SVector

src/Particle.jl

@@ -1,16 +1,15 @@
 using StaticArrays: SVector
-using LoopVectorization: @turbo
 
 mutable struct Particle
     id::Int64
 
-    c::Vector{Float64} # Center
+    c::SVector{2,Float64} # Center
-    tmp_c::Vector{Float64} # Temporary center
+    tmp_c::SVector{2,Float64} # Temporary center
 
     φ::Float64 # Angle
 
-    function Particle(id::Int64, c::Vector{Float64}, φ::Float64)
+    function Particle(id::Int64, c::SVector{2,Float64}, φ::Float64)
-        return new(id, c, copy(c), φ)
+        return new(id, c, c, φ)
     end
 end
 
@@ -25,9 +24,7 @@ function restrict_coordinate(value::Float64, l::Float64)
 end
 
 function restrict_coordinates!(p::Particle, l::Float64)
-    @simd for i in 1:2
+    p.tmp_c = SVector{2}(restrict_coordinate(p.tmp_c[i], l) for i in 1:2)
-        p.tmp_c[i] = restrict_coordinate(p.tmp_c[i], l)
-    end
 
     return nothing
 end
@@ -43,11 +40,11 @@ function minimum_image_coordinate(value::Float64, l::Float64)
 end
 
 function minimum_image(v::SVector{2,Float64}, l::Float64)
-    return SVector(minimum_image_coordinate(v[1], l), minimum_image_coordinate(v[2], l))
+    return SVector{2}(minimum_image_coordinate(v[i], l) for i in 1:2)
 end
 
 function are_overlapping(p1::Particle, p2::Particle, overlapping_r²::Float64, l::Float64)
-    r⃗₁₂ = SVector(p2.c[1] - p1.c[1], p2.c[2] - p1.c[2]) # 1 -> 2
+    r⃗₁₂ = p2.c - p1.c # 1 -> 2
 
     r⃗₁₂ = minimum_image(r⃗₁₂, l)
 
@@ -57,11 +54,3 @@ function are_overlapping(p1::Particle, p2::Particle, overlapping_r²::Float64, l
 
     return (; overlapping, r⃗₁₂, distance²)
 end
-
-function update!(p::Particle)
-    @turbo for i in 1:2
-        p.c[i] = p.tmp_c[i]
-    end
-
-    return nothing
-end

src/analysis/pair_correlation_function.jl

@@ -1,6 +1,6 @@
 using CairoMakie, LaTeXStrings
 using StaticArrays
-using LoopVectorization: @tturbo
+using LoopVectorization: @turbo
 
 using ReCo: minimum_image
 
@@ -41,7 +41,7 @@ function pair_correlation(sol, variables)
                         c1 = sol.center[i, frame]
                         c2 = sol.center[j, frame]
 
-                        r⃗₁₂ = SVector(c1[1] - c2[1], c1[2] - c2[2])
+                        r⃗₁₂ = c1 - c2
 
                         r⃗₁₂ = minimum_image(r⃗₁₂, variables.l)
 
@@ -62,7 +62,7 @@ function pair_correlation(sol, variables)
         r = radius[r_ind]
         tmp_g = 0.0
 
-        @tturbo for i in 1:(variables.N)
+        @turbo for i in 1:(variables.N)
             tmp_g += N_g[i, r_ind]
         end
 

src/animation.jl

@@ -20,7 +20,8 @@ function animate_bundle!(args)
 
     for frame in 1:length(bundle_t)
         @simd for i in 1:(args.N)
-            args.circles[][i] = Circle(Point2(bundle_c[i, frame]), args.particle_radius)
+            c = bundle_c[i, frame]
+            args.circles[][i] = Circle(Point2(c[1], c[2]), args.particle_radius)
 
             color = get(args.color_scheme, rem2pi(bundle_φ[i, frame], RoundDown) / π2)
             args.colors[][i] = RGBAf(color)

src/data.jl

@@ -1,18 +1,17 @@
 using StaticArrays: SVector
-using LoopVectorization: @turbo
 using JLD2: JLD2
 
 struct Bundle
     t::Vector{Float64}
-    c::Matrix{Vector{Float64}}
+    c::Matrix{SVector{2,Float64}}
     φ::Matrix{Float64}
 end
 
 function Bundle(N::Int64, n_snapshots::Int64)
     return Bundle(
-        zeros(n_snapshots),
+        Vector{Float64}(undef, n_snapshots),
-        [zeros(2) for i in 1:N, j in 1:n_snapshots],
+        Matrix{SVector{2,Float64}}(undef, (N, n_snapshots)),
-        zeros(N, n_snapshots),
+        Matrix{Float64}(undef, (N, n_snapshots)),
     )
 end
 
@@ -25,20 +24,10 @@ function save_snapshot!(
 )
     bundle.t[n_snapshot] = t
 
-    bundle_c = bundle.c
-    bundle_φ = bundle.φ
-
     @simd for p in particles
-        p_id = p.id
+        bundle.c[p.id, n_snapshot] = p.c
-        p_c = p.c
 
-        bundle_c_id = bundle_c[p_id, n_snapshot]
+        bundle.φ[p.id, n_snapshot] = p.φ
-
-        @turbo for j in 1:2
-            bundle_c_id[j] = p_c[j]
-        end
-
-        bundle_φ[p_id, n_snapshot] = p.φ
     end
 
     return nothing

src/run.jl

@@ -43,11 +43,6 @@ function run_sim(
 
     particles = generate_particles(bundle, sim_consts.N)
 
-    particles_c = [SVector(0.0, 0.0) for i in 1:(sim_consts.N)]
-    for i in 1:(sim_consts.N)
-        particles_c[i] = SVector(particles[i].c[1], particles[i].c[2])
-    end
-
     args = (
         v=sim_consts.v,
         skin_r=skin_r,
@@ -65,7 +60,7 @@ function run_sim(
         l=sim_consts.l,
         particle_diameter=sim_consts.particle_diameter,
         particles=particles,
-        particles_c=particles_c,
+        particles_c=[particles[i].c for i in 1:(sim_consts.N)],
         verlet_list=[PreVector{Int64}(sim_consts.N - 1) for i in 1:(sim_consts.N - 1)],
         n_bundle_snapshots=n_bundle_snapshots,
         bundle=Bundle(sim_consts.N, n_bundle_snapshots),

src/setup.jl

@@ -4,7 +4,7 @@ using JSON3: JSON3
 
 function initial_particle_grid_pos(i::Int64, j::Int64, grid_box_width::Float64, l::Float64)
     term = -0.5 * grid_box_width - l
-    return [k * grid_box_width + term for k in (i, j)]
+    return SVector{2}(k * grid_box_width + term for k in (i, j))
 end
 
 function generate_particles(grid_n::Int64, grid_box_width::Float64, l::Float64)
@@ -28,7 +28,7 @@ end
 function generate_particles(bundle::Bundle, N::Int64)
     particles = Vector{Particle}(undef, N)
 
-    for id in 1:N
+    @simd for id in 1:N
         particles[id] = Particle(id, bundle.c[id, end], bundle.φ[id, end])
     end
 

src/shape.jl

@@ -12,8 +12,8 @@ function project_back_from_unit_circle(θ, l)
 end
 
 function center_of_mass(args)
-    x_proj_sum = SVector(0, 0)
+    x_proj_sum = SVector(0.0, 0.0)
-    y_proj_sum = SVector(0, 0)
+    y_proj_sum = SVector(0.0, 0.0)
 
     for p in args.particles
         x_proj_sum += project_to_unit_circle(p.c[1], args.l)
@@ -37,10 +37,7 @@ function center_of_mass(args)
         y_θ = atan(y_proj_sum[2], y_proj_sum[1])
     end
 
-    return SVector(
+    return SVector{2}(project_back_from_unit_circle(θ, args.l) for θ in (x_θ, y_θ))
-        project_back_from_unit_circle(x_θ, args.l),
-        project_back_from_unit_circle(y_θ, args.l),
-    )
 end
 
 function gyration_tensor(args)

src/simulation.jl

@@ -1,8 +1,8 @@
 using Dates: Dates, now
 using ProgressMeter: @showprogress
-using LoopVectorization: @turbo
 using Distributions: Normal
 using CellListMap: Box, CellList, map_pairwise!, UpdateCellList!
+using StaticArrays: SVector
 
 import Base: wait
 
@@ -23,8 +23,8 @@ function update_verlet_list!(args, cl)
         reset!(pv)
     end
 
-    for i in 1:(args.N)
+    @simd for i in 1:(args.N)
-        args.particles_c[i] = SVector(args.particles[i].c[1], args.particles[i].c[2])
+        args.particles_c[i] = args.particles[i].c
     end
 
     cl = UpdateCellList!(args.particles_c, args.box, cl; parallel=false)
@@ -55,28 +55,23 @@ function euler!(args)
             if overlapping
                 c = args.c₁ / (distance²^4) * (args.c₂ / (distance²^3) - 1)
 
-                @turbo for k in 1:2
+                dc = c * r⃗₁₂
-                    dc = c * r⃗₁₂[k]
+                p1.tmp_c -= dc
-
+                p2.tmp_c += dc
-                    p1.tmp_c[k] -= dc
-                    p2.tmp_c[k] += dc
-                end
             end
         end
     end
 
     @simd for p in args.particles
-        e = SVector(cos(p.φ), sin(p.φ))
+        p.tmp_c +=
-
+            args.vδt * SVector(cos(p.φ), sin(p.φ)) +
-        @turbo for i in 1:2
+            args.c₃ * SVector(rand_normal01(), rand_normal01())
-            p.tmp_c[i] += args.vδt * e[i] + args.c₃ * rand_normal01()
-        end
 
         p.φ += args.c₄ * rand_normal01()
 
         restrict_coordinates!(p, args.l)
 
-        update!(p)
+        p.c = p.tmp_c
     end
 
     return nothing