add clean code

xukai92 · May 13, 2019 · d059585 · d059585
1 parent 6691a83
commit d059585
Show file tree

Hide file tree

Showing 15 changed files with 1,535 additions and 0 deletions.
diff --git a/.gitignore b/.gitignore
@@ -0,0 +1,4 @@
+.DS_Store
+.ipynb_checkpoints
+log
+*.pdf
diff --git a/Manifest.toml b/Manifest.toml
@@ -0,0 +1,352 @@
+# This file is machine-generated - editing it directly is not advised
+
+[[ArgParse]]
+deps = ["Compat", "Test", "TextWrap"]
+git-tree-sha1 = "14d5789a99e6bea3e258d668ec09359a9feaf2d1"
+uuid = "c7e460c6-2fb9-53a9-8c5b-16f535851c63"
+version = "0.6.2"
+
+[[Arpack]]
+deps = ["BinaryProvider", "Libdl", "LinearAlgebra", "Random", "SparseArrays", "Test"]
+git-tree-sha1 = "1ce1ce9984683f0b6a587d5bdbc688ecb480096f"
+uuid = "7d9fca2a-8960-54d3-9f78-7d1dccf2cb97"
+version = "0.3.0"
+
+[[AutoGrad]]
+deps = ["Libdl", "LinearAlgebra", "Printf", "Random", "SpecialFunctions", "Statistics", "Test", "TimerOutputs"]
+git-tree-sha1 = "ab7348be00ec33212853f3292be3b9943675a38f"
+uuid = "6710c13c-97f1-543f-91c5-74e8f7d95b35"
+version = "1.1.3"
+
+[[Base64]]
+uuid = "2a0f44e3-6c83-55bd-87e4-b1978d98bd5f"
+
+[[BinDeps]]
+deps = ["Compat", "Libdl", "SHA", "URIParser"]
+git-tree-sha1 = "12093ca6cdd0ee547c39b1870e0c9c3f154d9ca9"
+uuid = "9e28174c-4ba2-5203-b857-d8d62c4213ee"
+version = "0.8.10"
+
+[[BinaryProvider]]
+deps = ["Libdl", "Pkg", "SHA", "Test"]
+git-tree-sha1 = "055eb2690182ebc31087859c3dd8598371d3ef9e"
+uuid = "b99e7846-7c00-51b0-8f62-c81ae34c0232"
+version = "0.5.3"
+
+[[CSTParser]]
+deps = ["LibGit2", "Test", "Tokenize"]
+git-tree-sha1 = "437c93bc191cd55957b3f8dee7794b6131997c56"
+uuid = "00ebfdb7-1f24-5e51-bd34-a7502290713f"
+version = "0.5.2"
+
+[[CUDAapi]]
+deps = ["Libdl", "Logging", "Test"]
+git-tree-sha1 = "125122309a4387e0d18787cef0f03800fa57702a"
+uuid = "3895d2a7-ec45-59b8-82bb-cfc6a382f9b3"
+version = "0.6.3"
+
+[[CodecZlib]]
+deps = ["BinaryProvider", "Libdl", "Test", "TranscodingStreams"]
+git-tree-sha1 = "36bbf5374c661054d41410dc53ff752972583b9b"
+uuid = "944b1d66-785c-5afd-91f1-9de20f533193"
+version = "0.5.2"
+
+[[ColorTypes]]
+deps = ["FixedPointNumbers", "Random", "Test"]
+git-tree-sha1 = "f73b0e10f2a5756de7019818a41654686da06b09"
+uuid = "3da002f7-5984-5a60-b8a6-cbb66c0b333f"
+version = "0.7.5"
+
+[[Colors]]
+deps = ["ColorTypes", "FixedPointNumbers", "InteractiveUtils", "Printf", "Reexport", "Test"]
+git-tree-sha1 = "9f0a0210450acb91c730b730a994f8eef1d3d543"
+uuid = "5ae59095-9a9b-59fe-a467-6f913c188581"
+version = "0.9.5"
+
+[[Compat]]
+deps = ["Base64", "Dates", "DelimitedFiles", "Distributed", "InteractiveUtils", "LibGit2", "Libdl", "LinearAlgebra", "Markdown", "Mmap", "Pkg", "Printf", "REPL", "Random", "Serialization", "SharedArrays", "Sockets", "SparseArrays", "Statistics", "Test", "UUIDs", "Unicode"]
+git-tree-sha1 = "84aa74986c5b9b898b0d1acaf3258741ee64754f"
+uuid = "34da2185-b29b-5c13-b0c7-acf172513d20"
+version = "2.1.0"
+
+[[Conda]]
+deps = ["Compat", "JSON", "VersionParsing"]
+git-tree-sha1 = "b625d802587c2150c279a40a646fba63f9bd8187"
+uuid = "8f4d0f93-b110-5947-807f-2305c1781a2d"
+version = "1.2.0"
+
+[[Crayons]]
+deps = ["Test"]
+git-tree-sha1 = "f621b8ef51fd2004c7cf157ea47f027fdeac5523"
+uuid = "a8cc5b0e-0ffa-5ad4-8c14-923d3ee1735f"
+version = "4.0.0"
+
+[[DataStructures]]
+deps = ["InteractiveUtils", "OrderedCollections", "Random", "Serialization", "Test"]
+git-tree-sha1 = "ca971f03e146cf144a9e2f2ce59674f5bf0e8038"
+uuid = "864edb3b-99cc-5e75-8d2d-829cb0a9cfe8"
+version = "0.15.0"
+
+[[Dates]]
+deps = ["Printf"]
+uuid = "ade2ca70-3891-5945-98fb-dc099432e06a"
+
+[[DelimitedFiles]]
+deps = ["Mmap"]
+uuid = "8bb1440f-4735-579b-a4ab-409b98df4dab"
+
+[[Distributed]]
+deps = ["Random", "Serialization", "Sockets"]
+uuid = "8ba89e20-285c-5b6f-9357-94700520ee1b"
+
+[[Distributions]]
+deps = ["LinearAlgebra", "PDMats", "Printf", "QuadGK", "Random", "SpecialFunctions", "Statistics", "StatsBase", "StatsFuns"]
+git-tree-sha1 = "56a158bc0abe4af5d4027af2275fde484261ca6d"
+uuid = "31c24e10-a181-5473-b8eb-7969acd0382f"
+version = "0.19.2"
+
+[[FileIO]]
+deps = ["Pkg", "Random", "Test"]
+git-tree-sha1 = "da32159d4a2e526338506685e280e39ed2f18961"
+uuid = "5789e2e9-d7fb-5bc7-8068-2c6fae9b9549"
+version = "1.0.6"
+
+[[FixedPointNumbers]]
+deps = ["Test"]
+git-tree-sha1 = "b8045033701c3b10bf2324d7203404be7aef88ba"
+uuid = "53c48c17-4a7d-5ca2-90c5-79b7896eea93"
+version = "0.5.3"
+
+[[GSL]]
+deps = ["BinaryProvider", "Compat", "Libdl", "LinearAlgebra", "Markdown", "Printf", "Random", "Test"]
+git-tree-sha1 = "96048e9db673b38968fd279db00ee45a16520add"
+uuid = "92c85e6c-cbff-5e0c-80f7-495c94daaecd"
+version = "0.5.0"
+
+[[InteractiveUtils]]
+deps = ["Markdown"]
+uuid = "b77e0a4c-d291-57a0-90e8-8db25a27a240"
+
+[[JLD2]]
+deps = ["CodecZlib", "DataStructures", "FileIO", "LinearAlgebra", "Mmap", "Printf", "Random", "Test"]
+git-tree-sha1 = "3ba90ff93e1d5b9b2103588051c2d349fae54dac"
+uuid = "033835bb-8acc-5ee8-8aae-3f567f8a3819"
+version = "0.1.2"
+
+[[JSON]]
+deps = ["Dates", "Distributed", "Mmap", "Sockets", "Test", "Unicode"]
+git-tree-sha1 = "1f7a25b53ec67f5e9422f1f551ee216503f4a0fa"
+uuid = "682c06a0-de6a-54ab-a142-c8b1cf79cde6"
+version = "0.20.0"
+
+[[Knet]]
+deps = ["AutoGrad", "CUDAapi", "FileIO", "JLD2", "Libdl", "LinearAlgebra", "Printf", "Random", "SpecialFunctions", "Statistics", "TimerOutputs"]
+git-tree-sha1 = "2c0f3447ddb8c1f421c17335f6e58527826f614e"
+repo-rev = "master"
+repo-url = "https://github.com/denizyuret/Knet.jl.git"
+uuid = "1902f260-5fb4-5aff-8c31-6271790ab950"
+version = "1.2.1+"
+
+[[LaTeXStrings]]
+deps = ["Compat"]
+git-tree-sha1 = "7ab9b8788cfab2bdde22adf9004bda7ad9954b6c"
+uuid = "b964fa9f-0449-5b57-a5c2-d3ea65f4040f"
+version = "1.0.3"
+
+[[LibGit2]]
+uuid = "76f85450-5226-5b5a-8eaa-529ad045b433"
+
+[[Libdl]]
+uuid = "8f399da3-3557-5675-b5ff-fb832c97cbdb"
+
+[[LinearAlgebra]]
+deps = ["Libdl"]
+uuid = "37e2e46d-f89d-539d-b4ee-838fcccc9c8e"
+
+[[Logging]]
+uuid = "56ddb016-857b-54e1-b83d-db4d58db5568"
+
+[[MLToolkit]]
+deps = ["ArgParse", "AutoGrad", "CodecZlib", "Distributed", "Distributions", "GSL", "Knet", "LinearAlgebra", "Logging", "Pkg", "PyCall", "PyPlot", "Reexport", "SpecialFunctions", "Statistics", "StatsBase", "StatsFuns", "Test"]
+path = "/afs/inf.ed.ac.uk/user/s16/s1672897/projects/MLToolkit.jl/"
+uuid = "519e820e-097c-11e9-2274-1b004aeb0b9b"
+version = "0.1.1"
+
+[[MacroTools]]
+deps = ["CSTParser", "Compat", "DataStructures", "Test"]
+git-tree-sha1 = "daecd9e452f38297c686eba90dba2a6d5da52162"
+uuid = "1914dd2f-81c6-5fcd-8719-6d5c9610ff09"
+version = "0.5.0"
+
+[[Markdown]]
+deps = ["Base64"]
+uuid = "d6f4376e-aef5-505a-96c1-9c027394607a"
+
+[[Missings]]
+deps = ["Dates", "InteractiveUtils", "SparseArrays", "Test"]
+git-tree-sha1 = "d1d2585677f2bd93a97cfeb8faa7a0de0f982042"
+uuid = "e1d29d7a-bbdc-5cf2-9ac0-f12de2c33e28"
+version = "0.4.0"
+
+[[Mmap]]
+uuid = "a63ad114-7e13-5084-954f-fe012c677804"
+
+[[OrderedCollections]]
+deps = ["Random", "Serialization", "Test"]
+git-tree-sha1 = "c4c13474d23c60d20a67b217f1d7f22a40edf8f1"
+uuid = "bac558e1-5e72-5ebc-8fee-abe8a469f55d"
+version = "1.1.0"
+
+[[PDMats]]
+deps = ["Arpack", "LinearAlgebra", "SparseArrays", "SuiteSparse", "Test"]
+git-tree-sha1 = "8b68513175b2dc4023a564cb0e917ce90e74fd69"
+uuid = "90014a1f-27ba-587c-ab20-58faa44d9150"
+version = "0.9.7"
+
+[[Pkg]]
+deps = ["Dates", "LibGit2", "Markdown", "Printf", "REPL", "Random", "SHA", "UUIDs"]
+uuid = "44cfe95a-1eb2-52ea-b672-e2afdf69b78f"
+
+[[Printf]]
+deps = ["Unicode"]
+uuid = "de0858da-6303-5e67-8744-51eddeeeb8d7"
+
+[[ProgressMeter]]
+deps = ["Distributed", "Printf", "Random", "Test"]
+git-tree-sha1 = "48058bc11607676e5bbc0b974af79106c6200787"
+uuid = "92933f4c-e287-5a05-a399-4b506db050ca"
+version = "0.9.0"
+
+[[PyCall]]
+deps = ["Conda", "Dates", "Libdl", "LinearAlgebra", "MacroTools", "Pkg", "Serialization", "Statistics", "Test", "VersionParsing"]
+git-tree-sha1 = "6e5bac1b1faf3575731a6a5b76f638f2389561d3"
+uuid = "438e738f-606a-5dbb-bf0a-cddfbfd45ab0"
+version = "1.91.2"
+
+[[PyPlot]]
+deps = ["Colors", "LaTeXStrings", "PyCall", "Sockets", "Test", "VersionParsing"]
+git-tree-sha1 = "3ea391c3211f799df20396d256cee5c8bd755605"
+uuid = "d330b81b-6aea-500a-939a-2ce795aea3ee"
+version = "2.8.1"
+
+[[QuadGK]]
+deps = ["DataStructures", "LinearAlgebra", "Test"]
+git-tree-sha1 = "3ce467a8e76c6030d4c3786e7d3a73442017cdc0"
+uuid = "1fd47b50-473d-5c70-9696-f719f8f3bcdc"
+version = "2.0.3"
+
+[[REPL]]
+deps = ["InteractiveUtils", "Markdown", "Sockets"]
+uuid = "3fa0cd96-eef1-5676-8a61-b3b8758bbffb"
+
+[[Random]]
+deps = ["Serialization"]
+uuid = "9a3f8284-a2c9-5f02-9a11-845980a1fd5c"
+
+[[Reexport]]
+deps = ["Pkg"]
+git-tree-sha1 = "7b1d07f411bc8ddb7977ec7f377b97b158514fe0"
+uuid = "189a3867-3050-52da-a836-e630ba90ab69"
+version = "0.2.0"
+
+[[Rmath]]
+deps = ["BinaryProvider", "Libdl", "Random", "Statistics", "Test"]
+git-tree-sha1 = "9a6c758cdf73036c3239b0afbea790def1dabff9"
+uuid = "79098fc4-a85e-5d69-aa6a-4863f24498fa"
+version = "0.5.0"
+
+[[SHA]]
+uuid = "ea8e919c-243c-51af-8825-aaa63cd721ce"
+
+[[Serialization]]
+uuid = "9e88b42a-f829-5b0c-bbe9-9e923198166b"
+
+[[SharedArrays]]
+deps = ["Distributed", "Mmap", "Random", "Serialization"]
+uuid = "1a1011a3-84de-559e-8e89-a11a2f7dc383"
+
+[[Sockets]]
+uuid = "6462fe0b-24de-5631-8697-dd941f90decc"
+
+[[SortingAlgorithms]]
+deps = ["DataStructures", "Random", "Test"]
+git-tree-sha1 = "03f5898c9959f8115e30bc7226ada7d0df554ddd"
+uuid = "a2af1166-a08f-5f64-846c-94a0d3cef48c"
+version = "0.3.1"
+
+[[SparseArrays]]
+deps = ["LinearAlgebra", "Random"]
+uuid = "2f01184e-e22b-5df5-ae63-d93ebab69eaf"
+
+[[SpecialFunctions]]
+deps = ["BinDeps", "BinaryProvider", "Libdl", "Test"]
+git-tree-sha1 = "0b45dc2e45ed77f445617b99ff2adf0f5b0f23ea"
+uuid = "276daf66-3868-5448-9aa4-cd146d93841b"
+version = "0.7.2"
+
+[[Statistics]]
+deps = ["LinearAlgebra", "SparseArrays"]
+uuid = "10745b16-79ce-11e8-11f9-7d13ad32a3b2"
+
+[[StatsBase]]
+deps = ["DataStructures", "LinearAlgebra", "Missings", "Printf", "Random", "SortingAlgorithms", "SparseArrays", "Statistics"]
+git-tree-sha1 = "8a0f4b09c7426478ab677245ab2b0b68552143c7"
+uuid = "2913bbd2-ae8a-5f71-8c99-4fb6c76f3a91"
+version = "0.30.0"
+
+[[StatsFuns]]
+deps = ["Rmath", "SpecialFunctions", "Test"]
+git-tree-sha1 = "b3a4e86aa13c732b8a8c0ba0c3d3264f55e6bb3e"
+uuid = "4c63d2b9-4356-54db-8cca-17b64c39e42c"
+version = "0.8.0"
+
+[[SuiteSparse]]
+deps = ["Libdl", "LinearAlgebra", "SparseArrays"]
+uuid = "4607b0f0-06f3-5cda-b6b1-a6196a1729e9"
+
+[[Test]]
+deps = ["Distributed", "InteractiveUtils", "Logging", "Random"]
+uuid = "8dfed614-e22c-5e08-85e1-65c5234f0b40"
+
+[[TextWrap]]
+deps = ["Compat", "Test"]
+git-tree-sha1 = "8355cc559e85469cd4dbe927c375f61d3750e002"
+uuid = "b718987f-49a8-5099-9789-dcd902bef87d"
+version = "0.3.0"
+
+[[TimerOutputs]]
+deps = ["Crayons", "Printf", "Test", "Unicode"]
+git-tree-sha1 = "b80671c06f8f8bae08c55d67b5ce292c5ae2660c"
+uuid = "a759f4b9-e2f1-59dc-863e-4aeb61b1ea8f"
+version = "0.5.0"
+
+[[Tokenize]]
+deps = ["Printf", "Test"]
+git-tree-sha1 = "3e83f60b74911d3042d3550884ca2776386a02b8"
+uuid = "0796e94c-ce3b-5d07-9a54-7f471281c624"
+version = "0.5.3"
+
+[[TranscodingStreams]]
+deps = ["Random", "Test"]
+git-tree-sha1 = "a25d8e5a28c3b1b06d3859f30757d43106791919"
+uuid = "3bb67fe8-82b1-5028-8e26-92a6c54297fa"
+version = "0.9.4"
+
+[[URIParser]]
+deps = ["Test", "Unicode"]
+git-tree-sha1 = "6ddf8244220dfda2f17539fa8c9de20d6c575b69"
+uuid = "30578b45-9adc-5946-b283-645ec420af67"
+version = "0.4.0"
+
+[[UUIDs]]
+deps = ["Random", "SHA"]
+uuid = "cf7118a7-6976-5b1a-9a39-7adc72f591a4"
+
+[[Unicode]]
+uuid = "4ec0a83e-493e-50e2-b9ac-8f72acf5a8f5"
+
+[[VersionParsing]]
+deps = ["Compat"]
+git-tree-sha1 = "c9d5aa108588b978bd859554660c8a5c4f2f7669"
+uuid = "81def892-9a0e-5fdd-b105-ffc91e053289"
+version = "1.1.3"
diff --git a/Project.toml b/Project.toml
@@ -0,0 +1,18 @@
+name = "RAVE"
+uuid = "736b9532-7544-11e9-0c85-256857f2baf9"
+authors = ["Kai Xu <xukai921110@gmail.com>"]
+version = "0.1.0"
+
+[deps]
+AutoGrad = "6710c13c-97f1-543f-91c5-74e8f7d95b35"
+CodecZlib = "944b1d66-785c-5afd-91f1-9de20f533193"
+Distributions = "31c24e10-a181-5473-b8eb-7969acd0382f"
+FileIO = "5789e2e9-d7fb-5bc7-8068-2c6fae9b9549"
+Knet = "1902f260-5fb4-5aff-8c31-6271790ab950"
+LinearAlgebra = "37e2e46d-f89d-539d-b4ee-838fcccc9c8e"
+MLToolkit = "519e820e-097c-11e9-2274-1b004aeb0b9b"
+ProgressMeter = "92933f4c-e287-5a05-a399-4b506db050ca"
+PyCall = "438e738f-606a-5dbb-bf0a-cddfbfd45ab0"
+Reexport = "189a3867-3050-52da-a836-e630ba90ab69"
+SpecialFunctions = "276daf66-3868-5448-9aa4-cd146d93841b"
+StatsFuns = "4c63d2b9-4356-54db-8cca-17b64c39e42c"
diff --git a/RAVE/src/RAVE.jl b/RAVE/src/RAVE.jl
@@ -0,0 +1,5 @@
+module RAVE
+
+greet() = print("Hello World!")
+
+end # module
diff --git a/data/synth.jld2 b/data/synth.jld2
diff --git a/data/synth_large.jld2 b/data/synth_large.jld2
diff --git a/nb2script.sh b/nb2script.sh
@@ -0,0 +1 @@
+jupyter nbconvert --to script notebooks/$1.ipynb --output-dir scripts --output $1