Skip to content

Commit cc83200

Browse files
committed
history file update
1 parent b102d86 commit cc83200

File tree

1 file changed

+29
-0
lines changed

1 file changed

+29
-0
lines changed

HISTORY.md

Lines changed: 29 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -24,6 +24,35 @@
2424
```
2525
X's value will be `1.0` in the first vertex, but `0.0` in the remaining one (the system have 25 vertexes in total). SInce th parameters `p` and `d` are part of the non-spatial reaction network, their values are tied to vertexes. However, if the `D` parameter (which governs diffusion between vertexes) is given several values, these will instead correspond to the specific edges (and transportation along those edges.)
2626

27+
- Add a CatalystBifurcationKitExtension, permitting BifurcationKit's `BifurcationProblem`s to be created from Catalyst reaction networks. Example usage:
28+
```julia
29+
using Catalyst
30+
wilhelm_2009_model = @reaction_network begin
31+
k1, Y --> 2X
32+
k2, 2X --> X + Y
33+
k3, X + Y --> Y
34+
k4, X --> 0
35+
k5, 0 --> X
36+
end
37+
38+
39+
using BifurcationKit
40+
bif_par = :k1
41+
u_guess = [:X => 5.0, :Y => 2.0]
42+
p_start = [:k1 => 4.0, :k2 => 1.0, :k3 => 1.0, :k4 => 1.5, :k5 => 1.25]
43+
plot_var = :X
44+
bprob = BifurcationProblem(wilhelm_2009_model, u_guess, p_start, bif_par; plot_var=plot_var)
45+
46+
p_span = (2.0, 20.0)
47+
opts_br = ContinuationPar(p_min = p_span[1], p_max = p_span[2], max_steps=1000)
48+
49+
bif_dia = bifurcationdiagram(bprob, PALC(), 2, (args...) -> opts_br; bothside=true)
50+
51+
using Plots
52+
plot(bif_dia; xguide="k1", yguide="X")
53+
```
54+
- Automatically handles elimination of conservation laws for computing bifurcation diagrams.
55+
- Updated Bifurcation documentation with respect to this new feature.
2756

2857
## Catalyst 13.5
2958
- Added a CatalystHomotopyContinuationExtension extension, which exports the `hc_steady_state` function if HomotopyContinuation is exported. `hc_steady_state` finds the steady states of a reaction system using the homotopy continuation method. This feature is only available for julia versions 1.9+. Example:

0 commit comments

Comments
 (0)