0"
[[Contour]]
deps = ["StaticArrays"]
......@@ -114,15 +147,15 @@ uuid = "a8cc5b0e-0ffa-5ad4-8c14-923d3ee1735f"
version = "4.0.4"
[[DataAPI]]
git-tree-sha1 = "ad84f52c0b8f05aa20839484dbaf01690b41ff84"
git-tree-sha1 = "cc70b17275652eb47bc9e5f81635981f13cea5c8"
uuid = "9a962f9c-6df0-11e9-0e5d-c546b8b5ee8a"
version = "1.4.0"
version = "1.9.0"
[[DataStructures]]
deps = ["Compat", "InteractiveUtils", "OrderedCollections"]
git-tree-sha1 = "4437b64df1e0adccc3e5d1adbc3ac741095e4677"
git-tree-sha1 = "7d9d316f04214f7efdbb6398d545446e246eff02"
uuid = "864edb3b-99cc-5e75-8d2d-829cb0a9cfe8"
version = "0.18.9"
version = "0.18.10"
[[DataValueInterfaces]]
git-tree-sha1 = "bfc1187b79289637fa0ef6d4436ebdfe6905cbd6"
......@@ -150,10 +183,10 @@ uuid = "163ba53b-c6d8-5494-b064-1a9d43ac40c5"
version = "1.0.3"
[[DiffRules]]
deps = ["NaNMath", "Random", "SpecialFunctions"]
git-tree-sha1 = "214c3fcac57755cfda163d91c58893a8723f93e9"
deps = ["LogExpFunctions", "NaNMath", "Random", "SpecialFunctions"]
git-tree-sha1 = "d8f468c5cd4d94e86816603f7d18ece910b4aaf1"
uuid = "b552c78f-8df3-52c6-915a-8e097449b14b"
version = "1.0.2"
version = "1.5.0"
[[Distributed]]
deps = ["Random", "Serialization", "Sockets"]
......@@ -161,21 +194,27 @@ uuid = "8ba89e20-285c-5b6f-9357-94700520ee1b"
[[Distributions]]
deps = ["FillArrays", "LinearAlgebra", "PDMats", "Printf", "QuadGK", "Random", "SparseArrays", "SpecialFunctions", "Statistics", "StatsBase", "StatsFuns"]
git-tree-sha1 = "0fc424e725eaec6ea3e9fa8df773bee18a1ab503"
git-tree-sha1 = "a837fdf80f333415b69684ba8e8ae6ba76de6aaa"
uuid = "31c24e10-a181-5473-b8eb-7969acd0382f"
version = "0.24.14"
version = "0.24.18"
[[DocStringExtensions]]
deps = ["LibGit2", "Markdown", "Pkg", "Test"]
git-tree-sha1 = "50ddf44c53698f5e784bbebb3f4b21c5807401b1"
deps = ["LibGit2"]
git-tree-sha1 = "b19534d1895d702889b219c382a6e18010797f0b"
uuid = "ffbed154-4ef7-542d-bbb7-c09d3a79fcae"
version = "0.8.3"
version = "0.8.6"
[[Documenter]]
deps = ["Base64", "Dates", "DocStringExtensions", "IOCapture", "InteractiveUtils", "JSON", "LibGit2", "Logging", "Markdown", "REPL", "Test", "Unicode"]
git-tree-sha1 = "b7715ae18be02110a8cf9cc8ed2ccdb1e3e3aba2"
deps = ["ANSIColoredPrinters", "Base64", "Dates", "DocStringExtensions", "IOCapture", "InteractiveUtils", "JSON", "LibGit2", "Logging", "Markdown", "REPL", "Test", "Unicode"]
git-tree-sha1 = "f425293f7e0acaf9144de6d731772de156676233"
uuid = "e30172f5-a6a5-5a46-863b-614d45cd2de4"
version = "0.26.1"
version = "0.27.10"
[[Downloads]]
deps = ["ArgTools", "LibCURL", "NetworkOptions"]
git-tree-sha1 = "cd7f38a6540ce18f53dba40f8e251eeab49871c6"
uuid = "f43a241f-c20a-4ad4-852c-f6b1247861c6"
version = "1.5.2"
[[EarCut_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"]
......@@ -190,10 +229,10 @@ uuid = "2e619515-83b5-522b-bb60-26c02a35a201"
version = "2.2.7+6"
[[FFMPEG]]
deps = ["FFMPEG_jll", "x264_jll"]
git-tree-sha1 = "9a73ffdc375be61b0e4516d83d880b265366fe1f"
deps = ["FFMPEG_jll"]
git-tree-sha1 = "b57e3acbe22f8484b4b5ff66a7499717fe1a9cc8"
uuid = "c87230d0-a227-11e9-1b43-d7ebe4e7570a"
version = "0.4.0"
version = "0.4.1"
[[FFMPEG_jll]]
deps = ["Artifacts", "Bzip2_jll", "FreeType2_jll", "FriBidi_jll", "JLLWrappers", "LAME_jll", "LibVPX_jll", "Libdl", "Ogg_jll", "OpenSSL_jll", "Opus_jll", "Pkg", "Zlib_jll", "libass_jll", "libfdk_aac_jll", "libvorbis_jll", "x264_jll", "x265_jll"]
......@@ -209,27 +248,27 @@ version = "1.3.2"
[[FFTW_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"]
git-tree-sha1 = "5a0d4b6a22a34d17d53543bd124f4b08ed78e8b0"
git-tree-sha1 = "3676abafff7e4ff07bbd2c42b3d8201f31653dcc"
uuid = "f5851436-0d7a-5f13-b9de-f02708fd171a"
version = "3.3.9+7"
version = "3.3.9+8"
[[FastGaussQuadrature]]
deps = ["LinearAlgebra", "SpecialFunctions"]
git-tree-sha1 = "6ea5f7b4aecce0e3a14ca1da03f62f86148c8fa3"
deps = ["LinearAlgebra", "SpecialFunctions", "StaticArrays"]
git-tree-sha1 = "58d83dd5a78a36205bdfddb82b1bb67682e64487"
uuid = "442a2c76-b920-505d-bb47-c5924d526838"
version = "0.4.5"
version = "0.4.9"
[[FillArrays]]
deps = ["LinearAlgebra", "Random", "SparseArrays"]
git-tree-sha1 = "502b3de6039d5b78c76118423858d981349f3823"
git-tree-sha1 = "693210145367e7685d8604aee33d9bfb85db8b31"
uuid = "1a297f60-69ca-5386-bcde-b61e274b549b"
version = "0.9.7"
version = "0.11.9"
[[FiniteDiff]]
deps = ["ArrayInterface", "LinearAlgebra", "Requires", "SparseArrays", "StaticArrays"]
git-tree-sha1 = "7f7216e0eb46c20ee8ddab5c8f9a262ed72587b6"
git-tree-sha1 = "8b3c09b56acaf3c0e581c66638b85c8650ee9dca"
uuid = "6a86dc24-6348-571c-b903-95158fe2bd41"
version = "2.7.2"
version = "2.8.1"
[[FixedPointNumbers]]
deps = ["Statistics"]
......@@ -250,10 +289,10 @@ uuid = "59287772-0a20-5a39-b81b-1366585eb4c0"
version = "0.4.2"
[[ForwardDiff]]
deps = ["CommonSubexpressions", "DiffResults", "DiffRules", "NaNMath", "Random", "SpecialFunctions", "StaticArrays"]
git-tree-sha1 = "c26b56e9b9f0687f7ca887f6b6ded03d269e0e35"
deps = ["CommonSubexpressions", "DiffResults", "DiffRules", "LinearAlgebra", "LogExpFunctions", "NaNMath", "Preferences", "Printf", "Random", "SpecialFunctions", "StaticArrays"]
git-tree-sha1 = "6406b5112809c08b1baa5703ad274e1dded0652f"
uuid = "f6369f11-7733-5829-9624-2563aa707210"
version = "0.10.15"
version = "0.10.23"
[[FreeType2_jll]]
deps = ["Artifacts", "Bzip2_jll", "JLLWrappers", "Libdl", "Pkg", "Zlib_jll"]
......@@ -267,11 +306,15 @@ git-tree-sha1 = "0d20aed5b14dd4c9a2453c1b601d08e1149679cc"
uuid = "559328eb-81f9-559d-9380-de523a88c83c"
version = "1.0.5+6"
[[Future]]
deps = ["Random"]
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 = "a199aefead29c3c2638c3571a9993b564109d45a"
uuid = "0656b61e-2033-5cc2-a64a-77c0f6c09b89"
version = "3.3.2+1"
version = "3.3.4+0"
[[GMP_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"]
......@@ -280,22 +323,22 @@ uuid = "781609d7-10c4-51f6-84f2-b8444358ff6d"
version = "6.1.2+6"
[[GR]]
deps = ["Base64", "DelimitedFiles", "GR_jll", "HTTP", "JSON", "LinearAlgebra", "Pkg", "Printf", "Random", "Serialization", "Sockets", "Test", "UUIDs"]
git-tree-sha1 = "12d971c928b7ecf19b748a2c7df6a365690dbf2c"
deps = ["Base64", "DelimitedFiles", "GR_jll", "HTTP", "JSON", "Libdl", "LinearAlgebra", "Pkg", "Printf", "Random", "Serialization", "Sockets", "Test", "UUIDs"]
git-tree-sha1 = "30f2b340c2fff8410d89bfcdc9c0a6dd661ac5f7"
uuid = "28b8d3ca-fb5f-59d9-8090-bfdbd6d07a71"
version = "0.55.0"
version = "0.62.1"
[[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 = "d59e8320c2747553788e4fc42231489cc602fa50"
uuid = "d2c73de3-f751-5644-a686-071e5b155ba9"
version = "0.53.0+0"
version = "0.58.1+0"
[[GeometryBasics]]
deps = ["EarCut_jll", "IterTools", "LinearAlgebra", "StaticArrays", "StructArrays", "Tables"]
git-tree-sha1 = "4d4f72691933d5b6ee1ff20e27a102c3ae99d123"
git-tree-sha1 = "58bcdf5ebc057b085e58d95c138725628dd7453c"
uuid = "5c1252a2-5f33-56bf-86c9-59e7332b4326"
version = "0.3.9"
version = "0.4.1"
[[Gettext_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl", "Libiconv_jll", "Pkg", "XML2_jll"]
......@@ -310,20 +353,25 @@ uuid = "7746bdde-850d-59dc-9ae8-88ece973131d"
version = "2.59.0+4"
[[Grisu]]
git-tree-sha1 = "03d381f65183cb2d0af8b3425fde97263ce9a995"
git-tree-sha1 = "53bb909d1151e57e2484c3d1b53e19552b887fb2"
uuid = "42e2da0e-8278-4e71-bc24-59509adca0fe"
version = "1.0.0"
version = "1.0.2"
[[HTTP]]
deps = ["Base64", "Dates", "IniFile", "MbedTLS", "NetworkOptions", "Sockets", "URIs"]
git-tree-sha1 = "c9f380c76d8aaa1fa7ea9cf97bddbc0d5b15adc2"
deps = ["Base64", "Dates", "IniFile", "Logging", "MbedTLS", "NetworkOptions", "Sockets", "URIs"]
git-tree-sha1 = "0fa77022fe4b511826b39c894c90daf5fce3334a"
uuid = "cd3eb016-35fb-5094-929b-558a96fad6f3"
version = "0.9.5"
version = "0.9.17"
[[IOCapture]]
deps = ["Logging"]
git-tree-sha1 = "377252859f740c217b936cebcd918a44f9b53b59"
deps = ["Logging", "Random"]
git-tree-sha1 = "f7be53659ab06ddc986428d3a9dcc95f6fa6705a"
uuid = "b5f81e59-6552-4d32-b1f0-c071b021bf89"
version = "0.2.2"
[[IfElse]]
git-tree-sha1 = "debdd00ffef04665ccbb3e150747a77560e8fad1"
uuid = "615f187c-cbe4-4ef1-ba3b-2fcf58d6d173"
version = "0.1.1"
[[IniFile]]
......@@ -342,6 +390,17 @@ version = "2018.0.3+2"
deps = ["Markdown"]
uuid = "b77e0a4c-d291-57a0-90e8-8db25a27a240"
[[InverseFunctions]]
deps = ["Test"]
git-tree-sha1 = "a7254c0acd8e62f1ac75ad24d5db43f5f19f3c65"
uuid = "3587e190-3f89-42d0-90ee-14403ec27112"
version = "0.1.2"
[[IrrationalConstants]]
git-tree-sha1 = "7fd44fd4ff43fc60815f8e764c0f352b83c49151"
uuid = "92d709cd-6900-40b7-9082-c6be49f344b6"
version = "0.1.1"
[[IterTools]]
git-tree-sha1 = "05110a2ab1fc5f932622ffea2a003221f4782c18"
uuid = "c8e1da08-722c-5040-9ed9-7db0dc04731e"
......@@ -353,15 +412,16 @@ uuid = "82899510-4779-5014-852e-03e436cf321d"
version = "1.0.0"
[[JLLWrappers]]
git-tree-sha1 = "a431f5f2ca3f4feef3bd7a5e94b8b8d4f2f647a0"
deps = ["Preferences"]
git-tree-sha1 = "642a199af8b68253517b80bd3bfd17eb4e84df6e"
uuid = "692b3bcd-3c85-4b1f-b108-f13ce0eb3210"
version = "1.2.0"
version = "1.3.0"
[[JSON]]
deps = ["Dates", "Mmap", "Parsers", "Unicode"]
git-tree-sha1 = "81690084b6198a2e1da36fcfda16eeca9f9f24e4"
git-tree-sha1 = "8076680b162ada2a031f707ac7b4953e30667a37"
uuid = "682c06a0-de6a-54ab-a142-c8b1cf79cde6"
version = "0.21.1"
version = "0.21.2"
[[JpegTurbo_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"]
......@@ -388,9 +448,9 @@ version = "1.2.0"
[[Latexify]]
deps = ["Formatting", "InteractiveUtils", "LaTeXStrings", "MacroTools", "Markdown", "Printf", "Requires"]
git-tree-sha1 = "3a0084cec7bf157edcb45a67fac0647f88fe5eaf"
git-tree-sha1 = "a8f4f279b6fa3c3c4f1adadd78a621b13a506bce"
uuid = "23fbe1c1-3f47-55db-b15f-69d7ec21a316"
version = "0.14.7"
version = "0.15.9"
[[LazyArtifacts]]
deps = ["Pkg"]
......@@ -398,16 +458,28 @@ git-tree-sha1 = "4bb5499a1fc437342ea9ab7e319ede5a457c0968"
uuid = "4af54fe1-eca0-43a8-85a7-787d91b784e3"
version = "1.3.0"
[[LeastSquaresOptim]]
deps = ["FiniteDiff", "ForwardDiff", "LinearAlgebra", "Optim", "Printf", "SparseArrays", "Statistics", "SuiteSparse"]
git-tree-sha1 = "b5a1931bf37616820c4ef71629b6308d67f0b393"
uuid = "0fc2ff8b-aaa3-5acd-a817-1944a5e08891"
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[[LibCURL]]
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[[LibGit2]]
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[[LibSSH2_jll]]
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[[LibVPX_jll]]
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......@@ -443,9 +515,9 @@ version = "1.36.0+3"
[[Libiconv_jll]]
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[[Libmount_jll]]
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......@@ -475,6 +547,12 @@ version = "7.1.1"
deps = ["Libdl"]
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[[LogExpFunctions]]
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[[Logging]]
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......@@ -486,15 +564,15 @@ version = "0.12.0"
[[MKL_jll]]
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......@@ -519,18 +597,24 @@ version = "0.3.1"
[[Missings]]
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......@@ -539,15 +623,15 @@ version = "0.3.5"
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......@@ -560,6 +644,12 @@ git-tree-sha1 = "a42c0f138b9ebe8b58eba2271c5053773bde52d0"
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......@@ -580,9 +670,9 @@ version = "1.2.3"
[[OptimBase]]
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......@@ -591,9 +681,9 @@ uuid = "91d4177d-7536-5919-b921-800302f37372"
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[[OrderedCollections]]
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[[PCRE_jll]]
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......@@ -602,28 +692,28 @@ uuid = "2f80f16e-611a-54ab-bc61-aa92de5b98fc"
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[[PDMats]]
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......@@ -643,15 +733,15 @@ version = "2.0.1"
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......@@ -659,15 +749,21 @@ git-tree-sha1 = "17275485f373e6673f7e7f97051f703ed5b15b20"
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......@@ -675,17 +771,17 @@ git-tree-sha1 = "67dde2482fe1a72ef62ed93f8c239f947638e5a2"
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......@@ -696,27 +792,26 @@ deps = ["Serialization"]
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......@@ -725,110 +820,133 @@ uuid = "79098fc4-a85e-5d69-aa6a-4863f24498fa"
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deps = ["Dates"]
git-tree-sha1 = "44aaac2d2aec4a850302f9aa69127c74f0c3787e"
uuid = "fa267f1f-6049-4f14-aa54-33bafae1ed76"
version = "1.0.3"
[[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 = "fed34d0e71b91734bf0a7e10eb1bb05296ddbcd0"
uuid = "bd369af6-aec1-5ad0-b16a-f7cc5008161c"
version = "1.3.2"
version = "1.6.0"
[[Test]]
deps = ["Distributed", "InteractiveUtils", "Logging", "Random"]
uuid = "8dfed614-e22c-5e08-85e1-65c5234f0b40"
[[URIs]]
git-tree-sha1 = "7855809b88d7b16e9b029afd17880930626f54a2"
git-tree-sha1 = "97bbe755a53fe859669cd907f2d96aee8d2c1355"
uuid = "5c2747f8-b7ea-4ff2-ba2e-563bfd36b1d4"
version = "1.2.0"
version = "1.3.0"
[[UUIDs]]
deps = ["Random", "SHA"]
......@@ -842,16 +960,22 @@ version = "1.0.2"
[[Unicode]]
uuid = "4ec0a83e-493e-50e2-b9ac-8f72acf5a8f5"
[[UnicodeFun]]
deps = ["REPL"]
git-tree-sha1 = "53915e50200959667e78a92a418594b428dffddf"
uuid = "1cfade01-22cf-5700-b092-accc4b62d6e1"
version = "0.4.1"
[[UnicodePlots]]
deps = ["Crayons", "Dates", "SparseArrays", "StatsBase"]
git-tree-sha1 = "1a63e6eea76b291378ff9f95801f8b6d96213208"
git-tree-sha1 = "78f9ced7f2db6d71db9857a3de26a0d7c5cc0853"
uuid = "b8865327-cd53-5732-bb35-84acbb429228"
version = "1.3.0"
version = "2.5.0"
[[VersionParsing]]
git-tree-sha1 = "80229be1f670524750d905f8fc8148e5a8c4537f"
git-tree-sha1 = "e575cf85535c7c3292b4d89d89cc29e8c3098e47"
uuid = "81def892-9a0e-5fdd-b105-ffc91e053289"
version = "1.2.0"
version = "1.2.1"
[[Wayland_jll]]
deps = ["Artifacts", "Expat_jll", "JLLWrappers", "Libdl", "Libffi_jll", "Pkg", "XML2_jll"]
......@@ -860,10 +984,10 @@ uuid = "a2964d1f-97da-50d4-b82a-358c7fce9d89"
version = "1.17.0+4"
[[Wayland_protocols_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg", "Wayland_jll"]
git-tree-sha1 = "2839f1c1296940218e35df0bbb220f2a79686670"
deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"]
git-tree-sha1 = "66d72dc6fcc86352f01676e8f0f698562e60510f"
uuid = "2381bf8a-dfd0-557d-9999-79630e7b1b91"
version = "1.18.0+4"
version = "1.23.0+0"
[[XML2_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl", "Libiconv_jll", "Pkg", "Zlib_jll"]
......@@ -872,7 +996,7 @@ uuid = "02c8fc9c-b97f-50b9-bbe4-9be30ff0a78a"
version = "2.9.10+3"
[[XSLT_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl", "Libgcrypt_jll", "Pkg", "XML2_jll"]
deps = ["Artifacts", "JLLWrappers", "Libdl", "Libgcrypt_jll", "Libgpg_error_jll", "Pkg", "XML2_jll"]
git-tree-sha1 = "2b3eac39df218762d2d005702d601cd44c997497"
uuid = "aed1982a-8fda-507f-9586-7b0439959a61"
version = "1.1.33+4"
......@@ -1039,6 +1163,12 @@ git-tree-sha1 = "fa14ac25af7a4b8a7f61b287a124df7aab601bcd"
uuid = "f27f6e37-5d2b-51aa-960f-b287f2bc3b7a"
version = "1.3.6+6"
[[nghttp2_jll]]
deps = ["Libdl", "Pkg"]
git-tree-sha1 = "8e2c44ab4d49ad9518f359ed8b62f83ba8beede4"
uuid = "8e850ede-7688-5339-a07c-302acd2aaf8d"
version = "1.40.0+2"
[[x264_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"]
git-tree-sha1 = "d713c1ce4deac133e3334ee12f4adff07f81778f"
......
Project.toml
View file @ 55a5dc8b
......@@ -7,7 +7,6 @@ version = "0.1.0"
ADerrors = "5e92007d-7bf1-471c-8ceb-4591b8b567a9"
BDIO = "375f315e-f2c4-11e9-2ef9-134f02f79e27"
LaTeXStrings = "b964fa9f-0449-5b57-a5c2-d3ea65f4040f"
LeastSquaresOptim = "0fc2ff8b-aaa3-5acd-a817-1944a5e08891"
LinearAlgebra = "37e2e46d-f89d-539d-b4ee-838fcccc9c8e"
LsqFit = "2fda8390-95c7-5789-9bda-21331edee243"
Optim = "429524aa-4258-5aef-a3af-852621145aeb"
......
src/juobs.jl
View file @ 55a5dc8b
module juobs
using ADerrors, PyPlot, LaTeXStrings, LinearAlgebra, LsqFit, LeastSquaresOptim
using ADerrors, PyPlot, LaTeXStrings, LinearAlgebra, LsqFit, Optim
import Statistics: mean
include("juobs_types.jl")
......
src/juobs_obs.jl
View file @ 55a5dc8b
......@@ -519,7 +519,7 @@ function comp_t0(Y::YData, plat::Vector{Int64}; L::Int64, pl::Bool=false,
model(x, p) = get_model(x, p, npol)
par = fit_routine(model, x, t2E, npol)
par, ch2 = fit_routine(model, x, t2E, npol)
fmin(x, p) = model(x, p) .- 0.3
t0 = root_error(fmin, t[nt0], par)
if pl
......@@ -631,7 +631,7 @@ function comp_t0(Y::Vector{YData}, plat::Vector{Int64}; L::Int64, pl::Bool=false
model(x, p) = get_model(x, p, npol)
par = fit_routine(model, x, t2E, npol)
par, ch2 = fit_routine(model, x, t2E, npol)
fmin(x, p) = model(x, p) .- 0.3
t0 = root_error(fmin, t[nt0], par)
if pl
......
src/juobs_tools.jl
View file @ 55a5dc8b
......@@ -560,13 +560,56 @@ function fit_routine(model::Function, xdata::Array{<:Real}, ydata::Array{uwreal}
fit = curve_fit(model, xdata, yval, 1.0 ./ yer.^2, fill(0.5, param))
(upar, chi_exp) = isnothing(wpm) ? fit_error(chisq, coef(fit), ydata) : fit_error(chisq, coef(fit), ydata, wpm)
#Info
for i = 1:length(upar)
isnothing(wpm) ? uwerr(upar[i]) : uwerr(upar[i], wpm)
print("\n Fit parameter: ", i, ": ")
details(upar[i])
end
#for i = 1:length(upar)
# isnothing(wpm) ? uwerr(upar[i]) : uwerr(upar[i], wpm)
# print("\n Fit parameter: ", i, ": ")
# details(upar[i])
#end
chis2_corrected = (length(yval) - param) * chisq(coef(fit), ydata) / chi_exp
println("Chisq / chiexp: ", chisq(coef(fit), ydata), " / ", chi_exp, " (dof: ", length(yval) - param,")")
return upar
println("Chisq corrected: ", chis2_corrected)
return upar, value(chis2_corrected)
end
function fit_routine(model::Vector{Function}, xdata::Vector{Array{Float64, N}} where N, ydata::Vector{Array{uwreal, N}} where N, param::Int64; wpm::Union{Dict{Int64,Vector{Float64}},Dict{String,Vector{Float64}}, Nothing}=nothing)
if !(length(model) == length(xdata) == length(ydata))
error("Dimension mismatch")
end
N = length(model)
dat = ydata[1]
idx = Vector{Vector{Int64}}(undef, N)
e = Vector{Vector{Float64}}(undef, N)
j = 1
for i = 1:N
if isnothing(wpm)
uwerr.(ydata[i])
else
[uwerr(yaux, wpm) for yaux in ydata[i]]
end
e[i] = err.(ydata[i])
if i > 1
dat = vcat(dat, ydata[i])
end
stp = j + length(ydata[i]) - 1
idx[i] = collect(j:stp)
j = stp + 1
end
chisq = (par, dat) -> sum([sum((dat[idx[i]] .- model[i](xdata[i], par)).^2 ./e[i].^2) for i=1:N])
min_fun(t) = chisq(t, value.(dat))
p = fill(0.5, param)
sol = optimize(min_fun, p, LBFGS())
(upar, chi2_exp) = isnothing(wpm) ? fit_error(chisq, sol.minimizer, dat) : fit_error(chisq, sol.minimizer, dat, wpm)
println("Chisq / chiexp: ", min_fun(sol.minimizer), " / ", chi2_exp, " (dof: ", length(dat) - param,")")
chis2_corrected = (length(dat) - param) * min_fun(sol.minimizer) / chi2_exp
println("Chisq corrected: ", chis2_corrected)
return upar, chis2_corrected
end
function fit_routine(model::Function, xdata::Array{uwreal}, ydata::Array{uwreal}, param::Int64=3;
......@@ -617,30 +660,35 @@ function fit_routine(model::Function, xdata::Array{uwreal}, ydata::Array{uwreal}
C = isnothing(wpm) ? [ADerrors.cov(aux[k]) for k = 1:Ndata] : [ADerrors.cov(aux[k], wpm) for k = 1:Ndata]
chisq_full_cov(p, d) = get_chi2_cov(model, d, C, p, Nalpha)
min_fun_cov(t) = chisq_full_cov(t, dat)
sol = optimize(min_fun_cov, vcat(fit.param, dat[1:Nalpha*Ndata]), LevenbergMarquardt())
sol = optimize(min_fun_cov, vcat(fit.param, dat[1:Nalpha*Ndata]), method=LBFGS())
(upar, chi2_exp) = isnothing(wpm) ? fit_error(chisq_full_cov, sol.minimizer, data) : fit_error(chisq_full_cov, sol.minimizer, data, wpm)
println("Chisq / chiexp: ", min_fun_cov(sol.minimizer), " / ", chi2_exp, " (dof: ", length(ydata) - param,")")
chis2_corrected = (length(ydata) - param) * min_fun_cov(sol.minimizer) / chi2_exp
println("Chisq corrected: ", chis2_corrected)
else
chisq_full(p, d) = get_chi2(model, d, ddat, p, Nalpha)
min_fun(t) = chisq_full(t, dat)
sol = optimize(min_fun, vcat(fit.param, dat[1:Nalpha*Ndata]), LevenbergMarquardt())
sol = optimize(min_fun, vcat(fit.param, dat[1:Nalpha*Ndata]), method=LBFGS())
(upar, chi2_exp) = isnothing(wpm) ? fit_error(chisq_full, sol.minimizer, data) : fit_error(chisq_full, sol.minimizer, data, wpm)
println("Chisq / chiexp: ", min_fun(sol.minimizer), " / ", chi2_exp, " (dof: ", length(ydata) - param,")")
chis2_corrected = (length(ydata) - param) * min_fun(sol.minimizer) / chi2_exp
println("Chisq corrected: ", chis2_corrected)
end
#### chisq_full, min_fun out of conditional ->
#### COMPILER WARNING ** incremental compilation may be fatally broken for this module **
# Info
#=
for i = 1:length(upar)
isnothing(wpm) ? uwerr(upar[i]) : uwerr(upar[i], wpm)
print("\n Fit parameter: ", i, ": ")
details(upar[i])
end
return upar
=#
return upar, chis2_corrected
end
......
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