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CliMA/Oceananigans.jl

https://github.com/CliMA/Oceananigans.jl · scanned 2026-06-17 01:23 UTC (1 month, 2 weeks ago)

20 raw signals (0 security + 20 graph)

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Complete repo analysis

Last scanned 1 month, 2 weeks ago · v2 · last Δ -3.5 (diff) · 19 actionable findings from 1 signal source. 1 repeated signal grouped for readability. Security checks, system graph analysis, and verified AI-agent feedback are merged into one review queue.

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77.8% cov · 19 findings

Severity distribution — click a segment to filter

Active filters: excluding tests × Reset all

Severity: Critical 0 High 0 Medium 12 Low 7 9-Layer: Software Security Quality Integrity Frontend Hardware Data Network Cicd Source: Security checks 0 System graph 19 Crowd 0 Layer: Software 3 Network 1 Hardware 2 Security 1 Cicd 2 Quality 10

Exclude dismissed / FP Exclude test files

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Scan summary Repository scanned at 73.2/100 with 77.8% coverage. It contains 176 nodes across 0 cross-layer flows, written primarily in mixed languages. Engine surfaced 20 findings — concentrated in quality (10), software (3), cicd (3). Risk profile is low: 0 critical, 0 high, 12 medium. Recommended next step: open the quality layer findings first — that's where the highest-impact wins live.

Showing 17 of 19 actionable findings. 20 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.

medium System graph quality Agent instructions conf 1.00 Agent authority lacks a verifier contract: .claude/rules/docs-rules.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/rules/docs-rules.md VerificationClaude instruction

medium System graph quality Agent instructions conf 1.00 Agent authority lacks a verifier contract: .claude/rules/julia-repl-rules.md

.claude/rules/julia-repl-rules.md VerificationClaude instruction

medium System graph quality Agent instructions conf 1.00 Agent authority lacks a verifier contract: .claude/skills/babysit-ci.md

.claude/skills/babysit-ci.md VerificationClaude instruction

medium System graph quality Agent instructions conf 1.00 Agent instructions exist but release-hardening basics are missing

AI-coder instruction files were found, but the repo is missing tests, lockfile. 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.

Repo hardeningGenerated repo pattern

medium System graph quality Tests conf 1.00 CI is configured but no tests are detected

A CI pipeline exists, but the scan found no test files to gate. Opus labeled this generated-code pattern as config theater: release machinery exists, but it has little behavioral signal.

CI/CDConfig theaterRepo hardening

medium System graph hardware Security conf 1.00 Dockerfile runs as root: Dockerfile

No non-root USER set. Containers running as root expand the blast radius of any vulnerability inside the image.

Container

medium System graph cicd CI/CD security conf 1.00 GitHub Actions workflow grants broad write permissions

CI tokens with write permissions increase blast radius when an action, dependency, or PR workflow is compromised. Prefer job-level least-privilege permissions.

.github/workflows/publish-benchmarks.yml CI/CD securitySupply chainGithub actions

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

medium System graph network Security conf 1.00 Privileged port 24 in use

Port 24 is privileged (<1024). Make sure the service runs with the right caps or front it with a non-privileged port via a load balancer.

validation/distributed_simulations/distributed_scaling/job_script.sh Ports

medium System graph quality Tests conf 1.00 Very low test-to-source ratio

0 test file(s) for 3 source file(s) (ratio 0.00). Consider adding integration or unit tests for critical paths.

Coverage

low System graph quality Production readiness conf 1.00 Composite production-readiness gap

Multiple low-cost hardening controls are missing together: tests, lockfile. Opus verification showed these co-occurring gaps are a better readiness signal than reading each flag in isolation.

Repo hardeningGenerated repo pattern

low System graph hardware Supply chain conf 1.00 Docker base image is tag-pinned but not digest-pinned: julia:1.10.6

Container tags can be retagged upstream. Pin production base images to a reviewed digest (`image@sha256:...`) when reproducibility and supply-chain integrity matter.

Dockerfile:1 containersPinned dependencies

low System graph cicd CI/CD security conf 1.00 2 occurrences GitHub Action is tag-pinned rather than SHA-pinned

actions/checkout@v6 can move without a code change in this repo. Pin third-party actions to a reviewed 40-character commit SHA.

lines 18, 22

.github/workflows/Whitespace.yml:18, 22 (2 hits)

CI/CD securitySupply chainGithub actions

low System graph quality dependencies conf 1.00 Node manifest has dependencies but no lockfile: docs/package.json

`package.json` declares dependencies, but no same-directory npm/pnpm/yarn/bun lockfile was found. Generated projects without lockfiles are less reproducible and harder to secure-scan precisely.

docs/package.json LockfileReproducibilityGenerated repo pattern

low System graph software Dead code conf 1.00 Possibly dead Python function: plot_lid_driven_cavity_frame

No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler.

validation/lid_driven_cavity/plot_lid_driven_cavity.py:54

low System graph software Dead code conf 1.00 Possibly dead Python function: plot_tracer_advection_2d_frame

No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler.

validation/stommel_gyre/plot_stommel_gyre_advection.py:13

low System graph software Dead code conf 1.00 Possibly dead Python function: plot_tracer_advection_2d_frame

No callers detected by AST scan in this repo. Could be exported for external callers or a framework handler.

validation/thermal_bubble/plot_thermal_bubble_advection.py:12

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