### 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

# ╔═╡ 1821a034-5a3f-4a3a-a971-a80a26aa01cb
using Pkg; Pkg.status()

# ╔═╡ 2acbfc79-3926-4c5a-9994-e3222c60c377
begin
	using Drifters
	import Climatology, MITgcm
    using Statistics, PlutoUI, CairoMakie

    ECCOmodule = Drifters.ECCO
    CSV = Drifters.CSV
    DataFrames = Drifters.DataFrames
    
	output_path=joinpath(tempdir(),"global_ocean_tmp")
	!isdir(output_path) ? mkdir(output_path) : nothing

    path_input = Drifters.datadeps.getdata("global_ocean_circulation_inputs")
    path_replay = Drifters.datadeps.getdata("global_ocean_circulation_outputs")
end	

# ╔═╡ c9e9faa8-f5f0-479c-bc85-877ff7114883
md"""# Global Climatology

Simulate the displacement of a set of individuals (or particles) according to 
climatological monthly mean flow at selected depth level
(or in 3D). The flow fields are from a global ocean state estimate ([ECCO v4 r2](https://eccov4.readthedocs.io/en/latest/) ; see also <https://ecco-group.org>). It is here repeated for `ny` years to simulate trajectories. 

For additional documentation see :
[1](https://JuliaClimate.github.io/Drifters.jl/dev/),
[2](https://JuliaClimate.github.io/MeshArrays.jl/dev/),
[3](https://docs.juliadiffeq.org/latest/solvers/ode_solve.html),
[4](https://en.wikipedia.org/wiki/Displacement_(vector))
"""

# ╔═╡ 171fa252-7a35-4d4a-a940-60de77327cf4
TableOfContents()

# ╔═╡ 7fec71b4-849f-4369-bec2-26bfe2e00a97
begin
	✔0="selected parameters"
	
	bind_j = (@bind j Select(1:6,default=3))
	bind_k = (@bind ktxt Select(["0","1","10","30","40"],default="0"))
	bind_ny = (@bind nytxt Select(["1/12","1","3","10"],default="1"))
	bind_np = (@bind nptxt Select(["10","100","10000"],default="100"))
	bind_replay = (@bind do_replay CheckBox(default=false))
	bind_zoomin = (@bind zoom_in CheckBox(default=false))
	bind_zrng = @bind zrng Select([0:11,11:21,21:27],default=0:11)
	
    path_IC = path_input
    file_IC = joinpath(path_IC,"initial_10_1.csv")
	backward_time = false
	file_base = basename(file_IC)[1:end-4]
	backward_time ? file_base=file_base*"_◀◀" : file_base=file_base*"_▶▶"

#  - _optional :_ zrng = $(bind_zrng) = vertical coordindate range 
#  - _(only used if k==0; if otherwise then zrng effectively is k-0.5:k-0.5)_

	md"""## 1. Simulation Parameters

	The following parameters are used:

	- latitude box : $(bind_j)
	- ny = $(bind_ny) = similated period (1/12 = 1 month)
	- np = $(bind_np) = number of individuals (100 by default)
	- k  = $(bind_k) = flow field vertical level (set to 0 for 3D)
	- replay = $(bind_replay) = load results from csv instead of recomputing
	- zoom in = $(bind_zoomin) = zoom in rather than plotting whole Earth
	"""
end

# ╔═╡ 94ca10ae-6a8a-4038-ace0-07d7d9026712
md"""## 2. Configure `FlowFields` 

####

`global_ocean_circulation` reads in the global Ocean model grid and flow fields. It returns the `FlowFields` data structure `P`. Ancillary variables are stored in NamedTuple `D`.

!!! note
    The global grid is handled via `MeshArrays.jl` and monthly climatology fields accessed via `Climatology.jl`.

```
zrng=ARGS[1]
zrng=parse.(Int,split(zrng,":"))
zrng=zrng[1]:zrng[2]
println(zrng)
```

!!! note
    For non-interactive, one can add here code as shown above. Then `julia --project=. main.jl 21:27 &`.
"""

# ╔═╡ 218b9beb-68f2-4498-a96d-08e0719b4cff
begin
    #file_base=file_base*"_$(zrng[1])_$(zrng[end])"
    #println("file_base = "*file_base)

	k=parse(Int,ktxt) #vertical level or 0
	k!==0 ? zs=(k-0.5:k-0.5) : zs=zrng
	
	Climatology.get_ecco_velocity_if_needed()
	
	P,D=ECCOmodule.init_FlowFields(k=k,backward_time=backward_time)

	println("Done with Setting Up FlowFields")
	tmp1="  - flow field depth level = "*(k==0 ? "three-dimensional" : "level $(k)") 
	println(tmp1)
	tmp1="  - inital depth range = $(round.([D.Γ.RF[zrng[1]+1] D.Γ.RF[zrng[end]+1]]))"
	println(tmp1)
end

# ╔═╡ 2fb4d76d-56d5-4c3e-bc7c-ba0cac57e0e3
output_path

# ╔═╡ f1215951-2eb2-490b-875a-91c1205b8f63
md"""## 3. Trajectory Computation

### 3.1 Initialization

- initialize individual positions (`init_gulf_stream`)
- initial integration from time 0 to 0.5 month
"""

# ╔═╡ f727992f-b72a-45bc-93f1-cc8daf89af0f
begin
	✔0

	np=parse(Int,nptxt) #number of individuals
	if nytxt=="1/12"
		ny=1 #number of years
		nm=1 #number of months
	else
		ny=parse(Int,nytxt) #number of years
		nm=12 #number of months
	end
	
	df = Drifters.init.init_gulf_stream(np , D, zs=zs)

	if !(k==0)
		𝑆 = ECCOmodule.init_storage(np,100,1,50)
		I = Individuals(P,df.x,df.y,df.fid,(D=merge(D,𝑆),∫=ECCOmodule.custom∫))
		my∫! = ∫!
	else		
		𝑆 = ECCOmodule.init_storage(np,100,length(D.Γ.RC),50)
		I = Individuals(P,df.x,df.y,df.z,df.fid,
			(D=merge(D,𝑆),∫=ECCOmodule.custom∫,
            🔧=ECCOmodule.custom🔧,
            🔴=deepcopy(ECCOmodule.custom🔴)))
		my∫! = ECCOmodule.custom∫!
	end

	📌_reference=deepcopy(I.📌)
	I
end

# ╔═╡ f639ec15-a9a1-4dab-a37f-b2c96f6a80e1
#D.Γ.RC

# ╔═╡ 6158a5e4-89e0-4496-ab4a-044d1e3e8cc0
md""" ### 3.2 Monthly Step Function

Since the Ocean circulation varies from month to month, the `I.D.🔄` function is used to update flow fields from one month to the next. 

Time variable flow fields are easily handled by defining a `step!` function that wraps around `∫!`. Here it does three things

- `I.D.🔄` resets the velocity inputs (`I.D.u0` etc) to bracket time `t_ϵ=I.P.T[2]+eps(I.P.T[2])`
- `reset_📌!` randomly selects a fraction of the individuals and resets their positions. This can be useful to maintain homogeneous coverage of the domain by the fleet of individuals.
- `∫!(I)` solves for the individual trajectories over one month (`I.P.T`) with updated velocity fields (`I.P.u0` etc). It also adds diagnostics to the `DataFrame` used to record variables along the trajectory (`I.🔴`).
"""

# ╔═╡ a2375720-f599-43b9-a7fb-af17956309b6
function step!(I::Individuals)
    I.D.🔄(I)
    I.D.frac > 0 ? ECCOmodule.reset_📌!(I,I.D.frac,📌_reference) : nothing
    my∫!(I)
end

# ╔═╡ 7efadea7-4542-40cf-893a-40a75e9c52be
md"""### 3.3 Monthly Simulation Loop

!!! note
    `add_lonlat!` derives geographic locations (longitude and latitude) from local grid coordinates (x, y, etc).
"""

# ╔═╡ a3e45927-5d53-42be-b7b7-489d6e7a6fe5
if !do_replay
	T=(0.0,I.P.T[2])
	my∫!(I,T)
	✔1="Done with Initial Integration"
else
	✔1="Skipping Initial Integration (replay instead)"
end

# ╔═╡ 1044c5aa-1a56-45b6-a4c6-63d24eea878d
if !do_replay
	✔1	
	[step!(I) for y=1:ny, m=1:nm]
	"lon" in names(I.🔴) ? nothing : add_lonlat!(I.🔴,D.XC,D.YC)
	"d" in names(I.🔴) ? nothing : I.🔴.d.=-D.Γ.RC[k]
	✔2="Done with Main Computation"
else
	✔2="Skipping Main Computation (replay instead)"
end

# ╔═╡ 42959eb9-7c14-4892-bf41-a1a434b00e27
if !do_replay
	✔2
	!isdir(output_path) ? mkdir(output_path) : nothing
	file_output=joinpath(output_path,file_base*".csv")
	CSV.write(file_output, Float32.(I.🔴))
	✔3="Done with saving trajectories"
else
	✔3="Skipping save (replay instead)"
end		

# ╔═╡ fc16b761-8b1f-41de-b4fe-7fa9987d6167
if !do_replay
	✔3
	file_output_csv=joinpath(output_path,file_base*".csv")
	CSV.write(file_output_csv, Float32.(I.🔴))
else
	✔3
	"Skipping File Output (replay instead)"
end

# ╔═╡ 63b68e72-76c1-4104-bf76-dd9eefc4e225
md"""### 3.4 Replay previous simulation

If the replay option ($(bind_replay)) has been selected then we reload the result of a previous computation from file.
"""

# ╔═╡ 397e5491-56ce-44ba-81d4-2982b0c3f503
begin
	#@bind fil_replay FilePicker()    
    fil_replay=joinpath(path_replay,"initial_10_$(j)_▶▶.csv")
end

# ╔═╡ c5ba37e9-2a68-4448-a2cb-dea1fbf08f1e
md"""## 4. Visualize Displacements

!!! note
    For offline visualization, see code below.
"""

# ╔═╡ 1a6af0eb-ab2a-4999-8063-f218b2f3f651
"output path is $(output_path)"

# ╔═╡ 33fb4a15-b5ef-46f8-9e4e-c20da4536195
if do_replay&&isa(fil_replay,Dict)&&haskey(fil_replay,"name")
	#tmp_🔴=CSV.read(fil_replay["name"],DataFrame)
	tmp_🔴=UInt8.(fil_replay["data"]) |> IOBuffer |> CSV.File |> DataFrames.DataFrame
	tmp_file_base=split(fil_replay["name"],'.')[1]
elseif do_replay&&isa(fil_replay,String)
	tmp_🔴=CSV.read(fil_replay,DataFrames.DataFrame)
#	tmp_file_base=basename(fil_replay)[1:end-4]
	tmp_file_base=basename(fil_replay)
	tmp_file_base=split(tmp_file_base,"_▶▶")[1]
else
	tmp_🔴=I.🔴
	tmp_file_base=file_base
end

# ╔═╡ b4841dc0-c257-45e0-8657-79121f2c9ce8
if !isempty(tmp_🔴)
	✔3
	nt=length(unique(tmp_🔴.t))
	
	if zoom_in
		xlims=extrema(tmp_🔴.lon)
	    ylims=extrema(tmp_🔴.lat)
	else
		xlims=(-85.0,5.0)
		ylims=(20.0,67.0)
	end

    x=Drifters.DriftersDataset( data=(I=I,df=tmp_🔴,), options=(plot_type=:global_plot1,) )
	fig,tt=Makie.plot(x)

	file_output_png=joinpath(output_path,tmp_file_base*".png")
	Makie.save(file_output_png,fig)

#	file_output_mp4=joinpath(output_path,tmp_file_base*".mp4")
#	record(fig, file_output_mp4, 1:nt, framerate = 30) do t
#		tt[]=t
#	end
	
	fig
else
	"nothing to plot"
end

# ╔═╡ e49948eb-8b62-4579-a80c-b07624da6f3b
md"""latitude box : $(bind_j)"""

# ╔═╡ 15077957-64d5-46a5-8a87-a76ad619cf38
md"""## 5. Summary Statistics

Here we briefly demontrate the use of [DataFrames.jl](https://juliadata.github.io/DataFrames.jl/latest/) to analyze the output (I.🔴) of our simulation.
"""

# ╔═╡ 6e43a2af-bf01-4f42-a4ba-1874a8cf4885
begin
	✔2
	gdf = DataFrames.groupby(tmp_🔴, :ID)
	sgdf= DataFrames.combine(gdf,DataFrames.nrow,:lat => mean)
end

# ╔═╡ 0251b905-82e1-41c7-9917-dfdb980eef4f
tmp_🔴

# ╔═╡ 6bcd1a14-6bee-4549-8007-61952909b18f
md"""## Appendix"""

# ╔═╡ e9862707-3c00-434b-9501-e590e331b0b3
md"""
!!! note
    For offline visualization, see code below.

```
using Pkg; Pkg.activate(temp=true)
Pkg.add.(["CSV", "DataFrames", "FileIO", "Colors", "GLMakie"])

using CSV, DataFrames, FileIO, Colors, GLMakie
include("global_ocean_plotting.jl")

fil=joinpath("inputs","initial_21_27.csv")
df=CSV.read(fil,DataFrame)

nt=length(unique(df.t)); xlims=(-85.0,5.0); ylims=(20.0,67.0)
fig,tt=PlottingFunctions.plot([],df,xlims=xlims,ylims=ylims,
	colormap=:linear_wcmr_100_45_c42_n256,colorrange=(-1300,00), add_colorbar=false)
fig

file_output_mp4=tempname()*".mp4"
PlottingFunctions.record(fig, file_output_mp4, -50:nt, framerate = 25) do t
    tt[]=max(t,0)
end
```
"""

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version = "5.11.0+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 = "1.59.0+0"

[[deps.oneTBB_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl"]
git-tree-sha1 = "d5a767a3bb77135a99e433afe0eb14cd7f6914c3"
uuid = "1317d2d5-d96f-522e-a858-c73665f53c3e"
version = "2022.0.0+0"

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

# ╔═╡ Cell order:
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# ╟─397e5491-56ce-44ba-81d4-2982b0c3f503
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# ╟─6e43a2af-bf01-4f42-a4ba-1874a8cf4885
# ╟─0251b905-82e1-41c7-9917-dfdb980eef4f
# ╟─6bcd1a14-6bee-4549-8007-61952909b18f
# ╠═2acbfc79-3926-4c5a-9994-e3222c60c377
# ╟─1821a034-5a3f-4a3a-a971-a80a26aa01cb
# ╟─e9862707-3c00-434b-9501-e590e331b0b3
# ╟─00000000-0000-0000-0000-000000000001
# ╟─00000000-0000-0000-0000-000000000002