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fix: optimize publishes compaction; recovery roll-back converges manifest (#141)
* test(optimize): cover manifest publish + HEAD-drift reconcile Red against the pre-fix optimize, which ran compact_files without publishing the compacted version to __manifest: - maintenance: optimize must publish so the manifest table_version tracks the compacted Lance HEAD and a later schema apply succeeds; and must reconcile a pre-existing manifest-behind-HEAD drift (forged via raw Lance compaction) so strict writes commit again. - end_to_end + composite_flow: post-optimize query / strict update / reopen in the full lifecycle (the canonical flow previously omitted post-optimize writes as a documented "known limitation"). - failpoints: a crash between compaction and the manifest publish rolls forward on next open. * fix(optimize): publish compaction to manifest and reconcile HEAD drift optimize ran Lance compact_files without publishing the new version to __manifest, so the manifest table_version lagged the Lance HEAD: reads stayed pinned to the pre-compaction version, and the next schema apply or strict update/delete failed its HEAD-vs-manifest precondition with "stale view ... refresh and retry" (open-time recovery rollback inflated the gap on retry). optimize now publishes each compacted table's version under the per-(table, main) write queue, guarded by a manifest CAS and a SidecarKind::Optimize recovery sidecar (loose-match; roll-forward is safe because compaction is content-preserving). When a table has nothing left to compact but its Lance HEAD is already ahead of the manifest pin (pre-fix drift, or a recovery restore commit), optimize reconciles the manifest forward to HEAD (metadata-only, no sidecar). Caches and the CSR/CSC graph index are invalidated after a publish. Docs updated (maintenance, storage, branches-commits, writes, testing). * test(recovery): rollback convergence + optimize-defer regressions Red against the current code, landed before the fix: - recovery: after the open-time sweep rolls a sidecar back, the manifest must track Lance HEAD (no residual drift) so a follow-up schema apply succeeds — the original "+1 per retry" loop. Today roll-back restores without publishing, so the manifest lags HEAD and the apply fails its HEAD-vs-manifest precondition. - maintenance: optimize must refuse while a recovery sidecar is pending — operating on an unrecovered graph could publish a partial write the sweep would roll back. Also removes optimize_reconciles_preexisting_manifest_head_drift: the ad-hoc drift reconcile it covered is replaced by recovery-side convergence. * fix(recovery): converge manifest on roll-back; optimize defers on pending recovery Root of PR #141's review findings and the original "+1 per retry" loop: a Lance HEAD ahead of the manifest was ambiguous (benign content-preserving drift vs. a partial write a sidecar will roll back), and optimize's reconcile guessed it benign. Close the class instead of guessing: - Recovery roll-back now PUBLISHES the restored version (via a push_table_update_at_head helper shared with roll-forward), so the manifest tracks the Lance HEAD after recovery — symmetric with roll-forward. This fixes the +1 loop (after one roll-back the retry's HEAD-vs-manifest precondition passes) and removes the only remaining source of orphaned drift. The audit still records the logical rolled-back-to version; the manifest is published at the restore commit (identical content). - optimize drops the ad-hoc drift reconcile and instead REFUSES when a __recovery sidecar is pending, so it only ever operates on a recovered graph (manifest == HEAD); its compaction publish can no longer commit a partial write. With the reconcile gone, the blob-skip-vs-reconcile gap is moot. Updates the rollback recovery-test helper (manifest == HEAD after roll-back), the failpoints assertions, and the user/dev docs. * test(recovery): fix rollback assertion for manifest convergence The roll-back-publishes change makes the manifest version advance after a SchemaApply roll-back (to the old-schema content), so the schema_apply_without_schema_staging_rolls_back_on_next_open assertion must be `version > pre`, not `version == pre`. This update was dropped during the commit churn and surfaced as a CI Test Workspace failure; the old-schema-preserved intent stays covered by count_rows + _schema.pg + the RolledBack convergence invariant.
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@ -94,7 +94,7 @@ flowchart TB
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- **`nodes/`** and **`edges/`** are sibling directories holding one Lance dataset per declared type. Names are `fnv1a64-hex` of the type name to keep paths fixed-length and case-safe.
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- **`_graph_commits.lance`** is an L2 dataset that records the graph-level commit DAG, with a paired `_graph_commit_actors.lance` for the actor map. (Pre-v0.4.0 graphs also have inert `_graph_runs.lance` / `_graph_run_actors.lance` from the removed Run state machine; the v2→v3 migration sweeps their stale `__run__*` branches, and the dataset bytes are reclaimed once `delete_prefix` lands.)
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- **`_graph_commit_recoveries.lance`** — one row per recovery sweep action. Joined to `_graph_commits.lance` by `graph_commit_id`; the linked commit row carries `actor_id=omnigraph:recovery`. Operators correlate recoveries with the original mutations they rolled forward / back via this join. See `crates/omnigraph/src/db/recovery_audit.rs`.
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- **`__recovery/{ulid}.json`** — transient sidecar files written by the four migrated writers (`MutationStaging::finalize`, `schema_apply`, `branch_merge`, `ensure_indices`) before Phase B begins, deleted after Phase C succeeds. A sidecar persisting after process exit means the writer crashed in the Phase B → Phase C window; the next `Omnigraph::open` recovery sweep processes it. Steady-state directory is empty. See `crates/omnigraph/src/db/manifest/recovery.rs`.
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- **`__recovery/{ulid}.json`** — transient sidecar files written by the five migrated writers (`MutationStaging::finalize`, `schema_apply`, `branch_merge`, `ensure_indices`, `optimize_all_tables`) before Phase B begins, deleted after Phase C succeeds. A sidecar persisting after process exit means the writer crashed in the Phase B → Phase C window; the next `Omnigraph::open` recovery sweep processes it. Steady-state directory is empty. See `crates/omnigraph/src/db/manifest/recovery.rs`.
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- **`_refs/branches/{name}.json`** is graph-level branch metadata — pointers from a branch name to the manifest version it heads.
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- **Inside each Lance dataset** (orange): the standard Lance directory layout. `_versions/{n}.manifest` records every commit; `data/` holds the actual Arrow fragments; `_indices/{uuid}/` holds index segments with their own `fragment_bitmap` for partial coverage; `_refs/` holds Lance-native per-dataset branches and tags.
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