From dbaccafad95368b907051f632d6c0a75cee3b77d Mon Sep 17 00:00:00 2001
From: Mahmoud Bentriou <mahmoud.bentriou@centralesupelec.fr>
Date: Mon, 15 Feb 2021 21:20:30 +0100
Subject: [PATCH] changes in repressilator: transition name + degradation
reactions; change in plots
---
core/plots.jl | 2 --
models/repressilator.jl | 12 ++++++------
2 files changed, 6 insertions(+), 8 deletions(-)
diff --git a/core/plots.jl b/core/plots.jl
index 5b53101..3f842e2 100644
--- a/core/plots.jl
+++ b/core/plots.jl
@@ -126,8 +126,6 @@ function plot_periodic_trajectory(A::LHA, σ::SynchronizedTrajectory, sym_obs::S
scatter!(p, times(σ)[idx_n], σ[sym_obs][idx_n], annotations = annots,
markershape = :utriangle, markersize = 3, label = "n")
hline!(p, [A.constants[:L], A.constants[:H]], label = "L, H", color = :grey; linestyle = :dot)
- @show values_n
- @show values_tp
if filename == ""
display(p)
else
diff --git a/models/repressilator.jl b/models/repressilator.jl
index 31e27c9..371c267 100644
--- a/models/repressilator.jl
+++ b/models/repressilator.jl
@@ -6,12 +6,12 @@ repressilator = @network_model begin
trl1: (mRNA1 => mRNA1 + P1, β * mRNA1)
trl2: (mRNA2 => mRNA2 + P2, β * mRNA2)
trl3: (mRNA3 => mRNA3 + P3, β * mRNA3)
- d1: (mRNA1 => 0, mRNA1)
- d2: (mRNA2 => 0, mRNA2)
- d3: (mRNA3 => 0, mRNA3)
- d4: (P1 => 0, P1)
- d5: (P2 => 0, P2)
- d6: (P3 => 0, P3)
+ degr1: (mRNA1 => 0, mRNA1)
+ degr2: (mRNA2 => 0, mRNA2)
+ degr3: (mRNA3 => 0, mRNA3)
+ degr4: (P1 => 0, P1)
+ degr5: (P2 => 0, P2)
+ degr6: (P3 => 0, P3)
end "Repressilator pkg"
set_observed_var!(repressilator, [:mRNA1, :mRNA2, :mRNA3, :P1, :P2, :P3])
--
GitLab