perf: native engine optimizations — eliminate deep-clone, batch SQLite, skip AST, cache FS#361
perf: native engine optimizations — eliminate deep-clone, batch SQLite, skip AST, cache FS#361carlos-alm wants to merge 5 commits intomainfrom
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…e, skip AST, cache FS Five optimizations to improve native engine build performance: 1. Replace normalizeNativeSymbols deep-clone with in-place patchNativeResult by adding #[napi(js_name)] annotations to Rust types (types.rs). The 125-line JS deep-clone is replaced with a ~35-line shim that only wraps dataflow bindingType fields and handles backward compat. 2. Add known_files HashSet cache to import resolution (import_resolution.rs) to avoid redundant FS syscalls during resolve_imports_batch. Builder.js passes the collected filePaths array through resolve.js to Rust. 3. Add include_ast_nodes flag to parse_file/parse_files (parallel.rs, lib.rs, extractors/mod.rs). Initial parse skips AST node walking (ast: false); buildAstNodes re-parses with ast: true later. Saves ~200ms on parse. 4. Batch SQLite multi-value INSERTs in builder.js — accumulate node/edge rows into arrays and flush with chunked INSERT statements (200 rows per chunk) instead of individual prepared statement runs. 5. Parallelize resolve_imports_batch with rayon (import_resolution.rs) — change .iter() to .par_iter() for concurrent import resolution. Impact: 23 functions changed, 32 affected
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Claude finished @carlos-alm's task —— View job PR Review CompleteComprehensive review of native engine performance optimizations... Todo List
Root Cause AnalysisProblem Being Solved: Performance bottleneck in native engine build process caused by:
Why This Approach: The optimizations target genuine performance bottlenecks with measured improvements totaling ~295-375ms savings. The approach is architecturally sound - using Rust napi annotations to emit correct naming directly, caching known files, deferring expensive operations, and batching database operations. Risk Assessment: LOW - Changes are well-targeted performance optimizations that preserve functionality while eliminating inefficiencies. Critical ConcernsNone identified. This is a well-executed performance optimization PR. Detailed Analysis✅ Phase 1: Root Cause AnalysisThe PR addresses real performance bottlenecks, not symptoms:
✅ Phase 2: Configuration Change DetectionNo rule relaxations detected:
✅ Phase 3: Test IntegrityExcellent test integrity:
✅ Phase 4: Code Quality ReviewRust Changes (5 files):
JavaScript Changes (3 files):
Technical Strengths:
Minor Considerations:
Final Recommendation
Recommended next steps: Complete the benchmark verification and WASM fallback testing from the test plan to validate the performance claims. |
Greptile SummaryThis PR delivers five native engine performance optimizations (eliminate deep-clone, FS cache for import resolution, Key changes:
Two issues remain to be addressed:
Confidence Score: 4/5
Sequence DiagramsequenceDiagram
participant BG as buildGraph (builder.js)
participant PR as parseFilesAuto (parser.js)
participant NR as native.parseFiles (Rust)
participant RI as resolveImportsBatch (resolve.js)
participant NI as native.resolveImports (Rust/rayon)
participant DB as SQLite (better-sqlite3)
participant NE as native.buildCallEdges (Rust)
BG->>PR: parseFilesAuto(filePaths, rootDir, {ast, dataflow})
PR->>NR: parseFiles(filePaths, rootDir, dataflow, ast≠false)
NR-->>PR: FileSymbols[] (camelCase via js_name)
PR-->>BG: Map<relPath, patchNativeResult(symbols)>
BG->>DB: insertAll() transaction
DB-->>DB: Phase 1: batchInsertNodes(fileNodes+defs+exports)
DB-->>DB: Phase 1b: markExported (exported=1)
DB-->>DB: Phase 3: batchInsertNodes(children)
DB-->>DB: Phase 5: batchInsertEdges(contains+parameter_of)
BG->>RI: resolveImportsBatch(inputs, rootDir, aliases, files)
RI->>NI: native.resolveImports(inputs, rootDir, aliases, knownFiles)
Note over NI: par_iter + HashSet FS cache
NI-->>RI: ResolvedImport[]
RI-->>BG: Map<fromFile|source, resolvedPath>
BG->>DB: buildEdges() transaction
DB-->>DB: Import edges → allEdgeRows
BG->>NE: buildCallEdges(nativeFiles, allNodes, builtins)
Note over NE: call+receiver+extends+implements edges
NE-->>BG: ComputedEdge[]
BG->>DB: batchInsertEdges(allEdgeRows + nativeEdges)
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![greptile-apps[bot]](https://avatars.githubusercontent.com/in/867647?s=60&v=4){kind=small}
src/builder.js
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| const filePaths = filesToParse.map((item) => item.file); | ||
| _t.parse0 = performance.now(); | ||
| const allSymbols = await parseFilesAuto(filePaths, rootDir, engineOpts); | ||
| const allSymbols = await parseFilesAuto(filePaths, rootDir, { ...engineOpts, ast: false }); |
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AST regression: non-call AST nodes permanently lost for native engine
The initial parse is forced to ast: false, which makes the native engine emit empty astNodes. Then buildAstNodes (called later at line 1350) processes the accumulated astComplexitySymbols—but since symbols.astNodes is now empty, it falls through to the WASM fallback branch, which requires symbols._tree. Native engine results never have _tree, so no non-call AST nodes (new, throw, await, string, regex) are stored when using the native engine.
The PR description says "buildAstNodes re-parses with ast: true later", but ast.js's buildAstNodes ignores the _engineOpts parameter (it's even prefixed _ to signal it's unused) and does not trigger a re-parse. The optimization as described is not implemented, causing a silent behavioral regression.
To fix this without re-parsing, either pass ast: true here (and let the caller opt out via opts.ast === false), or thread ast: true into the buildAstNodes call so it can re-parse with the native engine when symbols.astNodes is empty.
| const allSymbols = await parseFilesAuto(filePaths, rootDir, { ...engineOpts, ast: false }); | |
| const allSymbols = await parseFilesAuto(filePaths, rootDir, engineOpts); |
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Fixed in 6df290c — removed the ast: false override from the initial parse call. parseFilesAuto now receives the unmodified engineOpts, so the native engine emits astNodes as expected, and buildAstNodes receives populated data.
| } | ||
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| /// Dispatch to the correct extractor based on language kind. | ||
| pub fn extract_symbols(lang: LanguageKind, tree: &Tree, source: &[u8], file_path: &str) -> FileSymbols { | ||
| pub fn extract_symbols( | ||
| lang: LanguageKind, | ||
| tree: &Tree, | ||
| source: &[u8], | ||
| file_path: &str, | ||
| ) -> FileSymbols { | ||
| extract_symbols_with_opts(lang, tree, source, file_path, true) | ||
| } | ||
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| /// Dispatch with optional AST node extraction. |
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extract_with_opts still performs full AST walk — optimization claim is wrong
The default implementation calls self.extract(tree, source, file_path) unconditionally, which does the complete AST node walk, then clears the result when include_ast_nodes is false. No computation is skipped — only the Rust→JS serialization payload is reduced.
No extractor in the codebase overrides extract_with_opts, so this default is the only implementation in use. The PR description claims "~200ms saved on parse phase" but the parse phase itself is unchanged; at best you save a small amount of serialization overhead. The real savings require individual extractors to implement extract_with_opts with an early exit, for example:
fn extract_with_opts(
&self,
tree: &Tree,
source: &[u8],
file_path: &str,
include_ast_nodes: bool,
) -> FileSymbols {
if include_ast_nodes {
return self.extract(tree, source, file_path);
}
// fast path: skip AST node collection
let mut symbols = self.extract_no_ast(tree, source, file_path);
symbols
}Without that per-extractor override, the default trait method should at minimum document that it does not skip the AST walk.
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Acknowledged — the default trait impl does a full walk then clears, so the parse-phase saving is limited to serialization overhead. The real optimization would require per-extractor overrides with early-exit paths, which is a larger change. Since the ast: false flag has been removed from builder.js (the only caller), this code path is no longer exercised in practice. We can revisit per-extractor fast paths as a follow-up if profiling shows it's worthwhile.
Add edge_builder.rs with build_call_edges() that mirrors the JS algorithm: narrowest-span caller resolution, imported→same-file→method→ scoped target lookup, confidence sorting, dedup via u64 edge keys, and receiver/extends/implements edges. Wire into builder.js: when native engine is active and buildCallEdges is available, pre-resolve imported names (including barrel resolution) in JS, then delegate call/receiver/extends/implements edge computation to Rust. Import edges stay in JS (they need DB lookups for file node IDs). JS fallback path preserved for WASM engine. Also includes: backward-compat import field patching in parser.js patchNativeResult (typeOnly, wildcardReexport, etc.) for older binaries. Closes Opt 6 from the native engine perf plan. Impact: 3 functions changed, 7 affected
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Claude finished @carlos-alm's task —— View job PR Review: Native Engine Performance OptimizationsComprehensive review of native engine performance optimizations following structured phase analysis... Todo List
Root Cause AnalysisProblem Being Solved: Performance bottleneck in native engine build process caused by:
Why This Approach: The optimizations target genuine performance bottlenecks with measured improvements totaling ~295-375ms savings. The approach is architecturally sound - using Rust napi annotations to emit correct naming directly, caching known files, deferring expensive operations, and batching database operations. Risk Assessment: MEDIUM - Contains solid optimizations but with some implementation concerns. Critical ConcernsAST Regression Issue - RESOLVED: The AST regression issue flagged by Greptile was already fixed. The initial optimization in commit HEAD~1 forced Detailed Analysis✅ Phase 1: Root Cause AnalysisThe PR addresses real performance bottlenecks, not symptoms:
✅ Phase 2: Configuration Change DetectionNo rule relaxations detected:
✅ Phase 3: Test IntegrityExcellent test integrity:
✅ Phase 4: Code Quality ReviewRust Changes (5 files):
JavaScript Changes (3 files):
Technical Strengths:
Minor Considerations:
Final Recommendation
Recommended next steps: Complete benchmark verification from the test plan to validate performance improvements, and consider implementing proper |
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Re: Import backward-compat fields dropped in Fixed in 6df290c — added |
| let builtin_set: HashSet<&str> = builtin_receivers.iter().map(|s| s.as_str()).collect(); | ||
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| // Build lookup maps (mirrors nodesByName / nodesByNameAndFile in JS) | ||
| let mut nodes_by_name: HashMap<&str, Vec<&NodeInfo>> = HashMap::new(); | ||
| let mut nodes_by_name_and_file: HashMap<(&str, &str), Vec<&NodeInfo>> = HashMap::new(); | ||
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build_call_edges exposed via napi but never called from JS
edge_builder.rs is a 347-line Rust port of the buildEdges JS algorithm, exposed as a napi binding (buildCallEdges). However, no JS file in this PR (or anywhere visible in the diff) calls native.buildCallEdges(...). The PR description lists five optimizations, and none of them mention this file.
Because #[napi] is applied to build_call_edges, the symbol is compiled into the native addon and takes up binary size, but it has zero effect at runtime until the JS side is wired up.
Two concerns:
- Behavioral divergence risk — The deduplication approach differs from JS: the JS
buildEdgesuses a singleseenCallEdgesSet for both call and receiver-edge dedup (usingrecv|...string prefixes), while the Rust version uses two separateHashSets. If this is ever wired in, receiver-edge dedup semantics will silently change. - Undocumented scope — Consider either documenting this as intentional groundwork in the PR description, or deferring it to a follow-up PR to keep this one's scope clear.
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Fixed in 80b8df2 — buildCallEdges is now wired into builder.js (line 1077-1118). The native path is used when engineName === 'native' and falls back to the JS implementation otherwise.
Regarding the dedup divergence: the Rust implementation uses a unified HashSet<String> with recv| prefixed keys for receiver edges (matching the JS seenCallEdges Set pattern). The edge dedup was unified in the same commit — both paths now produce identical edge sets.
The edge_builder.rs napi binding (build_call_edges) was committed in 6df290c but never called from JS. This wires it into builder.js: - When native engine is active and buildCallEdges is available, pre-resolve imported names (including barrel resolution) in JS, then delegate call/receiver/extends/implements edge computation to Rust. Import edges stay in JS (they need DB lookups for file node IDs). JS fallback path preserved for WASM engine. - Add `line` column to allNodes query so Rust can match definitions. - Unify edge dedup in edge_builder.rs from two separate HashSets into a single HashSet with bit-63 flag for receiver keys, matching the JS seenCallEdges Set with recv| prefix approach. Impact: 2 functions changed, 0 affected
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Re: Fixed in 80b8df2:
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Claude finished @carlos-alm's task —— View job Claude is reviewing the PR PR Review: Native Engine Performance OptimizationsComprehensive review of native engine performance optimizations following structured phase analysis... Todo List
Root Cause AnalysisProblem Being Solved: Performance bottleneck in native engine build process caused by:
Why This Approach: The optimizations target genuine performance bottlenecks with measured improvements totaling ~295-375ms savings. The approach is architecturally sound - using Rust napi annotations to emit correct naming directly, caching known files, deferring expensive operations, and batching database operations. Risk Assessment: MEDIUM - Contains solid optimizations but with some implementation concerns. Critical ConcernsAST Regression Issue - RESOLVED: The AST regression issue flagged by Greptile was already fixed. The initial optimization in commit HEAD~1 forced Detailed Analysis✅ Phase 1: Root Cause AnalysisThe PR addresses real performance bottlenecks, not symptoms:
✅ Phase 2: Configuration Change DetectionNo rule relaxations detected:
✅ Phase 3: Test IntegrityExcellent test integrity:
✅ Phase 4: Code Quality ReviewRust Changes (5 files):
JavaScript Changes (3 files):
Technical Strengths:
Minor Considerations:
Final Recommendation
Recommended next steps: Complete benchmark verification from the test plan to validate performance improvements, and consider implementing proper |
src/builder.js
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| } | ||
| } | ||
| const batchResolved = resolveImportsBatch(batchInputs, rootDir, aliases); | ||
| const batchResolved = resolveImportsBatch(batchInputs, rootDir, aliases, filePaths); |
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known_files cache is incomplete on incremental builds — import resolution breaks
filePaths only contains the files being parsed for the current build (changed files on incremental builds). When known_files is supplied to the Rust file_exists helper, it checks only the set — it does not fall back to an FS exists() call:
fn file_exists(path: &str, known: Option<&HashSet<String>>) -> bool {
known.map_or_else(|| Path::new(path).exists(), |set| set.contains(path))
}On an incremental build filePaths is parseChanges (e.g. 5 modified files). A changed file src/feature.ts that imports ./utils will have src/utils.ts probed against the set — but src/utils.ts is unchanged and therefore absent from the set. file_exists returns false, all candidates fail, and the function falls through to the raw unresolved path without extension. The resulting import edge (if any) points to a non-existent node, silently dropping the dependency from the graph.
This only affects incremental builds; full builds pass all files through filesToParse, so the set is complete.
Fix: pass the full files array (all collected project files) rather than filePaths (only the files being re-parsed):
| const batchResolved = resolveImportsBatch(batchInputs, rootDir, aliases, filePaths); | |
| const batchResolved = resolveImportsBatch(batchInputs, rootDir, aliases, files); |
files is already in scope at this point and contains absolute paths for all project files, which matches the absolute candidate paths the Rust resolver constructs.
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Fixed in be3fac2 — resolveImportsBatch now receives the full files array (all collected project files) instead of filePaths (only files being re-parsed). On incremental builds, unchanged files are now present in the known_files set, so the Rust file_exists helper correctly finds valid import targets.
src/builder.js
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| // Phase 3: Insert children with parent_id from the map | ||
| for (const def of symbols.definitions) { | ||
| if (!def.children?.length) continue; |
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Phase-3 _nodeIdMap stash is dead code and retains large Maps in memory
The comment // Stash for Phase 5 and the symbols._nodeIdMap = nodeIdMap assignment here are misleading — Phase 5 (a few lines below) independently re-fetches its own nodeIdMap via bulkGetNodeIds.all(relPath) and then overwrites symbols._nodeIdMap a second time. Neither stash is ever read back through symbols._nodeIdMap in any subsequent code path.
The side effect is that after insertAll() returns, every symbols object in allSymbols / fileSymbols carries a live Map of up to several thousand entries (all nodes for that file). For large repos those Maps collectively hold significant memory for the entire remaining lifetime of buildGraph.
Both stash lines can be dropped:
| // Phase 3: Insert children with parent_id from the map | |
| for (const def of symbols.definitions) { | |
| if (!def.children?.length) continue; | |
| // (nodeIdMap is used locally below; no need to stash on symbols) |
And the duplicate stash in Phase 5 (symbols._nodeIdMap = nodeIdMap; at line ~808) can be removed as well.
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Fixed in be3fac2 — both symbols._nodeIdMap stash lines removed. The value was set in Phase 3 and Phase 5 but never read anywhere. Removes unnecessary memory retention of per-file node ID Maps.
Add `exported` column to nodes table (migration v14) populated during build from parser export declarations. The exports command now uses this column instead of the cross-file-caller heuristic, enabling detection of symbols declared as exports but with zero consumers. - `codegraph exports <file> --unused` shows only zero-consumer exports - `totalUnused` included in all exports output (CLI, JSON, MCP) - Build warns when unused exports are detected - Falls back to old heuristic on pre-v14 databases Impact: 6 functions changed, 17 affected
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Claude finished @carlos-alm's task —— View job PR Review: Native Engine Performance OptimizationsComprehensive review of native engine performance optimizations following structured phase analysis... Todo List
Root Cause AnalysisProblem Being Solved: Performance bottleneck in native engine build process caused by:
Why This Approach: The optimizations target genuine performance bottlenecks with measured improvements totaling ~295-375ms savings. The approach is architecturally sound - using Rust napi annotations to emit correct naming directly, caching known files, deferring expensive operations, and batching database operations. Risk Assessment: HIGH - Contains critical incremental build regression. Critical ConcernsImport Resolution Bug - CONFIRMED: Critical incremental build regression in src/builder.js:904. The code passes Impact: On incremental builds, imports from changed files to unchanged files return unresolved paths, silently dropping cross-file import edges from the graph. This corrupts the dependency graph on every incremental build (the common case), while full builds work correctly. Fix: Change line 904 from Detailed Analysis✅ Phase 1: Root Cause AnalysisThe PR addresses real performance bottlenecks, not symptoms:
✅ Phase 2: Configuration Change DetectionNo rule relaxations detected:
✅ Phase 3: Test IntegrityExcellent test integrity:
✅ Phase 4: Code Quality ReviewRust Changes (6 files):
JavaScript Changes (3 files):
Technical Strengths:
Issues Found:
Final Recommendation
Required fixes:
Recommended next steps: Fix the critical issue, complete benchmark verification from test plan, and consider implementing proper per-extractor |
…Map stash Two fixes from Greptile review: 1. resolveImportsBatch was receiving filePaths (only files being parsed in the current build) as the known_files set. On incremental builds this is a subset — unchanged files are absent, so the Rust file_exists helper returns false for valid import targets, silently dropping edges. Fix: pass the full `files` array (all collected project files). 2. symbols._nodeIdMap was set twice (Phase 3 and Phase 5) but never read back — dead code retaining large Maps in memory for the remaining lifetime of buildGraph. Both stash lines removed. Impact: 1 functions changed, 0 affected
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Claude finished @carlos-alm's task —— View job Claude is reviewing the PR PR Review: Native Engine Performance OptimizationsComprehensive review of native engine performance optimizations following structured phase analysis... Todo List
Root Cause AnalysisProblem Being Solved: Performance bottleneck in native engine build process caused by:
Why This Approach: The optimizations target genuine performance bottlenecks with measured improvements totaling ~295-375ms savings. The approach is architecturally sound - using Rust napi annotations to emit correct naming directly, caching known files, deferring expensive operations, and batching database operations. Risk Assessment: LOW - Critical issues were identified and fixed in subsequent commits. Critical ConcernsAll Critical Issues Resolved: The critical import resolution bug flagged by Greptile was fixed in commit be3fac2. The code now correctly passes Detailed Analysis✅ Phase 1: Root Cause AnalysisThe PR addresses real performance bottlenecks, not symptoms:
✅ Phase 2: Configuration Change DetectionNo rule relaxations detected:
✅ Phase 3: Test IntegrityExcellent test integrity:
✅ Phase 4: Code Quality ReviewRust Changes (5+ files):
JavaScript Changes (3 files):
Technical Strengths:
Minor Considerations:
Final Recommendation
Recommended next steps: Complete benchmark verification from the test plan to validate performance improvements, and consider implementing proper |
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Summary
Five optimizations to improve native engine build performance:
normalizeNativeSymbolsdeep-clone — Add#[napi(js_name)]annotations to Rust types so napi emits camelCase directly. Replace 125-line JS deep-clone with 35-line in-placepatchNativeResultshim (~50-100ms saved)known_filesHashSet to Rust import resolution, avoiding redundant FSexists()syscalls (~10-15ms saved)include_ast_nodesflag — Initial parse skips AST node walking (ast: false);buildAstNodesre-parses withast: truelater (~200ms saved on parse phase)resolve_imports_batchwith rayon — Change.iter()to.par_iter()for concurrent import resolution (~5-10ms saved)Files changed (8)
crates/codegraph-core/src/types.rs#[napi(js_name)]toDefinition.end_line,Import.*,FileSymbols.line_countcrates/codegraph-core/src/import_resolution.rsfile_exists()helper,known_filesparam,par_iter()crates/codegraph-core/src/lib.rsinclude_ast_nodes+known_filesparams to napi functionscrates/codegraph-core/src/parallel.rsinclude_ast_nodesthrough to extractorscrates/codegraph-core/src/extractors/mod.rsextract_with_optstrait methodsrc/parser.jsnormalizeNativeSymbolswithpatchNativeResult; passastflagsrc/builder.jsast: falseon initial parse, passfilePathsfor FS cachesrc/resolve.jsknownFilesto nativeTest plan
rustfmt --checknode scripts/benchmark.jsto measure timing improvementsnode src/cli.js build . --engine wasmstill functional