epiphany/crates/epiphany-bundle
Levi Neuwirth 3e91a8302a Push 4: Binary Format companion, F1 benches, subquadratic reduction order
The audit's fourth push: the biggest outstanding Phase-2 item plus the
performance gate. 793 workspace tests pass; clippy -D warnings, fmt,
and rustdoc (deny-warnings) clean; all three spec documents build with
zero undefined references.

Binary Format companion (spec/binary_format.tex, v0.1.0 — Agent J's
deliverable, 43 pages):
- Twelve chapters transcribed from the golden-locked implementation:
  encoding conventions (the three prefix/endianness regimes, a
  normative no-varint rule, reject-never-normalize decode discipline),
  identifiers imported from the core spec's Canonical Byte-Layout
  Reference, primitive value encodings, the whole-Score positional
  codec ratified as the schema-major-0 wire form, operation wire
  forms (envelope field order with the normative id-leads property,
  the OperationPayload 0..=3 and OperationKind 0..=23 tables,
  effects/conflict/anomaly/MaterializedState vocabulary), the bundle
  physical layout (64-byte header, 256-byte superblock, chunk
  preimages and framing, ChunkRef, manifest body order), the
  operation-index payload, and the extension-blob/edit-barrier byte
  forms.
- Ratifies P12-D1 (req:binfmt:opindex), P12-E1 (req:binfmt:ext-blobs),
  P12-E2 (req:binfmt:condition-depth, MAX_CONDITION_DEPTH = 64
  normative), and P12-E3 (req:binfmt:object-kind-open) — batch rows
  struck through; discharges the provisional-codec notes in core
  (P11-4), ops, and bundle (P11-D2/D4/D5) DECISIONS with ratification
  cross-references.
- Pins the frozen-layout schema-evolution keystone: within schema
  major 0 every positional struct layout is frozen; a field-set change
  is a schema-major change with migration — formally grounding the
  data-model-expansion staging decision. Open questions kept honest
  in-document: SnapshotId derivation, index-refresh threshold, u64/u32
  prefix unification at the next major.
- Not yet delivered from J's charter: the cross-implementation decoder
  test and the wire-format fuzzer (follow-up harnesses).

F1 benches (crates/epiphany-testkit/benches/, per the F0 decision):
- criterion 0.5.1 (workspace dev-dependency; MSRV 1.77 respected with
  documented transitive pins: clap 4.5.53, half 2.4.1).
- reduction bench at 1K/10K/50K envelopes with the Chapter-10 budget
  (>10,000 envelopes/second cold) written in the bench as a Pass/Xfail
  gate; bundle benches for the typical-edit commit (<=50 ms; measured
  ~14.7 ms on real disk after catching that tmpfs neuters fsync) and
  the open/bootstrap read (<=200 ms; measured ~60 us).
- CI: quick budget gates in the conformance job, full gates nightly.

Subquadratic canonical_reduction_order (the F-surfaces/K-fixes
handshake, closing K's 10K-envelope acceptance gate):
- The bench documented the failure (50K at ~1.7K env/s, a 29 s cold
  reduction; two O(n^2) loops); the fix replaces pair enumeration with
  threshold/frontier readiness per replica plus explicit-dot dependent
  lists and a stamp-tuple binary heap — O((n + sum(context)) log n),
  never materializing covered pairs.
- Byte-identical order: same edge relation, same ready predicate, same
  total order; the old implementation is retained as a test-only
  oracle with element-for-element order-equality property tests over
  fuzz sets, adversarial sets, and directed shapes (2,000-envelope
  full-coverage chains, dot cycles, duplicate-id stamp ties),
  mutation-tested for sensitivity.
- Measured: 1K 155K->674K env/s, 10K 12.5K->257K, 50K 1.7K->87K; all
  three scale points now pass and the 50K row is promoted from Xfail.

Also: fixed nine rustdoc private/unresolved intra-doc links that had
accumulated across the pushes (the CI deny-doc-warnings job would have
failed on them).

Co-Authored-By: Claude Fable 5 <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01NEs4aYiu8MXjdYdMxw8PTd
2026-07-02 19:02:07 -04:00
..
examples A B C D F 2026-06-19 12:42:31 -04:00
src Pushes 1+3: fix the MUST-level violations, wire the types-only machinery 2026-07-02 17:10:50 -04:00
tests A B C D F 2026-06-19 12:42:31 -04:00
Cargo.toml Pushes 1+3: fix the MUST-level violations, wire the types-only machinery 2026-07-02 17:10:50 -04:00
DECISIONS.md Push 4: Binary Format companion, F1 benches, subquadratic reduction order 2026-07-02 19:02:07 -04:00
README.md Pushes 1+3: fix the MUST-level violations, wire the types-only machinery 2026-07-02 17:10:50 -04:00

README.md

epiphany-bundle

The Epiphany .musc file format, implementing the normative requirements of Chapter 8 (File Format) of the core specification (spec/core_spec.pdf). This is Agent D's crate per spec/QUICKSTART.md. It depends on epiphany-determinism (Agent A) and on nothing else — not on epiphany-core (Agent B) or epiphany-ops (Agent C):

bundles handle bytes, ops handles semantics. A canonical-base snapshot from the bundle's perspective is opaque bytes plus a frontier DVV; only epiphany-ops interprets it. — QUICKSTART

A bundle is a single file: a fixed 64-byte header at offset 0, two 256-byte superblock slots, then a body of immutable, content-addressed chunks. The superblocks are the only mutable on-disk objects. A commit appends new chunks, writes a new manifest chunk, then flips the active superblock by writing the inactive slot and durably flushing it — that flush is the commit point. Because commits only ever append and touch the inactive slot, a crash can never corrupt the active state.

What's here

Area Items Spec
Prelude FixedHeader (64 B, CRC-32C), Superblock/CommitState (256 B, CRC-32C), select_active Ch. 8 §"The Bundle Layout", §"Superblock Selection"
Atomic commit Bundle::create/open/commit, the 7-step protocol, cold-open path Ch. 8 §"The Atomic Write Protocol", §"Streaming Reads"
Content addressing chunk_content_hash/chunk_id, ChunkRef, ChunkKind, CompressionAlgorithm, domain separation Ch. 8 §"Content Hashing", §"Chunks"
Manifest Manifest (canonical_base ≠ acceleration_snapshots), SnapshotRef, BlobRef, ProfileDeclaration, ExtensionDeclaration Ch. 8 §"The Manifest"
Retention RetentionPolicy (first-class), ProfileConstraints Ch. 8 §"Garbage Collection and Retention"
Op blocks pack_operation_blocks (1 MiB soft target), encode_block/decode_block Ch. 8 §"Operation Envelope Blocks"
Storage BlockStore, MemStore, FileStore (real fsync), FaultStore (crash sim) Ch. 8 §"Durable Writes"
Gates fuzz::run_crash_recovery_fuzz, fuzz::exhaustive_crash_check, fuzz::run_manifest_selection_harness QUICKSTART acceptance

The crash-recovery contract (the acceptance gate)

Kill the process between any two syscalls in the commit protocol; reopen; the bundle must be valid in 100% of runs, and must recover to the previous generation when the crash precedes the durable flush. This is the most important single test in the entire prototype. — QUICKSTART, Agent D

Killing a real process between syscalls cannot be made deterministic, so the fuzzer drives the commit against a FaultStore that distinguishes live (page-cache) bytes from durable (survives-a-crash) bytes and can crash after any chosen syscall — optionally tearing the in-flight superblock write, the case the slot CRC must catch. After every simulated crash the bundle is reopened from the durable image and must:

  1. open successfully (never corrupt);
  2. be at the previous generation or the new one, never anything else;
  3. if the commit returned Ok, be at the new generation; and if the crash was clean (the in-flight flush persisted nothing) and the commit did not complete, be at the previous generation — the exact "recover to the previous generation when the crash precedes the durable flush" property. (A torn final flush may at a full prefix legitimately persist the whole superblock — the genuine post-commit case — so the torn branch admits either generation.)
  4. report no integrity anomaly;
  5. have every canonical chunk present and hash-intact.

Two drivers exercise this: a randomized 10,000-iteration sweep, and an exhaustive per-commit sweep that tests every syscall boundary crossed with every tear point (clean, and torn at prefixes around the 252-byte CRC offset and the 256-byte slot size). The second leaves no step of the protocol untested.

The companion manifest_selection gate asserts the Chapter 8 superblock- selection rule across every corruption scenario the QUICKSTART enumerates: slot A corrupt + B valid (and vice versa), both valid at generation+1, both valid at the same generation (equivalent, and divergent), a generation gap > 1, a non-committed slot, a manifest-hash mismatch, and neither valid.

Building and testing

cargo test -p epiphany-bundle                              # unit + the two gates
cargo clippy -p epiphany-bundle --all-targets -- -D warnings
cargo run --release --example fuzz_crash -- 1000000        # extended crash soak

Hand-off criteria (QUICKSTART, Agent D)

  • cargo test clean.
  • Crash-recovery fuzzer passes 10,000 iterations (crash_recovery_fuzz_ten_thousand_iterations, two seeds; extended soak via the example binary; exhaustive per-syscall sweep in exhaustive_sweep_across_base_states_and_commit_shapes).
  • Manifest-selection harness handles every corruption scenario (every_selection_scenario_holds).
  • Real-filesystem fsync round-trip (file_store_real_fsync_round_trip).

Scope boundaries (per QUICKSTART "Don't do these")

v0 writes only uncompressed chunks (compression on the write path is deferred), but reading zstd-compressed chunks and blobs is supported, per the spec's §Compression MUST (the manifest is mandatory-uncompressed regardless, and a compressed manifest is rejected). It carries the text-projection root but does not implement the s-expression projection content, and it preserves extension declarations and chunks but does not evaluate edit barriers — barrier operands (OperationKindTag, ObjectKind, EditBarrier) are owned by Agents C and E. Operation envelopes, snapshots, and causal frontiers are opaque bytes here.

See DECISIONS.md for the prototype byte-layout choices that anticipate the deferred Binary Format companion, and the batched Pass 11 candidates.