### A Pluto.jl notebook ###
# v0.19.46

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)
    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
end

# ╔═╡ 91f04e7e-4645-11ec-2d30-ddd4d9932541
begin	
	using ClimateModels, Climatology, PlutoUI, CairoMakie

    function save_fig(fig,trigger)
		fil=tempname()*".png"
		save(fil,fig)
		fil
	end

	space = html"<br><br>"	
	"Done with packages"
end

# ╔═╡ 6f721618-d955-4c51-ba44-2873f8609831
PlutoUI.TableOfContents()

# ╔═╡ 63b0b781-c6b0-46a1-af06-a228af8211dc
md"""#  Standard Views of The Ocean State

The ocean state history for the 1980-2023 period is depicted in this notebook using the [OCCA2](https://doi.org/10.21203/rs.3.rs-3979671/v1) ocean state estimate. The displayed quantities were calculated via the [Climatology.jl](https://github.com/JuliaOcean/Climatology.jl#readme) Julia package. The same variables can also be viewed for the [ECCO4](https://doi.org/10.5194/gmd-8-3071-2015) ocean state estimates.

**References :**

- Gaël Forget. Energy Imbalance in the Sunlit Ocean Layer, 11 April 2024, PREPRINT (under review), https://doi.org/10.21203/rs.3.rs-3979671/v1
- Forget, G., Campin, J.-M., Heimbach, P., Hill, C. N., Ponte, R. M., and Wunsch, C.: ECCO version 4: an integrated framework for non-linear inverse modeling and global ocean state estimation, Geosci. Model Dev., 8, 3071–3104, https://doi.org/10.5194/gmd-8-3071-2015, 2015

!!! introduction
	This [Julia](https://julialang.org) [notebook](https://github.com/fonsp/Pluto.jl) let's you explore [ECCO](https://ecco-group.org) ocean state estimates interactively -- [ECCO version 4](https://doi.org/10.5194/gmd-8-3071-2015) [releases 1 to 5](https://ecco-group.org/products.htm) initially. 

!!! note
    - If you are running a live version of this notebook in a web browser, then the plots should update according to drop down menus as seen in this [video demo](https://youtu.be/UEmBnzspSRg). If something seems to have gone wrong, please refer to the `user directions` at the bottom of this page. 
    - If instead you are viewing the static html version hosted online, then this interactivity is disabled.
"""

# ╔═╡ 8c4093d7-30aa-4ebe-a429-5d2c2f72fdc3
md"""## Climatology Map"""

# ╔═╡ 1df3bd3c-1396-4cd0-bfd2-3a05dec68261
md"""## Zonal Mean vs Time"""

# ╔═╡ bb3b3089-ab83-4683-9cf0-860a55a9af97
begin
	k_zm_select = @bind k_zm PlutoUI.Slider(1:50, default=1, show_value=true)
	namzm_select = @bind namzm PlutoUI.Select(["MXLDEPTH","THETA","SALT","SSH","SIarea"],default="THETA")
	
	md"""Select a quantity and plot it as a function of time and latitude.
	
	- variable for zonal mean vs time : $(namzm_select)
	- level for zonal mean vs time : $(k_zm_select)
	
	!!! note
	    Choosing a `level` only has an effect if the selected variable, $(namzm), is three-dimensional.

	"""
end

# ╔═╡ 31e97c10-69a6-4074-8b51-89d845620548
md"""## Zonal Mean vs Time (anomalies)"""

# ╔═╡ 5b21c86e-1d75-4510-b474-97ac33fcb271
begin
	namzmanom2d_select = @bind namzmanom2d Select(["MXLDEPTH","SIarea","SSH","THETA","SALT"],default="THETA")
	k_zm2d_select = @bind k_zm2d PlutoUI.Slider(1:50,show_value=true)
	cmap_fac_select = @bind cmap_fac Select(vec([0.05 0.1 0.25 0.5 0.75 1.0 1.5 2.0 5.0]), default=1.0)
	l0_select = @bind l0 PlutoUI.Slider(1:90;default=1, show_value=true)
	l1_select = @bind l1 PlutoUI.Slider(1:90;default=90, show_value=true)

	#cmap_fac_select = @bind cmap_fac Select(string.([0.05 0.1 0.25 0.5 0.75 1.0 1.5 2.0 5.0])[:])
	#cmap_fac_select = @bind cmap_fac Select([1 2])
md"""Select a quantity and plot it's anomaly as a function of time and latitude.

- variable for zonal mean anomaly vs time : $(namzmanom2d_select)
- depth level for zonal mean vs time : $(k_zm2d_select)
- latitude index, min : $(l0_select)
- latitude index, max : $(l1_select)
- scaling factor for color range : $(cmap_fac_select)

!!! note
	Choosing a `level` only has an effect if the selected variable, $(namzmanom2d), is three-dimensional.
"""
end

# ╔═╡ 7dbbb44c-22db-4c30-b71c-58fbab3f78b6
md"""## Depth vs Time (Anomalies)"""

# ╔═╡ 302c84ce-c39d-456b-b748-e3f5ddec0eda
begin
	namzmanom_select = @bind namzmanom Select(["THETA","SALT"])
	l_zm_select = @bind l_Tzm PlutoUI.Slider(8:5:90;default=28,show_value=true)
	k0_select = @bind k0 PlutoUI.Slider(1:50;default=1, show_value=true)
	k1_select = @bind k1 PlutoUI.Slider(1:50;default=30, show_value=true)
	facA_select = @bind facA Select(vec([0.05 0.1 0.25 0.5 0.75 1.0 1.5 2.0 5.0]), default=1.0)

	md"""Settings:
	
	- variable for depth vs time anomaly : $(namzmanom_select)
	- latitude index for depth vs time : $(l_zm_select)
	- top depth level : $(k0_select)
	- bottom depth level : $(k1_select)
	- scaling factor for color range : $(facA_select)
	"""
end

# ╔═╡ 6d9cdea2-272b-4953-8af7-1425817f07a2
md"""## Global Means"""

# ╔═╡ 5d320375-0a3c-4197-b35d-f6610173329d


# ╔═╡ 92d1fc2f-9bdc-41dc-af49-9412f931d882
begin
	ngl1_select = @bind ngl1 Select(["THETA","SALT"];default="THETA")
	kgl1_select = @bind kgl1 PlutoUI.Slider(0:50;default=0, show_value=true)

	md"""Settings
	
	- variable for global mean vs time : $(ngl1_select)
	- depth index, k, for time series : $(kgl1_select)
	  - _(k=0 for volume average; k>0 for area average at level k)_
	"""
end

# ╔═╡ d9c2d8a0-4e5b-4fb5-84cd-c7c989608af5
md"""## Ocean Transports

Here we look at a few aspects of the ocean circulation as estimated in ECCO.

### Meridional Heat Transport
"""

# ╔═╡ c2cd21d9-3fe7-42ec-b6a8-ce34d0770d63
md"""### Overturning Streamfunction"""

# ╔═╡ 215cf4aa-e540-4882-8a33-b7976a6e1b04
md"""### Overturning Time Series"""

# ╔═╡ 7a9269b9-b7aa-4dec-bc86-636a0be6ad01
begin
	ktr1_select = @bind ktr1 PlutoUI.Slider(1:50;default=29, show_value=true)
	low1_select = @bind low1 Select(["auto",-10.0,0.0,5.0,10.0];default="auto")
	
	md"""Seetings:
	
	- level for overturning vs time : $(ktr1_select)
	- lower limit for overturning plot : $(low1_select)
	"""
end

# ╔═╡ ac1cb355-5d59-4d98-9b0a-181a89625b21
md"""### Transport Across One Section"""

# ╔═╡ 0b8ce7b9-8f41-451f-9ec5-5bff418bcafb
md"""### Transport Across Multiple Sections"""

# ╔═╡ 0f308191-13ca-4056-a85f-3a0061958e28
md"""## Appendix"""

# ╔═╡ 8dccce78-c665-4105-9f6b-fb295af8fbd0
begin
    withenv("DATADEPS_ALWAYS_ACCEPT"=>true) do
        P=ECCO_procs.parameters()
    end
    P=ECCO_procs.parameters()
end

# ╔═╡ 17fc2e78-628e-4082-8191-adf07abcc3ff
begin
	nammap_select = @bind nammap Select(P.clim_longname,default=P.clim_longname[11])
	statmap_select = @bind statmap Select(["mean","std","mon"])	
	timemap_select = @bind timemap Select(1:12)
	md"""
	- file for time mean map : $(nammap_select)
	- choice of statistic for time mean map : $(statmap_select)
	- (optional) if `mon` was selected then show month # : $(timemap_select)
	"""
end

# ╔═╡ aa340276-cfed-4f0d-a2f1-e6cc18c0bba8
begin
	ntr1_select = @bind ntr1 Select(P.list_trsp)
	
	md"""Settings:
	
	- transect for transport vs time : $(ntr1_select)	
	"""
end

# ╔═╡ 8b286e86-692f-419c-83c1-f9120e4e35de
begin
	ntr2_select = @bind namtrs MultiCheckBox(P.list_trsp; orientation=:row, select_all=true, default=[P.list_trsp[1],P.list_trsp[2]])
	
	md"""Select Sections:
	
$(ntr2_select)	

!!! note
    The layout of this multiple-panel display should update as you select and unselect sections.
	
	"""
end

# ╔═╡ 58befe75-5b00-475b-838e-6f64231549a6


# ╔═╡ c97dfbbc-c0f0-4b93-86a9-fc9f83157a6f
datadepspath=dirname(Climatology.downloads.datadep"OCCA2HR1-stdiags")

# ╔═╡ 37eaf015-742f-4faa-baac-6b2411922e39
sol_list=["ECCO4R1","ECCO4R2","ECCO4R3","ECCO4R4","ECCO4R5","OCCA2HR1","OCCA2HR2"]

# ╔═╡ c46f0656-3627-448b-a779-dad2d980e3cf
md"""### Select Solution
$(space)
Changing solution will update all plots.
"""

# ╔═╡ 8fced956-e527-4ed0-94d4-321368f09773
begin
	sol_select = @bind sol Select(sol_list,default="OCCA2HR1")
	md"""select a solution : $(sol_select)"""
end

# ╔═╡ 09b47016-c954-4fe3-a972-e3de81f40171
year0,year1=ECCO_procs.years_min_max(sol)

# ╔═╡ 79a9794e-85c6-400e-8b44-3742b56544a2
begin
    pth_out=Climatology.downloads.ECCOdiags_add(sol)
	md"""### Input Data Files
$(space)

Here we read and display results from previous computation that derived transports and other quantities like zonal means from gridded model output. Plots include interpolation from model grid to regular grid.
	
Folder name : $(pth_out)
	"""
end

# ╔═╡ 8563e63d-0096-49f0-8368-e32c4457f5a3
with_terminal() do
	fil_list=readdir(pth_out)
	println.(fil_list)
	"Subfolders And files list:"
end

# ╔═╡ 935cb17d-07b3-4c0c-b863-448ab327d57b
begin
	bind_SaveAllPlots = @bind SaveAllPlots PlutoUI.Button("Save Plots")
	
	md"""### Save All Plots
	$(space)
	All plots will be saved in the folder listed below.
	$(space)
	$(bind_SaveAllPlots)
	"""
end

# ╔═╡ 0a956b36-9306-42e2-a296-3a1840a4cf5b
begin
	MC=ModelConfig(model="ECCO_plots")
	pathof(MC)
end

# ╔═╡ 4d8aa01d-09ef-4f0b-bc7e-16b9ca71a884
MC.outputs[:map]=plot(ECCOdiag(path=pth_out,name="tbd",options=
    (plot_type=:ECCO_map,nammap=nammap,P=P,statmap=statmap,timemap=timemap)))

# ╔═╡ 39ca358a-6e4b-45ed-9ccb-7785884a9868
MC.outputs[:TimeLat]=plot(ECCOdiag(path=pth_out,name=namzm*"_clim",options=
    (plot_type=:ECCO_TimeLat,year0=year0,year1=year1,cmap_fac=cmap_fac,k=k_zm,P=P,years_to_display=[year0 year1+1])))

# ╔═╡ 2d819d3e-f62e-4a73-b51c-0e1204da2369
MC.outputs[:TimeLatAnom]=plot(ECCOdiag(path=pth_out,name=namzmanom2d*"_clim",options=
    (plot_type=:ECCO_TimeLatAnom,year0=year0,year1=year1,cmap_fac=cmap_fac,k=k_zm2d,l0=l0,l1=l1,P=P,years_to_display=[year0 year1+1])))

# ╔═╡ 3f73757b-bab9-4d72-9fff-8884e96e76cd
MC.outputs[:DepthTime]=plot(ECCOdiag(path=pth_out,name=namzmanom*"_clim",options=
    (plot_type=:ECCO_DepthTime,facA=facA,l=l_Tzm,year0=year0,year1=year1,k0=k0,k1=k1,P=P,years_to_display=[year0 year1+1])))

# ╔═╡ 16fd6241-8ec1-449d-93ac-ef84c8325867
MC.outputs[:global]=plot(ECCOdiag(path=pth_out,name=ngl1,options=
    (plot_type=:ECCO_GlobalMean,k=kgl1,year0=year0,year1=year1,years_to_display=[year0 year1+1])))

# ╔═╡ a19561bb-f9d6-4f05-9696-9b69bba024fc
MC.outputs[:OHT]=plot(ECCOdiag(path=pth_out,name="OHT",options=(plot_type=:ECCO_OHT1,)))

# ╔═╡ 594c8843-f03f-4230-bdba-a943d535524d
MC.outputs[:overturning]=plot(ECCOdiag(path=pth_out,name="overturn",options=(plot_type=:ECCO_Overturn2,grid=P.Γ)))

# ╔═╡ 88e85850-b09d-4f46-b104-3489ffe63fa0
MC.outputs[:overturnings]=plot(ECCOdiag(path=pth_out,name="overturn",options=
    (plot_type=:ECCO_Overturn1,kk=ktr1,low1=low1,year0=year0,year1=year1,years_to_display=[year0 year1+1])))

# ╔═╡ f5e41a76-e56c-4889-821a-68abcb5a72c8
MC.outputs[:transport]=plot(ECCOdiag(path=pth_out,name="trsp",options=
    (plot_type=:ECCO_Transports,namtrs=[ntr1],ncols=1,list_trsp=P.list_trsp,year0=year0,year1=year1,years_to_display=[year0 year1+1])))

# ╔═╡ 8702a6cf-69de-4e9c-8e77-81f39b55efc7
begin
    #namtrs=[ntr1,ntr1,ntr1,ntr1]
    ncols=Int(floor(sqrt(length(namtrs))))
    MC.outputs[:transports]=plot(ECCOdiag(path=pth_out,name="trsp",options=
        (plot_type=:ECCO_Transports,namtrs=namtrs,ncols=ncols,list_trsp=P.list_trsp,year0=year0,year1=year1,years_to_display=[year0 year1+1])))
end

# ╔═╡ 1fb8f44b-d6f7-4539-8459-fdae07bb6a58
begin
	isempty(MC.outputs) ? listSave=["N/A"] : listSave=collect(keys(MC.outputs))
	bind_SaveOnePlot = @bind SaveOnePlot PlutoUI.Button("Save Plot")
	bind_SelectePlot = @bind SelectPlot PlutoUI.Select(listSave)
	
	md"""### Save Plot
	$(space)
	The selected plot is saved in file listed below.
	$(space)
	$(bind_SaveOnePlot)
	$(bind_SelectePlot)
	"""
end

# ╔═╡ 60b73ddd-ec82-4a52-87b6-058728f150a4
md""" $(bind_SaveOnePlot) for $(bind_SelectePlot) in $(sol_select)"""

# ╔═╡ 0477e49b-d8b2-4308-b692-cadcdfe28892
md""" $(bind_SaveOnePlot) for $(bind_SelectePlot) in $(sol_select)"""

# ╔═╡ c1c4e3c1-d581-4103-8f46-e555c64df86a
let
	SelectPlot!=="N/A" ? fil=save_fig(MC.outputs[SelectPlot],SaveOnePlot) : fil="N/A"
	md"""File = $(fil)"""
end

# ╔═╡ 22faa18e-cdf9-411f-8ddb-5b779e44db01
md""" $(bind_SaveOnePlot) for $(bind_SelectePlot) in $(sol_select)"""

# ╔═╡ 3088bca4-0db3-4e4d-a7e5-8afb0f356271
md""" $(bind_SaveOnePlot) for $(bind_SelectePlot) in $(sol_select)"""

# ╔═╡ e88a17f0-5e42-4d0b-8253-e83cabfec4d2
md""" $(bind_SaveOnePlot) for $(bind_SelectePlot) in $(sol_select)"""

# ╔═╡ b55432ac-4960-4983-8330-4ea957a05eee
md""" $(bind_SaveOnePlot) for $(bind_SelectePlot) in $(sol_select)"""

# ╔═╡ 347dc728-2224-4e91-9d7b-45badef8f9a0
md""" $(bind_SaveOnePlot) for $(bind_SelectePlot) in $(sol_select)"""

# ╔═╡ 53069bcc-9b28-40bf-9053-4ec0c6099611
md""" $(bind_SaveOnePlot) for $(bind_SelectePlot) in $(sol_select)"""

# ╔═╡ edf6e079-9aad-4969-b6e3-06dd45b99d68
md""" $(bind_SaveOnePlot) for $(bind_SelectePlot) in $(sol_select)"""

# ╔═╡ 339c792e-7ef1-4554-9f12-d616bc9a7e5b
md""" $(bind_SaveOnePlot) for $(bind_SelectePlot) in $(sol_select)"""

# ╔═╡ c6ca87f7-fa0d-4cb5-9050-5204f43e0d69
begin
	SaveAllPlots
	MC.outputs
end

# ╔═╡ ff40a006-915a-4d35-847f-5f10085f60a2
begin
	SaveAllPlots
	
	!isdir(pathof(MC)) ? setup(MC) : nothing
	p=joinpath(pathof(MC),"plots")
	!isdir(p) ? mkdir(p) : nothing

	listplots=("overturning","overturnings","transport","transports","OHT",
		"global","DepthTime","TimeLat","TimeLatAnom","map")
	if !isempty(MC.outputs)
		[save(joinpath(p,f*".png"),MC.outputs[Symbol(f)]) for f in listplots]
	end

	display(readdir(p))
end

# ╔═╡ 77339a25-c26c-4bfe-84ee-15274389619f
md""" ### User Directions
$(space)

!!! summary
    Running this notebook on a local computer requires [julia](https://julialang.org/downloads/), packages added below, and data files downloaded below.
"""

# ╔═╡ 4bc4a859-93f6-409f-8bf3-77cd6ceb0836
md"""
Once [Pluto](https://github.com/fonsp/Pluto.jl/wiki/🔎-Basic-Commands-in-Pluto) opens, the notebook will start to run.

!!! note
    At first, it may take a **couple minutes** for the whole suite of plots to get display, as code compilation takes place (on the fly). Afterwards, since compiled code is available, things should update much faster when using the drop down menus. Another point to note is that notebooks like this one can be executed in various ways outside of Pluto as well.

To add more solutions, just select a new one and the corresponing files (~250M) will get downloaded automatically. 

### Learn more 

For more on the underlying software and additional notebooks like this, take a look at the list below.

- [Julia](https://www.julialang.org) ; [docs here](https://docs.julialang.org/en/v1/) and many other resources @ <https://www.julialang.org>
- [Pluto.jl](https://github.com/fonsp/Pluto.jl) ; video from [JuliaCon 2020](https://www.youtube.com/watch?v=IAF8DjrQSSk) that introduced `Pluto.jl`
- [Climatology.jl](https://gaelforget.github.io/Climatology.jl/dev/) ; where this notebook is located along with the pre-processing loop.
- [MeshArrays.jl](https://juliaclimate.github.io/MeshArrays.jl/dev/) ; array framework able to represents climate model grids like the ones used in ECCO.
- [MITgcm.jl](https://gaelforget.github.io/MITgcm.jl/dev/) ; functions read/write MITgcm files (inputs & outputs) in various formats.
- [JuliaClimate Notebooks](https://juliaclimate.github.io/GlobalOceanNotebooks/) ; a longer series of notebooks that often use ECCO as an example.
- [OceanObs 2020 workshop](https://github.com/JuliaOcean/JuliaOceanSciencesMeeting2020) ; Julia (language) users and tools for oceanography.
- [JuliaCon 2021 workshop](https://github.com/JuliaOcean/MarineEcosystemsJuliaCon2021.jl) ; Modeling Marine Ecosystems At Multiple Scales Using Julia.
"""


# ╔═╡ 00000000-0000-0000-0000-000000000001
PLUTO_PROJECT_TOML_CONTENTS = """
[deps]
CairoMakie = "13f3f980-e62b-5c42-98c6-ff1f3baf88f0"
ClimateModels = "f6adb021-9183-4f40-84dc-8cea6f651bb0"
Climatology = "9e9a4d37-2d2e-41e3-8b85-f7978328d9c7"
PlutoUI = "7f904dfe-b85e-4ff6-b463-dae2292396a8"
"""

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

julia_version = "1.10.4"
manifest_format = "2.0"
project_hash = "15599605ff8958b7c9fa2b41e2f9f6f0e03a72a2"

[[deps.AbstractFFTs]]
deps = ["LinearAlgebra"]
git-tree-sha1 = "d92ad398961a3ed262d8bf04a1a2b8340f915fef"
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version = "1.5.0"
weakdeps = ["ChainRulesCore", "Test"]

    [deps.AbstractFFTs.extensions]
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    AbstractFFTsTestExt = "Test"

[[deps.AbstractPlutoDingetjes]]
deps = ["Pkg"]
git-tree-sha1 = "6e1d2a35f2f90a4bc7c2ed98079b2ba09c35b83a"
uuid = "6e696c72-6542-2067-7265-42206c756150"
version = "1.3.2"

[[deps.AbstractTrees]]
git-tree-sha1 = "2d9c9a55f9c93e8887ad391fbae72f8ef55e1177"
uuid = "1520ce14-60c1-5f80-bbc7-55ef81b5835c"
version = "0.4.5"

[[deps.AccurateArithmetic]]
deps = ["LinearAlgebra", "Random", "VectorizationBase"]
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[[deps.Adapt]]
deps = ["LinearAlgebra", "Requires"]
git-tree-sha1 = "6a55b747d1812e699320963ffde36f1ebdda4099"
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version = "4.0.4"
weakdeps = ["StaticArrays"]

    [deps.Adapt.extensions]
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[[deps.AdaptivePredicates]]
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uuid = "35492f91-a3bd-45ad-95db-fcad7dcfedb7"
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[[deps.AliasTables]]
deps = ["PtrArrays", "Random"]
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[[deps.nghttp2_jll]]
deps = ["Artifacts", "Libdl"]
uuid = "8e850ede-7688-5339-a07c-302acd2aaf8d"
version = "1.52.0+1"

[[deps.oneTBB_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl"]
git-tree-sha1 = "7d0ea0f4895ef2f5cb83645fa689e52cb55cf493"
uuid = "1317d2d5-d96f-522e-a858-c73665f53c3e"
version = "2021.12.0+0"

[[deps.p7zip_jll]]
deps = ["Artifacts", "Libdl"]
uuid = "3f19e933-33d8-53b3-aaab-bd5110c3b7a0"
version = "17.4.0+2"

[[deps.x264_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl"]
git-tree-sha1 = "35976a1216d6c066ea32cba2150c4fa682b276fc"
uuid = "1270edf5-f2f9-52d2-97e9-ab00b5d0237a"
version = "10164.0.0+0"

[[deps.x265_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl"]
git-tree-sha1 = "dcc541bb19ed5b0ede95581fb2e41ecf179527d2"
uuid = "dfaa095f-4041-5dcd-9319-2fabd8486b76"
version = "3.6.0+0"
"""

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