{"version": "2.1.0", "$schema": "https://json.schemastore.org/sarif-2.1.0.json", "runs": [{"tool": {"driver": {"name": "Repobility", "informationUri": "https://repobility.com", "rules": [{"id": "scanner-015b164238e7994c", "name": "Possibly dead Python function: hook", "shortDescription": {"text": "Possibly dead Python function: hook"}, "fullDescription": {"text": "No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler."}, "properties": {"scanner": "scanner-primary", "layer": "software", "severity": "low", "confidence": 1.0}}, {"id": "scanner-3378fa95361b074d", "name": "Possibly dead Python function: repl", "shortDescription": {"text": "Possibly dead Python function: repl"}, "fullDescription": {"text": "No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler."}, "properties": {"scanner": "scanner-primary", "layer": "software", "severity": "low", "confidence": 1.0}}, {"id": "scanner-1c9031852fb6661e", "name": "Possibly dead Python function: protect", "shortDescription": {"text": "Possibly dead Python function: protect"}, "fullDescription": {"text": "No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler."}, "properties": {"scanner": "scanner-primary", "layer": "software", "severity": "low", "confidence": 1.0}}, {"id": "scanner-c0372f67322c8f67", "name": "Possibly dead Python function: load_all_activations", "shortDescription": {"text": "Possibly dead Python function: load_all_activations"}, "fullDescription": {"text": "No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler."}, "properties": {"scanner": "scanner-primary", "layer": "software", "severity": "low", "confidence": 1.0}}, {"id": "scanner-0d8d53ff55bb760a", "name": "Possibly dead Python function: load_summary", "shortDescription": {"text": "Possibly dead Python function: load_summary"}, "fullDescription": {"text": "No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler."}, "properties": {"scanner": "scanner-primary", "layer": "software", "severity": "low", "confidence": 1.0}}, {"id": "scanner-e20b364ff405e226", "name": "Possibly dead Python function: summary_table", "shortDescription": {"text": "Possibly dead Python function: summary_table"}, "fullDescription": {"text": "No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler."}, "properties": {"scanner": "scanner-primary", "layer": "software", "severity": "low", "confidence": 1.0}}, {"id": "scanner-a325462cfe8aaac6", "name": "Possibly dead Python function: load_pca_summary", "shortDescription": {"text": "Possibly dead Python function: load_pca_summary"}, "fullDescription": {"text": "No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler."}, "properties": {"scanner": "scanner-primary", "layer": "software", "severity": "low", "confidence": 1.0}}, {"id": "scanner-02a7d52ddcd5e43e", "name": "Possibly dead Python function: load_pca_components", "shortDescription": {"text": "Possibly dead Python function: load_pca_components"}, "fullDescription": {"text": "No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler."}, "properties": {"scanner": "scanner-primary", "layer": "software", "severity": "low", "confidence": 1.0}}, {"id": "scanner-9710c8d059e53154", "name": "No frontend routes/components detected", "shortDescription": {"text": "No frontend routes/components detected"}, "fullDescription": {"text": "No React/Vue/Next routes were found. This is fine for backend-only repos."}, "properties": {"scanner": "scanner-primary", "layer": "frontend", "severity": "info", "confidence": 1.0}}, {"id": "scanner-9d132a63259e108b", "name": "Insecure pattern 'eval_used' in tier1_geometry_nulls.py:169", "shortDescription": {"text": "Insecure pattern 'eval_used' in tier1_geometry_nulls.py:169"}, "fullDescription": {"text": "Found a known-risky pattern (eval_used). Review and replace if possible."}, "properties": {"scanner": "scanner-primary", "layer": "security", "severity": "high", "confidence": 1.0}}, {"id": "scanner-6372cebde0220094", "name": "No auth library detected", "shortDescription": {"text": "No auth library detected"}, "fullDescription": {"text": "The scanner did not find any standard auth library (JWT, OAuth, NextAuth, Auth0, etc.). The repo has auth/admin/session surface indicators, so auth may live in custom code, in a separate service, or be missing."}, "properties": {"scanner": "scanner-primary", "layer": "security", "severity": "medium", "confidence": 1.0}}, {"id": "scanner-4601e3ad3bb28677", "name": "No CI/CD pipelines detected", "shortDescription": {"text": "No CI/CD pipelines detected"}, "fullDescription": {"text": "No GitHub Actions, GitLab CI, or CircleCI configs found. Without CI you can't gate deploys on tests/lints."}, "properties": {"scanner": "scanner-primary", "layer": "cicd", "severity": "medium", "confidence": 1.0}}, {"id": "scanner-141b30a41e03817b", "name": "No license file detected", "shortDescription": {"text": "No license file detected"}, "fullDescription": {"text": "No LICENSE/COPYING/NOTICE file was found. Generated repositories often omit licensing, which blocks reuse and automated intake."}, "properties": {"scanner": "scanner-primary", "layer": "quality", "severity": "low", "confidence": 1.0}}, {"id": "scanner-3ab5d313dda8e5f9", "name": "Debug logging residue appears in source files", "shortDescription": {"text": "Debug logging residue appears in source files"}, "fullDescription": {"text": "Found 180 console/debugger/print-style debug statements in non-test source. This is a common fast-generation residue before production cleanup."}, "properties": {"scanner": "scanner-primary", "layer": "quality", "severity": "low", "confidence": 1.0}}, {"id": "scanner-2d0c7b7ab8f8aacf", "name": "Critical user flow still appears backed by mock or placeholder data", "shortDescription": {"text": "Critical user flow still appears backed by mock or placeholder data"}, "fullDescription": {"text": "A payment/auth/admin/order/billing-style flow contains mock, fake, TODO, dummy, or placeholder markers in runtime source. In the Fable corpus this is a high-leverage completeness smell: the app can look finished while the money, identity, or tenant flow is still scaffolded."}, "properties": {"scanner": "scanner-primary", "layer": "quality", "severity": "medium", "confidence": 1.0}}, {"id": "scanner-b9088664ace7f748", "name": "Composite production-readiness gap", "shortDescription": {"text": "Composite production-readiness gap"}, "fullDescription": {"text": "Multiple low-cost hardening controls are missing together: license, ci. Opus verification showed these co-occurring gaps are a better readiness signal than reading each flag in isolation."}, "properties": {"scanner": "scanner-primary", "layer": "quality", "severity": "low", "confidence": 1.0}}, {"id": "scanner-749d4bc1bd66df5f", "name": "Agent instructions exist but release-hardening basics are missing", "shortDescription": {"text": "Agent instructions exist but release-hardening basics are missing"}, "fullDescription": {"text": "AI-coder instruction files were found, but the repo is missing license, ci. Treat this as a contract gap: the agent is guided, but the generated output is not yet guarded by the controls that make it repeatable."}, "properties": {"scanner": "scanner-primary", "layer": "quality", "severity": "medium", "confidence": 1.0}}, {"id": "scanner-ea8f3013f588db25", "name": "Shallow git history limits provenance confidence", "shortDescription": {"text": "Shallow git history limits provenance confidence"}, "fullDescription": {"text": "The repository is a shallow clone. Origin/evolution analysis cannot distinguish fresh generation, imported legacy code, or long-lived human code with high confidence."}, "properties": {"scanner": "scanner-primary", "layer": "quality", "severity": "low", "confidence": 1.0}}, {"id": "scanner-8424db9c75e04ba4", "name": "Very short observed git history", "shortDescription": {"text": "Very short observed git history"}, "fullDescription": {"text": "The repo has multiple source files but two or fewer visible commits. This is not a failure by itself, but it lowers confidence in evolution-based diagnosis."}, "properties": {"scanner": "scanner-primary", "layer": "quality", "severity": "info", "confidence": 1.0}}, {"id": "scanner-ecb0d2c55ed6875d", "name": "Agent authority lacks a verifier contract: .claude/settings.local.json", "shortDescription": {"text": "Agent authority lacks a verifier contract: .claude/settings.local.json"}, "fullDescription": {"text": "This agent instruction grants code or shell authority but does not state the verification gate that decides promotion. The recurring safe pattern is: LLM proposes; deterministic tests/build/security checks verify; only verified code promotes."}, "properties": {"scanner": "scanner-primary", "layer": "quality", "severity": "medium", "confidence": 1.0}}, {"id": "scanner-a3a7e4b89cf1142c", "name": "Commented-code block (5 lines) in 12_cbs_ablation.py:270", "shortDescription": {"text": "Commented-code block (5 lines) in 12_cbs_ablation.py:270"}, "fullDescription": {"text": "A long run of `//` or `#` lines usually means abandoned code. Delete or move to git history. Keeps the canvas + dead-code detection honest."}, "properties": {"scanner": "scanner-primary", "layer": "quality", "severity": "info", "confidence": 1.0}}, {"id": "scanner-83a1d4c9e742d86e", "name": "Commented-code block (5 lines) in tier1_geometry_nulls.py:102", "shortDescription": {"text": "Commented-code block (5 lines) in tier1_geometry_nulls.py:102"}, "fullDescription": {"text": "A long run of `//` or `#` lines usually means abandoned code. Delete or move to git history. Keeps the canvas + dead-code detection honest."}, "properties": {"scanner": "scanner-primary", "layer": "quality", "severity": "info", "confidence": 1.0}}, {"id": "scanner-45682e77be344347", "name": "Commented-code block (7 lines) in 07_evaluate_steering.py:90", "shortDescription": {"text": "Commented-code block (7 lines) in 07_evaluate_steering.py:90"}, "fullDescription": {"text": "A long run of `//` or `#` lines usually means abandoned code. Delete or move to git history. Keeps the canvas + dead-code detection honest."}, "properties": {"scanner": "scanner-primary", "layer": "quality", "severity": "info", "confidence": 1.0}}, {"id": "scanner-240daf3407513c2c", "name": "Legacy-named symbol `occurrence_aware_v1` in tests/test_row_provenance.py:24", "shortDescription": {"text": "Legacy-named symbol `occurrence_aware_v1` in tests/test_row_provenance.py:24"}, "fullDescription": {"text": "Names with suffixes like `_old`, `_v1`, `_deprecated` usually indicate replaced-but-not-removed code (typical AI-coder leftover). Confirm and delete, or rename if it's the active version."}, "properties": {"scanner": "scanner-primary", "layer": "quality", "severity": "low", "confidence": 1.0}}, {"id": "scanner-aab9b964e8f476dd", "name": "Legacy-named symbol `occurrence_aware_v1` in tests/test_steering_holdout.py:29", "shortDescription": {"text": "Legacy-named symbol `occurrence_aware_v1` in tests/test_steering_holdout.py:29"}, "fullDescription": {"text": "Names with suffixes like `_old`, `_v1`, `_deprecated` usually indicate replaced-but-not-removed code (typical AI-coder leftover). Confirm and delete, or rename if it's the active version."}, "properties": {"scanner": "scanner-primary", "layer": "quality", "severity": "low", "confidence": 1.0}}, {"id": "scanner-3a71fff1d5cafca3", "name": "Legacy-named symbol `n_legacy` in src/steered_inference.py:231", "shortDescription": {"text": "Legacy-named symbol `n_legacy` in src/steered_inference.py:231"}, "fullDescription": {"text": "Names with suffixes like `_old`, `_v1`, `_deprecated` usually indicate replaced-but-not-removed code (typical AI-coder leftover). Confirm and delete, or rename if it's the active version."}, "properties": {"scanner": "scanner-primary", "layer": "quality", "severity": "low", "confidence": 1.0}}, {"id": "scanner-e324e935ade073f9", "name": "Legacy-named symbol `occurrence_aware_v1` in src/activation_extraction.py:100", "shortDescription": {"text": "Legacy-named symbol `occurrence_aware_v1` in src/activation_extraction.py:100"}, "fullDescription": {"text": "Names with suffixes like `_old`, `_v1`, `_deprecated` usually indicate replaced-but-not-removed code (typical AI-coder leftover). Confirm and delete, or rename if it's the active version."}, "properties": {"scanner": "scanner-primary", "layer": "quality", "severity": "low", "confidence": 1.0}}, {"id": "scanner-c6c7ad17bb70f195", "name": "Commented-code block (5 lines) in src/activation_extraction.py:90", "shortDescription": {"text": "Commented-code block (5 lines) in src/activation_extraction.py:90"}, "fullDescription": {"text": "A long run of `//` or `#` lines usually means abandoned code. Delete or move to git history. Keeps the canvas + dead-code detection honest."}, "properties": {"scanner": "scanner-primary", "layer": "quality", "severity": "info", "confidence": 1.0}}, {"id": "scanner-840bef424f204532", "name": "Commented-code block (6 lines) in src/model_adapters.py:207", "shortDescription": {"text": "Commented-code block (6 lines) in src/model_adapters.py:207"}, "fullDescription": {"text": "A long run of `//` or `#` lines usually means abandoned code. Delete or move to git history. Keeps the canvas + dead-code detection honest."}, "properties": {"scanner": "scanner-primary", "layer": "quality", "severity": "info", "confidence": 1.0}}, {"id": "scanner-15c699cb535b23f0", "name": "Commented-code block (5 lines) in src/chain_gen.py:43", "shortDescription": {"text": "Commented-code block (5 lines) in src/chain_gen.py:43"}, "fullDescription": {"text": "A long run of `//` or `#` lines usually means abandoned code. Delete or move to git history. Keeps the canvas + dead-code detection honest."}, "properties": {"scanner": "scanner-primary", "layer": "quality", "severity": "info", "confidence": 1.0}}, {"id": "scanner-d19a080e029528b1", "name": "Commented-code block (6 lines) in src/intrinsic_dim.py:99", "shortDescription": {"text": "Commented-code block (6 lines) in src/intrinsic_dim.py:99"}, "fullDescription": {"text": "A long run of `//` or `#` lines usually means abandoned code. Delete or move to git history. Keeps the canvas + dead-code detection honest."}, "properties": {"scanner": "scanner-primary", "layer": "quality", "severity": "info", "confidence": 1.0}}, {"id": "scanner-7df1dd3fededbc73", "name": "Commented-code block (5 lines) in src/curvature.py:228", "shortDescription": {"text": "Commented-code block (5 lines) in src/curvature.py:228"}, "fullDescription": {"text": "A long run of `//` or `#` lines usually means abandoned code. Delete or move to git history. Keeps the canvas + dead-code detection honest."}, "properties": {"scanner": "scanner-primary", "layer": "quality", "severity": "info", "confidence": 1.0}}, {"id": "scanner-4f4c79a6fd82e043", "name": "Network/subprocess call without timeout or try/except \u2014 src/cbs/annotation.py:189", "shortDescription": {"text": "Network/subprocess call without timeout or try/except \u2014 src/cbs/annotation.py:189"}, "fullDescription": {"text": "`requests.post(...)` here lacks both a `timeout=` arg and an enclosing try/except. This is exactly the class of bug that took down our git-clone earlier (HTTP/2 stream cancel surfaced as a fatal). Add a `timeout=` and wrap in try/except, or use a wrapper that retries."}, "properties": {"scanner": "scanner-primary", "layer": "quality", "severity": "medium", "confidence": 1.0}}, {"id": "scanner-c260a326771ed34c", "name": "Commented-code block (6 lines) in src/cbs/comparison.py:95", "shortDescription": {"text": "Commented-code block (6 lines) in src/cbs/comparison.py:95"}, "fullDescription": {"text": "A long run of `//` or `#` lines usually means abandoned code. Delete or move to git history. Keeps the canvas + dead-code detection honest."}, "properties": {"scanner": "scanner-primary", "layer": "quality", "severity": "info", "confidence": 1.0}}, {"id": "scanner-1b5a76780c3df9aa", "name": "1 env vars used in code but missing from .env.example", "shortDescription": {"text": "1 env vars used in code but missing from .env.example"}, "fullDescription": {"text": "Drift between code and config docs. The first few: `OPENAI_API_KEY`. Add them (with a placeholder/comment) to .env.example so onboarding doesn't break."}, "properties": {"scanner": "scanner-primary", "layer": "quality", "severity": "info", "confidence": 1.0}}, {"id": "scanner-2c04133e54348533", "name": "Near-duplicate function bodies in 2 places", "shortDescription": {"text": "Near-duplicate function bodies in 2 places"}, "fullDescription": {"text": "Functions with the same first-5-line body hash:\n06b_steering_composition.py:load_activations, predict_saturation.py:load_activations\n\nThis is *the* AI-coder failure mode (4\u00d7 more duplication in vibe-coded repos \u2014 see https://jw.hn/ai-code-hygiene). Consolidate or document why they're separate."}, "properties": {"scanner": "scanner-primary", "layer": "quality", "severity": "low", "confidence": 1.0}}, {"id": "scanner-33a6b62e30ce7ab4", "name": "Near-duplicate function bodies in 6 places", "shortDescription": {"text": "Near-duplicate function bodies in 6 places"}, "fullDescription": {"text": "Functions with the same first-5-line body hash:\n11_trajectory_analysis.py:setup_logging, 12_cbs_ablation.py:setup_logging, 09_cbs_geometry.py:setup_logging, 08_annotate_cbs.py:setup_logging\n\nThis is *the* AI-coder failure mode (4\u00d7 more duplication in vibe-coded repos \u2014 see https://jw.hn/ai-code-hygiene). Consolidate or document why they're separate."}, "properties": {"scanner": "scanner-primary", "layer": "quality", "severity": "low", "confidence": 1.0}}, {"id": "scanner-be46ea126aa5d8dc", "name": "Near-duplicate function bodies in 3 places", "shortDescription": {"text": "Near-duplicate function bodies in 3 places"}, "fullDescription": {"text": "Functions with the same first-5-line body hash:\n02b_generate_baseline_chains.py:generate_baseline_chains, src/chain_gen.py:generate_chains, src/chain_gen.py:generate_chains_batched\n\nThis is *the* AI-coder failure mode (4\u00d7 more duplication in vibe-coded repos \u2014 see https://jw.hn/ai-code-hygiene). Consolidate or document why they're separate."}, "properties": {"scanner": "scanner-primary", "layer": "quality", "severity": "low", "confidence": 1.0}}, {"id": "scanner-49c98f7cedd9c977", "name": "Near-duplicate function bodies in 4 places", "shortDescription": {"text": "Near-duplicate function bodies in 4 places"}, "fullDescription": {"text": "Functions with the same first-5-line body hash:\ntier1_geometry_nulls.py:f, tier1_geometry_nulls.py:f, tier1_geometry_nulls.py:f, tier1_geometry_nulls.py:f\n\nThis is *the* AI-coder failure mode (4\u00d7 more duplication in vibe-coded repos \u2014 see https://jw.hn/ai-code-hygiene). Consolidate or document why they're separate."}, "properties": {"scanner": "scanner-primary", "layer": "quality", "severity": "low", "confidence": 1.0}}]}}, "automationDetails": {"id": "repobility/21529"}, "properties": {"repository": "tonysu17/reasoning-on-a-manifold", "repoUrl": "https://github.com/tonysu17/reasoning-on-a-manifold", "branch": "main"}, "results": [{"ruleId": "scanner-015b164238e7994c", "level": "note", "message": {"text": "Possibly dead Python function: hook"}, "properties": {"repobilityId": "0fda80138dc2ef67", "scanner": "scanner-primary", "fingerprint": "015b164238e7994c", "layer": "software", "severity": "low", "confidence": 1.0, "tags": ["dead-code"]}, "locations": [{"physicalLocation": {"artifactLocation": {"uri": "07b_activation_patching.py:81"}, "region": {"startLine": 1}}}]}, {"ruleId": "scanner-3378fa95361b074d", "level": "note", "message": {"text": "Possibly dead Python function: repl"}, "properties": {"repobilityId": "6f5d3779bbb8be8b", "scanner": "scanner-primary", "fingerprint": "3378fa95361b074d", "layer": "software", "severity": "low", "confidence": 1.0, "tags": ["dead-code"]}, "locations": [{"physicalLocation": {"artifactLocation": {"uri": "render_html.py:34"}, "region": {"startLine": 1}}}]}, {"ruleId": "scanner-1c9031852fb6661e", "level": "note", "message": {"text": "Possibly dead Python function: protect"}, "properties": {"repobilityId": "b4b4064cc25018d6", "scanner": "scanner-primary", "fingerprint": "1c9031852fb6661e", "layer": "software", "severity": "low", "confidence": 1.0, "tags": ["dead-code"]}, "locations": [{"physicalLocation": {"artifactLocation": {"uri": "render_html.py:46"}, "region": {"startLine": 1}}}]}, {"ruleId": "scanner-c0372f67322c8f67", "level": "note", "message": {"text": "Possibly dead Python function: load_all_activations"}, "properties": {"repobilityId": "af5fd00e0095f744", "scanner": "scanner-primary", "fingerprint": "c0372f67322c8f67", "layer": "software", "severity": "low", "confidence": 1.0, "tags": ["dead-code"]}, "locations": [{"physicalLocation": {"artifactLocation": {"uri": "src/activation_extraction.py:521"}, "region": {"startLine": 1}}}]}, {"ruleId": "scanner-0d8d53ff55bb760a", "level": "note", "message": {"text": "Possibly dead Python function: load_summary"}, "properties": {"repobilityId": "ec84c5f6cf02ef8c", "scanner": "scanner-primary", "fingerprint": "0d8d53ff55bb760a", "layer": "software", "severity": "low", "confidence": 1.0, "tags": ["dead-code"]}, "locations": [{"physicalLocation": {"artifactLocation": {"uri": "src/evaluation.py:197"}, "region": {"startLine": 1}}}]}, {"ruleId": "scanner-e20b364ff405e226", "level": "note", "message": {"text": "Possibly dead Python function: summary_table"}, "properties": {"repobilityId": "4d8e5507c2daa487", "scanner": "scanner-primary", "fingerprint": "e20b364ff405e226", "layer": "software", "severity": "low", "confidence": 1.0, "tags": ["dead-code"]}, "locations": [{"physicalLocation": {"artifactLocation": {"uri": "src/curvature.py:376"}, "region": {"startLine": 1}}}]}, {"ruleId": "scanner-a325462cfe8aaac6", "level": "note", "message": {"text": "Possibly dead Python function: load_pca_summary"}, "properties": {"repobilityId": "58127450e38bbb09", "scanner": "scanner-primary", "fingerprint": "a325462cfe8aaac6", "layer": "software", "severity": "low", "confidence": 1.0, "tags": ["dead-code"]}, "locations": [{"physicalLocation": {"artifactLocation": {"uri": "src/pca.py:177"}, "region": {"startLine": 1}}}]}, {"ruleId": "scanner-02a7d52ddcd5e43e", "level": "note", "message": {"text": "Possibly dead Python function: load_pca_components"}, "properties": {"repobilityId": "5d743b68d3683416", "scanner": "scanner-primary", "fingerprint": "02a7d52ddcd5e43e", "layer": "software", "severity": "low", "confidence": 1.0, "tags": ["dead-code"]}, "locations": [{"physicalLocation": {"artifactLocation": {"uri": "src/pca.py:183"}, "region": {"startLine": 1}}}]}, {"ruleId": "scanner-9710c8d059e53154", "level": "none", "message": {"text": "No frontend routes/components detected"}, "properties": {"repobilityId": "44ca61485762e494", "scanner": "scanner-primary", "fingerprint": "9710c8d059e53154", "layer": "frontend", "severity": "info", "confidence": 1.0, "tags": ["coverage"]}}, {"ruleId": "scanner-9d132a63259e108b", "level": "error", "message": {"text": "Insecure pattern 'eval_used' in tier1_geometry_nulls.py:169"}, "properties": {"repobilityId": "53ccde59520383c2", "scanner": "scanner-primary", "fingerprint": "9d132a63259e108b", "layer": "security", "severity": "high", "confidence": 1.0, "tags": ["owasp", "eval_used"]}, "locations": [{"physicalLocation": {"artifactLocation": {"uri": "tier1_geometry_nulls.py"}, "region": {"startLine": 169}}}]}, {"ruleId": "scanner-6372cebde0220094", "level": "warning", "message": {"text": "No auth library detected"}, "properties": {"repobilityId": "a5b6035a5bbf8054", "scanner": "scanner-primary", "fingerprint": "6372cebde0220094", "layer": "security", "severity": 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