psyclaw 0.27.22 → 0.28.0

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (1048) hide show
  1. package/README.md +11 -5
  2. package/dist/apps/panel/index.html +2 -2
  3. package/dist/src/adapters/pi/extension.js +225 -92
  4. package/dist/src/adapters/pi/extension.js.map +1 -1
  5. package/dist/src/agents/import.js +44 -32
  6. package/dist/src/agents/import.js.map +1 -1
  7. package/dist/src/analysis/hooks.d.ts +1 -0
  8. package/dist/src/analysis/hooks.js +20 -1
  9. package/dist/src/analysis/hooks.js.map +1 -1
  10. package/dist/src/ars/bridge.d.ts +20 -0
  11. package/dist/src/ars/bridge.js +132 -0
  12. package/dist/src/ars/bridge.js.map +1 -0
  13. package/dist/src/ars/contracts.d.ts +55 -0
  14. package/dist/src/ars/contracts.js +2 -0
  15. package/dist/src/ars/contracts.js.map +1 -0
  16. package/dist/src/ars/panel-plan.d.ts +4 -0
  17. package/dist/src/ars/panel-plan.js +11 -0
  18. package/dist/src/ars/panel-plan.js.map +1 -0
  19. package/dist/src/ars/pi-panel-executor.d.ts +30 -0
  20. package/dist/src/ars/pi-panel-executor.js +140 -0
  21. package/dist/src/ars/pi-panel-executor.js.map +1 -0
  22. package/dist/src/ars/profile.d.ts +36 -0
  23. package/dist/src/ars/profile.js +119 -0
  24. package/dist/src/ars/profile.js.map +1 -0
  25. package/dist/src/ars/re-review.d.ts +22 -0
  26. package/dist/src/ars/re-review.js +172 -0
  27. package/dist/src/ars/re-review.js.map +1 -0
  28. package/dist/src/branding.d.ts +2 -4
  29. package/dist/src/branding.js +3 -5
  30. package/dist/src/branding.js.map +1 -1
  31. package/dist/src/bundled-tools.d.ts +3 -0
  32. package/dist/src/bundled-tools.js +21 -0
  33. package/dist/src/bundled-tools.js.map +1 -0
  34. package/dist/src/chat.js +6 -5
  35. package/dist/src/chat.js.map +1 -1
  36. package/dist/src/creation/contracts.d.ts +38 -0
  37. package/dist/src/creation/contracts.js +2 -0
  38. package/dist/src/creation/contracts.js.map +1 -0
  39. package/dist/src/creation/service.d.ts +7 -0
  40. package/dist/src/creation/service.js +196 -0
  41. package/dist/src/creation/service.js.map +1 -0
  42. package/dist/src/index.d.ts +10 -0
  43. package/dist/src/index.js +10 -0
  44. package/dist/src/index.js.map +1 -1
  45. package/dist/src/install/installer.js +32 -10
  46. package/dist/src/install/installer.js.map +1 -1
  47. package/dist/src/orchestration/personas.d.ts +15 -0
  48. package/dist/src/orchestration/personas.js +51 -0
  49. package/dist/src/orchestration/personas.js.map +1 -0
  50. package/dist/src/orchestration/pi-executor.d.ts +1 -0
  51. package/dist/src/orchestration/pi-executor.js +1 -1
  52. package/dist/src/orchestration/pi-executor.js.map +1 -1
  53. package/dist/src/panel/extension.js +29 -8
  54. package/dist/src/panel/extension.js.map +1 -1
  55. package/dist/src/panel/server.js +14 -5
  56. package/dist/src/panel/server.js.map +1 -1
  57. package/dist/src/project/paths.d.ts +3 -0
  58. package/dist/src/project/paths.js +7 -0
  59. package/dist/src/project/paths.js.map +1 -1
  60. package/dist/src/rules/user-rules.d.ts +8 -0
  61. package/dist/src/rules/user-rules.js +36 -0
  62. package/dist/src/rules/user-rules.js.map +1 -0
  63. package/dist/src/skills/contracts.d.ts +4 -4
  64. package/dist/src/skills/recommended.js +1 -1
  65. package/dist/src/skills/registry.js +49 -28
  66. package/dist/src/skills/registry.js.map +1 -1
  67. package/dist/src/style/cli-ui.js +0 -1
  68. package/dist/src/style/cli-ui.js.map +1 -1
  69. package/package.json +14 -3
  70. package/scripts/rebrand-pi.mjs +6 -0
  71. package/skills/recommended/catalog.json +2 -11
  72. package/vendor/ars/.claude/CLAUDE.md +371 -0
  73. package/vendor/ars/.command-invariants.toml +24 -0
  74. package/vendor/ars/CITATION.cff +35 -0
  75. package/vendor/ars/LICENSE +417 -0
  76. package/vendor/ars/MODE_REGISTRY.md +76 -0
  77. package/vendor/ars/NOTICE.md +26 -0
  78. package/vendor/ars/POSITIONING.md +99 -0
  79. package/vendor/ars/PSYCLAW_SOURCE.json +10 -0
  80. package/vendor/ars/README.md +751 -0
  81. package/vendor/ars/SECURITY.md +52 -0
  82. package/vendor/ars/THIRD_PARTY.md +70 -0
  83. package/vendor/ars/academic-paper/SKILL.md +542 -0
  84. package/vendor/ars/academic-paper/agents/abstract_bilingual_agent.md +171 -0
  85. package/vendor/ars/academic-paper/agents/argument_builder_agent.md +276 -0
  86. package/vendor/ars/academic-paper/agents/citation_compliance_agent.md +422 -0
  87. package/vendor/ars/academic-paper/agents/draft_writer_agent.md +656 -0
  88. package/vendor/ars/academic-paper/agents/formatter_agent.md +999 -0
  89. package/vendor/ars/academic-paper/agents/intake_agent.md +393 -0
  90. package/vendor/ars/academic-paper/agents/literature_strategist_agent.md +626 -0
  91. package/vendor/ars/academic-paper/agents/peer_reviewer_agent.md +516 -0
  92. package/vendor/ars/academic-paper/agents/revision_coach_agent.md +334 -0
  93. package/vendor/ars/academic-paper/agents/socratic_mentor_agent.md +527 -0
  94. package/vendor/ars/academic-paper/agents/structure_architect_agent.md +401 -0
  95. package/vendor/ars/academic-paper/agents/visualization_agent.md +441 -0
  96. package/vendor/ars/academic-paper/examples/chinese_paper_example.md +278 -0
  97. package/vendor/ars/academic-paper/examples/clinical_citation_verification_checklist.md +95 -0
  98. package/vendor/ars/academic-paper/examples/clinical_epistemic_status_example.md +100 -0
  99. package/vendor/ars/academic-paper/examples/commitment_ledger_example.md +147 -0
  100. package/vendor/ars/academic-paper/examples/imrad_hei_example.md +234 -0
  101. package/vendor/ars/academic-paper/examples/literature_review_example.md +260 -0
  102. package/vendor/ars/academic-paper/examples/plan_mode_guided_writing.md +600 -0
  103. package/vendor/ars/academic-paper/examples/revision_mode_example.md +344 -0
  104. package/vendor/ars/academic-paper/examples/revision_recovery_example.md +506 -0
  105. package/vendor/ars/academic-paper/examples/version_family_reconciliation_example.md +89 -0
  106. package/vendor/ars/academic-paper/references/abstract_writing_guide.md +169 -0
  107. package/vendor/ars/academic-paper/references/academic_writing_style.md +188 -0
  108. package/vendor/ars/academic-paper/references/anti_leakage_protocol.md +83 -0
  109. package/vendor/ars/academic-paper/references/apa7_chinese_citation_guide.md +364 -0
  110. package/vendor/ars/academic-paper/references/apa7_extended_guide.md +198 -0
  111. package/vendor/ars/academic-paper/references/changelog.md +11 -0
  112. package/vendor/ars/academic-paper/references/citation_format_switcher.md +228 -0
  113. package/vendor/ars/academic-paper/references/committee_correspondence_protocol.md +158 -0
  114. package/vendor/ars/academic-paper/references/credit_authorship_guide.md +308 -0
  115. package/vendor/ars/academic-paper/references/disclosure_mode_protocol.md +478 -0
  116. package/vendor/ars/academic-paper/references/domain_evidence_profiles.md +38 -0
  117. package/vendor/ars/academic-paper/references/failure_paths.md +349 -0
  118. package/vendor/ars/academic-paper/references/funding_statement_guide.md +319 -0
  119. package/vendor/ars/academic-paper/references/hei_domain_glossary.md +169 -0
  120. package/vendor/ars/academic-paper/references/intro_title_rhetoric_guide.md +114 -0
  121. package/vendor/ars/academic-paper/references/journal_submission_guide.md +249 -0
  122. package/vendor/ars/academic-paper/references/latex_template_reference.md +378 -0
  123. package/vendor/ars/academic-paper/references/mode_selection_guide.md +378 -0
  124. package/vendor/ars/academic-paper/references/paper_structure_patterns.md +330 -0
  125. package/vendor/ars/academic-paper/references/plan_mode_protocol.md +112 -0
  126. package/vendor/ars/academic-paper/references/policy_anchor_disclosure_protocol.md +200 -0
  127. package/vendor/ars/academic-paper/references/policy_anchor_table.md +157 -0
  128. package/vendor/ars/academic-paper/references/revision_patch_protocol.md +173 -0
  129. package/vendor/ars/academic-paper/references/statistical_visualization_standards.md +750 -0
  130. package/vendor/ars/academic-paper/references/venue_disclosure_policies.md +259 -0
  131. package/vendor/ars/academic-paper/references/vlm_figure_verification.md +126 -0
  132. package/vendor/ars/academic-paper/references/workflow_phase_details.md +135 -0
  133. package/vendor/ars/academic-paper/references/writing_judgment_framework.md +59 -0
  134. package/vendor/ars/academic-paper/references/writing_quality_check.md +173 -0
  135. package/vendor/ars/academic-paper/templates/bilingual_abstract_template.md +78 -0
  136. package/vendor/ars/academic-paper/templates/case_study_template.md +129 -0
  137. package/vendor/ars/academic-paper/templates/conference_paper_template.md +108 -0
  138. package/vendor/ars/academic-paper/templates/credit_statement_template.md +132 -0
  139. package/vendor/ars/academic-paper/templates/funding_statement_template.md +290 -0
  140. package/vendor/ars/academic-paper/templates/imrad_template.md +183 -0
  141. package/vendor/ars/academic-paper/templates/latex_article_template.tex +199 -0
  142. package/vendor/ars/academic-paper/templates/literature_review_template.md +135 -0
  143. package/vendor/ars/academic-paper/templates/policy_brief_template.md +139 -0
  144. package/vendor/ars/academic-paper/templates/revision_tracking_template.md +199 -0
  145. package/vendor/ars/academic-paper/templates/theoretical_paper_template.md +119 -0
  146. package/vendor/ars/academic-paper-reviewer/SKILL.md +491 -0
  147. package/vendor/ars/academic-paper-reviewer/agents/devils_advocate_reviewer_agent.md +443 -0
  148. package/vendor/ars/academic-paper-reviewer/agents/domain_reviewer_agent.md +412 -0
  149. package/vendor/ars/academic-paper-reviewer/agents/editorial_synthesizer_agent.md +478 -0
  150. package/vendor/ars/academic-paper-reviewer/agents/eic_agent.md +339 -0
  151. package/vendor/ars/academic-paper-reviewer/agents/field_analyst_agent.md +221 -0
  152. package/vendor/ars/academic-paper-reviewer/agents/methodology_reviewer_agent.md +449 -0
  153. package/vendor/ars/academic-paper-reviewer/agents/perspective_reviewer_agent.md +427 -0
  154. package/vendor/ars/academic-paper-reviewer/examples/hei_paper_review_example.md +391 -0
  155. package/vendor/ars/academic-paper-reviewer/examples/interdisciplinary_review_example.md +299 -0
  156. package/vendor/ars/academic-paper-reviewer/examples/subclaim_decomposition_example.md +80 -0
  157. package/vendor/ars/academic-paper-reviewer/references/calibration_mode_protocol.md +256 -0
  158. package/vendor/ars/academic-paper-reviewer/references/changelog.md +10 -0
  159. package/vendor/ars/academic-paper-reviewer/references/editorial_decision_standards.md +236 -0
  160. package/vendor/ars/academic-paper-reviewer/references/guided_mode_protocol.md +34 -0
  161. package/vendor/ars/academic-paper-reviewer/references/integration_guide.md +15 -0
  162. package/vendor/ars/academic-paper-reviewer/references/quality_rubrics.md +84 -0
  163. package/vendor/ars/academic-paper-reviewer/references/re_review_mode_protocol.md +340 -0
  164. package/vendor/ars/academic-paper-reviewer/references/review_criteria_framework.md +98 -0
  165. package/vendor/ars/academic-paper-reviewer/references/review_panel_provenance_protocol.md +197 -0
  166. package/vendor/ars/academic-paper-reviewer/references/review_quality_thinking.md +58 -0
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  169. package/vendor/ars/academic-paper-reviewer/references/statistical_reporting_standards.md +505 -0
  170. package/vendor/ars/academic-paper-reviewer/references/top_journals_by_field.md +206 -0
  171. package/vendor/ars/academic-paper-reviewer/templates/editorial_decision_template.md +235 -0
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  175. package/vendor/ars/academic-pipeline/agents/claim_ref_alignment_audit_agent.md +382 -0
  176. package/vendor/ars/academic-pipeline/agents/collaboration_depth_agent.md +164 -0
  177. package/vendor/ars/academic-pipeline/agents/integrity_verification_agent.md +870 -0
  178. package/vendor/ars/academic-pipeline/agents/pipeline_orchestrator_agent.md +1379 -0
  179. package/vendor/ars/academic-pipeline/agents/state_tracker_agent.md +622 -0
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  181. package/vendor/ars/academic-pipeline/examples/integrity_failure_recovery.md +389 -0
  182. package/vendor/ars/academic-pipeline/examples/mid_entry_example.md +414 -0
  183. package/vendor/ars/academic-pipeline/references/adapters/.gitkeep +0 -0
  184. package/vendor/ars/academic-pipeline/references/adapters/overview.md +153 -0
  185. package/vendor/ars/academic-pipeline/references/ai_research_failure_modes.md +185 -0
  186. package/vendor/ars/academic-pipeline/references/changelog.md +14 -0
  187. package/vendor/ars/academic-pipeline/references/claim_audit_calibration_protocol.md +175 -0
  188. package/vendor/ars/academic-pipeline/references/claim_verification_protocol.md +282 -0
  189. package/vendor/ars/academic-pipeline/references/external_review_protocol.md +131 -0
  190. package/vendor/ars/academic-pipeline/references/integrity_review_protocol.md +110 -0
  191. package/vendor/ars/academic-pipeline/references/literature_corpus_consumers.md +193 -0
  192. package/vendor/ars/academic-pipeline/references/mode_advisor.md +135 -0
  193. package/vendor/ars/academic-pipeline/references/passport_as_reset_boundary.md +132 -0
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  204. package/vendor/ars/agents/report_compiler_agent.md +341 -0
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  207. package/vendor/ars/commands/ars-3w.md +10 -0
  208. package/vendor/ars/commands/ars-abstract.md +10 -0
  209. package/vendor/ars/commands/ars-cache-invalidate.md +20 -0
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  213. package/vendor/ars/commands/ars-full.md +9 -0
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@@ -0,0 +1,184 @@
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+ #!/usr/bin/env python3
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+ """Calibration checker for the #257 Socratic wording-pattern advisory.
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+
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+ The detector is intentionally lexical and conservative. It is not a novelty
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+ model and does not judge research quality; it only checks whether a proposed RQ
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+ uses one of the common surface shells documented in the Socratic mentor prompts.
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+ """
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+ from __future__ import annotations
9
+
10
+ import argparse
11
+ import json
12
+ import re
13
+ import string
14
+ import sys
15
+ from dataclasses import dataclass
16
+ from pathlib import Path
17
+ from typing import Any
18
+
19
+
20
+ REPO_ROOT = Path(__file__).resolve().parents[1]
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+ DEFAULT_GOLD_SET = REPO_ROOT / "evals/gold/rq_framing_patterns/gold_set.json"
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+ POSITIVE_LABEL = "wording_cliche"
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+ NEGATIVE_LABEL = "domain_native"
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+
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+ _PUNCT_TRANSLATION = str.maketrans({c: " " for c in string.punctuation})
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+
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+
28
+ @dataclass(frozen=True)
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+ class PatternSpec:
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+ pattern_id: str
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+ label: str
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+ regex: re.Pattern[str]
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+
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+
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+ def _rx(pattern: str) -> re.Pattern[str]:
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+ return re.compile(pattern, re.IGNORECASE)
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+
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+
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+ REFERENCE_PATTERNS: tuple[PatternSpec, ...] = (
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+ PatternSpec("WP01", "impact/effect frame", _rx(r"\b(?:explor\w*|investigat\w*|examin\w*|analyz\w*|study\w*)\s+(?:the\s+)?(?:impact|effect)s?\s+of\b.+\bon\b")),
41
+ PatternSpec("WP02", "relationship frame", _rx(r"\b(?:investigat\w*|examin\w*|explor\w*)?\s*(?:the\s+)?(?:relationship|association|correlation)\s+between\b")),
42
+ PatternSpec("WP03", "role frame", _rx(r"\b(?:understand\w*|examin\w*|investigat\w*|explor\w*|analyz\w*|assess\w*)\s+(?:the\s+)?role\s+of\b.+\bin\b")),
43
+ PatternSpec("WP04", "influence frame", _rx(r"\b(?:analyz\w*|investigat\w*|examin\w*|explor\w*)\s+how\b.+\b(?:influences?|affects?)\b")),
44
+ PatternSpec("WP05", "generic factors frame", _rx(r"\b(?:explor\w*|investigat\w*|examin\w*|analyz\w*)?\s*factors\s+(?:influencing|affecting|that\s+influence|that\s+affect)\b")),
45
+ PatternSpec("WP06", "bare study-of frame", _rx(r"^(?:a|an|the)\s+(?:\w+\s+)?study\s+of\b")),
46
+ PatternSpec("WP07", "impact case-study frame", _rx(r"\bimpact\s+of\b.+\bon\b.+\bcase\s+study\b|\bcase\s+study\b.+\bimpact\s+of\b")),
47
+ PatternSpec("WP08", "challenges/opportunities pair", _rx(r"\bchallenges\s+and\s+opportunities\s+of\b")),
48
+ PatternSpec("WP09", "perception/attitude survey frame", _rx(r"\b(?:perceptions|attitudes)\s+(?:of\b.+\s+)?(?:toward|towards|about)\b")),
49
+ PatternSpec("WP10", "performance/achievement effect frame", _rx(r"\b(?:the\s+)?effect\s+of\b.+\bon\b.+\b(?:performance|achievement|satisfaction|outcomes?)\b")),
50
+ PatternSpec("WP11", "achievement relationship frame", _rx(r"\brelationship\s+between\b.+\band\b.+\b(?:performance|achievement|outcomes?)\b")),
51
+ PatternSpec("WP12", "generic use/application frame", _rx(r"\b(?:explor\w*|investigat\w*|examin\w*|analyz\w*|assess\w*)\s+(?:the\s+)?(?:use|application|implementation)\s+of\b.+\bin\b")),
52
+ PatternSpec("WP13", "effectiveness frame", _rx(r"\b(?:investigat\w*|examin\w*|evaluat\w*)?\s*(?:the\s+)?effectiveness\s+of\b.+\b(?:for|in|on)\b")),
53
+ PatternSpec("WP14", "mediator/moderator template", _rx(r"\b(?:mediating|moderating)\s+role\s+of\b")),
54
+ PatternSpec("WP15", "adoption/intention/satisfaction factors", _rx(r"\bfactors\s+affecting\b.+\b(?:adoption|intention|satisfaction)\b")),
55
+ PatternSpec("WP16", "barriers/facilitators pair", _rx(r"\bbarriers\s+and\s+facilitators\s+to\b")),
56
+ PatternSpec("WP17", "comparative-study shell", _rx(r"\bcomparative\s+study\s+of\b")),
57
+ PatternSpec("WP18", "framework/model shell", _rx(r"\btowards?\s+a\s+(?:framework|model)\s+for\b")),
58
+ PatternSpec("WP19", "technology-enhancement shell", _rx(r"\brole\s+of\s+(?:technology|ai|artificial\s+intelligence|digital\s+tools)\b.+\benhanc\w*\b")),
59
+ PatternSpec("WP20", "experience-of frame", _rx(r"\b(?:explor\w*|investigat\w*|examin\w*)?\s*(?:the\s+)?experiences\s+of\b.+\b(?:in|with|during)\b")),
60
+ )
61
+
62
+
63
+ def normalize(text: str) -> str:
64
+ return " ".join(text.lower().translate(_PUNCT_TRANSLATION).split())
65
+
66
+
67
+ def analyze_framing(text: str) -> dict[str, Any]:
68
+ normalized = normalize(text)
69
+ matches = [spec for spec in REFERENCE_PATTERNS if spec.regex.search(normalized)]
70
+ return {
71
+ "trigger_advisory": bool(matches),
72
+ "matched_pattern_ids": [spec.pattern_id for spec in matches],
73
+ "matched_pattern_labels": [spec.label for spec in matches],
74
+ }
75
+
76
+
77
+ def _load_gold_set(path: Path) -> list[dict[str, Any]]:
78
+ data = json.loads(path.read_text(encoding="utf-8"))
79
+ items = data.get("items")
80
+ if not isinstance(items, list):
81
+ raise ValueError("gold set must contain an items[] list")
82
+ return items
83
+
84
+
85
+ def evaluate_items(items: list[dict[str, Any]]) -> dict[str, Any]:
86
+ tp = tn = fp = fn = 0
87
+ item_results: list[dict[str, Any]] = []
88
+ errors: list[str] = []
89
+
90
+ for item in items:
91
+ item_id = item.get("id", "<missing-id>")
92
+ label = item.get("label")
93
+ if label not in {POSITIVE_LABEL, NEGATIVE_LABEL}:
94
+ errors.append(f"{item_id}: invalid label {label!r}")
95
+ continue
96
+ text = item.get("text")
97
+ if not isinstance(text, str) or not text.strip():
98
+ errors.append(f"{item_id}: missing non-empty text")
99
+ continue
100
+ analysis = analyze_framing(text)
101
+ predicted_positive = analysis["trigger_advisory"]
102
+ actual_positive = label == POSITIVE_LABEL
103
+ expected_pattern_ids = item.get("expected_pattern_ids", [])
104
+ if not isinstance(expected_pattern_ids, list):
105
+ errors.append(f"{item_id}: expected_pattern_ids must be a list")
106
+ continue
107
+
108
+ matched = set(analysis["matched_pattern_ids"])
109
+ missing_expected = sorted(set(expected_pattern_ids) - matched)
110
+ if actual_positive and missing_expected:
111
+ errors.append(f"{item_id}: expected patterns not matched: {missing_expected}")
112
+ if not actual_positive and matched:
113
+ errors.append(f"{item_id}: domain-native item matched unexpected patterns: {sorted(matched)}")
114
+
115
+ if predicted_positive and actual_positive:
116
+ tp += 1
117
+ elif predicted_positive and not actual_positive:
118
+ fp += 1
119
+ elif not predicted_positive and actual_positive:
120
+ fn += 1
121
+ else:
122
+ tn += 1
123
+
124
+ item_results.append({
125
+ "id": item_id,
126
+ "label": label,
127
+ "predicted_positive": predicted_positive,
128
+ **analysis,
129
+ })
130
+
131
+ positives = tp + fn
132
+ negatives = tn + fp
133
+ fnr = fn / positives if positives else 0.0
134
+ fpr = fp / negatives if negatives else 0.0
135
+ tpr = tp / positives if positives else 0.0
136
+ tnr = tn / negatives if negatives else 0.0
137
+ balanced_accuracy = (tpr + tnr) / 2 if positives and negatives else 0.0
138
+
139
+ if len(items) != 40:
140
+ errors.append(f"sample_n must be 40, got {len(items)}")
141
+ if positives != 20 or negatives != 20:
142
+ errors.append(f"gold set must be balanced 20/20, got positives={positives}, negatives={negatives}")
143
+ if fnr >= 0.30:
144
+ errors.append(f"FNR {fnr:.3f} must be < 0.30")
145
+ if fpr >= 0.20:
146
+ errors.append(f"FPR {fpr:.3f} must be < 0.20")
147
+ if balanced_accuracy < 0.75:
148
+ errors.append(f"balanced accuracy {balanced_accuracy:.3f} must be >= 0.75")
149
+
150
+ return {
151
+ "counts": {"tp": tp, "tn": tn, "fp": fp, "fn": fn, "positives": positives, "negatives": negatives},
152
+ "metrics": {"fnr": fnr, "fpr": fpr, "balanced_accuracy": balanced_accuracy},
153
+ "item_results": item_results,
154
+ "errors": errors,
155
+ }
156
+
157
+
158
+ def validate_gold_set(path: Path = DEFAULT_GOLD_SET) -> dict[str, Any]:
159
+ return evaluate_items(_load_gold_set(path))
160
+
161
+
162
+ def main(argv: list[str] | None = None) -> int:
163
+ parser = argparse.ArgumentParser()
164
+ parser.add_argument("gold_set", nargs="?", type=Path, default=DEFAULT_GOLD_SET)
165
+ args = parser.parse_args(argv)
166
+
167
+ result = validate_gold_set(args.gold_set)
168
+ counts = result["counts"]
169
+ metrics = result["metrics"]
170
+ print(
171
+ "rq_framing_patterns: "
172
+ f"tp={counts['tp']} tn={counts['tn']} fp={counts['fp']} fn={counts['fn']} "
173
+ f"fnr={metrics['fnr']:.3f} fpr={metrics['fpr']:.3f} "
174
+ f"balanced_accuracy={metrics['balanced_accuracy']:.3f}"
175
+ )
176
+ if result["errors"]:
177
+ for error in result["errors"]:
178
+ print(f"ERROR: {error}", file=sys.stderr)
179
+ return 1
180
+ return 0
181
+
182
+
183
+ if __name__ == "__main__":
184
+ sys.exit(main())
@@ -0,0 +1,32 @@
1
+ #!/usr/bin/env python3
2
+ """Compatibility entrypoint for the retired rubric-weight lint.
3
+
4
+ Reviewer weights and aggregate scores no longer exist. Keep this filename so
5
+ older CI invocations fail closed through the replacement honesty contract.
6
+ """
7
+ from __future__ import annotations
8
+
9
+ import argparse
10
+ import sys
11
+ from pathlib import Path
12
+
13
+ from check_reviewer_scoring_honesty import check
14
+
15
+
16
+ def main(argv: list[str] | None = None) -> int:
17
+ parser = argparse.ArgumentParser(description=__doc__)
18
+ parser.add_argument(
19
+ "--root", type=Path, default=Path(__file__).resolve().parents[1]
20
+ )
21
+ args = parser.parse_args(argv)
22
+ errors, missing = check(args.root)
23
+ if errors:
24
+ for error in errors:
25
+ print(f"FAIL: {error}", file=sys.stderr)
26
+ return 2 if missing else 1
27
+ print("rubric-weight compatibility check: retired; reviewer scoring honesty OK")
28
+ return 0
29
+
30
+
31
+ if __name__ == "__main__":
32
+ raise SystemExit(main())
@@ -0,0 +1,425 @@
1
+ #!/usr/bin/env python3
2
+ """Integrity lint for evals/heldout/reviewer_seeded_defects/ (#574/#610 v0.2).
3
+
4
+ Structure-only fixture gate (the field_norm_severity precedent): it validates
5
+ that the ground-truth manifests and manuscripts agree, so a drifted fixture
6
+ cannot silently corrupt a baseline/acceptance run. It measures nothing about
7
+ reviewer behavior.
8
+
9
+ Invariants:
10
+ 1. Every manifest parses, carries the required top-level keys, and its
11
+ `manuscript` path exists.
12
+ 2. `defect_count == len(defects)`.
13
+ 3. Every defect row carries all required fields; `class`, `expected_severity`,
14
+ and `expected_detector` come from the closed enums; `defect_id` values are
15
+ unique within a manifest.
16
+ 4. Every `anchor_quote` (8-25 words) appears VERBATIM exactly once in its
17
+ manuscript.
18
+ 5. The clean control manuscript exists and no manifest points at it.
19
+ 6. The manifest set is exactly the expected fixture inventory (a deleted
20
+ manifest cannot silently shrink the acceptance set), and every
21
+ `*_defective.md` manuscript is covered by a manifest.
22
+ 7. Every statistical defect carries one closed `statistical_kind`; the
23
+ exact v0.2 kind/defect projection is pinned so reporting-only defects do
24
+ not silently enter the #610 recomputation denominator.
25
+ 8. Every GRIMMER defect carries a small, structured integer-scale oracle
26
+ whose expected inconsistency is recomputed by this checker.
27
+
28
+ Run: python3 scripts/check_seeded_defect_fixtures.py
29
+ Exit 0 on pass; 1 with per-invariant messages on failure.
30
+ """
31
+ from __future__ import annotations
32
+
33
+ import json
34
+ import sys
35
+ from decimal import Decimal, InvalidOperation, ROUND_HALF_UP, localcontext
36
+ from pathlib import Path
37
+
38
+ REPO = Path(__file__).resolve().parent.parent
39
+ ROOT = REPO / "evals" / "heldout" / "reviewer_seeded_defects"
40
+ MANIFESTS = ROOT / "manifests"
41
+ CLEAN_CONTROL = ROOT / "manuscripts" / "ms00_clean_control.md"
42
+
43
+ # Expected inventory — update deliberately when fixtures/defects are
44
+ # added/retired. Values are the EXACT defect-ID sets: a coordinated
45
+ # row-deletion + defect_count decrement (or an SD-* rename that would orphan
46
+ # per_defect run records) must fail CI, not shrink the denominator silently.
47
+ EXPECTED_FIXTURE_VERSION = "0.2"
48
+ EXPECTED_DEFECT_IDS = {
49
+ "ms01_quant": {f"SD-{i:02d}" for i in range(1, 12)},
50
+ "ms02_qual": {f"SD-{i:02d}" for i in range(1, 10)},
51
+ }
52
+ EXPECTED_FIXTURES = set(EXPECTED_DEFECT_IDS)
53
+ EXPECTED_STATISTICAL_KINDS = {
54
+ "ms01_quant": {
55
+ "SD-01": "grim",
56
+ "SD-02": "n_from_df",
57
+ "SD-03": "p_from_test_statistic",
58
+ "SD-11": "grimmer",
59
+ },
60
+ "ms02_qual": {"SD-07": "reporting_only"},
61
+ }
62
+
63
+ REQUIRED_TOP = {
64
+ "fixture_id",
65
+ "fixture_version",
66
+ "manuscript",
67
+ "defect_count",
68
+ "defects",
69
+ }
70
+ REQUIRED_DEFECT = {
71
+ "defect_id",
72
+ "class",
73
+ "expected_severity",
74
+ "section",
75
+ "anchor_quote",
76
+ "description",
77
+ "expected_detector",
78
+ }
79
+ CLASSES = {
80
+ "statistical",
81
+ "inference",
82
+ "citation_claim_mismatch",
83
+ "methods",
84
+ "ethics",
85
+ "internal_consistency",
86
+ "overclaim",
87
+ "qual_rigor",
88
+ }
89
+ SEVERITIES = {"critical", "major", "minor"}
90
+ DETECTORS = {
91
+ "methodology",
92
+ "statistics",
93
+ "domain",
94
+ "ethics",
95
+ "internal_consistency",
96
+ "any",
97
+ }
98
+ STATISTICAL_KINDS = {
99
+ "grim",
100
+ "grimmer",
101
+ "n_from_df",
102
+ "p_from_test_statistic",
103
+ "reporting_only",
104
+ }
105
+ RECOMPUTE_ORACLE_FIELDS = {
106
+ "type",
107
+ "n",
108
+ "scale_min",
109
+ "scale_max",
110
+ "reported_mean",
111
+ "reported_sd",
112
+ "sd_convention",
113
+ "rounding",
114
+ "expected_consistent",
115
+ }
116
+
117
+
118
+ def _reported_quantum(value: str) -> tuple[Decimal, Decimal]:
119
+ """Return a finite reported decimal and its explicit precision quantum."""
120
+ if not isinstance(value, str):
121
+ raise ValueError("reported values must be strings that preserve precision")
122
+ try:
123
+ parsed = Decimal(value)
124
+ except InvalidOperation as exc:
125
+ raise ValueError(f"invalid decimal {value!r}") from exc
126
+ if not parsed.is_finite():
127
+ raise ValueError(f"reported decimal must be finite, got {value!r}")
128
+ exponent = parsed.as_tuple().exponent
129
+ quantum = Decimal(1).scaleb(exponent if exponent < 0 else 0)
130
+ return parsed, quantum
131
+
132
+
133
+ def integer_scale_mean_sd_reachability(oracle: dict) -> tuple[bool, bool]:
134
+ """Return rounded-mean and joint mean/SD reachability.
135
+
136
+ This is a fixture oracle, not the future production GRIMMER engine. Its
137
+ deliberately small bounds keep CI deterministic while independently
138
+ proving that a planted prospective defect is arithmetically impossible.
139
+ """
140
+ if not isinstance(oracle, dict):
141
+ raise ValueError("recompute_oracle must be an object")
142
+ if set(oracle) != RECOMPUTE_ORACLE_FIELDS:
143
+ missing = sorted(RECOMPUTE_ORACLE_FIELDS - set(oracle))
144
+ extra = sorted(set(oracle) - RECOMPUTE_ORACLE_FIELDS)
145
+ raise ValueError(f"oracle fields differ (missing={missing}, extra={extra})")
146
+ if oracle["type"] != "integer_scale_mean_sd":
147
+ raise ValueError(f"unsupported oracle type {oracle['type']!r}")
148
+ n = oracle["n"]
149
+ scale_min = oracle["scale_min"]
150
+ scale_max = oracle["scale_max"]
151
+ if (
152
+ isinstance(n, bool)
153
+ or not isinstance(n, int)
154
+ or not 2 <= n <= 30
155
+ ):
156
+ raise ValueError("oracle n must be an integer between 2 and 30")
157
+ if any(
158
+ isinstance(value, bool) or not isinstance(value, int)
159
+ for value in (scale_min, scale_max)
160
+ ):
161
+ raise ValueError("oracle scale bounds must be integers")
162
+ if scale_min >= scale_max or scale_max - scale_min > 10:
163
+ raise ValueError("oracle scale must be increasing with width at most 10")
164
+ if oracle["sd_convention"] not in {"sample", "population"}:
165
+ raise ValueError("sd_convention must be sample or population")
166
+ if oracle["rounding"] != "half_up":
167
+ raise ValueError("only half_up rounding is supported by the v0.2 oracle")
168
+ if not isinstance(oracle["expected_consistent"], bool):
169
+ raise ValueError("expected_consistent must be Boolean")
170
+
171
+ reported_mean, mean_quantum = _reported_quantum(oracle["reported_mean"])
172
+ reported_sd, sd_quantum = _reported_quantum(oracle["reported_sd"])
173
+ if reported_sd < 0:
174
+ raise ValueError("reported_sd cannot be negative")
175
+
176
+ states = {(0, 0)}
177
+ for _ in range(n):
178
+ states = {
179
+ (total + value, total_sq + value * value)
180
+ for total, total_sq in states
181
+ for value in range(scale_min, scale_max + 1)
182
+ }
183
+
184
+ mean_reachable = False
185
+ with localcontext() as context:
186
+ context.prec = 50
187
+ decimal_n = Decimal(n)
188
+ for total, total_sq in states:
189
+ mean = Decimal(total) / decimal_n
190
+ if mean.quantize(mean_quantum, rounding=ROUND_HALF_UP) != reported_mean:
191
+ continue
192
+ mean_reachable = True
193
+ variance_numerator = n * total_sq - total * total
194
+ variance_denominator = (
195
+ n * (n - 1)
196
+ if oracle["sd_convention"] == "sample"
197
+ else n * n
198
+ )
199
+ sd = (
200
+ Decimal(variance_numerator) / Decimal(variance_denominator)
201
+ ).sqrt()
202
+ if sd.quantize(sd_quantum, rounding=ROUND_HALF_UP) == reported_sd:
203
+ return True, True
204
+ return mean_reachable, False
205
+
206
+
207
+ def integer_scale_mean_sd_consistent(oracle: dict) -> bool:
208
+ """Compatibility wrapper returning joint mean/SD reachability only."""
209
+ return integer_scale_mean_sd_reachability(oracle)[1]
210
+
211
+
212
+ def canonical_recompute_oracle_anchor(oracle: dict) -> str:
213
+ """Bind every oracle input to one unambiguous manuscript anchor."""
214
+ return (
215
+ "the reported secondary-item values were "
216
+ f"N={oracle['n']}; M={oracle['reported_mean']}; "
217
+ f"{oracle['sd_convention']} SD={oracle['reported_sd']}; "
218
+ f"integer scale={oracle['scale_min']}-{oracle['scale_max']}"
219
+ )
220
+
221
+
222
+ def check_recompute_oracle(path: Path, row: dict, errors: list[str]) -> None:
223
+ rid = row.get("defect_id", "<missing id>")
224
+ oracle = row.get("recompute_oracle")
225
+ try:
226
+ mean_reachable, joint_reachable = integer_scale_mean_sd_reachability(
227
+ oracle
228
+ )
229
+ except (ValueError, ArithmeticError) as exc:
230
+ errors.append(f"inv8 {path.name} {rid}: invalid recompute_oracle ({exc})")
231
+ return
232
+ # A defect cannot make a reachable replacement self-validating by changing
233
+ # the expectation beside it. GRIMMER rows in this held-out manifest are,
234
+ # by definition, planted inconsistencies.
235
+ if oracle["expected_consistent"] is not False:
236
+ errors.append(
237
+ f"inv8 {path.name} {rid}: a grimmer defect must set "
238
+ "expected_consistent=false"
239
+ )
240
+ if not mean_reachable:
241
+ errors.append(
242
+ f"inv8 {path.name} {rid}: GRIMMER prerequisite mean is unreachable"
243
+ )
244
+ if joint_reachable:
245
+ errors.append(
246
+ f"inv8 {path.name} {rid}: planted grimmer values are reachable"
247
+ )
248
+ expected_anchor = canonical_recompute_oracle_anchor(oracle)
249
+ if row.get("anchor_quote") != expected_anchor:
250
+ errors.append(
251
+ f"inv8 {path.name} {rid}: oracle anchor must exactly equal "
252
+ f"{expected_anchor!r}"
253
+ )
254
+
255
+
256
+ def check_manifest(path: Path, errors: list[str]) -> None:
257
+ try:
258
+ data = json.loads(path.read_text(encoding="utf-8"))
259
+ except (OSError, json.JSONDecodeError) as exc:
260
+ errors.append(f"inv1 {path.name}: unreadable/invalid JSON ({exc})")
261
+ return
262
+
263
+ missing = REQUIRED_TOP - data.keys()
264
+ if missing:
265
+ errors.append(f"inv1 {path.name}: missing top-level keys {sorted(missing)}")
266
+ return
267
+ if data["fixture_version"] != EXPECTED_FIXTURE_VERSION:
268
+ errors.append(
269
+ f"inv1 {path.name}: fixture_version={data['fixture_version']!r}, "
270
+ f"expected {EXPECTED_FIXTURE_VERSION!r}"
271
+ )
272
+
273
+ ms_path = ROOT / data["manuscript"]
274
+ if not ms_path.is_file():
275
+ errors.append(f"inv1 {path.name}: manuscript not found: {data['manuscript']}")
276
+ return
277
+ if ms_path.resolve() == CLEAN_CONTROL.resolve():
278
+ errors.append(f"inv5 {path.name}: manifest points at the clean control")
279
+ return
280
+ text = ms_path.read_text(encoding="utf-8")
281
+
282
+ defects = data["defects"]
283
+ if data["defect_count"] != len(defects):
284
+ errors.append(
285
+ f"inv2 {path.name}: defect_count={data['defect_count']} but "
286
+ f"{len(defects)} defect rows"
287
+ )
288
+
289
+ seen_ids: set[str] = set()
290
+ for row in defects:
291
+ rid = row.get("defect_id", "<missing id>")
292
+ missing_fields = REQUIRED_DEFECT - row.keys()
293
+ if missing_fields:
294
+ errors.append(f"inv3 {path.name} {rid}: missing {sorted(missing_fields)}")
295
+ continue
296
+ if rid in seen_ids:
297
+ errors.append(f"inv3 {path.name} {rid}: duplicate defect_id")
298
+ seen_ids.add(rid)
299
+ if row["class"] not in CLASSES:
300
+ errors.append(f"inv3 {path.name} {rid}: unknown class {row['class']!r}")
301
+ kind = row.get("statistical_kind")
302
+ if row["class"] == "statistical":
303
+ if kind not in STATISTICAL_KINDS:
304
+ errors.append(
305
+ f"inv7 {path.name} {rid}: statistical_kind must be one of "
306
+ f"{sorted(STATISTICAL_KINDS)}, got {kind!r}"
307
+ )
308
+ if kind == "grimmer":
309
+ check_recompute_oracle(path, row, errors)
310
+ elif "recompute_oracle" in row:
311
+ errors.append(
312
+ f"inv8 {path.name} {rid}: only grimmer rows may carry "
313
+ "recompute_oracle"
314
+ )
315
+ elif "statistical_kind" in row:
316
+ errors.append(
317
+ f"inv7 {path.name} {rid}: non-statistical row must not carry "
318
+ "statistical_kind"
319
+ )
320
+ elif "recompute_oracle" in row:
321
+ errors.append(
322
+ f"inv8 {path.name} {rid}: non-GRIMMER row must not carry "
323
+ "recompute_oracle"
324
+ )
325
+ if row["expected_severity"] not in SEVERITIES:
326
+ errors.append(
327
+ f"inv3 {path.name} {rid}: unknown severity "
328
+ f"{row['expected_severity']!r}"
329
+ )
330
+ if row["expected_detector"] not in DETECTORS:
331
+ errors.append(
332
+ f"inv3 {path.name} {rid}: unknown detector "
333
+ f"{row['expected_detector']!r}"
334
+ )
335
+ anchor = row["anchor_quote"]
336
+ n_words = len(anchor.split())
337
+ if not 8 <= n_words <= 25:
338
+ errors.append(
339
+ f"inv4 {path.name} {rid}: anchor_quote is {n_words} words "
340
+ f"(bound: 8-25)"
341
+ )
342
+ occurrences = text.count(anchor)
343
+ if occurrences != 1:
344
+ errors.append(
345
+ f"inv4 {path.name} {rid}: anchor_quote occurs {occurrences}x "
346
+ f"in {data['manuscript']} (must be exactly 1)"
347
+ )
348
+
349
+
350
+ def main() -> int:
351
+ errors: list[str] = []
352
+ manifest_paths = sorted(MANIFESTS.glob("*.defects.json"))
353
+ if not manifest_paths:
354
+ errors.append(f"inv1: no manifests found under {MANIFESTS}")
355
+ seen_fixture_ids: list[str] = []
356
+ manifested_manuscripts: set[str] = set()
357
+ for path in manifest_paths:
358
+ check_manifest(path, errors)
359
+ try:
360
+ data = json.loads(path.read_text(encoding="utf-8"))
361
+ seen_fixture_ids.append(data.get("fixture_id", ""))
362
+ manifested_manuscripts.add(data.get("manuscript", ""))
363
+ except (OSError, json.JSONDecodeError):
364
+ pass # already reported by check_manifest
365
+ for path in manifest_paths:
366
+ try:
367
+ data = json.loads(path.read_text(encoding="utf-8"))
368
+ except (OSError, json.JSONDecodeError):
369
+ continue # already reported
370
+ fid = data.get("fixture_id", "")
371
+ expected_ids = EXPECTED_DEFECT_IDS.get(fid)
372
+ if expected_ids is None:
373
+ continue # unknown fixture_id handled by the set-equality check
374
+ actual_ids = {
375
+ row.get("defect_id", "") for row in data.get("defects", [])
376
+ }
377
+ if actual_ids != expected_ids:
378
+ errors.append(
379
+ f"inv6 {path.name}: defect ids {sorted(actual_ids)} != expected "
380
+ f"{sorted(expected_ids)} — deleting/renaming a defect must be a "
381
+ f"deliberate EXPECTED_DEFECT_IDS update, never a silent shrink"
382
+ )
383
+ actual_kinds = {
384
+ row.get("defect_id", ""): row.get("statistical_kind")
385
+ for row in data.get("defects", [])
386
+ if row.get("class") == "statistical"
387
+ }
388
+ expected_kinds = EXPECTED_STATISTICAL_KINDS.get(fid, {})
389
+ if actual_kinds != expected_kinds:
390
+ errors.append(
391
+ f"inv7 {path.name}: statistical projection {actual_kinds} != "
392
+ f"expected {expected_kinds} — recompute and reporting-only "
393
+ "denominators are versioned inventory"
394
+ )
395
+ if len(seen_fixture_ids) != len(set(seen_fixture_ids)):
396
+ errors.append(
397
+ "inv6: duplicate fixture_id across manifests — an extra manifest "
398
+ "reusing an expected id would corrupt or double-count the inventory"
399
+ )
400
+ if set(seen_fixture_ids) != EXPECTED_FIXTURES:
401
+ errors.append(
402
+ f"inv6: manifest fixture_ids {sorted(set(seen_fixture_ids))} != expected "
403
+ f"{sorted(EXPECTED_FIXTURES)} — a missing manifest silently shrinks "
404
+ f"the acceptance set; update EXPECTED_FIXTURES deliberately instead"
405
+ )
406
+ for ms in sorted((ROOT / "manuscripts").glob("*_defective.md")):
407
+ rel = f"manuscripts/{ms.name}"
408
+ if rel not in manifested_manuscripts:
409
+ errors.append(f"inv6: defective manuscript {rel} has no manifest")
410
+ if not CLEAN_CONTROL.is_file():
411
+ errors.append(f"inv5: clean control missing: {CLEAN_CONTROL}")
412
+
413
+ if errors:
414
+ for e in errors:
415
+ print(f"FAIL {e}", file=sys.stderr)
416
+ return 1
417
+ print(
418
+ f"PASSED: check_seeded_defect_fixtures — {len(manifest_paths)} manifests, "
419
+ f"clean control present"
420
+ )
421
+ return 0
422
+
423
+
424
+ if __name__ == "__main__":
425
+ sys.exit(main())