# Decaying barotropic QG turbulence over topography

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An example of decaying barotropic quasi-geostrophic turbulence over topography.

## Install dependencies

First let's make sure we have all required packages installed.

using Pkg
pkg"add GeophysicalFlows, Plots, Printf, Random, Statistics"

## Let's begin

Let's load GeophysicalFlows.jl and some other needed packages.

using GeophysicalFlows, Plots, Printf, Random

using Statistics: mean

## Choosing a device: CPU or GPU

dev = CPU()     # Device (CPU/GPU)

## Numerical parameters and time-stepping parameters

      n = 128            # 2D resolution = n²
stepper = "FilteredRK4"  # timestepper
dt = 0.05           # timestep
nsteps = 2000           # total number of time-steps
nsubs  = 10             # number of time-steps for intermediate logging/plotting (nsteps must be multiple of nsubs)

## Physical parameters

L = 2π        # domain size

Define the topographic potential vorticity, $\eta = f_0 h(x, y)/H$. The topography here is an elliptical mount at $(x, y) = (1, 1)$, and an elliptical depression at $(x, y) = (-1, -1)$.

σx, σy = 0.4, 0.8
topographicPV(x, y) = 3exp(-(x-1)^2/(2σx^2) -(y-1)^2/(2σy^2)) - 2exp(-(x+1)^2/(2σx^2) -(y+1)^2/(2σy^2))

## Problem setup

We initialize a Problem by providing a set of keyword arguments. Not providing a viscosity coefficient ν leads to the module's default value: ν=0. In this example numerical instability due to accumulation of enstrophy in high wavenumbers is taken care with the FilteredTimestepper we picked. Thus, we choose not to do any dealiasing by providing aliased_fraction=0.

The topophic PV is prescribed via keyword argument eta.

prob = SingleLayerQG.Problem(dev; nx=n, Lx=L, eta=topographicPV,
dt=dt, stepper=stepper, aliased_fraction=0)

and define some shortcuts

sol, clock, vars, params, grid = prob.sol, prob.clock, prob.vars, prob.params, prob.grid
x, y = grid.x, grid.y

and let's plot the topographic PV. Note that when plotting, we decorate the variable to be plotted with Array() to make sure it is brought back on the CPU when the variable lives on the GPU.

contourf(grid.x, grid.y, Array(params.eta'),
aspectratio = 1,
linewidth = 0,
levels = 10,
c = :balance,
clim = (-3, 3),
xlims = (-grid.Lx/2, grid.Lx/2),
ylims = (-grid.Ly/2, grid.Ly/2),
xticks = -3:3,
yticks = -3:3,
xlabel = "x",
ylabel = "y",
title = "topographic PV η=f₀h/H")

## Setting initial conditions

Our initial condition consist of a flow that has power only at wavenumbers with $6 < \frac{L}{2\pi} \sqrt{k_x^2 + k_y^2} < 12$ and initial energy $E_0$. ArrayType() function returns the array type appropriate for the device, i.e., Array for dev = CPU() and CuArray for dev = GPU().

E₀ = 0.04 # energy of initial condition

K = @. sqrt(grid.Krsq)                             # a 2D array with the total wavenumber

Random.seed!(1234)
qih = ArrayType(dev)(randn(Complex{eltype(grid)}, size(sol)))
@. qih = ifelse(K < 6  * 2π/L, 0, qih)
@. qih = ifelse(K > 12 * 2π/L, 0, qih)
qih *= sqrt(E₀ / SingleLayerQG.energy(qih, vars, params, grid))  # normalize qi to have energy E₀
qi = irfft(qih, grid.nx)

SingleLayerQG.set_q!(prob, qi)

Let's plot the initial vorticity field:

p1 = heatmap(x, y, Array(vars.q'),
aspectratio = 1,
c = :balance,
clim = (-8, 8),
xlims = (-grid.Lx/2, grid.Lx/2),
ylims = (-grid.Ly/2, grid.Ly/2),
xticks = -3:3,
yticks = -3:3,
xlabel = "x",
ylabel = "y",
title = "initial vorticity ∂v/∂x-∂u/∂y",
framestyle = :box)

p2 = contourf(x, y, Array(vars.ψ'),
aspectratio = 1,
c = :viridis,
levels = range(-0.25, stop=0.25, length=11),
clim = (-0.25, 0.25),
xlims = (-grid.Lx/2, grid.Lx/2),
ylims = (-grid.Ly/2, grid.Ly/2),
xticks = -3:3,
yticks = -3:3,
xlabel = "x",
ylabel = "y",
title = "initial streamfunction ψ",
framestyle = :box)

layout = @layout Plots.grid(1, 2)
p = plot(p1, p2, layout=layout, size = (800, 360))

## Diagnostics

Create Diagnostics – energy and enstrophy functions are imported at the top.

E = Diagnostic(SingleLayerQG.energy, prob; nsteps=nsteps)
Z = Diagnostic(SingleLayerQG.enstrophy, prob; nsteps=nsteps)
diags = [E, Z] # A list of Diagnostics types passed to "stepforward!" will  be updated every timestep.

## Output

We choose folder for outputing .jld2 files.

filepath = "."
filename = joinpath(filepath, "decayingbetaturb.jld2")

Do some basic file management,

if isfile(filename); rm(filename); end

and then create Output.

get_sol(prob) = sol # extracts the Fourier-transformed solution
out = Output(prob, filename, (:sol, get_sol))

## Visualizing the simulation

We define a function that plots the vorticity and streamfunction and their corresponding zonal mean structure.

function plot_output(prob)
q = prob.vars.q
ψ = prob.vars.ψ
η = prob.params.eta

pq = heatmap(x, y, Array(q'),
aspectratio = 1,
legend = false,
c = :balance,
clim = (-6, 6),
xlims = (-grid.Lx/2, grid.Lx/2),
ylims = (-grid.Ly/2, grid.Ly/2),
xticks = -3:3,
yticks = -3:3,
xlabel = "x",
ylabel = "y",
title = "vorticity ∂v/∂x-∂u/∂y",
framestyle = :box)

contour!(pq, x, y, Array(η'),
levels=0.5:0.5:3,
lw=2, c=:black, ls=:solid, alpha=0.7)

contour!(pq, x, y, Array(η'),
levels=-2:0.5:-0.5,
lw=2, c=:black, ls=:dash, alpha=0.7)

pψ = contourf(x, y, Array(ψ'),
aspectratio = 1,
legend = false,
c = :viridis,
levels = range(-0.75, stop=0.75, length=31),
clim = (-0.75, 0.75),
xlims = (-grid.Lx/2, grid.Lx/2),
ylims = (-grid.Ly/2, grid.Ly/2),
xticks = -3:3,
yticks = -3:3,
xlabel = "x",
ylabel = "y",
title = "streamfunction ψ",
framestyle = :box)

l = @layout Plots.grid(1, 2)
p = plot(pq, pψ, layout = l, size = (800, 360))

return p
end

## Time-stepping the Problem forward

We time-step the Problem forward in time.

startwalltime = time()

p = plot_output(prob)

anim = @animate for j = 0:round(Int, nsteps/nsubs)

if j % (1000 / nsubs) == 0
cfl = clock.dt * maximum([maximum(vars.u) / grid.dx, maximum(vars.v) / grid.dy])

log = @sprintf("step: %04d, t: %d, cfl: %.2f, E: %.4f, Q: %.4f, walltime: %.2f min",
clock.step, clock.t, cfl, E.data[E.i], Z.data[Z.i], (time()-startwalltime)/60)

println(log)
end

p[:z] = Array(vars.q)
p[:title] = "vorticity, t="*@sprintf("%.2f", clock.t)
p[:z] = Array(vars.ψ)

stepforward!(prob, diags, nsubs)
SingleLayerQG.updatevars!(prob)
end

mp4(anim, "singlelayerqg_decaying_topography.mp4", fps=12)