### A Pluto.jl notebook ###
# v0.20.17

using Markdown
using InteractiveUtils

# This Pluto notebook uses @bind for interactivity. When running this notebook outside of Pluto, the following 'mock version' of @bind gives bound variables a default value (instead of an error).
macro bind(def, element)
    #! format: off
    return quote
        local iv = try Base.loaded_modules[Base.PkgId(Base.UUID("6e696c72-6542-2067-7265-42206c756150"), "AbstractPlutoDingetjes")].Bonds.initial_value catch; b -> missing; end
        local el = $(esc(element))
        global $(esc(def)) = Core.applicable(Base.get, el) ? Base.get(el) : iv(el)
        el
    end
    #! format: on
end

# ╔═╡ 67a5c3f5-5cd5-46e7-8b2a-83299387c18a
begin
	using ArgoData, Climatology, Downloads, NCDatasets, Statistics
	using PrettyTables, PlutoUI
end

# ╔═╡ 708c3f0f-a8d4-45dd-85f2-c8bb934d2576
TableOfContents()

# ╔═╡ 52f89eed-0ab3-4082-b58f-45c90eaec205
md"""# MITprof Format & Cost Function

The `MITprof` format and cost function for [standard depth data](https://doi.org/10.7910/DVN/EE3C40) is defined in [Forget, et al 2015](http://dx.doi.org/10.5194/gmd-8-3071-2015).

Formatting native [Argo](https://argopy.readthedocs.io/en/latest/what_is_argo.html#what-is-argo) files into the MITprof format is done via `MITprof.format`
"""

# ╔═╡ 21062d00-f859-4d58-afed-d9748ca7f4f6
md"""## Cost Function

!!! note
    Cost functions are normalized distances between estimate and data. See [Forget, et al 2015](http://dx.doi.org/10.5194/gmd-8-3071-2015) for detail.
"""

# ╔═╡ f7950381-9ea8-4160-861b-dc0bf4b5bfe4
begin
	mywmo_bind = @bind wmo_txt confirm(TextField(default="6900900"))
	
	md"""## Select a Float
	\
	$(mywmo_bind)

	(default here is 6900900)
	
	## Alternate Floats (subset)	
	"""
end

# ╔═╡ 847f8175-0e8d-4fa7-8712-c6b47adbeab8
begin
	files_list=GDAC.files_list()
	nf=size(files_list,1)
	md"""Total number of identified floats is $(nf)"""
end

# ╔═╡ 89efaaca-e499-4367-bc23-c97a86f02d4b
begin
	pretty_table(files_list[1:2000:nf,:],
		header = names(files_list),
		header_crayon = crayon"yellow bold",
		highlighters  = ( hl_col(1, crayon"white"),hl_col(2, crayon"white") ),
	)
end

# ╔═╡ f094f531-57d9-4b8e-aa23-02b2c443bdf3
md"""## Julia packages"""

# ╔═╡ 39d1da64-217a-41b4-b2dc-07df1cfd3220
begin
	wmo=parse(Int,wmo_txt)
	folder=files_list[files_list.wmo.==wmo,"folder"][1]

	url0="https://data-argo.ifremer.fr/dac/$(folder)/"
	input_url=url0*"/$(wmo)/$(wmo)_prof.nc"
	input_file=joinpath(tempdir(),"$(wmo)_prof.nc")
	output_file=joinpath(tempdir(),"ncdev","$(wmo)_MITprof.nc")
	
	!isfile(input_file) ? fil=Downloads.download(input_url,input_file) : nothing
	!isdir(dirname(output_file)) ? mkdir(dirname(output_file)) : nothing
	isfile(output_file) ? rm(output_file) : nothing
	
	fil=joinpath(tempdir(),"ar_greylist.txt")
	isfile(fil) ? greylist=GDAC.grey_list(fil) : greylist=""

	"Done with Files Names"
end

# ╔═╡ ac23620a-b772-4bbb-95d2-d06ab497709c
begin
	meta=ArgoTools.meta(input_file,output_file)
	meta["greylist"]=greylist	
	gridded_fields=GriddedFields.load()
	"Done with initialization"
end

# ╔═╡ 48088d9f-3766-4b07-89dd-f57a9d8c7bd0
output_file2=MITprof.format(meta,gridded_fields,input_file,output_file)

# ╔═╡ 268c7d77-e2c2-48fa-a5c8-9c59e8fbc7f2
begin
	ds=Dataset(output_file2)
	
	println("Cost function values for float $(wmo) :")
	
	costT=ds["prof_Tweight"].* ((ds["prof_T"]-ds["prof_Testim"]).^2);
	ii=findall( ((!ismissing).(costT)).+(ds["prof_Tweight"].>0).>1 );

	costS=ds["prof_Sweight"].* ((ds["prof_S"]-ds["prof_Sestim"]).^2)
	ii=findall( ((!ismissing).(costS)).+(ds["prof_Sweight"].>0).>1 );
	
	println("mean T cost = $(mean(costT[ii])) ")
	println("mean S cost = $(mean(costS[ii])) ")

	if wmo==6900900
		println("")
		println("Reference values for default float (6900900) :")
		println("mean T cost = 1.4125672446566286")
		println("mean S cost = 1.365848840650727")
	end
end


# ╔═╡ 00000000-0000-0000-0000-000000000001
PLUTO_PROJECT_TOML_CONTENTS = """
[deps]
ArgoData = "9eb831cf-c491-48dc-bed4-6aca718df73c"
Climatology = "9e9a4d37-2d2e-41e3-8b85-f7978328d9c7"
Downloads = "f43a241f-c20a-4ad4-852c-f6b1247861c6"
NCDatasets = "85f8d34a-cbdd-5861-8df4-14fed0d494ab"
PlutoUI = "7f904dfe-b85e-4ff6-b463-dae2292396a8"
PrettyTables = "08abe8d2-0d0c-5749-adfa-8a2ac140af0d"
Statistics = "10745b16-79ce-11e8-11f9-7d13ad32a3b2"

[compat]
PlutoUI = "~0.7.49"
"""

# ╔═╡ 00000000-0000-0000-0000-000000000002
PLUTO_MANIFEST_TOML_CONTENTS = """
# This file is machine-generated - editing it directly is not advised

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git-tree-sha1 = "159331b30e94d7b11379037feeb9b690950cace8"
uuid = "856f2bd8-1eba-4b0a-8007-ebc267875bd4"
version = "1.11.0"

[[deps.StyledStrings]]
uuid = "f489334b-da3d-4c2e-b8f0-e476e12c162b"
version = "1.11.0"

[[deps.SuiteSparse]]
deps = ["Libdl", "LinearAlgebra", "Serialization", "SparseArrays"]
uuid = "4607b0f0-06f3-5cda-b6b1-a6196a1729e9"

[[deps.SuiteSparse_jll]]
deps = ["Artifacts", "Libdl", "libblastrampoline_jll"]
uuid = "bea87d4a-7f5b-5778-9afe-8cc45184846c"
version = "7.8.3+2"

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

[[deps.TableOperations]]
deps = ["SentinelArrays", "Tables", "Test"]
git-tree-sha1 = "e383c87cf2a1dc41fa30c093b2a19877c83e1bc1"
uuid = "ab02a1b2-a7df-11e8-156e-fb1833f50b87"
version = "1.2.0"

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

[[deps.Tables]]
deps = ["DataAPI", "DataValueInterfaces", "IteratorInterfaceExtensions", "OrderedCollections", "TableTraits"]
git-tree-sha1 = "f2c1efbc8f3a609aadf318094f8fc5204bdaf344"
uuid = "bd369af6-aec1-5ad0-b16a-f7cc5008161c"
version = "1.12.1"

[[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"
version = "1.11.0"

[[deps.Thrift2]]
deps = ["MacroTools", "OrderedCollections", "PrecompileTools"]
git-tree-sha1 = "9610f626cf80cf28468edb20ec2dc007f72aacfa"
uuid = "9be31aac-5446-47db-bfeb-416acd2e4415"
version = "0.2.1"

[[deps.TranscodingStreams]]
git-tree-sha1 = "0c45878dcfdcfa8480052b6ab162cdd138781742"
uuid = "3bb67fe8-82b1-5028-8e26-92a6c54297fa"
version = "0.11.3"

[[deps.Transducers]]
deps = ["Accessors", "ArgCheck", "BangBang", "Baselet", "CompositionsBase", "ConstructionBase", "DefineSingletons", "Distributed", "InitialValues", "Logging", "Markdown", "MicroCollections", "SplittablesBase", "Tables"]
git-tree-sha1 = "4aa1fdf6c1da74661f6f5d3edfd96648321dade9"
uuid = "28d57a85-8fef-5791-bfe6-a80928e7c999"
version = "0.4.85"

    [deps.Transducers.extensions]
    TransducersAdaptExt = "Adapt"
    TransducersBlockArraysExt = "BlockArrays"
    TransducersDataFramesExt = "DataFrames"
    TransducersLazyArraysExt = "LazyArrays"
    TransducersOnlineStatsBaseExt = "OnlineStatsBase"
    TransducersReferenceablesExt = "Referenceables"

    [deps.Transducers.weakdeps]
    Adapt = "79e6a3ab-5dfb-504d-930d-738a2a938a0e"
    BlockArrays = "8e7c35d0-a365-5155-bbbb-fb81a777f24e"
    DataFrames = "a93c6f00-e57d-5684-b7b6-d8193f3e46c0"
    LazyArrays = "5078a376-72f3-5289-bfd5-ec5146d43c02"
    OnlineStatsBase = "925886fa-5bf2-5e8e-b522-a9147a512338"
    Referenceables = "42d2dcc6-99eb-4e98-b66c-637b7d73030e"

[[deps.Tricks]]
git-tree-sha1 = "311349fd1c93a31f783f977a71e8b062a57d4101"
uuid = "410a4b4d-49e4-4fbc-ab6d-cb71b17b3775"
version = "0.1.13"

[[deps.URIParser]]
deps = ["Unicode"]
git-tree-sha1 = "53a9f49546b8d2dd2e688d216421d050c9a31d0d"
uuid = "30578b45-9adc-5946-b283-645ec420af67"
version = "0.4.1"

[[deps.URIs]]
git-tree-sha1 = "bef26fb046d031353ef97a82e3fdb6afe7f21b1a"
uuid = "5c2747f8-b7ea-4ff2-ba2e-563bfd36b1d4"
version = "1.6.1"

[[deps.UUIDs]]
deps = ["Random", "SHA"]
uuid = "cf7118a7-6976-5b1a-9a39-7adc72f591a4"
version = "1.11.0"

[[deps.Unicode]]
uuid = "4ec0a83e-493e-50e2-b9ac-8f72acf5a8f5"
version = "1.11.0"

[[deps.Unitful]]
deps = ["Dates", "LinearAlgebra", "Random"]
git-tree-sha1 = "c25751629f5baaa27fef307f96536db62e1d754e"
uuid = "1986cc42-f94f-5a68-af5c-568840ba703d"
version = "1.27.0"

    [deps.Unitful.extensions]
    ConstructionBaseUnitfulExt = "ConstructionBase"
    ForwardDiffExt = "ForwardDiff"
    InverseFunctionsUnitfulExt = "InverseFunctions"
    LatexifyExt = ["Latexify", "LaTeXStrings"]
    NaNMathExt = "NaNMath"
    PrintfExt = "Printf"

    [deps.Unitful.weakdeps]
    ConstructionBase = "187b0558-2788-49d3-abe0-74a17ed4e7c9"
    ForwardDiff = "f6369f11-7733-5829-9624-2563aa707210"
    InverseFunctions = "3587e190-3f89-42d0-90ee-14403ec27112"
    LaTeXStrings = "b964fa9f-0449-5b57-a5c2-d3ea65f4040f"
    Latexify = "23fbe1c1-3f47-55db-b15f-69d7ec21a316"
    NaNMath = "77ba4419-2d1f-58cd-9bb1-8ffee604a2e3"
    Printf = "de0858da-6303-5e67-8744-51eddeeeb8d7"

[[deps.UnsafeArrays]]
git-tree-sha1 = "efcbb6828697ffffc245a9de7300552535abe005"
uuid = "c4a57d5a-5b31-53a6-b365-19f8c011fbd6"
version = "1.0.8"

[[deps.WeakRefStrings]]
deps = ["DataAPI", "InlineStrings", "Parsers"]
git-tree-sha1 = "b1be2855ed9ed8eac54e5caff2afcdb442d52c23"
uuid = "ea10d353-3f73-51f8-a26c-33c1cb351aa5"
version = "1.4.2"

[[deps.WoodburyMatrices]]
deps = ["LinearAlgebra", "SparseArrays"]
git-tree-sha1 = "248a7031b3da79a127f14e5dc5f417e26f9f6db7"
uuid = "efce3f68-66dc-5838-9240-27a6d6f5f9b6"
version = "1.1.0"

[[deps.WorkerUtilities]]
git-tree-sha1 = "cd1659ba0d57b71a464a29e64dbc67cfe83d54e7"
uuid = "76eceee3-57b5-4d4a-8e66-0e911cebbf60"
version = "1.6.1"

[[deps.XML2_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl", "Libiconv_jll", "Zlib_jll"]
git-tree-sha1 = "80d3930c6347cfce7ccf96bd3bafdf079d9c0390"
uuid = "02c8fc9c-b97f-50b9-bbe4-9be30ff0a78a"
version = "2.13.9+0"

[[deps.XZ_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl"]
git-tree-sha1 = "9cce64c0fdd1960b597ba7ecda2950b5ed957438"
uuid = "ffd25f8a-64ca-5728-b0f7-c24cf3aae800"
version = "5.8.2+0"

[[deps.Xorg_libpciaccess_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl", "Zlib_jll"]
git-tree-sha1 = "4909eb8f1cbf6bd4b1c30dd18b2ead9019ef2fad"
uuid = "a65dc6b1-eb27-53a1-bb3e-dea574b5389e"
version = "0.18.1+0"

[[deps.YAML]]
deps = ["Base64", "Dates", "Printf", "StringEncodings"]
git-tree-sha1 = "a1c0c7585346251353cddede21f180b96388c403"
uuid = "ddb6d928-2868-570f-bddf-ab3f9cf99eb6"
version = "0.4.16"

[[deps.ZipFile]]
deps = ["Libdl", "Printf", "Zlib_jll"]
git-tree-sha1 = "f492b7fe1698e623024e873244f10d89c95c340a"
uuid = "a5390f91-8eb1-5f08-bee0-b1d1ffed6cea"
version = "0.10.1"

[[deps.Zlib_jll]]
deps = ["Libdl"]
uuid = "83775a58-1f1d-513f-b197-d71354ab007a"
version = "1.3.1+2"

[[deps.Zstd_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl"]
git-tree-sha1 = "446b23e73536f84e8037f5dce465e92275f6a308"
uuid = "3161d3a3-bdf6-5164-811a-617609db77b4"
version = "1.5.7+1"

[[deps.brotli_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl"]
git-tree-sha1 = "46fda47f4215c957bc92fd5fbb5ad04fee1e3743"
uuid = "4611771a-a7d2-5e23-8d00-b1becdba1aae"
version = "1.2.0+0"

[[deps.libaec_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl"]
git-tree-sha1 = "1aa23f01927b2dac46db77a56b31088feee0a491"
uuid = "477f73a3-ac25-53e9-8cc3-50b2fa2566f0"
version = "1.1.4+0"

[[deps.libblastrampoline_jll]]
deps = ["Artifacts", "Libdl"]
uuid = "8e850b90-86db-534c-a0d3-1478176c7d93"
version = "5.15.0+0"

[[deps.libzip_jll]]
deps = ["Artifacts", "Bzip2_jll", "JLLWrappers", "Libdl", "OpenSSL_jll", "XZ_jll", "Zlib_jll", "Zstd_jll"]
git-tree-sha1 = "86addc139bca85fdf9e7741e10977c45785727b7"
uuid = "337d8026-41b4-5cde-a456-74a10e5b31d1"
version = "1.11.3+0"

[[deps.nghttp2_jll]]
deps = ["Artifacts", "Libdl"]
uuid = "8e850ede-7688-5339-a07c-302acd2aaf8d"
version = "1.64.0+1"

[[deps.p7zip_jll]]
deps = ["Artifacts", "Libdl"]
uuid = "3f19e933-33d8-53b3-aaab-bd5110c3b7a0"
version = "17.5.0+2"

[[deps.snappy_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl"]
git-tree-sha1 = "ca88363dd41d2547f52118287dd34dbbc14f3eb7"
uuid = "fe1e1685-f7be-5f59-ac9f-4ca204017dfd"
version = "1.2.3+0"
"""

# ╔═╡ Cell order:
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# ╟─52f89eed-0ab3-4082-b58f-45c90eaec205
# ╟─48088d9f-3766-4b07-89dd-f57a9d8c7bd0
# ╟─21062d00-f859-4d58-afed-d9748ca7f4f6
# ╟─268c7d77-e2c2-48fa-a5c8-9c59e8fbc7f2
# ╟─f7950381-9ea8-4160-861b-dc0bf4b5bfe4
# ╟─89efaaca-e499-4367-bc23-c97a86f02d4b
# ╟─847f8175-0e8d-4fa7-8712-c6b47adbeab8
# ╟─f094f531-57d9-4b8e-aa23-02b2c443bdf3
# ╠═67a5c3f5-5cd5-46e7-8b2a-83299387c18a
# ╟─39d1da64-217a-41b4-b2dc-07df1cfd3220
# ╟─ac23620a-b772-4bbb-95d2-d06ab497709c
# ╟─00000000-0000-0000-0000-000000000001
# ╟─00000000-0000-0000-0000-000000000002