---
phase: 09-config-and-auto-fix
verified: 2026-02-24T06:00:00Z
status: passed
score: 8/8 must-haves verified
re_verification: false
---

# Phase 9: Config and Auto-Fix — Verification Report

**Phase Goal:** pyproject.toml is configured with all necessary suppressions and ruff auto-fix has eliminated all auto-fixable violations
**Verified:** 2026-02-24T06:00:00Z
**Status:** PASSED
**Re-verification:** No — initial verification

---

## Goal Achievement

### Observable Truths

| #  | Truth                                                                                      | Status     | Evidence                                                                              |
|----|--------------------------------------------------------------------------------------------|------------|---------------------------------------------------------------------------------------|
| 1  | `pyproject.toml` has `extend-exclude` suppressing `.windsurf` and `.planning` from ruff   | VERIFIED   | `extend-exclude = [".windsurf", ".planning", "test_debug.py"]` confirmed at line 45  |
| 2  | `pyproject.toml` has `per-file-ignores` suppressing E501 for `src/corpus_analyzer/llm/*.py` | VERIFIED | `"src/corpus_analyzer/llm/*.py" = ["E501"]` confirmed at line 51; ruff reports 0 E501 in llm/ |
| 3  | `pyproject.toml` has `per-file-ignores` suppressing B006 for `src/corpus_analyzer/cli.py`  | VERIFIED | `"src/corpus_analyzer/cli.py" = ["B006"]` confirmed at line 52; ruff reports 0 B006 in cli.py |
| 4  | `pyproject.toml` has `[[tool.mypy.overrides]]` with `ignore_missing_imports = true` for `frontmatter` | VERIFIED | Lines 64-66 confirmed; tomllib parse returns `[{'module': ['frontmatter'], 'ignore_missing_imports': True}]` |
| 5  | ruff reports zero violations from `.windsurf/` paths                                       | VERIFIED   | `ruff check src/ tests/` returns 0 windsurf violations                               |
| 6  | All auto-fixable violations (W293/W291/F401/UP045/UP035/I001/F541) eliminated from src/ and tests/ | VERIFIED | ruff JSON output: zero violations in any of those rule codes                         |
| 7  | All 281+ tests pass after auto-fix                                                          | VERIFIED   | `uv run pytest -v -q` exits 0: `281 passed in 3.29s`                                 |
| 8  | `import corpus_analyzer` smoke test passes                                                  | VERIFIED   | `uv run python -c "import corpus_analyzer"` exits 0 with `Smoke test PASSED`         |

**Score:** 8/8 truths verified

---

### Required Artifacts

| Artifact                          | Expected                                                      | Status   | Details                                                                   |
|-----------------------------------|---------------------------------------------------------------|----------|---------------------------------------------------------------------------|
| `pyproject.toml`                  | All four config stanzas (CONF-01 through CONF-04)             | VERIFIED | All four stanzas present; TOML parses cleanly via `tomllib`               |
| `src/corpus_analyzer/` (source)   | All auto-fixable violations eliminated                        | VERIFIED | 370 violations removed across 37 files; confirmed by post-fix ruff scan   |

---

### Key Link Verification

| From                                        | To                       | Via                                                    | Status   | Details                                                  |
|---------------------------------------------|--------------------------|--------------------------------------------------------|----------|----------------------------------------------------------|
| `pyproject.toml [tool.ruff]`                | `.windsurf` exclusion    | `extend-exclude = [".windsurf", ".planning", "test_debug.py"]` | WIRED | Pattern present at line 45; ruff returns 0 windsurf hits |
| `pyproject.toml [tool.ruff.lint.per-file-ignores]` | llm/ E501 suppression | `"src/corpus_analyzer/llm/*.py" = ["E501"]`            | WIRED    | Pattern present line 51; 0 E501 violations in llm/       |
| `pyproject.toml [tool.ruff.lint.per-file-ignores]` | cli.py B006 suppression | `"src/corpus_analyzer/cli.py" = ["B006"]`           | WIRED    | Pattern present line 52; 0 B006 violations               |
| `pyproject.toml [[tool.mypy.overrides]]`    | frontmatter stub suppression | `module = ["frontmatter"], ignore_missing_imports = true` | WIRED | Lines 64-66; parsed and confirmed by tomllib             |
| `ruff check --fix`                          | `src/` and `tests/`      | `uv run ruff check --fix src/ tests/` (+ unsafe-fixes) | WIRED   | Commit `dc35aad` confirms 370 violations eliminated      |
| smoke test                                  | `corpus_analyzer` package | `python -c "import corpus_analyzer"`                  | WIRED    | Exits 0: `Smoke test PASSED`                             |

---

### Requirements Coverage

| Requirement | Source Plan | Description                                                                          | Status    | Evidence                                                               |
|-------------|-------------|--------------------------------------------------------------------------------------|-----------|------------------------------------------------------------------------|
| CONF-01     | 09-01       | `per-file-ignores` suppressing E501 for `src/corpus_analyzer/llm/*.py`              | SATISFIED | Line 51 of pyproject.toml; 0 E501 in llm/ confirmed by ruff           |
| CONF-02     | 09-01       | `[[tool.mypy.overrides]]` disabling strict checks for `python-frontmatter` imports  | SATISFIED | Lines 64-66 of pyproject.toml; module `"frontmatter"`, `ignore_missing_imports = true` |
| CONF-03     | 09-01       | Excludes `.windsurf/` and `.planning/` from ruff scope                               | SATISFIED | Line 45 of pyproject.toml `extend-exclude`; 0 windsurf violations     |
| CONF-04     | 09-01       | `per-file-ignores` for `cli.py` B006 (Typer list default trap)                       | SATISFIED | Line 52 of pyproject.toml; 0 B006 violations in cli.py                |
| RUFF-01     | 09-02       | `ruff check --fix` applied, eliminating all auto-fixable violations                  | SATISFIED | Commit `dc35aad`; ruff scan returns 0 W293/W291/I001/F401/UP045/UP035/F541/F541 |
| RUFF-02     | 09-02       | All `__init__.py` F401 re-exports verified safe after auto-fix (smoke-test imports pass) | SATISFIED | `uv run python -c "import corpus_analyzer"` exits 0; 281 tests pass   |

No orphaned requirements — all six Phase 9 requirements are claimed by plans 09-01 and 09-02.

---

### Anti-Patterns Found

None detected in modified files. The auto-fix pass made structural changes (import sorting, whitespace removal, type annotation modernisation) with no placeholder patterns or empty implementations introduced.

---

### Human Verification Required

None. All observable truths were verified programmatically:

- pyproject.toml content verified by `tomllib` parse
- ruff violation counts verified by JSON output scan
- Test suite verified by pytest exit code and count
- Smoke test verified by Python import exit code
- Commit hashes verified by `git show`

---

### Remaining Violations (Expected, Deferred)

The following violations remain and are intentionally deferred to Phases 10-11:

| Rule  | Count | Disposition                                          |
|-------|-------|------------------------------------------------------|
| E501  | 86    | Long lines outside llm/; manual fixes deferred       |
| E741  | 4     | Ambiguous variable names; manual fixes deferred      |
| E402  | 2     | Module-level imports not at top; manual fixes deferred |
| B017  | 2     | `assertRaises(Exception)` anti-pattern; deferred     |
| B023  | 1     | Function definition in loop; deferred                |
| B904  | 1     | `raise ... from err` missing; deferred               |

These are the exact non-auto-fixable violations expected by the plan. No surprises.

---

### Gap Summary

No gaps. All phase objectives achieved:

- Plan 09-01 delivered all four `pyproject.toml` config stanzas in commit `425f253`
- Plan 09-02 eliminated 370 auto-fixable violations from 37 source and test files in commit `dc35aad`
- 281 tests pass with no regressions
- Smoke test confirms package import integrity

---

_Verified: 2026-02-24T06:00:00Z_
_Verifier: Claude (gsd-verifier)_
