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Changelog

Source: NEWS.md

mizerAgents 0.3.2

New features

  • setup_mizer_agent() now adds a “Task skills” index to MIZER-AGENTS.md, generated from the bundled skills’ own frontmatter (name, one-line description, and path). This makes the skills usable by agents other than Claude Code, which do not discover .claude/skills/ natively: they read the index from the always-loaded reference card and open the relevant SKILL.md on demand, mirroring Claude Code’s lazy loading. No skill content is duplicated, so the index cannot drift from the skills.

Updated for mizer 3.2

  • The reference card (inst/AGENTS.md) and the change-parameters skill now recommend species_params(params) <- as the setter for scripts. As of mizer 3.2 it records the change in given_species_params and triggers recalculation of dependent rates, so the old advice to avoid it (and use only given_species_params(params) <-) no longer applies; given_species_params() is now framed as the interactive alternative that warns about overrides. A version note points users on mizer < 3.2 back to the old rule.

  • Species-parameter documentation now distinguishes w_max (the purely computational size-grid boundary) from w_repro_max (mizer 3.2’s name for the asymptotic size, i.e. the old w_inf).

  • Replaced the stale matchYields() reference with calibrateYield().

Skills

  • Captured lessons from dynamics/limit-cycle work: inst/AGENTS.md gains “Numerical scheme for dynamics” and “Gotchas” sections; run-simulation gains a “Numerical scheme: watch for numerical diffusion” section (upwind scheme silently damping real oscillations, the second_order_w / tr_bdf2 fix, and freezing the resource to isolate the phantom-jam feedback); change-parameters gains “The feeding level is set by f0, not h”.

mizerAgents 0.1.0

New features

  • setup_mizer_agent() creates or updates agent context files (MIZER-AGENTS.md, AGENTS.md, CLAUDE.md, GEMINI.md) in a mizer project directory so that AI coding agents pick up the mizer reference card and API documentation automatically on startup.

  • setup_mizer_agent() also installs bundled Claude Code skills into .claude/skills/ — analyse-and-plot, build-multispecies-model, calibrate-model, run-simulation, set-up-fishing, change-parameters, and extend-mizer — giving task-triggered, step-by-step guidance for common mizer workflows. The skills are refreshed on every call.

  • Bundled inst/skills/ — one sub-directory with a SKILL.md per skill, deployed by setup_mizer_agent().

  • Bundled inst/AGENTS.md — concise mizer reference card covering the core workflow, key objects, species parameters, plotting, and extending mizer.

  • Bundled inst/llms.txt — concise index of the full mizer API, with links to online reference pages.

  • Bundled inst/llms-full.txt — full prose documentation for every exported mizer function, intended for agent grep searches.