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ctdegroot/aquakin

https://github.com/ctdegroot/aquakin · scanned 2026-06-17 01:52 UTC (1 month, 1 week ago)

91 raw signals (0 security + 91 graph)

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UNIFIED Repobility · multi-layer engine · AI coders

Complete repo analysis

Last scanned 1 month, 1 week ago · v2 · last Δ -0.9 (diff) · 74 actionable findings from 1 signal source. 17 repeated signals grouped for readability. Security checks, system graph analysis, and verified AI-agent feedback are merged into one review queue.

JSON
Combined
75.8
/100
Security checks
76
0 findings
System graph
76
55.6% cov · 74 findings
Critical
0
click to filter
Agents
10
0 votes
Crowd
0
reported
Severity distribution — click a segment to filter
Active filters: excluding tests × Reset all
Severity: Critical 0 High 2 Medium 3 Low 36 9-Layer: Software Security Quality Integrity Frontend Hardware Data Network Cicd Source: Security checks 0 System graph 74 Crowd 0 Layer: Software 24 Security 3 Cicd 1 Quality 46
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Scan summary Repository scanned at 75.8/100 with 55.6% coverage. It contains 1920 nodes across 0 cross-layer flows, written primarily in mixed languages. Engine surfaced 91 findings — concentrated in quality (61), software (24), security (3). Risk profile is high: 0 critical, 2 high, 3 medium. Recommended next step: open the quality layer findings first — that's where the highest-impact wins live.

Showing 40 of 74 actionable findings. 91 raw detector signals were grouped into reader-sized issues. Click TP / FP to vote on a finding's accuracy — votes adjust the confidence weighting and improve detection across the platform.

high System graph security security conf 1.00 Insecure pattern 'eval_used' in CLAUDE.md:378
Found a known-risky pattern (eval_used). Review and replace if possible.
CLAUDE.md:378 Eval used
high System graph security security conf 1.00 Insecure pattern 'eval_used' in README.md:23
Found a known-risky pattern (eval_used). Review and replace if possible.
README.md:23 Eval used
medium System graph quality Agent instructions conf 1.00 Agent authority lacks a verifier contract: CLAUDE.md
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.
CLAUDE.md VerificationClaude instruction
medium System graph quality Placeholder conf 1.00 Critical user flow still appears backed by mock or placeholder data
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.
Mock dataCritical flowGenerated repo pattern
medium System graph security Coverage conf 1.00 No auth library detected
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.
auth
low System graph quality Debug conf 1.00 Debug logging residue appears in source files
Found 174 console/debugger/print-style debug statements in non-test source. This is a common fast-generation residue before production cleanup.
CleanupRepo hardeningGenerated repo pattern
low System graph cicd CI/CD security conf 1.00 3 occurrences GitHub Action is tag-pinned rather than SHA-pinned
actions/setup-python@v5 can move without a code change in this repo. Pin third-party actions to a reviewed 40-character commit SHA.
lines 49, 96, 154
.github/workflows/ci.yml:49, 96, 154 (3 hits)
CI/CD securitySupply chainGithub actions
low System graph quality Integrity conf 1.00 Near-duplicate function bodies in 15 places
Functions with the same first-5-line body hash: aquakin/core/nodes.py:compile, aquakin/core/nodes.py:compile, aquakin/core/nodes.py:compile, aquakin/core/nodes.py:compile This is *the* AI-coder failure mode (4× more duplication in vibe-coded repos — see https://jw.hn/ai-code-hygiene). Consolidate …
duplicatesduplication
low System graph quality Integrity conf 1.00 Near-duplicate function bodies in 19 places
Functions with the same first-5-line body hash: aquakin/plant/primary_clarifier.py:compute_outputs, aquakin/plant/primary_clarifier.py:rhs, aquakin/plant/clarifier.py:compute_outputs, aquakin/plant/separators.py:compute_outputs This is *the* AI-coder failure mode (4× more duplication in vibe-coded…
duplicatesduplication
low System graph quality Integrity conf 1.00 14 occurrences Near-duplicate function bodies in 2 places
Functions with the same first-5-line body hash: aquakin/utils/units.py:parse_units, aquakin/utils/units.py:parse This is *the* AI-coder failure mode (4× more duplication in vibe-coded repos — see https://jw.hn/ai-code-hygiene). Consolidate or document why they're separate.
14 occurrences
repo-level (14 hits)
duplicatesduplication
low System graph quality Integrity conf 1.00 3 occurrences Near-duplicate function bodies in 3 places
Functions with the same first-5-line body hash: aquakin/plant/clarifier.py:input_ports, aquakin/plant/separators.py:input_ports, aquakin/plant/takacs.py:input_ports This is *the* AI-coder failure mode (4× more duplication in vibe-coded repos — see https://jw.hn/ai-code-hygiene). Consolidate or doc…
3 occurrences
repo-level (3 hits)
duplicatesduplication
low System graph quality Integrity conf 1.00 Near-duplicate function bodies in 5 places
Functions with the same first-5-line body hash: aquakin/core/nodes.py:condition_names, aquakin/core/nodes.py:condition_names, aquakin/core/nodes.py:condition_names, aquakin/core/nodes.py:condition_names This is *the* AI-coder failure mode (4× more duplication in vibe-coded repos — see https://jw.h…
duplicatesduplication
low System graph quality Integrity conf 1.00 Old/deprecated-named symbol `test_dgsm_mode_alias_is_deprecated` in tests/integration/test_sensitivity.py:414
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.
old markerDead code
low System graph quality Integrity conf 1.00 Old/deprecated-named symbol `test_predictive_band_eig_keep_is_deprecated` in tests/integration/test_calibrate.py:466
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.
old markerDead code
low System graph quality Integrity conf 1.00 Old/deprecated-named symbol `test_shape_matches_v2` in tests/integration/test_ozone_bromate.py:32
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.
old markerDead code
low System graph software Dead code conf 1.00 Possibly dead Python function: apply_directsulfate
No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler.
aquakin/networks/_make_khalil_variants.py:55
low System graph software Dead code conf 1.00 Possibly dead Python function: apply_halforder
No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler.
aquakin/networks/_make_khalil_variants.py:47
low System graph software Dead code conf 1.00 Possibly dead Python function: apply_srbsubstrate
No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler.
aquakin/networks/_make_khalil_variants.py:67
low System graph software Dead code conf 1.00 Possibly dead Python function: apply_stopatS0
No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler.
aquakin/networks/_make_khalil_variants.py:86
low System graph software Dead code conf 1.00 Possibly dead Python function: assume_full_rank
No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler.
aquakin/integrate/_simultaneous_corrector.py:138
low System graph software Dead code conf 1.00 Possibly dead Python function: aug_rhs
No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler.
aquakin/integrate/forward_sensitivity.py:190
low System graph software Dead code conf 1.00 Possibly dead Python function: body
No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler.
aquakin/core/ph_solver.py:371
low System graph software Dead code conf 1.00 Possibly dead Python function: body
No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler.
aquakin/integrate/discrete_adjoint.py:169
low System graph software Dead code conf 1.00 Possibly dead Python function: bromate_yield
No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler.
examples/dgsm_sensitivity_screen.py:45
low System graph software Dead code conf 1.00 Possibly dead Python function: do
No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler.
aquakin/integrate/discrete_adjoint.py:174
low System graph software Dead code conf 1.00 Possibly dead Python function: jitted_call
No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler.
scripts/benchmark_solve.py:65
low System graph software Dead code conf 1.00 Possibly dead Python function: loss_from_free
No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler.
aquakin/integrate/sensitivity.py:315
low System graph software Dead code conf 1.00 Possibly dead Python function: loss_jax
No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler.
examples/adjoint_speed_benchmark.py:97
low System graph software Dead code conf 1.00 Possibly dead Python function: loss_stable
No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler.
examples/adjoint_speed_benchmark.py:107
low System graph software Dead code conf 1.00 Possibly dead Python function: mass_flow
No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler.
aquakin/plant/streams.py:50
low System graph software Dead code conf 1.00 Possibly dead Python function: objective
No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler.
aquakin/integrate/calibrate.py:985
low System graph software Dead code conf 1.00 Possibly dead Python function: rhs_aug
No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler.
aquakin/integrate/discrete_adjoint.py:207
low System graph software Dead code conf 1.00 Possibly dead Python function: solve_bwd
No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler.
aquakin/integrate/discrete_adjoint.py:150
low System graph software Dead code conf 1.00 Possibly dead Python function: solve_fwd
No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler.
aquakin/integrate/discrete_adjoint.py:145
low System graph software Dead code conf 1.00 Possibly dead Python function: steady_state
No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler.
aquakin/integrate/biofilm.py:836
low System graph software Dead code conf 1.00 Possibly dead Python function: un_jitted_call
No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler.
scripts/benchmark_solve.py:56
low System graph software Dead code conf 1.00 Possibly dead Python function: with_Q
No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler.
aquakin/plant/streams.py:58
low System graph software Dead code conf 1.00 Possibly dead Python function: with_T
No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler.
aquakin/plant/streams.py:62
low System graph quality Complexity conf 1.00 Very large file: aquakin/integrate/calibrate.py (1304 lines)
Files with >800 lines often hide complexity hotspots and discourage tests.
low System graph quality Complexity conf 1.00 Very large file: aquakin/plant/plant.py (1961 lines)
Files with >800 lines often hide complexity hotspots and discourage tests.
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