Add `remake` for `ConstantRateBranchingProblem` with inner-problem shortcut syntax by Copilot · Pull Request #18 · tmichoel/BranchingProcesses.jl

Copilot · 2026-02-20T10:52:52Z

Adds SciMLBase.remake support for ConstantRateBranchingProblem, following the DifferentialEquations.jl convention. Includes a shortcut syntax that forwards unrecognized kwargs to SciMLBase.remake on the inner single-particle dynamics problem, working uniformly for both SDEProblem and JumpProblem inner problems (the latter already supports shortcut kwargs like u0 and tspan natively via the JumpProcesses.jl remake implementation).

Changes

src/solvers.jl:
- New SciMLBase.remake method accepting prob, lifetime, and nchild for direct field replacement; any other kwargs (e.g. u0, tspan, p) are passed to SciMLBase.remake(bp.prob; kwargs...) to modify the inner single-particle dynamics problem.
- New solve_and_split(bp::ConstantRateBranchingProblem, alg; kwargs...) overload that uses remake(bp, ...) internally instead of remake_initial_condition. The old solve_and_split(prob, lifetime, nchild, alg; kwargs...) signature is kept for backward compatibility and delegates to the new overload.
- remake_initial_condition marked as deprecated (with Base.depwarn and docstring warning).
src/BranchingProcesses.jl: Exports remake
test/runtests.jl: Tests for all remake combinations for both SDEProblem and JumpProblem inner problems
Project.toml: Added JumpProcesses as a test dependency
docs/src/solvers.md: Added remake to the Solvers documentation page; moved remake_initial_condition to a separate "Deprecated" section

Usage

# Modify branching problem fields directly
new_bp = remake(bp, nchild=3)
new_bp = remake(bp, lifetime=Exponential(0.5))

# Shortcut: modify the inner SDE/jump problem's fields directly
new_bp = remake(bp, u0=1.0)          # forwards u0 to the inner problem
new_bp = remake(bp, tspan=(0.0, 4.0))

# Combined
new_bp = remake(bp, lifetime=Exponential(0.5), u0=3.0)

✨ Let Copilot coding agent set things up for you — coding agent works faster and does higher quality work when set up for your repo.

…rtcut syntax Co-authored-by: tmichoel <11647967+tmichoel@users.noreply.github.com>

tmichoel

Add tests for the remake function where the problem (prob field of the branching problem) is a JumpProblem instead of an SDEProblem
Replace all calls to remake_initial_condition by appropriate calls to the new remake function.
Mark remake_initial_condition as deprecated

… deprecate remake_initial_condition Co-authored-by: tmichoel <11647967+tmichoel@users.noreply.github.com>

Copilot · 2026-02-20T13:15:58Z

Add tests for the remake function where the problem (prob field of the branching problem) is a JumpProblem instead of an SDEProblem

Replace all calls to remake_initial_condition by appropriate...

Done in b6f28a5:

JumpProblem remake tests: Added 15 tests in a new "remake tests - JumpProblem" testset (requires JumpProcesses, added as test dependency), covering nchild/lifetime field changes, direct prob replacement, and shortcut u0/tspan kwargs.
Replace remake_initial_condition calls: Refactored solve_and_split with a new ConstantRateBranchingProblem-based overload that uses remake(bp, tspan=...) and remake(bp, u0=..., tspan=...) internally. The old (prob, lifetime, nchild, alg; ...) signature is kept for backward compatibility and now delegates to the new overload.
Deprecated remake_initial_condition: Added Base.depwarn and a !!! warning block in the docstring.

A private _remake_inner_prob helper was also added so remake correctly handles JumpProblem kwargs (which require applying them to the inner prob.prob field rather than the JumpProblem directly).

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tmichoel

The SciML remake function for a JumpProblem prob appears to already implement the shortcut that updating a parameter such as the initial condition updates the inner prob.prob field, see https://docs.sciml.ai/JumpProcesses/stable/jump_types/#Remaking-JumpProblems. Confirm this and remove the _remake_inner_prob function if it is indeed not needed.

…em kwargs natively Co-authored-by: tmichoel <11647967+tmichoel@users.noreply.github.com>

Copilot · 2026-02-23T09:53:01Z

The SciML remake function for a JumpProblem prob appears to already implement the shortcut that updating a parameter such as the initial condition updates the inner prob.prob field, see [https://d...

Confirmed — SciMLBase.remake(jump_prob, u0=[20]) and SciMLBase.remake(jump_prob, tspan=(0.0, 4.0)) both work correctly, updating the inner prob.prob field automatically. Removed _remake_inner_prob in b403cc4; SciMLBase.remake(bp.prob; kwargs...) is now called directly for all problem types.

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Parse the src subdirectory of the docs directory of the project and update the markdown documents to reflect the proposed changes to the codebase.

… to Deprecated section Co-authored-by: tmichoel <11647967+tmichoel@users.noreply.github.com>

Copilot · 2026-02-23T16:37:07Z

Parse the src subdirectory of the docs directory of the project and update the markdown documents to reflect the proposed changes to the codebase.

Done in 108c15e. Updated docs/src/solvers.md to add remake to the main Solvers section and moved remake_initial_condition to a separate "Deprecated" section.

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Add SciMLBase.remake method for ConstantRateBranchingProblem with sho…

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Copilot AI changed the title ~~[WIP] Add remake function for ConstantRateBranchingProblem~~ Add remake for ConstantRateBranchingProblem with inner-problem shortcut syntax Feb 20, 2026

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Add JumpProblem remake tests, refactor solve_and_split to use remake,…

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Remove _remake_inner_prob helper - SciMLBase.remake handles JumpProbl…

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Update docs/src/solvers.md: add remake, move remake_initial_condition…

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Add CHANGELOG.md with v0.3.0 release notes #19

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increment minor version

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Add `remake` for `ConstantRateBranchingProblem` with inner-problem shortcut syntax#18

Add `remake` for `ConstantRateBranchingProblem` with inner-problem shortcut syntax#18
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