[hyperpolymath]

Summary

serde_yaml 0.9 is deprecated and depends on unsafe-libyaml, an archived c2rust translation of libyaml that RUSTSEC-2024-0449 flags as unmaintained. This replaces it with serde-saphyr 2.0 (#[forbid(unsafe_code)]), the replacement the advisory recommends. It resolves W3 in hyperpolymath/standards docs/UPSTREAM-DEPENDENCY-WATCH.adoc.

• New src/yaml.rs (MPL-2.0). Every YAML call site now goes through this one module.
  • from_str: hand-written configs (attack profiles, ambush timelines, amuck specs). Uses serde-saphyr's default resource budget.
  • from_report_str: machine-written reports (diff loader, a2ml bundles, attack results). The node and event budget is scaled to the input length. With the default 250k-node cap, YAML reports from scans over about 15k files failed to load (measured). A document without aliases can't have more nodes than bytes, so alias expansion stays bounded.
  • to_string: report export.
• MSRV raised from 1.85.0 to 1.89. This was decided explicitly; it is not incidental. Measured on 1.85.0:
  • serde-saphyr 1.1.0 declares no MSRV but uses let-chains and is_multiple_of, so it needs 1.88.
  • serde-saphyr 1.2 and later need 1.89.
  • noyalib needs 1.86 or later.
  • The only releases that build on 1.85 are frozen and pre-1.0 (serde-saphyr 0.0.10, noyalib 0.0.15).
  • main's committed lockfile already needs 1.88 (encoding_rs 0.8.42, sha2 0.11.1, proptest 1.12).
  • The MSRV is updated in Cargo.toml, CONTRIBUTING.md, 0-AI-MANIFEST.a2ml, the k9 metadata, and the gui feature comments. eframe 0.36.2 needs 1.95, so gui is still opt-in above the floor.
  • The higher MSRV enables clippy's manual_is_multiple_of lint (gated at 1.87). Its one hit, in src/attestation/evidence.rs, is fixed. Behaviour is identical because CHECKPOINT_INTERVAL is a non-zero constant.

Behaviour changes

• YAML output has the same values but not the same bytes: '2.5' becomes "2.5", multi-line strings become | blocks, and blank lines inside those blocks keep their indentation. Nothing in tests, fixtures, scripts or CI compares YAML bytes. Even serde_yaml no longer reproduces the committed reports/*.yaml byte for byte.
• A bare ~ or null in a string field (for example a profile arg) is now an error instead of the string "~". That follows YAML 1.2, where these mean null. Quote it to keep it as a string.

Verification (on the merge with main at 8955f61)

• cargo build --locked: no warnings.
• cargo clippy --locked --all-features --all-targets -- -D warnings: clean.
• cargo fmt --check: clean.
• cargo test --locked --all-features --no-fail-fast: 655 passed, 0 failed.
• New tests in src/yaml.rs:
  • the scaled report budget accepts documents above the default node cap;
  • an alias bomb (billion laughs) is still rejected;
  • the committed reports/*.yaml files written by serde_yaml still load and round-trip;
  • KYAML input parses.
• cargo +1.89.0 build --locked and cargo +1.89.0 test --locked --no-run succeed.
• cargo audit: compared with main, the only change is that RUSTSEC-2024-0449 is gone; there are no new advisories. unsafe-libyaml and serde_yaml are gone from Cargo.lock.
• KYAML: the committed reports, the example profile and an amuck spec were converted with yq -o kyaml (mikefarah v4.54.1). Each parses to the same value as its YAML original.

Follow-ups (not in this PR)

• Emit KYAML for YAML output, and accept .kyaml in the loaders, in line with the estate YAML policy.
• After merge: move W3 to Resolved in hyperpolymath/standards docs/UPSTREAM-DEPENDENCY-WATCH.adoc.

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• src/yaml.rs

📝 Summary

Summary by CodeRabbit

• New Features

  • YAML configuration and report handling now uses a maintained, safe-Rust parser.
  • Machine-generated reports apply input-scaled resource limits, including bounded alias expansion.
  • Existing reports remain readable, with YAML serialisation and deserialisation support retained.

• Bug Fixes

  • Improved protection against excessive YAML resource consumption.

• Documentation

  • Updated the minimum supported Rust version to 1.89, including GUI requirements.
  • Documented YAML formatting differences and rejection of unquoted ~ or null string values.

The pull request replaces serde_yaml with serde-saphyr through a new public YAML module. It routes YAML parsing and report serialisation through that module, raises the declared Rust MSRV to 1.89, and updates related documentation.

Changes: YAML migration

Layer / File(s)	Summary
YAML module and Rust baseline Cargo.toml, src/lib.rs, src/yaml.rs, src/attestation/evidence.rs, .github/CONTRIBUTING.md, .machine_readable/..., 0-AI-MANIFEST.a2ml, src/main.rs, src/report/gui.rs, src/report/gui_text.rs, CHANGELOG.adoc	The crate adds a public YAML module backed by serde-saphyr. Its parsing functions use default budgets for configuration and input-scaled node and event limits for reports. The module also adds YAML serialisation and tests for resource limits, alias expansion, configuration syntax, and report fixtures. The declared MSRV changes from 1.85.0 to 1.89. The checkpoint condition in EvidenceAccumulator::record_file uses is_multiple_of; the interval remains 100 files.
YAML parsing call sites src/a2ml/mod.rs, src/ambush/timeline.rs, src/amuck/mod.rs, src/attack/profile.rs, src/report/diff.rs	YAML parsing in report, timeline, specification, and profile loaders now uses the shared module. JSON parsing and the described error handling and fallback behaviour remain unchanged.
YAML serialisation and validation src/report/output.rs, tests/e2e_tests.rs	Report serialisation and its end-to-end test now use the shared YAML serialiser. The changelog records formatting differences and YAML compatibility notes.

Priority: ⚪ Pending latest changes

Estimated code review effort: 3 (Moderate) | ~20 minutes

Change: Other

Sequence Diagram(s)

sequenceDiagram
  participant ReportLoader as report::diff::load_report
  participant YamlModule as crate::yaml::from_report_str
  participant SerdeSaphyr as serde-saphyr
  ReportLoader->>YamlModule: parse YAML report
  YamlModule->>SerdeSaphyr: deserialize with report options

Loading

Suggested reviewers: metadatastician

Merge Risk: 🔵 Low · up to afc1b

YAML reports with more than 64 MiB of scalar content may fail to load. This is a narrow large-report limitation that should be fixed or explicitly accepted before merging.

Security architecture risk: 🔵 Low · up to afc1b

The migration preserves the inspected input limits and adds explicit parser resource budgets. No introduced security vulnerability was established. Remaining uncertainty concerns parser compatibility and resource containment for report loaders that already read files without a size limit.

Retained concerns
No architecture-level concerns identified.

Security review details

Security Blast Radius

• inferred — Malformed YAML can affect the process importing the selected configuration or report. A2ML's uncapped file reads expose that process to input-sized memory consumption before parsing, but the full PR comparison shows those reads predate this migration; increased exposure was not established.

Trust Boundaries and Controls

• observed — The inspected profile loader retains its 4 MiB read limit, and the diff-report loader retains its 64 MiB read limit. Both deserialize into existing typed structures; the migration does not remove those caller controls.
• observed — The report wrapper leaves default alias, scalar and nesting limits intact. Dependency code separately rejects excessive alias counts, replay counts and replay depth. A committed test asserts rejection of a nested alias-expansion document.

Resilience and Maintainability Implications

• inferred — Centralization gives configuration and report consumers a common policy implementation, but it does not provide uniform pre-parser containment: the diff loader bounds file reads while the existing A2ML loaders do not.

Hardening Proposals

• proposed — Define a consistent maximum report-input policy for A2ML ingestion, reject oversized input explicitly, and document how read limits interact with scalar and expansion budgets. This would harden a pre-existing containment gap without disabling parser protections.

Pre-merge checks: 4 · 1

Failed checks: 1 warning

Check name	Status	Explanation	Resolution
Docstring Coverage		Docstring coverage is 56.25% which is insufficient. The required threshold is 80.00%. Docstring coverage is scoped to functions touched by this diff. Analyzed 16 functions across 13 files. (5 skipped:…	Write docstrings for the functions missing them to satisfy the coverage threshold.

Passed checks: 4 passed

Check name	Status	Explanation
Title check		The title clearly and concisely describes the primary change: replacing serde_yaml with the safe-Rust serde-saphyr dependency.
Description check		The description directly explains the dependency replacement, YAML parsing changes, MSRV update, behaviour changes, and verification results.
Linked Issues check		Check skipped because no linked issues were found for this pull request.
Out of Scope Changes check		Check skipped because no linked issues were found for this pull request.

Full details: Docstring Coverage

Explanation

Docstring coverage is 56.25% which is insufficient. The required threshold is 80.00%. Docstring coverage is scoped to functions touched by this diff. Analyzed 16 functions across 13 files. (5 skipped: 5 unsupported.)

Resolution

Write docstrings for the functions missing them to satisfy the coverage threshold.

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[hyperpolymath]

CI status on ab8a0fe:

• Red: .github/workflows/coverage.yml, cargo-audit.yml, release.yml (push event). These are not caused by this PR. Each run failed the moment it was created, with no jobs, which means GitHub rejected the workflow for a feature-branch push event. The same happens on every feature-branch push in this repo; for example, Unify PA rule IDs into one canonical table #232's push-event runs of cargo-audit.yml fail identically while its pull_request runs pass. This PR touches no workflow files. Fixing it is workflow-gate work and out of scope here; no fix exists yet.
• Missing: pull_request CI. Rust CI, Security Audit, Governance, CodeQL, Dependency Review and the rest have not started for this PR, although each one has a pull_request trigger with no draft filter. I will not push an empty commit or close and reopen to start them; the next real push will trigger them. Locally on 1.89.0 and stable, build, clippy (no findings in touched code) and cargo test --all-features are green, apart from the two readiness diagnostics tests that also fail on main. Details are in the PR description.
• Green: GitGuardian, Semgrep.

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📝 Code Review	✅ Completed 2026-10-20T13:04:01.378391Z	afc1be0	New commits

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Actionable comments posted: 1

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• 🪄 Fix comments: Fix CodeRabbit comments on this PR

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Inline comments:
Review comments at @src/yaml.rs:
- Around line 28-29: Update from_report_str to scale
budget.max_total_scalar_bytes with input.len(), alongside the existing max_nodes
and max_events scaling. Leave the separate alias limits unchanged.

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• src/amuck/mod.rs
• src/attack/profile.rs
• src/attestation/evidence.rs
• src/lib.rs
• src/main.rs
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