commit 61313daee45dacfa7dedb48195ceecfaa26a6b31
Author: Codex <codex@local.invalid>
Date:   Sat Apr 11 06:16:02 2026 -0400

    Initial renunney scaffold

diff --git a/.gitignore b/.gitignore
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+++ b/.gitignore
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+.DS_Store
+__pycache__/
+.pytest_cache/
+*.pyc
+*.pyo
+*.pyd
+.Python
+.venv/
+venv/
+build/
+dist/
+*.egg-info/
+
+runs/state/*
+!runs/state/.gitkeep
+runs/results/*
+!runs/results/.gitkeep
+runs/scratch/*
+!runs/scratch/.gitkeep
+
+*.sqlite
+*.sqlite3
+*.log
+*.tmp
+*.swp
diff --git a/Makefile b/Makefile
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--- /dev/null
+++ b/Makefile
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+PYTHON := python3
+REPO_ROOT := $(abspath .)
+LEGACY_ROOT := $(REPO_ROOT)/../collaborations/to_ptbc/evc/cost_of_substitution
+ORCH := $(LEGACY_ROOT)/python/run_orchestration.py
+
+DB := $(REPO_ROOT)/runs/state/cos-orch.sqlite
+RESULT_ROOT := $(REPO_ROOT)/runs/results
+SCRATCH_ROOT := $(REPO_ROOT)/runs/scratch
+
+FIG1_M005 := $(LEGACY_ROOT)/examples/track1_figure1_paper_M_0_05.json
+FIG1_M025 := $(LEGACY_ROOT)/examples/track1_figure1_paper_M_0_25.json
+FIG1_M05 := $(LEGACY_ROOT)/examples/track1_figure1_paper_M_0_5.json
+FIG1_M10 := $(LEGACY_ROOT)/examples/track1_figure1_paper_M_1_0.json
+FIG1_M100 := $(LEGACY_ROOT)/examples/track1_figure1_paper_M_10_0.json
+
+.PHONY: help init doctor list-jobs run-one run-loop run-loop-one collate-figure1 \
+ submit-figure1-m005 submit-figure1-m025 submit-figure1-m05 submit-figure1-m10 submit-figure1-m100 \
+ submit-all-figure1 status results-tree
+
+help:
+	@echo "Targets:"
+	@echo "  init                Create run directories and initialize the SQLite registry"
+	@echo "  doctor              Show key paths and verify legacy orchestration entrypoint"
+	@echo "  list-jobs           List jobs in the local registry"
+	@echo "  run-one             Claim and run one queued job"
+	@echo "  run-loop            Run worker loop until queue empty"
+	@echo "  run-loop-one        Run exactly one queued job through the worker loop"
+	@echo "  collate-figure1     Collate completed Track 1 Figure 1 jobs"
+	@echo "  submit-figure1-m005 Submit Figure 1 paper-scale jobs for M=0.05"
+	@echo "  submit-figure1-m025 Submit Figure 1 paper-scale jobs for M=0.25"
+	@echo "  submit-figure1-m05  Submit Figure 1 paper-scale jobs for M=0.5"
+	@echo "  submit-figure1-m10  Submit Figure 1 paper-scale jobs for M=1.0"
+	@echo "  submit-figure1-m100 Submit Figure 1 paper-scale jobs for M=10.0"
+	@echo "  submit-all-figure1  Submit all paper-scale Figure 1 treatments"
+	@echo "  status              Show job status and current result tree"
+	@echo "  results-tree        List the current result files"
+
+init:
+	mkdir -p $(REPO_ROOT)/runs/state $(REPO_ROOT)/runs/results $(REPO_ROOT)/runs/scratch
+	$(PYTHON) $(ORCH) init-db --db $(DB)
+
+doctor:
+	@echo "REPO_ROOT=$(REPO_ROOT)"
+	@echo "LEGACY_ROOT=$(LEGACY_ROOT)"
+	@echo "DB=$(DB)"
+	@echo "RESULT_ROOT=$(RESULT_ROOT)"
+	@echo "SCRATCH_ROOT=$(SCRATCH_ROOT)"
+	test -f $(ORCH)
+
+list-jobs:
+	$(PYTHON) $(ORCH) list --db $(DB)
+
+run-one:
+	$(PYTHON) $(ORCH) run-one --db $(DB) --result-root $(RESULT_ROOT) --scratch-root $(SCRATCH_ROOT)
+
+run-loop:
+	$(PYTHON) $(ORCH) run-loop --db $(DB) --result-root $(RESULT_ROOT) --scratch-root $(SCRATCH_ROOT)
+
+run-loop-one:
+	$(PYTHON) $(ORCH) run-loop --db $(DB) --result-root $(RESULT_ROOT) --scratch-root $(SCRATCH_ROOT) --max-jobs 1
+
+collate-figure1:
+	$(PYTHON) $(ORCH) collate-figure1 --db $(DB) --output $(RESULT_ROOT)/figure1-collated.json
+
+submit-figure1-m005:
+	$(PYTHON) $(ORCH) submit-figure1 --db $(DB) --config $(FIG1_M005) --job-prefix fig1-m005 --created-by make
+
+submit-figure1-m025:
+	$(PYTHON) $(ORCH) submit-figure1 --db $(DB) --config $(FIG1_M025) --job-prefix fig1-m025 --created-by make
+
+submit-figure1-m05:
+	$(PYTHON) $(ORCH) submit-figure1 --db $(DB) --config $(FIG1_M05) --job-prefix fig1-m05 --created-by make
+
+submit-figure1-m10:
+	$(PYTHON) $(ORCH) submit-figure1 --db $(DB) --config $(FIG1_M10) --job-prefix fig1-m10 --created-by make
+
+submit-figure1-m100:
+	$(PYTHON) $(ORCH) submit-figure1 --db $(DB) --config $(FIG1_M100) --job-prefix fig1-m100 --created-by make
+
+submit-all-figure1: submit-figure1-m005 submit-figure1-m025 submit-figure1-m05 submit-figure1-m10 submit-figure1-m100
+
+results-tree:
+	find $(RESULT_ROOT) -maxdepth 4 -type f | sort
+
+status:
+	@echo "Jobs:"
+	$(PYTHON) $(ORCH) list --db $(DB)
+	@echo
+	@echo "Results:"
+	find $(RESULT_ROOT) -maxdepth 4 -type f | sort || true
diff --git a/README.md b/README.md
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+++ b/README.md
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+# renunney
+
+Clean working repository for:
+
+- faithful replication of Leonard Nunney's 2003 cost-of-substitution results,
+- orchestration of distributed sweep runs,
+- later migration to a faster Rust-backed worker.
+
+## Current Scope
+
+This repository is the clean operational wrapper around the current work in:
+
+- [`../collaborations/to_ptbc/evc/cost_of_substitution`](/mnt/CIFS/pengolodh/Docs/Projects/collaborations/to_ptbc/evc/cost_of_substitution)
+
+The current orchestration and Track 1 simulation code still live there.
+`renunney` provides:
+
+- a clean git repo,
+- a stable working directory layout,
+- a Makefile for common tasks,
+- migration notes for pulling code into this repo in stages.
+
+## Layout
+
+- `docs/`
+  - project and migration notes
+- `config/`
+  - configuration templates and examples
+- `runs/state/`
+  - SQLite registries and persistent orchestration state
+- `runs/results/`
+  - result artifacts collected by orchestration
+- `runs/scratch/`
+  - local worker scratch and cache files
+- `src/renunney/`
+  - future in-repo Python package and migration target
+
+## Start
+
+Initialize the local run directories and SQLite registry:
+
+```bash
+make init
+```
+
+Submit a paper-scale Figure 1 treatment:
+
+```bash
+make submit-figure1-m10
+```
+
+Run one worker loop locally:
+
+```bash
+make run-loop
+```
+
+Collate completed Figure 1 jobs:
+
+```bash
+make collate-figure1
+```
+
+## Status
+
+The active simulation/orchestration implementation remains in the older
+`cost_of_substitution` directory for now. This repo is the clean shell for
+running, organizing, and gradually migrating that work.
diff --git a/config/README.md b/config/README.md
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+# Config
+
+Configuration templates and future environment-specific settings for:
+
+- master registry paths
+- result roots
+- scratch roots
+- host-specific worker defaults
+
+This directory is intentionally small for now.
diff --git a/docs/MIGRATION.md b/docs/MIGRATION.md
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+++ b/docs/MIGRATION.md
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+# Migration
+
+## Goal
+
+Move the current cost-of-substitution implementation into `renunney` in staged,
+low-risk steps.
+
+## Current State
+
+Operational code still lives in:
+
+- [`../../collaborations/to_ptbc/evc/cost_of_substitution`](/mnt/CIFS/pengolodh/Docs/Projects/collaborations/to_ptbc/evc/cost_of_substitution)
+
+`renunney` currently acts as:
+
+- a clean git repository,
+- a run-control wrapper,
+- a stable place for deployment and orchestration commands,
+- the eventual destination for migrated code.
+
+## Recommended Migration Order
+
+1. Keep orchestration running from the legacy path until real multi-host runs are stable.
+2. Migrate the orchestration modules first:
+   - `python/orchestration.py`
+   - `python/run_orchestration.py`
+3. Migrate Track 1 runner and API next:
+   - `python/run_track1.py`
+   - `python/track1_api.py`
+4. Migrate the Track 1 simulation core after the runner path is stable:
+   - `python/track1_reference.py`
+   - `python/track1_threshold.py`
+   - `python/track1_analysis.py`
+5. Migrate docs and example configs last, after path references are updated.
+
+## Constraint
+
+Do not break the ability to run current Figure 1 jobs while migrating code.
diff --git a/docs/WORKFLOW.md b/docs/WORKFLOW.md
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+++ b/docs/WORKFLOW.md
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+# Workflow
+
+## Daily Use
+
+Initialize local state:
+
+```bash
+make init
+```
+
+Check paths:
+
+```bash
+make doctor
+```
+
+Submit a Figure 1 treatment:
+
+```bash
+make submit-figure1-m10
+```
+
+Run jobs:
+
+```bash
+make run-loop
+```
+
+Collate completed results:
+
+```bash
+make collate-figure1
+```
+
+Inspect current status:
+
+```bash
+make status
+```
+
+## Current Assumption
+
+The Makefile drives the orchestration code in the legacy
+`cost_of_substitution` directory until that code is migrated here.
diff --git a/runs/results/.gitkeep b/runs/results/.gitkeep
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+++ b/runs/results/.gitkeep
@@ -0,0 +1 @@
+
diff --git a/runs/scratch/.gitkeep b/runs/scratch/.gitkeep
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+++ b/runs/scratch/.gitkeep
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+
diff --git a/runs/state/.gitkeep b/runs/state/.gitkeep
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+++ b/runs/state/.gitkeep
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+
diff --git a/src/renunney/__init__.py b/src/renunney/__init__.py
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+++ b/src/renunney/__init__.py
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+"""renunney package placeholder."""