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feat(scan): deterministic first-introduction line dedup for hunk scans - #15
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📝 WalkthroughWalkthroughThe changes add configurable hunk-line deduplication and path filtering to history scans, with ordered decisions and bounded parallel work. They also update large inferred-rename similarity checks and cap loose-object header and packed commit-payload reads. ChangesHunk deduplication and filtering
Bounded commit-payload reading
Priority: ➖ Normal Estimated code review effort: 4 (Complex) | ~60 minutes Change: Feature Sequence Diagram(s)sequenceDiagram
participant HistoryScanner
participant TreeWorkers
participant Sequencer
participant HunkWorkers
participant DecisionStage
participant CallbackWorkers
HistoryScanner->>TreeWorkers: collect commit blob pairs
TreeWorkers->>Sequencer: publish completed pairs
Sequencer->>HunkWorkers: dispatch pairs
HunkWorkers->>DecisionStage: return computed hunks
DecisionStage->>CallbackWorkers: deliver retained hunks in order
Merge Risk: 🔵 Low · up to Some valid commit messages may be unavailable when their packed delta chain has a larger intermediate version. This narrow compatibility issue should be fixed or explicitly accepted before merging. 🚥 Pre-merge checks | ✅ 5✅ Passed checks (5 passed)
✨ Finishing Touches📝 Generate docstrings
🧪 Generate unit tests (beta)
✨ Simplify code
A rabbit marks each line it sees, Comment |
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A secret-scanner consumer joining findings to commits needs the commit
message alongside author metadata. Extend the existing attribution path in
place: no new exported method, no new option, no new cache.
- store.go: add readCommitPayload, the full-object sibling of
readCommitHeader (which the commit walk keeps unchanged). Plain packed
commits inflate in one exact-size allocation via inflateExact, with a
64 MiB defensive cap enforced before allocating from the attacker-
controllable pack header size; delta/loose commits reuse
getMaterialized/readLooseObject with a mandatory copy so cached strings
never alias shared cache buffers. Full inflation measures cheaper than
the old early-exit header scan (4.15 vs 4.51 us/op, 1 vs 4 allocs), and
the payload path removes the MaxHdr=4096 failure mode (a 100-parent
octopus commit now attributes correctly; pinned by test).
- commit_attribution.go: split the payload at the first blank line BEFORE
parsing (a message can legally contain "author ..." at column 0);
metaCache entries become {AuthorInfo, Message}; same insert-only map and
RWMutex protocol. Unbounded message retention is documented, not
engineered around (escape hatches recorded in the plan doc).
- history_scanner.go: CommitMetadata gains Message -- raw bytes after the
first blank line, byte-faithful to `git cat-file commit`; git-log's %B
re-encoding/NUL truncation are presentation behaviors left to consumers.
- Tests: differential byte-oracle against `git cat-file` across plain
packed, delta-chained, and loose commit shapes (shape presence verified
via verify-pack); split/hazard table tests (gpgsig, mergetag, encoding,
NUL, empty, no-separator, impostor author line); every-commit oracle over
the generated fixtures; concurrent duplicate-OID misses under -race.
- Benchmarks: GetCommitMetadata cold -5.7% time / -30% B/op / -50%
allocs/op; warm path ~96 ns (+5 ns from the larger map value); end-to-end
hunk scan with per-hunk attribution within noise, RSS steady.
- examples/history_scan: print author and first message line per blob.
Secret-scanner consumers re-scan the same added lines at every merge, rewrite, and re-add (73 findings for 3 unique secrets on one repo; 2.8 GB of detector input on git.git). Add WithHunkLineDedup: hunk scans emit each unique added line once, at its first introduction in a deterministic parent-first order, so findings carry stable fingerprints and duplicate noise disappears. Defaults are untouched: without the option, hunk scans keep documented `git log --first-parent -p` semantics byte-for-byte. - hunk_dedup.go: four-stage pipeline — ordered commit source, parallel tree diff into a slot ring, a sequencer that stamps monotonic seqs (so dispatch order == seq order and the reorder buffer is bounded by construction: cap(blobChan) + hunk workers + cap(resultChan)), parallel hunk workers, one decision goroutine owning the fingerprint set, and a concurrent yield pool. Only dedup verdicts are serialized; fn stays concurrent and output is deterministic as a multiset, never an order. - Dedup granularity is the whole hunk (emitted intact iff it contains at least one first-introduction line). Run-splitting was rejected on a named finding: git.git's t/lib-gpg/keyring.gpg packs two private-key blocks sharing their END marker into one 88-line hunk, and run boundaries decapitated the second block, breaking multi-line secret regexes. Whole-hunk emission cannot split a secret. - WithHunkPathFilter drops blob pairs pre-diff (both hunk modes) and, in dedup mode, keeps filtered pairs out of the fingerprint set, so a line first introduced in a consumer-allowlisted path is still attributed to its first unskipped introduction. Without this, a path allowlist poisons the dedup set and real secrets vanish (observed with the default betterleaks config allowlisting gitleaks.toml). - lineFingerprintSet: single-writer open-addressing table of 64-bit farm fingerprints, 2^25 slots, fail-open on saturation (emit, never drop). - Fingerprint contract verified against a real scanner: identical finding fingerprints across reruns, git repack -adf, and history growth — the repack leg is where pack-layout-dependent scanners break. - Measured (64-core arm64, betterleaks harness): git.git wall 41.5s (git log -p pipeline) / ~24s (hunk scan without dedup) -> 7.6s with dedup; detector input 2.82 GB -> 826 MB; unique-secret parity with the stock pipeline on both benchmark repos; duplicate findings 73 -> 3. - Tests: property oracle, serial-reference byte-equality, determinism multisets (rerun / fresh scanner / GOMAXPROCS=1), whale-commit deadlock stress, goroutine-leak-on-error, path-filter regression, saturation fail-open; full suite green under -race.
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dedupHunkEmission hashed every line twice: a probe pass that could not
break early once no line was new, then a marking pass over the same lines.
FarmHash64 was 78% of the function's cost, so half the hashing was pure
waste. Mark in place instead, in a single pass.
Verdict, set contents, insert order, growth points, and the saturation
point are unchanged, so emissions are identical. The equivalence and its
separate saturation case are argued in full at the function.
Measured on Graviton (32 vCPU, go1.25.12), medians of 8:
dedupHunkEmission, all-duplicate hunk (the suppression path)
512 lines x 32B 9295 ns -> 4915 ns 1.89x
512 lines x 78B 24512 ns -> 12396 ns 1.98x
64 lines x 32B 1131 ns -> 600 ns 1.88x
8 lines x 32B 148 ns -> 80 ns 1.84x
full scan, 64 commits x 512-line duplicate blocks, dedup on
32B lines 1.241 ms -> 1.084 ms -12.6%
78B lines 2.182 ms -> 1.437 ms -34.1%
At a realistic line width this removes dedup's overhead against a
non-dedup scan almost entirely (+9.3% -> ~0%). Narrow 8-line hunks over
512 commits are unchanged: the decision stage is a negligible share there.
The 78B case is reported alongside 32B because farm.Hash64's cost steps at
64 bytes and roughly doubles in the 65-96 byte band, so a wide-line fixture
overstates hashing's share. This repository's own Go sources measure p50=24
and 84% of lines at or under 64 bytes, which makes 32B the representative
number and 78B an upper bound.
Add hunk_dedup_bench_test.go, which is what made any of this measurable:
the dedup path had no benchmark, and no checked-in fixture could reach the
suppression path at all (every one adds a single distinct line per commit,
0% duplicates). It covers the decision function across hunk size and both
hash length bands, and a full scan over a purpose-built duplicate-block
fixture. Scan counters are atomic because fn runs concurrently even in
dedup mode, and both benchmarks assert emitted hunk and line counts are
stable across iterations, so a determinism regression fails the run rather
than being averaged into a number.
Drop lineFingerprintSet.has, which the single pass leaves unused; its
fail-open contract at saturation is markNew's and is documented there.
A mutation audit found the dedup verdict had no test across saturation: making
dedupHunkEmission fail CLOSED once the fingerprint table fills
if set.saturated { return false }
passed the entire suite. That mutant drops every hunk after the bound is
reached, so a repository large enough to fill the table would report no
findings at all — the exact outcome fail-open exists to prevent.
Statement coverage did not and could not show this: dedupHunkEmission was
already at 100%, because the untested behavior is a value the existing
assertions never pin down rather than a line nothing runs.
The gap widened when the verdict moved to a single marking pass. Deciding
against the pre-hunk state settled the verdict before any insert, so reaching
the bound mid-hunk could not affect the current hunk. Marking in place derives
the verdict from markNew, whose result changes meaning at the bound, so that
case is now reachable and is argued separately at the function. It is argued,
not observed, which is what these tests fix.
- TestDedupHunkEmission_SaturatedSetFailsOpen: an all-seen hunk, which the
ordinary rule suppresses, must emit once the set is saturated, and must keep
emitting. Asserts emission specifically, not merely "a verdict".
- TestDedupHunkEmission_SaturationBoundary: the three ways a hunk meets the
bound — tripped partway through (emits, and later lines are not inserted),
all-seen so nothing is inserted (cannot begin saturation), and the verdict
for one seen line flipping from suppress to emit exactly at the boundary.
- TestDedupHunkEmission_PropertyOracleAcrossSaturation: the saturating
counterpart to the existing property test, which draws 120 distinct values
into a 65536-slot table and settles at 120 of 45875 inserts, never nearing
the bound. A 64-slot table and a 200-value domain cross it instead. The
oracle keeps the probe-then-mark shape, a different formulation from the
implementation's single pass, and adds fail-open; it tracks a budget counter
with no open addressing, probing, or growth. The test asserts both regimes
were exercised and that saturation state never diverges, so a drift in
insert counts fails rather than passing quietly.
All three kill the mutant independently.
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A commit wider than the in-flight window forwarded every expensive pair ahead of order, including pairs past the window edge. Their seqs shared reorder-ring slots with undecided in-order pairs, so one result overwrote another and the scan returned nil with hunks missing. Early forwarding now stops at the window edge, and the decision stage rejects a ring slot whose seq does not match the cursor. The sequencer parked on a full window while holding seqMu. When the pair the decision stage needed sat on expensiveChan, no worker could take it and the scan hung. Parking now hands queued expensive work back to the caller, and the tree-slot wait does the same. A wide commit waited with a window check that passed before the commit could be stamped, so the sequencer spun under seqMu until every earlier seq was decided. Parks now wait on the same predicate stampAhead uses. The window width, look-ahead, expensive-pair threshold, early-byte cap, yield channel depth, and worker count move into dedupLimits so tests can reach these shapes with small fixtures.
The dedup pipeline bounded its buffers by item counts only. Dispatch pushed up to 8192 commits into the tree stage at once, and every slot kept its pair list until reuse, so wide commits held unbounded pair lists. The reorder ring and yield queue held up to a full window of results whose lines alias whole blobs, so a slow consumer or a run of large binaries held unbounded bytes. Dispatch now keeps the tree stage two commits per tree worker deep, refills it from the tree workers as commits finish, and stops adding commits while pairs ahead of the emit cursor exceed dedupPendingPairsCap. The commit under the emit cursor is always dispatched. The emit cursor drops a slot's lists once it passes them. Workers charge each result's hunk bytes on delivery. The decision stage releases dropped hunks and the yield pool releases survivors after fn returns. Stamping parks while the charge exceeds dedupRetainedBytesCap. Already-stamped pairs still run, so the decision stage always drains.
The similarity check ran in the tree stage before the path filter, so a filtered candidate still inflated both blobs, and an unreadable old blob aborted the scan for a path the consumer excluded. It also rejected every candidate above SmallFileThreshold, so the default hunk scan emitted a whole large file on a directory move with a small edit. emitCommitBlobPairs now marks directory-rename pairs as candidates and defers blob loading to the hunk stage. There computeRenameCandidateHunks loads the new blob first, then pairs against the old blob only when the texts share at least half their lines, at any size up to MaxDiffSize. Dissimilar or binary-old candidates remain full additions. Candidates bypass the pair memo because their result depends on that verdict.
applyDeltaStreaming rejected any delta whose instruction payload exceeded maxObjectSize, a limit on the reconstructed target. Valid deltas carry more instruction bytes than target bytes: an insert adds one opcode byte, and a copy can spend eight bytes on one target byte. A target at the limit with an insert-heavy encoding failed with ErrDeltaTargetTooLarge and aborted scans that used to succeed. The payload check now uses maxDeltaPayload, the largest payload a valid delta at the target limit can need: two ten-byte size varints plus eight bytes per target byte. The declared size is still rejected before allocation, and the exact limit stays on the decoded target size.
The retention bounds slowed short dedup scans by up to 24%. Interleaved benchmarks traced the cost to three sources, each fixed here. The fixed two-commits-per-worker dispatch depth stalled the tree stage on histories of narrow commits. Dispatch now admits commits past that floor while the mean pairs per diffed commit, projected over outstanding commits, fits under dedupPendingPairsCap. The retained-bytes counter grew dedupPairResult to 72 bytes, and the reorder ring of a full window of results is zeroed on every scan. Both charges are now 32-bit KiB counts, so a result is 64 bytes again. The decision stage charges per pair, and a release wakes the sequencer only when it crosses back under the cap. renameCandidate padded blobPairWork to 88 bytes; it now sits after the commit hash, and the struct is 80 bytes again. Size tests pin both structs. On git.git, dedup and default hunk scans match the base branch in time and output. Default-mode micro benchmarks match base; 64-commit dedup micro benchmarks run 2-4% slower, the cost of the pending-pair bound.
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Inline comments:
Review comments at @cache_options.go:
- Around line 6-13: Normalize the budget in WithHunkDedupBudget before returning
the closure, so concurrent scanner construction does not mutate the captured
bytes variable; keep the closure limited to assigning the normalized value to
hs.hunkDedupBudget.
Review comments at @hunk_dedup_test.go:
- Around line 989-995: Add a slot-ring reuse test using the whale fixture, set
`lookaheadCommits` to a small value such as 4, and compare the scan result with
`serialDedupReference`. Update the fixture comment to accurately describe what
causes slot reuse; locate the test setup around `small` and
`scanDedupWithLimits`.
Review comments at @hunk_dedup.go:
- Line 1308: Remove the nextDispatch == len(order) clause from the batch return
condition in dispatch, so reaching the end of commit dispatch does not force a
partial pair batch. Keep returning when batch reaches dedupPairBatchSize;
preserve the existing stamping-block and order-exhaustion paths for partial
batches.
Review comments at @loose_object.go:
- Line 53: Bound the header read in readLooseObjectLimited to a small maximum,
such as 64 bytes, and reject headers without a NUL terminator within that limit
before reading or allocating the object body.
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.gitignorecache_options.gocommit_attribution.gocommit_attribution_integration_test.gocommit_attribution_test.gocommit_metadata_bench_test.gocommit_payload_test.godelta.godelta_test.godiff_blob.godiff_blob_test.goexamples/history_scan/main.gohistory_scanner.gohunk_dedup.gohunk_dedup_bench_test.gohunk_dedup_test.gohunk_dedup_window_test.gohunk_rename_test.goloose_object.gooffset_cache.goscan_mode.gostore.go
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…oad reads A commit wider than the in-flight window slid through the window without re-checking the retained-byte cap, so a stalled consumer could retain far more than the cap; the emit cursor now applies both bounds per pair. Small repositories are dispatched whole on the first pass, which turned the tail rule into one pair per batch for the entire scan; the tail now begins when the remaining pairs fit in one batch per worker. Concurrent scans need independent prefetch state and reusable budget options. Ref-tip-keyed caching keeps reused scanners current, name-based tie-breaking makes rename selection stable, and too-large placeholders bypass dedup because identical placeholder text describes distinct undiffed files. Payload reads need a bounded header scan and the index CRC check on the plain packed commit path when verification is requested. Delta reconstruction checks the declared size against the commit payload cap before allocating the target. Regression tests cover each change; a slot-ring reuse test joins the window tests; the benchmarks describe the single-pass verdict and the E2E fixture's block copies are suppressed with dedup on.
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…ename similarity probe Deepening a shallow clone adds ancestors without moving a ref tip, and a small deepen lands as loose objects the store reads without reopening, so the commit cache also compares the shallow file. The rename similarity probe held both blobs' line slices and the count map at once; iterating lines in place leaves only the map.
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Text hunk lines are views into the new blob, so a one-line edit to a large file kept the whole blob alive in the reorder ring while being charged a few dozen bytes against the retained-byte cap. Small results are now copied into compact storage and the blob released; results covering a quarter or more of the blob stay as views and are charged the blob's size. The rename similarity map grows with the number of distinct lines.
main absorbed the commit-attribution stack (PR 14) and the scanner latency work (PR 20), both of which rewrote files this branch also touched. The merge uses main's attribution, loose-object reader, delta bounds, cache budget options, and rename pairing, and re-applies this branch's additions on top: - The dedup pipeline collects pairs through emitCommitBlobPairsTo with the scan's stop channel and takes hunks from pairHunks, whose lines main's pair memo already compacts, so the retained-byte charge covers the compacted line bytes. - The hunk path filter wraps emitCommitBlobPairsTo; WithHunkDedupBudget is the one option left in cache_options.go. - The inferred-rename gate measures pairs above SmallFileThreshold with renameLinesSimilar (a multiplicity-aware hashed line count), so a large edited file under a directory rename still pairs with its old path. - "[File too large to diff]" placeholders keep their tooLarge mark through the pair memo's compact representation. - The loose-object header scan is bounded in openLooseObject; the delta commit path of readCommitPayloadTo reconstructs under the commit cap. - loadAllCommits caches by ref tips and shallow boundary. Validation: gofmt, go vet, go test, go test -race; BenchmarkScanHunks and GetCommitMetadataCold match main within noise; the dedup benchmarks keep their hunk counts.
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… the cap A worker's batch of sixteen pairs was charged against the retained-byte cap only after the whole batch was materialized, so a wide commit of large pairs on the ordered path could materialize one batch per worker ahead of the gate. Each result is now delivered and charged as soon as it is computed, and a worker holds its next pair while the charge is over the cap, except for the seq the decision stage is waiting on; while holding it takes early-forwarded expensive work so that stage keeps draining. backlogPos gives seq and hunk index 32 bits each: a 20-bit hunk field collided for pairs with 2^20 or more hunks, which an alternating diff under MaxDiffSize can produce, and a collision could drop an unresolved fingerprint from an earlier hunk.
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…hin the pending cap, release the commit cache on Close A worker holding at the retained-byte cap took every early-forwarded expensive pair ungated, so those pairs could materialize past the cap while the consumer stalled. The worker now queues early work and runs each pair once admitted, with the decided seq always passing. Tree workers charged a commit's pairs after collecting all of them, so commits wider than the pending-pair cap were collected whole and the dispatch floor could stack several. Pairs are now charged as collected, and collection holds at the cap for every commit except the one under the emit cursor. Closing the scanner releases the commit list and graph a dedup scan materialized and detaches the metadata cache's graph.
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Review comments at @store.go:
- Line 941: In the `readCommitPayload` reconstruction path, stop passing
`maxCommitPayload` as the per-hop target limit to `getMaterializedCapped` and
`applyDeltaStreaming`; intermediate targets may exceed the cap even when the
requested final commit does not. Use a separate reconstruction bound for
intermediate targets, and enforce `maxCommitPayload` only on the final requested
commit.
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cache_options.gocommit_payload_test.godiff_blob.gohistory_scanner.gohunk_dedup.gohunk_dedup_test.gohunk_dedup_window_test.gohunk_rename_test.goloose_object.gopair_cache.goscan_mode.gostore.go
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…ad cap bounds their allocation as well
The attribution fallback for a delta commit above the payload cap went through getMaterialized under the store-wide delta limit, so a crafted commit could still force a reconstruction up to that limit during one GetCommitMetadata call. readCommitHeader now reconstructs within the cap on the common path, which keeps the object caches warm for the payload read that follows, and for a target above the cap reconstructs the bases whole and only a MaxHdr-byte prefix of the target, streaming the delta instructions as far as the prefix needs. Attribution of over-cap commits of every storage shape keeps working; the target output is bounded by MaxHdr bytes, while base reconstruction still requires whole objects.
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readVarInt shifted a tenth varint byte by 63, so a malformed size encoding wrapped modulo 2^64 and could pass as a valid base or target size on the over-cap header path while decodeVarInt rejected the same bytes on the full path. Both decoders now accept the same encodings.
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Summary
Opt-in deterministic first-introduction line dedup for hunk scans. A secret-scanner consumer re-scans the same added lines at every merge, rewrite, and re-add — on git.git that's 2.82 GB of detector input and 73 findings for 3 unique secrets on a mid-size repo. With
WithHunkLineDedup(true), each unique added line is emitted once, at its first introduction in a deterministic parent-first history order. Defaults untouched: without the option, hunk scans keep documentedgit log --first-parent -psemantics byte-for-byte.hunk_dedup.go): ordered commit source → parallel tree diff into a slot ring → sequencer stamping monotonic seqs (dispatch order == seq order ⇒ reorder buffer bounded by construction; no blocking hand-off anywhere, so the deadlock class is structurally closed) → parallel hunk workers → one decision goroutine owning the fingerprint set → concurrent yield pool. Only dedup verdicts are serialized;fnremains concurrent; determinism is promised as a multiset, never an order.1e3eefbcpacks two private-key blocks sharing their-----END PGP PRIVATE KEY BLOCK-----line into one 88-line hunk; run boundaries decapitated the second block and broke multi-line secret regexes.WithHunkPathFilter(skip-before-mark): drops blob pairs pre-diff in both hunk modes; in dedup mode filtered pairs never mark the fingerprint set, so the first unskipped introduction wins. Without it, a consumer path-allowlist poisons the dedup set and real secrets vanish (observed with a default config allowlistinggitleaks.toml).lineFingerprintSet: single-writer open-addressing table (2^25 slots, 64-bit farm fingerprints), fail-open on saturation — emits rather than drops, never errors.Fingerprint contract (verified against a real scanner)
Identical finding fingerprints across (a) repeated runs, (b)
git repack -adf, (c) history growth — the repack leg is exactly where pack-layout-dependent approaches break, since delta topology moves their line numbers.Correctness evidence
Property test vs map oracle; serial-reference implementation byte-equality on merge/rename/re-add/filter fixtures; determinism multisets (rerun, fresh scanner, GOMAXPROCS=1 == parallel); dedup-off path multiset-identical to option-never-set; whale-commit deadlock stress; goroutine-leak-on-early-error; path-filter regression; saturation fail-open. Full suite green under
-race(plus-count=5shake on the dedup subset).Performance (64-core arm64, betterleaks harness, medians of 3)
git log -ppipelineUnique-secret parity with the stock pipeline on both repos; duplicate findings 73 → 3. Known follow-up (recorded, not built): peak RSS ~5–6 GB on git.git attributes mainly to worker-scaled 32-MiB delta arenas shared with the default path + the 256 MB fingerprint table; named levers are worker arena caps / arena budget / byte-budgeted admission.
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