PyAutoScientist Phase 3a: spawn spec, template family seed, Nerves role

[Jammy2211]

Overview

The judgment-tier slice of Phase 3, launched --auto (supervised effective; feature/large cap). Design settled in PyAutoMind/docs/pyautobrain/pyautoscientist_phase3_research.md; the four calls human-approved in-session 2026-07-10: (1) template family as GitHub template repos, thin-by-design; (2) autoproject_assistant = clone agent lightweight-seed, gated on 3b; (3) fresh slate = spawn generator, live repos stay live; (4) Nerves = promote role, defer repo rename, never rename the package.

Plan (written at launch per the supervised contract)

1. spawn_spec.md in PyAutoMind/docs/pyautobrain/ — the structure-vs-content partition rules for Mind/Memory templates + the template family's stamped mechanical layers, complete enough that 3b implementation is mechanical.
2. Seed the template family — three repos created private under PyAutoLabs (flip-public is a parked human decision): PyAutoProject (1D Gaussian: model + af.Analysis + packaged YAML priors config + tests + README), autoproject_workspace (scripts/start_here.py in the docstring-cell convention, config/general.yaml pin, config/build/copy_files.yaml), autoproject_workspace_test (smoke script + smoke_tests.txt). API grounded against autofit_workspace/scripts/overview/overview_1_the_basics.py.
3. 3b prompt series drafted in Mind (Status: draft; issued one-at-a-time later): spawn implementation, smoke-workflow generalisation, clone agent lightweight-seed, config extraction.
4. Nerves role promotion: repos.yaml role text + repos_sync --write regeneration.

Checkpoint-and-continue: judgment gates park as batched questions here. Heart-ack: the 6-reason YELLOW set acknowledged twice in-session today; binds to exactly that set.

Acceptance

Per the prompt (issued/pyautoscientist_phase3a.md): spec implementable mechanically; library tests green + start_here.py runs end-to-end; zero diffs to organ code/skills/AGENTS.md; repos_sync green after the role-text change.

🤖 Generated with Claude Code

[Jammy2211]

Phase 3a complete — all deliverables landed:

1. spawn spec — PyAutoMind/docs/pyautobrain/spawn_spec.md: full partition rule tables (Mind + Memory + template mechanical layers), substitution table, privacy canary test requirement, publication model, 3b-1 acceptance. Written to be implemented mechanically.
2. Template family seeded (private, template-flagged): PyAutoProject · autoproject_workspace · autoproject_workspace_test. 1D Gaussian exemplar, API grounded on overview_1_the_basics.py. Validated: library pytest 3/3; start_here.py end-to-end (recovers centre 30.11 / norm 24.49 / sigma 4.77 vs truth 30/25/5); fit_quick.py smoke passes. Packaged-prior resolution confirmed empirically (conf.instance.register + config/priors/model.yaml). One design fix during validation: initial example had per-pixel SNR<1 (norm=1 peak 0.08 < noise 0.1) — raised to norm=25 (SNR≈20) so the template's first fit visibly succeeds.
3. 3b prompt series drafted (Status: draft, issue one-at-a-time): pyautoscientist_phase3b_spawn, _3b_smoke_reusable, _3b_clone_seed, _3b_config_extraction under PyAutoMind/feature/pyautobrain/.
4. Nerves promoted: repos.yaml role text ("The Nerves — … the sixth organ, delivered as the autoconf package"), repos_sync --write regenerated the routing table, --check green incl. firewall.

Decisions taken without parking (rationale): template repos stay out of the live body map — they are products of the organism, not parts of it; the template body map inside PyAutoMind-template lists them (spawn spec rule Mind-4).

Parked questions (batched, human):

• Flip the three template repos public? They are complete and validated; public is what "Use this template" needs. (One-way-ish: public→private loses stars/forks.)
• RTD adoption guide + satellites page should gain the template-family walkthrough ("Use this template" path) — fold into 3b-1's ship or do as a small docs PR sooner?

Zero diffs to organ code, skills, or AGENTS.md (body-map role text + its generated block are the sanctioned repos_sync mechanism). Live setup untouched.

[Jammy2211]

Human decisions in-session 2026-07-10: (1) the three template repos are now public (template-flagged, ready for "Use this template"); (2) the RTD template-family walkthrough folds into 3b-1 — recorded in the pyautoscientist_phase3b_spawn.md draft prompt. Phase 3a complete; 3b series ready to issue one-at-a-time. Closing.