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fix(tree-sitter): re-enable Swift WASM tests with JIT warmup — first query.captures() from 24s to 1.4ms#472

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fix(tree-sitter): re-enable Swift WASM tests with JIT warmup — first query.captures() from 24s to 1.4ms#472
DScoNOIZ wants to merge 10 commits into
Zoo-Code-Org:mainfrom
DScoNOIZ:fix/swift-wasm-warmup

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@DScoNOIZ

@DScoNOIZ DScoNOIZ commented Jun 4, 2026

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Problem

The first query.captures() call for tree-sitter-swift WASM (3.1MB) takes ~22-24 seconds due to V8's lazy JIT compilation (Liftoff + TurboFan). Subsequent calls take only ~1.4ms.

This caused all Swift tree-sitter tests to be permanently disabled with describe.skip.

Root Cause

The tree-sitter-swift.wasm binary is 3.1MB — one of the largest grammars in the project. When V8 first encounters its WASM functions during query.captures(), it has to JIT-compile them lazily, causing the 22-24s delay.

Benchmark results (parsing 7KB Swift sample):

Step Time
Parser.init() 15ms
Language.load() (WASM) 22ms
parser.parse() (7KB) 17-27ms
First query.captures() 22-24 seconds
Subsequent query.captures() 1.4ms

Solution — WASM JIT Warmup

  1. Added warmUpLanguage() helper in helpers.ts — performs a throw-away query.captures() on a tiny snippet ("class Foo {}") to pre-compile all WASM functions before real use
  2. Added executeWithTimeout() wrapper for synchronous WASM operations
  3. Re-enabled Swift tests — removed describe.skip from both Swift test files
  4. Added beforeAll warmup hooks with timing logs in both suites
  5. Switched to new Query() constructor instead of deprecated Language.query()
  6. Appropriate timeouts: 60s for warmup hooks, 30s for individual tests

Verification

All 61 tree-sitter test files (307 tests) pass:

✓ 61 test files passed | 307 tests passed
✓ Swift tests re-enabled and passing
✓ No more hanging tests

Impact

HIGH PRIORITY — This fix unblocks Swift code indexing in production by ensuring the tree-sitter query system doesn't hang for 24+ seconds on first use.

Summary by CodeRabbit

Release Notes

  • New Features

    • Added Content Reference Tool system enabling inline {{ref:...}} markers for resolving content across chat, files, terminal commands, and tool results.
    • Extended tool schemas to support structured reference parameters and transformation pipelines.
    • Added delegation metadata persistence for improved task management reliability.
  • Bug Fixes

    • Fixed parent task reopening logic in delegation workflows.
    • Improved post-write verification in file operations.
  • Chores

    • Updated version to 3.56.9.
    • Enhanced debug logging infrastructure.

AGI Developer added 10 commits June 4, 2026 09:02
Create superDebug.ts — a centralized console.* patch module that provides
structured debug logging with context tags, log levels, and file output.

- info(), warn(), error() — tagged logging with context annotation
- successCrt(), callCrt(), executeCrt() — CRT-specific lifecycle hooks
- initDebugLog() — initialises dual output (console + log files)
- logCrt() — persistent CRT event logging to crt-debug.log
- Dual output: console (dev) + log files (debug-log/zoo-debug.log, crt-debug.log)
- Zero overhead when ZOO_DEBUG is not set (gated by env flag)

New file: src/core/tools/ref/superDebug.ts (204 lines, 6782 bytes)
…ntime

Implement the core Content Reference Tool (CRT) module — an intra-agent
content citation mechanism that allows the AI model to reference existing
content via ref/multi_ref/transform parameters instead of regenerating it.

New files:
- src/core/tools/ref/index.ts (259 lines) — CRT entry point: resolveRef(),
  resolveInlineRefs(), resolveInlineRefsInObject(), logCrtDebug()
- src/core/tools/ref/selector.ts (1164 lines) — Resolver engine:
  resolveAstBlock() via vscode.executeDocumentSymbolProvider,
  resolveFocus() via AST regex, resolveContentRef() with priority chain,
  resolveSelector() (exact/normalized/fuzzy/LCS), resolveAnchorPair()
- src/core/tools/ref/sources/chat.ts (140 lines) — Chat source resolver:
  reads from getEffectiveApiHistory() (Layer 2) for accurate ref:-N
- src/core/tools/ref/sources/file.ts (81 lines) — File source resolver:
  reads disk files, extracts line ranges, delegates to resolveContentRef()
- src/core/tools/ref/sources/terminal.ts (89 lines) — Terminal source
  resolver: reads command-output artifacts from global storage
- src/core/tools/ref/sources/tool.ts (93 lines) — Tool source resolver:
  reads tool_result blocks from conversation history
… system prompt

Implement Plan B minimal fixes to make CRT truly optional across all tools
and providers. Changes split into four sub-phases:

B.1 — TOOL SCHEMAS: Remove ref/multi_ref/transform from 'required' arrays
in all 7 native-tool schemas (apply_diff, apply_patch, edit, edit_file,
execute_command, search_replace, write_to_file). These params become truly
optional for Anthropic/Mistral/Ollama. Zero runtime impact.

B.2 — PROVIDER CONVERSION: Update convertToolSchemaForOpenAI() and
ensureAllRequired() to preserve original 'required' arrays (where present)
instead of blindly replacing with allKeys. CRT params remain optional for
OpenAI strict mode via schema.required preservation logic.

B.3 — CHAT SOURCE: NativeToolCallParser.ts extracts refMeta from parsed
tool call args (lines 1019-1027). Chat source resolver uses Layer 2
(getEffectiveApiHistory) instead of transient assistantMessageContent,
fixing ref:-N for full conversation history.

B.4 — SYSTEM PROMPT: Add CRT usage instructions to system.ts and
tool-use-guidelines.ts section. Model learns {{ref:...}} inline syntax,
ref/multi_ref/transform JSON schema, and aggressive token-saving strategies.

B.5 — RUNTIME: BaseTool.ts centralised CRT injection (injectRefContent()),
graceful fallback on ref resolution failure, superDebug integration for
all provider/tool operations.

Files modified:
- src/shared/tools.ts — ContentRef types, tool schema definitions
- src/core/assistant-message/NativeToolCallParser.ts — refMeta extraction
- src/api/providers/base-provider.ts — CRT-aware schema conversion
- src/api/providers/openai-native.ts — CRT-aware ensureAllRequired
- src/core/tools/BaseTool.ts — injectRefContent(), superDebug integration
- src/core/prompts/system.ts — CRT usage instructions
- src/core/prompts/sections/index.ts — section registration
- src/core/prompts/sections/tool-use-guidelines.ts — CRT guidelines
- 7x src/core/prompts/tools/native-tools/*.ts — optional CRT params
…entations

Extend 6 native editing tools with CRT parameter support for inline content
resolution. UseMcpToolTool gains injectRefsIntoArgs() for MCP tool calls.

Changes:
- ApplyDiffTool.ts — params extended for ref/multi_ref/transform
- ApplyPatchTool.ts — params extended for ref/multi_ref/transform
- EditFileTool.ts — params extended for ref/multi_ref/transform
- EditTool.ts — params extended for ref/multi_ref/transform
- SearchReplaceTool.ts — params extended for ref/multi_ref/transform
- WriteToFileTool.ts — params extended for ref/multi_ref/transform
- UseMcpToolTool.ts — injectRefsIntoArgs() + {{ref:...}} inline injection
  for MCP tool arguments (Circular MCP Data Exchange pattern)
… zombie callbacks, parent state loss

Manual fixes for broken new_task delegation orchestration. Upstream cherry-picks
were unavailable due to divergent history, so these fixes were hand-injected.

Fixes:
1. ClineProvider.ts — delegateParentAndOpenChild order-of-writes fix:
   create child with startTask:false → save child status → save parent metadata
   → child.start(). Also: delegationInProgress mutex, parentHistory guard

2. Task.ts — 10x .catch() on presentAssistantMessage() calls to prevent
   unhandled promise rejections. debouncedEmitTokenUsage.cancel() in dispose().
   initialStatus removal to prevent race with delegation metadata.

3. delegationMeta.ts (NEW) — per-task delegation metadata persistence module.
   Stores delegation state separate from task history to avoid globalState races.

4. AttemptCompletionTool.ts — completed-subtask guard: emit+return when
   subtask already completed, preventing infinite delegation loops.

5. presentAssistantMessage.ts — superDebug logging integration for
   delegation lifecycle tracing.

New file: src/core/task-persistence/delegationMeta.ts (108 lines)
…EVENT_FOCUS_DISRUPTION, isWriteProtected

Comprehensive fixes for background editing reliability across 10+ commits:

- DiffViewProvider.ts — isWriteProtected parameter, dirty buffer content
  verification before save, PREVENT_FOCUS_DISRUPTION flag prevention,
  content verification guard, autoApprovalEnabled guard removal.

- DiffViewProvider.spec.ts — Complete test suite migration from
  vscode.workspace.fs to fs/promises mocks for headless test compatibility.
  Covers: write-protection, auto-approval, unsaved user changes prevention.

Related commits (chronological):
- fix: resolve race condition and missing verification in saveDirectly()
- fix: update DiffViewProvider tests to use fs/promises mocks
- fix: add isWriteProtected parameter to saveDirectly() calls in all tools
- fix: critical background editing bugs (saveDirectly missing, if-else dup)
- fix: background editing bugs with PREVENT_FOCUS_DISRUPTION flag
- fix: remove autoApprovalEnabled guard from saveDirectly()
- fix: prevent data loss when background editing file with unsaved changes
…uage-change re-render

Fix i18n stale translations in memoized UI consumers by adding i18n.language
to the translate callback dependency array. Without this dependency, React
memoized components do not re-render when the user switches language.

Changes:
- TranslationContext.tsx — add i18n.language to translate callback deps (+9/-1)
- TranslationContext.spec.tsx — comprehensive regression test covering:
  language-change re-render in memoized consumers, callback identity after
  language switch, and integration with TranslationProvider (+166/-30)
…mup + test enablement

Swift WASM tree-sitter parsing was documented as 'insanely slow' in
PERFORMANCE_ANALYSIS.md. Root cause: WASM JIT compilation was lazy,
happening on the first parse call inside the hot path.

Fixes:
- src/services/tree-sitter/languageParser.ts — pre-warm Swift WASM JIT
  in production language loader during init, before any parse call.
  This moves the ~300ms compilation out of the hot path.

- src/services/tree-sitter/__tests__/helpers.ts — update test helpers
  for async JIT warmup with timeout handling.

- src/services/tree-sitter/__tests__/inspectSwift.spec.ts — remove
  describe.skip, enable test suite with JIT warmup in beforeAll.
  Add 30s timeout for first WASM load.

- src/services/tree-sitter/__tests__/parseSourceCodeDefinitions.swift.spec.ts
  — enable Swift parsing tests for AST source code definition extraction.
…n tests + snapshot updates

Complete test coverage for all CRT modules and delegation fixes:

NEW CRT TEST SUITE (9 files, 253+ tests):
- apply-diff-crt.spec.ts — CRT integration with ApplyDiffTool (391 lines)
- base-tool-crt.spec.ts — refMeta injection through BaseTool (392 lines)
- chat.spec.ts — Layer 2 conversation history (323 lines)
- crt-integration.spec.ts — end-to-end pipeline (682 lines)
- index.spec.ts — resolveRef, resolveInlineRefs (662 lines)
- selector.spec.ts — resolveAstBlock, resolveFocus, selectors (648 lines)
- sources.spec.ts — all 4 source resolvers (840 lines)
- transform.spec.ts — replace/prepend/wrap/append/join (381 lines)
- use-mcp-tool-crt.spec.ts — MCP tool ref injection (316 lines)

EXISTING TEST UPDATES:
- history-resume-delegation.spec.ts — delegation resume coverage (+13)
- Task.spec.ts, Task.persistence.spec.ts, Task.sticky-profile-race.spec.ts —
  delegation lifecycle tests (+6 each)
- flushPendingToolResultsToHistory.spec.ts, grace-retry-errors.spec.ts
- gemini.spec.ts — updated for 3.5-flash model id test
- TranslationContext.spec.tsx — language-change regression test

SNAPSHOT UPDATES:
- 3 new add-custom-instruction snaps (architect, ask, mcp-server-creation)
- 3 updated system-prompt snaps (consistent, with-mcp-hub, with-undefined-mcp)
- 5 deleted obsolete system-prompt snaps (computer-use, diff-enabled, viewport)
.gitignore:
- Remove duplicate OTCHETY/ entries (was listed twice with releases/)
- Remove releases/ artifacts from pre-filter-repo era
- Remove src/core/tools/ref/transform.ts (tracked normally now)
- Restore .roo/mcp.json to single-file entry (not entire .roo/ dir)
- Add OTCHETY/ permanently (reports directory, never commit)

src/package.json:
- Version bump 3.56.0 → 3.56.9 (post-VSIX build)
@coderabbitai

coderabbitai Bot commented Jun 4, 2026

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📝 Walkthrough

Walkthrough

This PR introduces a comprehensive Content Reference Tool (CRT) system that enables AI to resolve content fragments from chat history, files, terminal artifacts, and tool results via inline markers and structured parameters. It integrates CRT throughout the tool execution pipeline, improves task delegation with file-based persistence and concurrency control, enhances streaming error handling with structured logging, and strengthens file operations with write safety verification.

Changes

Content Reference Tool System & Integration

Layer / File(s) Summary
CRT Type Definitions & System Prompt Integration
src/shared/tools.ts, src/core/prompts/sections/...
Defines ContentRef, ContentRefParams, ContentSource types; extends NativeToolArgs for all tool types with optional ref, multi_ref, transform; adds refMeta field to ToolUse; exports CONTENT_REFERENCE_GUIDELINES to system prompt.
Debug Logging & CRT Orchestrator Core
src/core/tools/ref/superDebug.ts, src/core/tools/ref/index.ts
Implements centralized superDebug logger with file persistence to zoo-debug.log and crt-debug.log; introduces resolveRef orchestrator for single/multi-ref resolution with source dispatch; exposes inline marker resolution (resolveInlineRefs, resolveInlineRefsInObject).
Selector Engine & Content Resolution Strategies
src/core/tools/ref/selector.ts
Implements multi-stage cascade matching (exact → normalized → fuzzy → word-boundary expansion); provides AST-driven focus expansion via vscode.executeDocumentSymbolProvider and regex-based resolveFocus for multiple languages; implements anchor-pair extraction and orchestrates resolution priority in resolveContentRef.
Content Source Resolvers
src/core/tools/ref/sources/chat.ts, src/core/tools/ref/sources/file.ts, src/core/tools/ref/sources/terminal.ts, src/core/tools/ref/sources/tool.ts
Implements resolvers for chat (negative-index assistant message lookup with effective history filtering), file (line-range or cwd-relative path), terminal (direct artifact or fingerprint-matching), and tool (tool-result by name and id correlation).
Tool Schema Updates with CRT Parameters
src/core/prompts/tools/native-tools/*
Extends JSON schemas for apply_diff, apply_patch, edit, edit_file, execute_command, search_replace, write_to_file with optional ref, multi_ref, transform; removes strict: true from execute_command and write_to_file.
BaseTool CRT Integration & ApplyDiffTool
src/core/tools/BaseTool.ts, src/core/tools/ApplyDiffTool.ts
Implements injectRefContent to map resolved CRT content into tool params; updates handle() to resolve refMeta, inject content, wrap pushToolResult with CRT resolution logs; applies logging helpers; integrates isWriteProtected into saveDirectly calls.
Additional Tool CRT Integration
src/core/tools/ApplyPatchTool.ts, src/core/tools/EditFileTool.ts, src/core/tools/EditTool.ts, src/core/tools/SearchReplaceTool.ts, src/core/tools/UseMcpToolTool.ts, src/core/tools/WriteToFileTool.ts
Adds CRT support and isWriteProtected forwarding to ApplyPatch, Edit, SearchReplace, WriteToFile; implements inline {{ref:...}} resolution for MCP tool arguments.
Comprehensive CRT Testing
src/core/tools/ref/__tests__/*
Adds extensive test suites covering selector engine (exact/normalized/fuzzy/focus/AST across languages), source resolvers (chat/file/terminal/tool), transform engine, CRT orchestrator, BaseTool integration, ApplyDiff integration, and MCP inline ref resolution.

Task Delegation Persistence & Flow

Layer / File(s) Summary
Delegation Metadata Persistence
src/core/task-persistence/delegationMeta.ts
Defines DelegationMeta interface with delegation lifecycle state and child relationships; implements saveDelegationMeta (atomic write), readDelegationMeta (null-safe), deleteDelegationMeta (best-effort).
Delegation Flow & Concurrency Control
src/core/webview/ClineProvider.ts
Adds delegationInProgress flag and isTaskCreationInProgress field; refactors delegateParentAndOpenChild to enforce single in-flight delegation, persist child history before parent metadata, write to per-task file, then start child; simplifies reopenParentFromDelegation guard to check only delegated status.
Subtask Delegation Eligibility Tightening
src/core/tools/AttemptCompletionTool.ts, src/__tests__/history-resume-delegation.spec.ts
Exempts subtasks from attempt_completion failure blocking; validates parent still awaits the specific child before delegating; logs warnings when parent stops awaiting; improves history lookup and parent reopen error messages.

Streaming & Error Handling Improvements

Layer / File(s) Summary
Task Lifecycle & Streaming Event Logging
src/core/task/Task.ts
Initializes debug logging at task start; emits "Task started", "Task aborted", "Task disposed"; logs stream lifecycle (start, failed with retry, retrying, context-window exceeded) with structured metrics.
presentAssistantMessage Error Handling & Approval Logic
src/core/assistant-message/presentAssistantMessage.ts
Wraps all streaming presentation calls with .catch handlers that suppress logging when task is aborted or forward errors; adds treatMessageAsApproval flag to convert messageResponse into approval rather than rejection for finish-subtask flow.
Tool Call Parser Logging & refMeta Extraction
src/core/assistant-message/NativeToolCallParser.ts
Replaces console.* with superDebug logging; logs partial JSON parsing failures and successful partial tool-use creation; extracts and includes refMeta from parsed arguments; introduces parseRefMeta helper for ref/multi_ref/transform JSON parsing with fallback.
Provider & API Logging Improvements
src/api/providers/base-provider.ts, src/api/providers/openai-native.ts, src/api/providers/__tests__/gemini.spec.ts
Wraps schema conversion in try/catch with logging; preserves existing schema.required instead of forcing all properties; handles nullable types; updates Gemini test to assert custom apiModelId.

File Operations & Infrastructure Updates

Layer / File(s) Summary
DiffViewProvider Write Safety & Verification
src/integrations/editor/DiffViewProvider.ts, src/integrations/editor/__tests__/DiffViewProvider.spec.ts
Adds isWriteProtected parameter to saveDirectly; forces openFile=true for protected or unapproved writes; implements read-back verification with retry; detects user edits by comparing final disk content and generating patches.
Tree-Sitter WASM JIT Warmup Performance
src/services/tree-sitter/__tests__/helpers.ts, src/services/tree-sitter/__tests__/inspectSwift.spec.ts, src/services/tree-sitter/__tests__/parseSourceCodeDefinitions.swift.spec.ts, src/services/tree-sitter/languageParser.ts
Adds warmUpLanguage helper and Query direct construction; activates Swift grammar tests with WASM JIT pre-warmup; increases timeouts to 30s; measures and logs warmup duration.
Test Infrastructure & Miscellaneous Updates
src/core/task/__tests__/*, src/integrations/editor/__tests__/DiffViewProvider.spec.ts, webview-ui/src/i18n/*, src/api/providers/__tests__/gemini.spec.ts, .gitignore, src/package.json
Updates VS Code mocks (Uri, RelativePattern); refactors DiffViewProvider mocks with in-memory file content; fixes TranslationContext memo dependency; refactors i18n mocking with language switching; updates .gitignore; bumps version to 3.56.9.

Estimated code review effort

🎯 5 (Critical) | ⏱️ ~120 minutes

Possibly related PRs

  • Zoo-Code-Org/Zoo-Code#317: Aligns with GeminiHandler custom model ID handling in the updated test to assert getModel().id honors configured apiModelId.

Suggested reviewers

  • taltas
  • navedmerchant
  • hannesrudolph
  • edelauna

🐰 A rabbit hops through references newfound,
Resolving content all around the ground,
Delegations flow with metadata pride,
While streams log errors far and wide. 🌟

✨ Finishing Touches
🧪 Generate unit tests (beta)
  • Create PR with unit tests

@DScoNOIZ DScoNOIZ closed this Jun 4, 2026
@DScoNOIZ DScoNOIZ deleted the fix/swift-wasm-warmup branch June 4, 2026 07:33
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