Work Classification

Workspace / organs (no library source)

Affected Repositories

• autofit_inference (skeleton PR)
• autofit_profiling (skeleton PR)
• PyAutoMind (primary: manifest)
• PyAutoHeart
• PyAutoCortex
• PyAutoPulse
• PyAutoLabs/.github (org profile; outside the manifest)

Branch Survey

Suggested branch: feature/search-ext-b1-registration
Worktree root: ~/Code/PyAutoLabs-wt/search-ext-b1-registration/

Implementation Steps

1. Skeletons (both repos): AGENTS.md with repos_sync:{history,deliverable,filing,standards} marker pairs and short domain sections; AI_POLICY.md pointer; ruff.toml (root sentinel); .gitignore; README.md; activate.sh (fit-only PYTHONPATH: Nerves + Fit; RAL shared-venv branch); hpc/{sync,sync.conf.example,README.md,batch_cpu/template} with PROJECT_NAME=<repo>, --partition=ral; .github/workflows/lint.yml running only ruff check, ruff format --check and lychee over README. autofit_inference also gets CORTEX.md and wiki/project/{state,_template}.md. No harness, data, exporters, dashboards or validate_structure.py.
2. Mind: repos.yaml rows for both (category: project, role), next to the lens siblings; python3 scripts/repos_sync.py --write with PYAUTO_ROOT asserted (regenerates root AGENTS.md routing rows; writes blocks + .claude/ hooks into the two skeleton worktrees → committed on the skeleton branches); ROUTING.md targets example; epics.md status. Hand-edit fit/AGENTS.md (not generated, not under git).
3. Heart: two excluded: lines in config/repos.yaml (documentation only).
4. Cortex: projects.yaml row autofit_inference mirroring autolens_inference with status: planned, partition: ral, ral_root: /mnt/ral/jnightin/autofit_inference, assistant: autofit_assistant, note linking the epic; no ledger (B3 flips it to active via cortex.py new).
5. Pulse: dated check-in in tasks/autofit_profiling_bootstrap.md adopting it as epic B4a/B4b; campaigns.yaml task next: updated. No registry.yaml row.
6. Org profile: two rows in the PyAutoFit table of .github/profile/README.md.
7. RAL: ssh euclid_jump → git clone both repos to /mnt/ral/jnightin/<project>; hpc/sync check from each local repo.
8. Order: skeleton PRs first, then Mind, then Heart/Cortex/Pulse/.github. Nothing in Pulse or Insight references the new repos before the Mind PR merges.

Verification

• repos_sync.py --check green (two mismatches gone); cortex.py check green; pyauto-pulse check --offline green; both skeleton lint.yml green; Heart tick → manifest drift clear; hpc/sync check finds both remote roots.
• Firewall: no Brain/Heart/Hands .py/.sh hardcodes the new names.

Key Files

• organs/PyAutoMind/repos.yaml, scripts/repos_sync.py, ROUTING.md, epics.md
• organs/PyAutoHeart/config/repos.yaml
• organs/PyAutoCortex/projects.yaml
• organs/PyAutoPulse/tasks/autofit_profiling_bootstrap.md, campaigns.yaml
• .github/profile/README.md
• lens/autolens_inference/{AGENTS.md,activate.sh,hpc/,ruff.toml,CORTEX.md,.github/workflows/lint.yml} — templates to copy from

Register autofit_inference and autofit_profiling across the organism, with minimal skeletons (epic search-extensibility, phase B1 registration)

Type: feature
Target: autofit
Repos:

• autofit_inference
• autofit_profiling
• PyAutoMind
• PyAutoHeart
• PyAutoCortex
• PyAutoPulse
  Themes:
• inference
• profiling
• infrastructure
  Difficulty: medium
  Autonomy: supervised
  Priority: high
  Epic: search-extensibility
  Status: draft
  Filed: 2026-10-07

Phase B1 (registration half) of the search-extensibility epic
(draft/research/autofit/search_extensibility_epic.md; plan in
search_extensibility_epic_report.md §4 B1; skeleton table in
search_extensibility_epic_surveys/04_inference_profiling_infra.md §6). The
human gate half of B1 (two gh repo create) passed 2026-10-07: both repos
exist on GitHub, public, MIT, one Initial commit with LICENSE, and are cloned
at fit/autofit_inference and fit/autofit_profiling. Those undeclared
checkouts are today's Heart manifest-drift YELLOW
(repos_sync.py --check → "workspace checkouts (manifest ↔ disk): 2
mismatch(es)"); this phase clears it.

Original request (verbatim from the epic plan)

"B1 — Births and registration (HUMAN GATE; no dependencies). Repos: the new
fit/autofit_inference and fit/autofit_profiling, plus PyAutoMind,
PyAutoHeart, PyAutoCortex, PyAutoBrain and the org .github. Scope: two
gh repo create calls; skeleton PRs copied per surveys/04 §6, carrying the
repos_sync:* blocks and a layout allowlist for .claude/+CLAUDE.md; Mind
repos.yaml rows, then repos_sync --write (run with PYAUTO_ROOT asserted
in a private env), ROUTING.md and epics.md; Heart excluded:; a Cortex
row for autofit_inference; Brain clean_slate.sh; org profile rows; a RAL
clone plus hpc/sync check; adopt the Pulse task autofit_profiling_bootstrap:
answer its open question and link it to this epic. Verify: repos_sync --check, cortex.py check, both lint.yml runs green, hpc/sync check
reaches RAL. Witness: both repos are checked out at their declared paths, and
repos_sync --check and cortex.py check are green."

Brief addendum (2026-10-07): "B1 registration (Mind repos.yaml → repos_sync,
Heart excluded, Cortex row, Pulse fit @profiling-summary@2, Insight fit
@inference-summary@1; adopts PyAutoPulse tasks/autofit_profiling_bootstrap.md)".

Scope (as surveyed 2026-10-07)

1. Skeleton PRs, one per new repo, minimal and lint-green on an empty repo:
   AGENTS.md with the four repos_sync:* marker pairs (history markers are
   what lets --write self-install deliverable/filing/standards), AI_POLICY.md
   pointer, ruff.toml (root sentinel), .gitignore, README.md, activate.sh
   (fit-only PYTHONPATH: Nerves + Fit; RAL shared-venv branch), hpc/{sync, sync.conf.example, README.md} with PROJECT_NAME=<repo> and a batch_cpu
   template only (--partition=ral), and a lint.yml that runs only what
   exists (ruff check/format, lychee over README). autofit_inference also gets
   CORTEX.md and wiki/project/{state,_template}.md. No harness, datasets,
   exporters or dashboards (B2/B4a). No scripts/validate_structure.py (so no
   layout allowlist is needed; if one is ever added, .claude must be in
   ALLOWED_TOP_DIRS).
2. Mind: two repos.yaml rows mirroring autolens_inference/
   autolens_profiling (category: project, role), repos_sync --write
   from the resolved checkout (root AGENTS.md routing rows, hooks and blocks
   into both new repos, folded into the skeleton PRs), ROUTING.md targets
   example, epics.md status. Hand-edit the family index fit/AGENTS.md
   (not generated, not under git) to add both rows.
3. Heart: two excluded: lines in config/repos.yaml (documentation only;
   not polled).
4. Cortex: a projects.yaml row for autofit_inference mirroring the
   autolens_inference row with status: planned (no ledger needed until B3's
   first runs flip it to active via cortex.py new), ral_root: /mnt/ral/jnightin/autofit_inference, partition: ral, assistant: autofit_assistant.
5. Pulse: adopt tasks/autofit_profiling_bootstrap.md with a dated
   check-in linking this epic (its open question, repo creation, is answered)
   and update the campaigns.yaml task next:. No registry.yaml row:
   Pulse check fails any instance without a published summary and has no
   pending status; the fit @profiling-summary@2 row lands in B4a as planned.
6. Insight: likewise no row at B1; the fit @inference-summary@1 row
   lands in B3 as planned. Record both intended instance names in the ledger.
7. Brain: no clean_slate.sh entry needed (the lens siblings have none;
   _repo_paths.py reads Mind repos.yaml). Do not hardcode the new names in
   any Brain/Heart/Hands script (repos_sync firewall).
8. Org profile: two rows in the PyAutoFit table of
   .github/profile/README.md (checkout /home/jammy/Code/PyAutoLabs/.github,
   PyAutoLabs/.github), one PR.
9. RAL: git clone both repos to /mnt/ral/jnightin/<project> over
   euclid_jump, then hpc/sync check from each local repo.

Order

Skeleton PRs first (an AGENTS.md must exist before repos_sync --write),
then Mind (its PR waits for the skeletons to merge if its lint checks them
out), then Heart/Cortex/Pulse/.github in any order. Pulse and Insight CI
resolve repo against PyAutoMind main, so nothing in them references the new
repos before the Mind PR merges.

Verification

repos_sync.py --check green (the two mismatches gone); cortex.py check
green; both skeleton lint.yml runs green; pyauto-pulse check --offline
green; Heart tick → manifest drift clear; hpc/sync check reaches RAL and
finds both remote roots.

Witness

Both repos checked out at their declared fit/ paths and declared in
repos.yaml; repos_sync --check and cortex.py check green; Heart's
manifest-drift YELLOW reason gone at the next tick.