- Refactored chunk tree initialization to use explicit prologue/epilogue byte boundaries instead of None values.
- Extracted chunk resolution logic to use split_selector_crc_and_region() helper for improved code reuse.
- Reorganized package.json exports across multiple modules (autoresearch, cli, dap, edit, modes) for better API surface clarity.
- Updated test expectations for Go receiver method rendering and chunk selector formats to match refactored output.
- Consolidated notebook conversion logic and removed unused _createErrorToolResult helper function.
- Improved leading trivia preservation in chunk edits by detecting and maintaining line prefix whitespace.
- Reorganized edit tool from `patch/` to `edit/` directory with dedicated mode subdirectories (chunk, patch, hashline, replace).
- Replaced line-scoped edit operations with substring-based `find` parameter and added `replace_body` operation for preserving signatures.
- Added chunk focus modes (Expanded, Collapsed, Container) and focused rendering to display only touched chunks and adjacent siblings.
- Implemented notebook (ipynb) language support with virtual source conversion and cell-based chunk parsing.
- Enhanced chunk edit error messages with consistent checksum mismatch reporting and improved chunk selector auto-resolution.
- Extracted edit mode implementations into separate modules with improved helper functions and LSP integration for diagnostics.
- Migrated native bindings from TypeScript wrappers to NAPI-RS generated modules with auto-generated type definitions and runtime enums.
- Replaced chunk tree API with stateful ChunkState class supporting render, edit, and resolve operations with improved error handling.
- Converted callback signatures to error-first pattern (error, result) for shell, PTY, glob, and grep operations.
- Introduced type-safe enums for MacOSAppearance, GrepOutputMode, KeyEventType, ImageFormat, and AstMatchStrictness replacing string literals.
- Refactored chunk tree implementation with dedicated modules for edit, indent, resolve, and state management with comprehensive validation.
- Moved clipboard utilities from native bindings to coding-agent package with improved OSC 52 and Termux compatibility.
- Extracted git operations from ControlledGit class into centralized utils/git module with 1276 lines of typed command wrappers.
- Replaced dependency injection of ControlledGit instances with direct cwd string parameters across commit agent tools and workflows.
- Migrated all git command execution from inline shell calls and custom helpers to structured git module API (diff, status, branch, worktree, patch, etc.).
- Removed ControlledGit class, operations.ts, and helper functions (findGitHeadPath, mergeStdoutStderr, joinPatch) now provided by git module.
- Exported git utilities from main package entry point for extension and plugin use.
- Replaced Python-based markitdown CLI with native markit-ai library for document and notebook conversion.
- Added support for converting Jupyter notebooks (.ipynb) to markdown via markit-ai integration.
- Created markit utility module with file/buffer conversion wrappers and standardized error handling.
- Removed markitdown from Python tools manager and eliminated external CLI dependency.
- Updated fetch, read, and scraper tools to use new markit conversion API across codebase.
- Added test coverage for ipynb file conversion through markit utility.
- Added archive reading support for .tar, .tar.gz, .tgz, and .zip files with virtual subpath syntax (archive.ext:path/inside/archive).
- Added archive listing and subdirectory navigation capabilities to explore archive contents without extraction.
- Added /tools slash command to display visible agent tools and their capabilities.
- Implemented ArchiveReader module with openArchive(), parseArchivePathCandidates(), and archive content extraction methods.
- Added fflate 0.8.2 dependency for archive decompression support.
- Added comprehensive test coverage for TAR, TAR.GZ, TGZ, and ZIP archive reading with fixture generation utilities.
- Added ACP (Agent Client Protocol) mode for headless agent operation via --mode acp flag.
- Integrated Agent Client Protocol SDK with session management, streaming communication, and event mapping.
- Added ensureOnDisk() method to SessionManager for immediate session persistence without requiring assistant messages.
- Changed session persistence to use atomic file rewrite for unflushed sessions.
- Implemented AcpAgent class with session management, prompt handling, MCP server configuration, and event streaming.
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