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79 Commits

Author SHA1 Message Date
Alex Newman 4df9f61347 refactor: implement in-process worker architecture for hooks (#722) 
* fix: stop generating empty CLAUDE.md files

- Return empty string instead of "No recent activity" when no observations exist
- Skip writing CLAUDE.md files when formatted content is empty
- Remove redundant "auto-generated by claude-mem" HTML comment
- Clean up 98 existing empty CLAUDE.md files across the codebase
- Update tests to expect empty string for empty input

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* build assets

* refactor: implement in-process worker architecture for hooks

Replaces spawn-based worker startup with in-process architecture:
- Hook processes now become the worker when port 37777 is free
- Eliminates Windows spawn issues (NO SPAWN rule)
- SessionStart chains: smart-install && stop && context

Key changes:
- worker-service.ts: hook case starts WorkerService in-process
- hook-command.ts: skipExit option prevents process.exit() when hosting worker
- hooks.json: single chained command replaces separate start/hook commands
- worker-utils.ts: ensureWorkerRunning() returns boolean, doesn't block
- handlers: graceful fallback when worker unavailable

All 761 tests pass. Manual verification confirms hook stays alive as worker.

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* context

* a

* MAESTRO: Mark PR #722 test verification task complete

All 797 tests passed (3 skipped, 0 failed) after merge conflict resolution.

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* MAESTRO: Mark PR #722 build verification task complete

* MAESTRO: Mark PR #722 code review task complete

Code review verified:
- worker-service.ts hook case starts WorkerService in-process
- hook-command.ts has skipExit option
- hooks.json uses single chained command
- worker-utils.ts ensureWorkerRunning() returns boolean

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* MAESTRO: Mark PR #722 conflict resolution push task complete

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

---------

Co-authored-by: Claude Opus 4.5 <noreply@anthropic.com>
 2026-02-04 19:49:15 -05:00
Alex Newman 57a60c1309 chore: bump version to 9.0.13 
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2026-02-04 19:41:07 -05:00
Alexander Knigge 182097ef1c fix: resolve path format mismatch in folder CLAUDE.md generation (#794) (#813) 
The isDirectChild() function failed to match files when the API used
absolute paths (/Users/x/project/app/api) but the database stored
relative paths (app/api/router.py). This caused all folder CLAUDE.md
files to incorrectly show "No recent activity".

Changes:
- Create shared path-utils module with proper path normalization
- Implement suffix matching strategy for mixed path formats
- Update SessionSearch.ts to use shared utilities
- Update regenerate-claude-md.ts to use shared utilities (was using
  outdated broken logic)
- Prevent spurious directory creation from malformed paths
- Add comprehensive test coverage for path matching edge cases

This is the proper fix for #794, replacing PR #809 which only masked
the bug by skipping file creation when "no activity" was shown.

Co-authored-by: bigphoot <bigphoot@gmail.com>
Co-authored-by: Claude Opus 4.5 <noreply@anthropic.com>
 2026-01-26 15:48:31 -05:00
Alex Newman 2659ec3231 fix: Claude Code 2.1.1 compatibility + log-level audit + path validation fixes (#614) 
* Refactor CLAUDE.md and related files for December 2025 updates

- Updated CLAUDE.md in src/services/worker with new entries for December 2025, including changes to Search.ts, GeminiAgent.ts, SDKAgent.ts, and SessionManager.ts.
- Revised CLAUDE.md in src/shared to reflect updates and new entries for December 2025, including paths.ts and worker-utils.ts.
- Modified hook-constants.ts to clarify exit codes and their behaviors.
- Added comprehensive hooks reference documentation for Claude Code, detailing usage, events, and examples.
- Created initial CLAUDE.md files in various directories to track recent activity.

* fix: Merge user-message-hook output into context-hook hookSpecificOutput

- Add footer message to additionalContext in context-hook.ts
- Remove user-message-hook from SessionStart hooks array
- Fixes issue where stderr+exit(1) approach was silently discarded

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* Update logs and documentation for recent plugin and worker service changes

- Added detailed logs for worker service activities from Dec 10, 2025 to Jan 7, 2026, including initialization patterns, cleanup confirmations, and diagnostic logging.
- Updated plugin documentation with recent activities, including plugin synchronization and configuration changes from Dec 3, 2025 to Jan 7, 2026.
- Enhanced the context hook and worker service logs to reflect improvements and fixes in the plugin architecture.
- Documented the migration and verification processes for the Claude memory system and its integration with the marketplace.

* Refactor hooks architecture and remove deprecated user-message-hook

- Updated hook configurations in CLAUDE.md and hooks.json to reflect changes in session start behavior.
- Removed user-message-hook functionality as it is no longer utilized in Claude Code 2.1.0; context is now injected silently.
- Enhanced context-hook to handle session context injection without user-visible messages.
- Cleaned up documentation across multiple files to align with the new hook structure and removed references to obsolete hooks.
- Adjusted timing and command execution for hooks to improve performance and reliability.

* fix: Address PR #610 review issues

- Replace USER_MESSAGE_ONLY test with BLOCKING_ERROR test in hook-constants.test.ts
- Standardize Claude Code 2.1.0 note wording across all three documentation files
- Exclude deprecated user-message-hook.ts from logger-usage-standards test

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* fix: Remove hardcoded fake token counts from context injection

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* Address PR #610 review issues by fixing test files, standardizing documentation notes, and verifying code quality improvements.

* fix: Add path validation to CLAUDE.md distribution to prevent invalid directory creation

- Add isValidPathForClaudeMd() function to reject invalid paths:
  - Tilde paths (~) that Node.js doesn't expand
  - URLs (http://, https://)
  - Paths with spaces (likely command text or PR references)
  - Paths with # (GitHub issue/PR references)
  - Relative paths that escape project boundary

- Integrate validation in updateFolderClaudeMdFiles loop
- Add 6 unit tests for path validation
- Update .gitignore to prevent accidental commit of malformed directories
- Clean up existing invalid directories (~/, PR #610..., git diff..., https:)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

* fix: Implement path validation in CLAUDE.md generation to prevent invalid directory creation

- Added `isValidPathForClaudeMd()` function to validate file paths in `src/utils/claude-md-utils.ts`.
- Integrated path validation in `updateFolderClaudeMdFiles` to skip invalid paths.
- Added 6 new unit tests in `tests/utils/claude-md-utils.test.ts` to cover various rejection cases.
- Updated `.gitignore` to prevent tracking of invalid directories.
- Cleaned up existing invalid directories in the repository.

* feat: Promote critical WARN logs to ERROR level across codebase

Comprehensive log-level audit promoting 38+ WARN messages to ERROR for
improved debugging and incident response:

- Parser: observation type errors, data contamination
- SDK/Agents: empty init responses (Gemini, OpenRouter)
- Worker/Queue: session recovery, auto-recovery failures
- Chroma: sync failures, search failures (now treated as critical)
- SQLite: search failures (primary data store)
- Session/Generator: failures, missing context
- Infrastructure: shutdown, process management failures
- File Operations: CLAUDE.md updates, config reads
- Branch Management: recovery checkout failures

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

* fix: Address PR #614 review issues

- Remove incorrectly tracked tilde-prefixed files from git
- Fix absolute path validation to check projectRoot boundaries
- Add test coverage for absolute path validation edge cases

Closes review issues:
- Issue 1: ~/ prefixed files removed from tracking
- Issue 3: Absolute paths now validated against projectRoot
- Issue 4: Added 3 new test cases for absolute path scenarios

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* build assets and context

---------

Co-authored-by: Claude Opus 4.5 <noreply@anthropic.com>
 2026-01-07 23:34:20 -05:00
Alex Newman a3d6bfc7dd feat: Update CLAUDE.md files with recent test activities and improvements 
- Added detailed entries for test activities across various modules including `export-types.test.ts`, `server.test.ts`, `smart-install.test.ts`, and others.
- Documented significant changes in test coverage, cleanup efforts, and regression tests.
- Enhanced the `plans` documentation with recent implementation strategies and PR follow-ups.
- Introduced a comprehensive report on Windows platform challenges and solutions, detailing issues like zombie ports, console popups, and process management.
- Established a new `ProcessManager` architecture to address Windows-specific issues and improve reliability.
- Updated integration tests to reflect recent changes and ensure comprehensive coverage.
 2026-01-07 16:53:02 -05:00
Alex Newman e1ab73decc feat: Live Context System with Distributed CLAUDE.md Generation (#556) 
* docs: add folder index generator plan

RFC for auto-generating folder-level CLAUDE.md files with observation
timelines. Includes IDE symlink support and root CLAUDE.md integration.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* feat: implement folder index generator (Phase 1)

Add automatic CLAUDE.md generation for folders containing observed files.
This enables IDE context providers to access relevant memory observations.

Core modules:
- FolderDiscovery: Extract folders from observation file paths
- FolderTimelineCompiler: Compile chronological timeline per folder
- ClaudeMdGenerator: Write CLAUDE.md with tag-based content replacement
- FolderIndexOrchestrator: Coordinate regeneration on observation save

Integration:
- Event-driven regeneration after observation save in ResponseProcessor
- HTTP endpoints for folder discovery, timeline, and manual generation
- Settings for enabling/configuring folder index behavior

The <claude-mem-context> tag wrapping ensures:
- Manual CLAUDE.md content is preserved
- Auto-generated content won't be recursively observed
- Clean separation between user and system content

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* feat: add updateFolderClaudeMd function to CursorHooksInstaller

Adds function to update CLAUDE.md files for folders touched by observations.
Uses existing /api/search/by-file endpoint, preserves content outside
<claude-mem-context> tags, and writes atomically via temp file + rename.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* feat: hook updateFolderClaudeMd into ResponseProcessor

Calls updateFolderClaudeMd after observation save to update folder-level
CLAUDE.md files. Uses fire-and-forget pattern with error logging.
Extracts file paths from saved observations and workspace path from registry.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* feat: add timeline formatting for folder CLAUDE.md files

Implements formatTimelineForClaudeMd function that transforms API response
into compact markdown table format. Converts emojis to text labels,
handles ditto marks for timestamps, and groups under "Recent" header.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* refactor: remove old folder-index implementation

Deletes redundant folder-index services that were replaced by the simpler
updateFolderClaudeMd approach in CursorHooksInstaller.ts.

Removed:
- src/services/folder-index/ directory (5 files)
- FolderIndexRoutes.ts
- folder-index settings from SettingsDefaultsManager
- folder-index route registration from worker-service

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* feat: add worktree-aware project filtering for unified timelines

Detect git worktrees and show both parent repo and worktree observations
in the session start timeline. When running in a worktree, the context
now includes observations from both projects, interleaved chronologically.

- Add detectWorktree() utility to identify worktree directories
- Add getProjectContext() to return parent + worktree projects
- Update context hook to pass multi-project queries
- Add queryObservationsMulti() and querySummariesMulti() for IN clauses
- Maintain backward compatibility with single-project queries

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Haiku 4.5 <noreply@anthropic.com>

* fix: restructure logging to prove session correctness and reduce noise

Add critical logging at each stage of the session lifecycle to prove the session ID chain (contentSessionId → sessionDbId → memorySessionId) stays aligned. New logs include CREATED, ENQUEUED, CLAIMED, MEMORY_ID_CAPTURED, STORING, and STORED. Move intermediate migration and backfill progress logs to DEBUG level to reduce noise, keeping only essential initialization and completion logs at INFO level.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Haiku 4.5 <noreply@anthropic.com>

* refactor: extract folder CLAUDE.md utils to shared location

Moves folder CLAUDE.md utilities from CursorHooksInstaller to a new
shared utils file. Removes Cursor registry dependency - file paths
from observations are already absolute, no workspace lookup needed.

New file: src/utils/claude-md-utils.ts
- replaceTaggedContent() - preserves user content outside tags
- writeClaudeMdToFolder() - atomic writes with tag preservation
- formatTimelineForClaudeMd() - API response to compact markdown
- updateFolderClaudeMdFiles() - orchestrates folder updates

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* fix: trigger folder CLAUDE.md updates when observations are saved

The folder CLAUDE.md update was previously only triggered in
syncAndBroadcastSummary, but summaries run with observationCount=0
(observations are saved separately). Moved the update logic to
syncAndBroadcastObservations where file paths are available.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* all the claudes

* test: add unit tests for claude-md-utils pure functions

Add 11 tests covering replaceTaggedContent and formatTimelineForClaudeMd:
- replaceTaggedContent: empty content, tag replacement, appending, partial tags
- formatTimelineForClaudeMd: empty input, parsing, ditto marks, session IDs

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* test: add integration tests for file operation functions

Add 9 tests for writeClaudeMdToFolder and updateFolderClaudeMdFiles:
- writeClaudeMdToFolder: folder creation, content preservation, nested dirs, atomic writes
- updateFolderClaudeMdFiles: empty skip, fetch/write, deduplication, error handling

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* test: add unit tests for timeline-formatting utilities

Add 14 tests for extractFirstFile and groupByDate functions:
- extractFirstFile: relative paths, fallback to files_read, null handling, invalid JSON
- groupByDate: empty arrays, date grouping, chronological sorting, item preservation

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* chore: rebuild plugin scripts with merged features

* docs: add project-specific CLAUDE.md with architecture and development notes

* fix: exclude project root from auto-generated CLAUDE.md updates

Skip folders containing .git directory when auto-updating subfolder
CLAUDE.md files. This ensures:

1. Root CLAUDE.md remains user-managed and untouched by the system
2. SessionStart context injection stays pristine throughout the session
3. Subfolder CLAUDE.md files continue to receive live context updates
4. Cleaner separation between user-authored root docs and auto-generated folder indexes

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* fix: prevent crash from resuming stale SDK sessions on worker restart

When the worker restarts, it was incorrectly passing the `resume` parameter
to INIT prompts (lastPromptNumber=1) when a memorySessionId existed from a
previous SDK session. This caused "Claude Code process exited with code 1"
crashes because the SDK tried to resume into a session that no longer exists.

Root cause: The resume condition only checked `hasRealMemorySessionId` but
did not verify that this was a CONTINUATION prompt (lastPromptNumber > 1).

Fix: Add `session.lastPromptNumber > 1` check to the resume condition:
- Before: `...(hasRealMemorySessionId && { resume: session.memorySessionId })`
- After: `...(hasRealMemorySessionId && session.lastPromptNumber > 1 && { resume: ... })`

Also added:
- Enhanced debug logging that warns when skipping resume for INIT prompts
- Unit tests in tests/sdk-agent-resume.test.ts (9 test cases)

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* fix: properly handle Chroma MCP connection errors

Previously, ensureCollection() caught ALL errors from chroma_get_collection_info
and assumed they meant "collection doesn't exist", triggering unnecessary
collection creation attempts. Connection errors like "Not connected" or
"MCP error -32000: Connection closed" would cascade into failed creation attempts.

Similarly, queryChroma() would silently return empty results when the MCP call
failed, masking the underlying connection problem.

Changes:
- ensureCollection(): Detect connection errors and re-throw immediately instead
  of attempting collection creation
- queryChroma(): Wrap MCP call in try-catch and throw connection errors instead
  of returning empty results
- Both methods reset connection state (connected=false, client=null) on
  connection errors so subsequent operations can attempt to reconnect

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* pushed

* fix: scope regenerate-claude-md.ts to current working directory

Critical bug fix: The script was querying ALL observations from the database
across ALL projects ever recorded (1396+ folders), then attempting to write
CLAUDE.md files everywhere including other projects, non-existent paths, and
ignored directories.

Changes:
- Use git ls-files to discover folders (respects .gitignore automatically)
- Filter database query to current project only (by folder name)
- Use relative paths for database queries (matches storage format)
- Add --clean flag to remove auto-generated CLAUDE.md files
- Add fallback directory walker for non-git repos

Now correctly scopes to 26 folders with observations instead of 1396+.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* docs and adjustments

* fix: cleanup mode strips tags instead of deleting files blindly

The cleanup mode was incorrectly deleting entire files that contained
<claude-mem-context> tags. The correct behavior (per original design):

1. Strip the <claude-mem-context>...</claude-mem-context> section
2. If empty after stripping → delete the file
3. If has remaining content → save the stripped version

Now properly preserves user content in CLAUDE.md files while removing
only the auto-generated sections.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* deleted some files

* chore: regenerate folder CLAUDE.md files with fixed script

Regenerated 23 folder CLAUDE.md files using the corrected script that:
- Scopes to current working directory only
- Uses git ls-files to respect .gitignore
- Filters by project name

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* Update CLAUDE.md files for January 5, 2026

- Regenerated and staged 23 CLAUDE.md files with a mix of new and modified content.
- Fixed cleanup mode to properly strip tags instead of deleting files blindly.
- Cleaned up empty CLAUDE.md files from various directories, including ~/.claude and ~/Scripts.
- Conducted dry-run cleanup that identified a significant reduction in auto-generated CLAUDE.md files.
- Removed the isAutoGeneratedClaudeMd function due to incorrect file deletion behavior.

* feat: use settings for observation limit in batch regeneration script

Replace hard-coded limit of 10 with configurable CLAUDE_MEM_CONTEXT_OBSERVATIONS
setting (default: 50). This allows users to control how many observations appear
in folder CLAUDE.md files.

Changes:
- Import SettingsDefaultsManager and load settings at script startup
- Use OBSERVATION_LIMIT constant derived from settings at both call sites
- Remove stale default parameter from findObservationsByFolder function

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* feat: use settings for observation limit in event-driven updates

Replace hard-coded limit of 10 in updateFolderClaudeMdFiles with
configurable CLAUDE_MEM_CONTEXT_OBSERVATIONS setting (default: 50).

Changes:
- Import SettingsDefaultsManager and os module
- Load settings at function start (once, not in loop)
- Use limit from settings in API call

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* feat: Implement configurable observation limits and enhance search functionality

- Added configurable observation limits to batch regeneration scripts.
- Enhanced SearchManager to handle folder queries and normalize parameters.
- Introduced methods to check for direct child files in observations and sessions.
- Updated SearchOptions interface to include isFolder flag for filtering.
- Improved code quality with comprehensive reviews and anti-pattern checks.
- Cleaned up auto-generated CLAUDE.md files across various directories.
- Documented recent changes and improvements in CLAUDE.md files.

* build asset

* Project Context from Claude-Mem auto-added (can be auto removed at any time)

* CLAUDE.md updates

* fix: resolve CLAUDE.md files to correct directory in worktree setups

When using git worktrees, CLAUDE.md files were being written relative to
the worker's process.cwd() instead of the actual project directory. This
fix threads the project's cwd from message processing through to the file
writing utilities, ensuring CLAUDE.md files are created in the correct
project directory regardless of where the worker was started.

Changes:
- Add projectRoot parameter to updateFolderClaudeMdFiles for path resolution
- Thread projectRoot through ResponseProcessor call chain
- Track lastCwd from messages in SDKAgent, GeminiAgent, OpenRouterAgent
- Add tests for relative/absolute path handling with projectRoot

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* more project context updates

* context updates

* fix: preserve actual dates in folder CLAUDE.md generation

Previously, formatTimelineForClaudeMd used today's date for all
observations because the API only returned time (e.g., "4:30 PM")
without date information. This caused all historical observations
to appear as if they happened today.

Changes:
- SearchManager.findByFile now groups results by date with headers
  (e.g., "### Jan 4, 2026") matching formatSearchResults behavior
- formatTimelineForClaudeMd now parses these date headers and uses
  the correct date when constructing epochs for date grouping

The timeline dates are critical for claude-mem context - LLMs need
accurate temporal context to understand when work happened.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* build: update worker assets with date parsing fix

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* claude-mem context: Fixed critical date parsing bug in PR #556

* fix: address PR #556 review items

- Use getWorkerHost() instead of hard-coded 127.0.0.1 in claude-md-utils
- Add error message and stack details to FOLDER_INDEX logging
- Add 5 new tests for worktree/projectRoot path resolution

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* Refactor CLAUDE documentation across multiple components and tests

- Updated CLAUDE.md files in src/ui/viewer, src/ui/viewer/constants, src/ui/viewer/hooks, tests/server, tests/worker/agents, and plans to reflect recent changes and improvements.
- Removed outdated entries and consolidated recent activities for clarity.
- Enhanced documentation for hooks, settings, and pagination implementations.
- Streamlined test suite documentation for server and worker agents, indicating recent test audits and cleanup efforts.
- Adjusted plans to remove obsolete entries and focus on current implementation strategies.

* docs: comprehensive v9.0 documentation audit and updates

- Add usage/folder-context to docs.json navigation (was documented but hidden!)
- Update introduction.mdx with v9.0 release notes (Live Context, Worktree Support, Windows Fixes)
- Add CLAUDE_MEM_WORKER_HOST setting to configuration.mdx
- Add Folder Context Files section with link to detailed docs
- Document worktree support in folder-context.mdx
- Update terminology from "mem-search skill" to "MCP tools" throughout active docs
- Update Search Pipeline in architecture/overview.mdx
- Update usage/getting-started.mdx with MCP tools terminology
- Update usage/claude-desktop.mdx title and terminology
- Update hooks-architecture.mdx reference

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* feat: add recent activity log for worker CLI with detailed entries

* chore: update CLAUDE.md context files

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* feat: add brainstorming report for CLAUDE.md distribution architecture

---------

Co-authored-by: Claude Opus 4.5 <noreply@anthropic.com>
 2026-01-05 22:41:42 -05:00
Alex Newman f21ea97c39 refactor: decompose monolith into modular architecture with comprehensive test suite (#538) 
* fix: prevent memory_session_id from equaling content_session_id

The bug: memory_session_id was initialized to contentSessionId as a
"placeholder for FK purposes". This caused the SDK resume logic to
inject memory agent messages into the USER's Claude Code transcript,
corrupting their conversation history.

Root cause:
- SessionStore.createSDKSession initialized memory_session_id = contentSessionId
- SDKAgent checked memorySessionId !== contentSessionId but this check
  only worked if the session was fetched fresh from DB

The fix:
- SessionStore: Initialize memory_session_id as NULL, not contentSessionId
- SDKAgent: Simple truthy check !!session.memorySessionId (NULL = fresh start)
- Database migration: Ran UPDATE to set memory_session_id = NULL for 1807
  existing sessions that had the bug

Also adds [ALIGNMENT] logging across the session lifecycle to help debug
session continuity issues:
- Hook entry: contentSessionId + promptNumber
- DB lookup: contentSessionId → memorySessionId mapping proof
- Resume decision: shows which memorySessionId will be used for resume
- Capture: logs when memorySessionId is captured from first SDK response

UI: Added "Alignment" quick filter button in LogsModal to show only
alignment logs for debugging session continuity.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* refactor: improve error handling in worker-service.ts

- Fix GENERIC_CATCH anti-patterns by logging full error objects instead of just messages
- Add [ANTI-PATTERN IGNORED] markers for legitimate cases (cleanup, hot paths)
- Simplify error handling comments to be more concise
- Improve httpShutdown() error discrimination for ECONNREFUSED
- Reduce LARGE_TRY_BLOCK issues in initialization code

Part of anti-pattern cleanup plan (132 total issues)

* refactor: improve error logging in SearchManager.ts

- Pass full error objects to logger instead of just error.message
- Fixes PARTIAL_ERROR_LOGGING anti-patterns (10 instances)
- Better debugging visibility when Chroma queries fail

Part of anti-pattern cleanup (133 remaining)

* refactor: improve error logging across SessionStore and mcp-server

- SessionStore.ts: Fix error logging in column rename utility
- mcp-server.ts: Log full error objects instead of just error.message
- Improve error handling in Worker API calls and tool execution

Part of anti-pattern cleanup (133 remaining)

* Refactor hooks to streamline error handling and loading states

- Simplified error handling in useContextPreview by removing try-catch and directly checking response status.
- Refactored usePagination to eliminate try-catch, improving readability and maintaining error handling through response checks.
- Cleaned up useSSE by removing unnecessary try-catch around JSON parsing, ensuring clarity in message handling.
- Enhanced useSettings by streamlining the saving process, removing try-catch, and directly checking the result for success.

* refactor: add error handling back to SearchManager Chroma calls

- Wrap queryChroma calls in try-catch to prevent generator crashes
- Log Chroma errors as warnings and fall back gracefully
- Fixes generator failures when Chroma has issues
- Part of anti-pattern cleanup recovery

* feat: Add generator failure investigation report and observation duplication regression report

- Created a comprehensive investigation report detailing the root cause of generator failures during anti-pattern cleanup, including the impact, investigation process, and implemented fixes.
- Documented the critical regression causing observation duplication due to race conditions in the SDK agent, outlining symptoms, root cause analysis, and proposed fixes.

* fix: address PR #528 review comments - atomic cleanup and detector improvements

This commit addresses critical review feedback from PR #528:

## 1. Atomic Message Cleanup (Fix Race Condition)

**Problem**: SessionRoutes.ts generator error handler had race condition
- Queried messages then marked failed in loop
- If crash during loop → partial marking → inconsistent state

**Solution**:
- Added `markSessionMessagesFailed()` to PendingMessageStore.ts
- Single atomic UPDATE statement replaces loop
- Follows existing pattern from `resetProcessingToPending()`

**Files**:
- src/services/sqlite/PendingMessageStore.ts (new method)
- src/services/worker/http/routes/SessionRoutes.ts (use new method)

## 2. Anti-Pattern Detector Improvements

**Problem**: Detector didn't recognize logger.failure() method
- Lines 212 & 335 already included "failure"
- Lines 112-113 (PARTIAL_ERROR_LOGGING detection) did not

**Solution**: Updated regex patterns to include "failure" for consistency

**Files**:
- scripts/anti-pattern-test/detect-error-handling-antipatterns.ts

## 3. Documentation

**PR Comment**: Added clarification on memory_session_id fix location
- Points to SessionStore.ts:1155
- Explains why NULL initialization prevents message injection bug

## Review Response

Addresses "Must Address Before Merge" items from review:
✅ Clarified memory_session_id bug fix location (via PR comment)
✅ Made generator error handler message cleanup atomic
❌ Deferred comprehensive test suite to follow-up PR (keeps PR focused)

## Testing

- Build passes with no errors
- Anti-pattern detector runs successfully
- Atomic cleanup follows proven pattern from existing methods

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

* fix: FOREIGN KEY constraint and missing failed_at_epoch column

Two critical bugs fixed:

1. Missing failed_at_epoch column in pending_messages table
   - Added migration 20 to create the column
   - Fixes error when trying to mark messages as failed

2. FOREIGN KEY constraint failed when storing observations
   - All three agents (SDK, Gemini, OpenRouter) were passing
     session.contentSessionId instead of session.memorySessionId
   - storeObservationsAndMarkComplete expects memorySessionId
   - Added null check and clear error message

However, observations still not saving - see investigation report.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

* Refactor hook input parsing to improve error handling

- Added a nested try-catch block in new-hook.ts, save-hook.ts, and summary-hook.ts to handle JSON parsing errors more gracefully.
- Replaced direct error throwing with logging of the error details using logger.error.
- Ensured that the process exits cleanly after handling input in all three hooks.

* docs: add monolith refactor report with system breakdown

Comprehensive analysis of codebase identifying:
- 14 files over 500 lines requiring refactoring
- 3 critical monoliths (SessionStore, SearchManager, worker-service)
- 80% code duplication across agent files
- 5-phase refactoring roadmap with domain-based architecture

* docs: update monolith report post session-logging merge

- SessionStore grew to 2,011 lines (49 methods) - highest priority
- SearchManager reduced to 1,778 lines (improved)
- Agent files reduced by ~45 lines combined
- Added trend indicators and post-merge observations
- Core refactoring proposal remains valid

* refactor(sqlite): decompose SessionStore into modular architecture

Extract the 2011-line SessionStore.ts monolith into focused, single-responsibility
modules following grep-optimized progressive disclosure pattern:

New module structure:
- sessions/ - Session creation and retrieval (create.ts, get.ts, types.ts)
- observations/ - Observation storage and queries (store.ts, get.ts, recent.ts, files.ts, types.ts)
- summaries/ - Summary storage and queries (store.ts, get.ts, recent.ts, types.ts)
- prompts/ - User prompt management (store.ts, get.ts, types.ts)
- timeline/ - Cross-entity timeline queries (queries.ts)
- import/ - Bulk import operations (bulk.ts)
- migrations/ - Database migrations (runner.ts)

New coordinator files:
- Database.ts - ClaudeMemDatabase class with re-exports
- transactions.ts - Atomic cross-entity transactions
- Named re-export facades (Sessions.ts, Observations.ts, etc.)

Key design decisions:
- All functions take `db: Database` as first parameter (functional style)
- Named re-exports instead of index.ts for grep-friendliness
- SessionStore retained as backward-compatible wrapper
- Target file size: 50-150 lines (60% compliance)

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* refactor(agents): extract shared logic into modular architecture

Consolidate duplicate code across SDKAgent, GeminiAgent, and OpenRouterAgent
into focused utility modules. Total reduction: 500 lines (29%).

New modules in src/services/worker/agents/:
- ResponseProcessor.ts: Atomic DB transactions, Chroma sync, SSE broadcast
- ObservationBroadcaster.ts: SSE event formatting and dispatch
- SessionCleanupHelper.ts: Session state cleanup and stuck message reset
- FallbackErrorHandler.ts: Provider error detection for fallback logic
- types.ts: Shared interfaces (WorkerRef, SSE payloads, StorageResult)

Bug fix: SDKAgent was incorrectly using obs.files instead of obs.files_read
and hardcoding files_modified to empty array.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* refactor(search): extract search strategies into modular architecture

Decompose SearchManager into focused strategy pattern with:
- SearchOrchestrator: Coordinates strategy selection and fallback
- ChromaSearchStrategy: Vector semantic search via ChromaDB
- SQLiteSearchStrategy: Filter-only queries for date/project/type
- HybridSearchStrategy: Metadata filtering + semantic ranking
- ResultFormatter: Markdown table formatting for results
- TimelineBuilder: Chronological timeline construction
- Filter modules: DateFilter, ProjectFilter, TypeFilter

SearchManager now delegates to new infrastructure while maintaining
full backward compatibility with existing public API.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* refactor(context): decompose context-generator into modular architecture

Extract 660-line monolith into focused components:
- ContextBuilder: Main orchestrator (~160 lines)
- ContextConfigLoader: Configuration loading
- TokenCalculator: Token budget calculations
- ObservationCompiler: Data retrieval and query building
- MarkdownFormatter/ColorFormatter: Output formatting
- Section renderers: Header, Timeline, Summary, Footer

Maintains full backward compatibility - context-generator.ts now
delegates to new ContextBuilder while preserving public API.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* refactor(worker): decompose worker-service into modular infrastructure

Split 2000+ line monolith into focused modules:

Infrastructure:
- ProcessManager: PID files, signal handlers, child process cleanup
- HealthMonitor: Port checks, health polling, version matching
- GracefulShutdown: Coordinated cleanup on exit

Server:
- Server: Express app setup, core routes, route registration
- Middleware: Re-exports from existing middleware
- ErrorHandler: Centralized error handling with AppError class

Integrations:
- CursorHooksInstaller: Full Cursor IDE integration (registry, hooks, MCP)

WorkerService now acts as thin coordinator wiring all components together.
Maintains full backward compatibility with existing public API.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* Refactor session queue processing and database interactions

- Implement claim-and-delete pattern in SessionQueueProcessor to simplify message handling and eliminate duplicate processing.
- Update PendingMessageStore to support atomic claim-and-delete operations, removing the need for intermediate processing states.
- Introduce storeObservations method in SessionStore for simplified observation and summary storage without message tracking.
- Remove deprecated methods and clean up session state management in worker agents.
- Adjust response processing to accommodate new storage patterns, ensuring atomic transactions for observations and summaries.
- Remove unnecessary reset logic for stuck messages due to the new queue handling approach.

* Add duplicate observation cleanup script

Script to clean up duplicate observations created by the batching bug
where observations were stored once per message ID instead of once per
observation. Includes safety checks to always keep at least one copy.

Usage:
  bun scripts/cleanup-duplicates.ts           # Dry run
  bun scripts/cleanup-duplicates.ts --execute # Delete duplicates
  bun scripts/cleanup-duplicates.ts --aggressive # Ignore time window

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* test(sqlite): add comprehensive test suite for SQLite repositories

Add 44 tests across 5 test files covering:
- Sessions: CRUD operations and schema validation
- Observations: creation, retrieval, filtering, and ordering
- Prompts: persistence and association with observations
- Summaries: generation tracking and session linkage
- Transactions: context management and rollback behavior

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* test(worker): add comprehensive test suites for worker agent modules

Add test coverage for response-processor, observation-broadcaster,
session-cleanup-helper, and fallback-error-handler agents. Fix type
import issues across search module (use `import type` for type-only
imports) and update worker-service main module detection for ESM/CJS
compatibility.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* test(search): add comprehensive test suites for search module

Add test coverage for the refactored search architecture:
- SearchOrchestrator: query coordination and caching
- ResultFormatter: pagination, sorting, and field mapping
- SQLiteSearchStrategy: database search operations
- ChromaSearchStrategy: vector similarity search
- HybridSearchStrategy: combined search with score fusion

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* test(context): add comprehensive test suites for context-generator modules

Add test coverage for the modular context-generator architecture:
- context-builder.test.ts: Tests for context building and result assembly
- observation-compiler.test.ts: Tests for observation compilation with privacy tags
- token-calculator.test.ts: Tests for token budget calculations
- formatters/markdown-formatter.test.ts: Tests for markdown output formatting

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* test(infrastructure): add comprehensive test suites for worker infrastructure modules

Add test coverage for graceful-shutdown, health-monitor, and process-manager
modules extracted during the worker-service refactoring. All 32 tests pass.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* test(server): add comprehensive test suites for server modules

Add test coverage for Express server infrastructure:
- error-handler.test.ts: Tests error handling middleware including
  validation errors, database errors, and async error handling
- server.test.ts: Tests server initialization, middleware configuration,
  and route mounting for all API endpoints

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* chore(package): add test scripts for modular test suites

Add npm run scripts to simplify running tests:
- test: run all tests
- test:sqlite, test:agents, test:search, test:context, test:infra, test:server

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* build assets

* feat(tests): add detailed failure analysis reports for session ID refactor, validation, and store tests

- Created reports for session ID refactor test failures, highlighting 8 failures due to design mismatches.
- Added session ID usage validation report detailing 10 failures caused by outdated assumptions in tests.
- Documented session store test failures, focusing on foreign key constraint violations in 2 tests.
- Compiled a comprehensive test suite report summarizing overall test results, including 28 failing tests across various categories.

* fix(tests): align session ID tests with NULL-based initialization

Update test expectations to match implementation where memory_session_id
starts as NULL (not equal to contentSessionId) per architecture decision
that memory_session_id must NEVER equal contentSessionId.

Changes:
- session_id_refactor.test.ts: expect NULL initial state, add updateMemorySessionId() calls
- session_id_usage_validation.test.ts: update placeholder detection to check !== null
- session_store.test.ts: add updateMemorySessionId() before storeObservation/storeSummary

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* fix(tests): update GeminiAgent tests with correct field names and mocks

- Rename deprecated fields: claudeSessionId → contentSessionId,
  sdkSessionId → memorySessionId, pendingProcessingIds → pendingMessages
- Add missing required ActiveSession fields
- Add storeObservations mock (plural) for ResponseProcessor compatibility
- Fix settings mock to use correct CLAUDE_MEM_GEMINI_RATE_LIMITING_ENABLED key
- Add await to rejects.toThrow assertion

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* feat(tests): add logger imports and fix coverage test exclusions

Phase 3 of test suite fixes:
- Add logger imports to 34 high-priority source files (SQLite, worker, context)
- Exclude CLI-facing files from console.log check (worker-service.ts,
  integrations/*Installer.ts) as they use console.log intentionally for
  interactive user output

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* docs: update SESSION_ID_ARCHITECTURE for NULL-based initialization

Update documentation to reflect that memory_session_id starts as NULL,
not as a placeholder equal to contentSessionId. This matches the
implementation decision that memory_session_id must NEVER equal
contentSessionId to prevent injecting memory messages into user transcripts.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* chore(deps): update esbuild and MCP SDK

- esbuild: 0.25.12 → 0.27.2 (fixes minifyIdentifiers issue)
- @modelcontextprotocol/sdk: 1.20.1 → 1.25.1

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* build assets and updates

* chore: remove bun.lock and add to gitignore

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

---------

Co-authored-by: Claude Opus 4.5 <noreply@anthropic.com>
 2026-01-03 23:58:41 -05:00
Alex Newman 2fc4153bef refactor: decompose monolithic services into modular architecture (#534) 
* docs: add monolith refactor report with system breakdown

Comprehensive analysis of codebase identifying:
- 14 files over 500 lines requiring refactoring
- 3 critical monoliths (SessionStore, SearchManager, worker-service)
- 80% code duplication across agent files
- 5-phase refactoring roadmap with domain-based architecture

* fix: prevent memory_session_id from equaling content_session_id

The bug: memory_session_id was initialized to contentSessionId as a
"placeholder for FK purposes". This caused the SDK resume logic to
inject memory agent messages into the USER's Claude Code transcript,
corrupting their conversation history.

Root cause:
- SessionStore.createSDKSession initialized memory_session_id = contentSessionId
- SDKAgent checked memorySessionId !== contentSessionId but this check
  only worked if the session was fetched fresh from DB

The fix:
- SessionStore: Initialize memory_session_id as NULL, not contentSessionId
- SDKAgent: Simple truthy check !!session.memorySessionId (NULL = fresh start)
- Database migration: Ran UPDATE to set memory_session_id = NULL for 1807
  existing sessions that had the bug

Also adds [ALIGNMENT] logging across the session lifecycle to help debug
session continuity issues:
- Hook entry: contentSessionId + promptNumber
- DB lookup: contentSessionId → memorySessionId mapping proof
- Resume decision: shows which memorySessionId will be used for resume
- Capture: logs when memorySessionId is captured from first SDK response

UI: Added "Alignment" quick filter button in LogsModal to show only
alignment logs for debugging session continuity.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* refactor: improve error handling in worker-service.ts

- Fix GENERIC_CATCH anti-patterns by logging full error objects instead of just messages
- Add [ANTI-PATTERN IGNORED] markers for legitimate cases (cleanup, hot paths)
- Simplify error handling comments to be more concise
- Improve httpShutdown() error discrimination for ECONNREFUSED
- Reduce LARGE_TRY_BLOCK issues in initialization code

Part of anti-pattern cleanup plan (132 total issues)

* refactor: improve error logging in SearchManager.ts

- Pass full error objects to logger instead of just error.message
- Fixes PARTIAL_ERROR_LOGGING anti-patterns (10 instances)
- Better debugging visibility when Chroma queries fail

Part of anti-pattern cleanup (133 remaining)

* refactor: improve error logging across SessionStore and mcp-server

- SessionStore.ts: Fix error logging in column rename utility
- mcp-server.ts: Log full error objects instead of just error.message
- Improve error handling in Worker API calls and tool execution

Part of anti-pattern cleanup (133 remaining)

* Refactor hooks to streamline error handling and loading states

- Simplified error handling in useContextPreview by removing try-catch and directly checking response status.
- Refactored usePagination to eliminate try-catch, improving readability and maintaining error handling through response checks.
- Cleaned up useSSE by removing unnecessary try-catch around JSON parsing, ensuring clarity in message handling.
- Enhanced useSettings by streamlining the saving process, removing try-catch, and directly checking the result for success.

* refactor: add error handling back to SearchManager Chroma calls

- Wrap queryChroma calls in try-catch to prevent generator crashes
- Log Chroma errors as warnings and fall back gracefully
- Fixes generator failures when Chroma has issues
- Part of anti-pattern cleanup recovery

* feat: Add generator failure investigation report and observation duplication regression report

- Created a comprehensive investigation report detailing the root cause of generator failures during anti-pattern cleanup, including the impact, investigation process, and implemented fixes.
- Documented the critical regression causing observation duplication due to race conditions in the SDK agent, outlining symptoms, root cause analysis, and proposed fixes.

* fix: address PR #528 review comments - atomic cleanup and detector improvements

This commit addresses critical review feedback from PR #528:

## 1. Atomic Message Cleanup (Fix Race Condition)

**Problem**: SessionRoutes.ts generator error handler had race condition
- Queried messages then marked failed in loop
- If crash during loop → partial marking → inconsistent state

**Solution**:
- Added `markSessionMessagesFailed()` to PendingMessageStore.ts
- Single atomic UPDATE statement replaces loop
- Follows existing pattern from `resetProcessingToPending()`

**Files**:
- src/services/sqlite/PendingMessageStore.ts (new method)
- src/services/worker/http/routes/SessionRoutes.ts (use new method)

## 2. Anti-Pattern Detector Improvements

**Problem**: Detector didn't recognize logger.failure() method
- Lines 212 & 335 already included "failure"
- Lines 112-113 (PARTIAL_ERROR_LOGGING detection) did not

**Solution**: Updated regex patterns to include "failure" for consistency

**Files**:
- scripts/anti-pattern-test/detect-error-handling-antipatterns.ts

## 3. Documentation

**PR Comment**: Added clarification on memory_session_id fix location
- Points to SessionStore.ts:1155
- Explains why NULL initialization prevents message injection bug

## Review Response

Addresses "Must Address Before Merge" items from review:
✅ Clarified memory_session_id bug fix location (via PR comment)
✅ Made generator error handler message cleanup atomic
❌ Deferred comprehensive test suite to follow-up PR (keeps PR focused)

## Testing

- Build passes with no errors
- Anti-pattern detector runs successfully
- Atomic cleanup follows proven pattern from existing methods

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

* fix: FOREIGN KEY constraint and missing failed_at_epoch column

Two critical bugs fixed:

1. Missing failed_at_epoch column in pending_messages table
   - Added migration 20 to create the column
   - Fixes error when trying to mark messages as failed

2. FOREIGN KEY constraint failed when storing observations
   - All three agents (SDK, Gemini, OpenRouter) were passing
     session.contentSessionId instead of session.memorySessionId
   - storeObservationsAndMarkComplete expects memorySessionId
   - Added null check and clear error message

However, observations still not saving - see investigation report.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

* Refactor hook input parsing to improve error handling

- Added a nested try-catch block in new-hook.ts, save-hook.ts, and summary-hook.ts to handle JSON parsing errors more gracefully.
- Replaced direct error throwing with logging of the error details using logger.error.
- Ensured that the process exits cleanly after handling input in all three hooks.

* docs: update monolith report post session-logging merge

- SessionStore grew to 2,011 lines (49 methods) - highest priority
- SearchManager reduced to 1,778 lines (improved)
- Agent files reduced by ~45 lines combined
- Added trend indicators and post-merge observations
- Core refactoring proposal remains valid

* refactor(sqlite): decompose SessionStore into modular architecture

Extract the 2011-line SessionStore.ts monolith into focused, single-responsibility
modules following grep-optimized progressive disclosure pattern:

New module structure:
- sessions/ - Session creation and retrieval (create.ts, get.ts, types.ts)
- observations/ - Observation storage and queries (store.ts, get.ts, recent.ts, files.ts, types.ts)
- summaries/ - Summary storage and queries (store.ts, get.ts, recent.ts, types.ts)
- prompts/ - User prompt management (store.ts, get.ts, types.ts)
- timeline/ - Cross-entity timeline queries (queries.ts)
- import/ - Bulk import operations (bulk.ts)
- migrations/ - Database migrations (runner.ts)

New coordinator files:
- Database.ts - ClaudeMemDatabase class with re-exports
- transactions.ts - Atomic cross-entity transactions
- Named re-export facades (Sessions.ts, Observations.ts, etc.)

Key design decisions:
- All functions take `db: Database` as first parameter (functional style)
- Named re-exports instead of index.ts for grep-friendliness
- SessionStore retained as backward-compatible wrapper
- Target file size: 50-150 lines (60% compliance)

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* refactor(agents): extract shared logic into modular architecture

Consolidate duplicate code across SDKAgent, GeminiAgent, and OpenRouterAgent
into focused utility modules. Total reduction: 500 lines (29%).

New modules in src/services/worker/agents/:
- ResponseProcessor.ts: Atomic DB transactions, Chroma sync, SSE broadcast
- ObservationBroadcaster.ts: SSE event formatting and dispatch
- SessionCleanupHelper.ts: Session state cleanup and stuck message reset
- FallbackErrorHandler.ts: Provider error detection for fallback logic
- types.ts: Shared interfaces (WorkerRef, SSE payloads, StorageResult)

Bug fix: SDKAgent was incorrectly using obs.files instead of obs.files_read
and hardcoding files_modified to empty array.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* refactor(search): extract search strategies into modular architecture

Decompose SearchManager into focused strategy pattern with:
- SearchOrchestrator: Coordinates strategy selection and fallback
- ChromaSearchStrategy: Vector semantic search via ChromaDB
- SQLiteSearchStrategy: Filter-only queries for date/project/type
- HybridSearchStrategy: Metadata filtering + semantic ranking
- ResultFormatter: Markdown table formatting for results
- TimelineBuilder: Chronological timeline construction
- Filter modules: DateFilter, ProjectFilter, TypeFilter

SearchManager now delegates to new infrastructure while maintaining
full backward compatibility with existing public API.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* refactor(context): decompose context-generator into modular architecture

Extract 660-line monolith into focused components:
- ContextBuilder: Main orchestrator (~160 lines)
- ContextConfigLoader: Configuration loading
- TokenCalculator: Token budget calculations
- ObservationCompiler: Data retrieval and query building
- MarkdownFormatter/ColorFormatter: Output formatting
- Section renderers: Header, Timeline, Summary, Footer

Maintains full backward compatibility - context-generator.ts now
delegates to new ContextBuilder while preserving public API.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* refactor(worker): decompose worker-service into modular infrastructure

Split 2000+ line monolith into focused modules:

Infrastructure:
- ProcessManager: PID files, signal handlers, child process cleanup
- HealthMonitor: Port checks, health polling, version matching
- GracefulShutdown: Coordinated cleanup on exit

Server:
- Server: Express app setup, core routes, route registration
- Middleware: Re-exports from existing middleware
- ErrorHandler: Centralized error handling with AppError class

Integrations:
- CursorHooksInstaller: Full Cursor IDE integration (registry, hooks, MCP)

WorkerService now acts as thin coordinator wiring all components together.
Maintains full backward compatibility with existing public API.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* Refactor session queue processing and database interactions

- Implement claim-and-delete pattern in SessionQueueProcessor to simplify message handling and eliminate duplicate processing.
- Update PendingMessageStore to support atomic claim-and-delete operations, removing the need for intermediate processing states.
- Introduce storeObservations method in SessionStore for simplified observation and summary storage without message tracking.
- Remove deprecated methods and clean up session state management in worker agents.
- Adjust response processing to accommodate new storage patterns, ensuring atomic transactions for observations and summaries.
- Remove unnecessary reset logic for stuck messages due to the new queue handling approach.

* Add duplicate observation cleanup script

Script to clean up duplicate observations created by the batching bug
where observations were stored once per message ID instead of once per
observation. Includes safety checks to always keep at least one copy.

Usage:
  bun scripts/cleanup-duplicates.ts           # Dry run
  bun scripts/cleanup-duplicates.ts --execute # Delete duplicates
  bun scripts/cleanup-duplicates.ts --aggressive # Ignore time window

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

---------

Co-authored-by: Claude <noreply@anthropic.com>
 2026-01-03 21:22:27 -05:00
Alex Newman 817b9e8f27 Improve error handling and logging across worker services (#528) 
* fix: prevent memory_session_id from equaling content_session_id

The bug: memory_session_id was initialized to contentSessionId as a
"placeholder for FK purposes". This caused the SDK resume logic to
inject memory agent messages into the USER's Claude Code transcript,
corrupting their conversation history.

Root cause:
- SessionStore.createSDKSession initialized memory_session_id = contentSessionId
- SDKAgent checked memorySessionId !== contentSessionId but this check
  only worked if the session was fetched fresh from DB

The fix:
- SessionStore: Initialize memory_session_id as NULL, not contentSessionId
- SDKAgent: Simple truthy check !!session.memorySessionId (NULL = fresh start)
- Database migration: Ran UPDATE to set memory_session_id = NULL for 1807
  existing sessions that had the bug

Also adds [ALIGNMENT] logging across the session lifecycle to help debug
session continuity issues:
- Hook entry: contentSessionId + promptNumber
- DB lookup: contentSessionId → memorySessionId mapping proof
- Resume decision: shows which memorySessionId will be used for resume
- Capture: logs when memorySessionId is captured from first SDK response

UI: Added "Alignment" quick filter button in LogsModal to show only
alignment logs for debugging session continuity.

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Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* refactor: improve error handling in worker-service.ts

- Fix GENERIC_CATCH anti-patterns by logging full error objects instead of just messages
- Add [ANTI-PATTERN IGNORED] markers for legitimate cases (cleanup, hot paths)
- Simplify error handling comments to be more concise
- Improve httpShutdown() error discrimination for ECONNREFUSED
- Reduce LARGE_TRY_BLOCK issues in initialization code

Part of anti-pattern cleanup plan (132 total issues)

* refactor: improve error logging in SearchManager.ts

- Pass full error objects to logger instead of just error.message
- Fixes PARTIAL_ERROR_LOGGING anti-patterns (10 instances)
- Better debugging visibility when Chroma queries fail

Part of anti-pattern cleanup (133 remaining)

* refactor: improve error logging across SessionStore and mcp-server

- SessionStore.ts: Fix error logging in column rename utility
- mcp-server.ts: Log full error objects instead of just error.message
- Improve error handling in Worker API calls and tool execution

Part of anti-pattern cleanup (133 remaining)

* Refactor hooks to streamline error handling and loading states

- Simplified error handling in useContextPreview by removing try-catch and directly checking response status.
- Refactored usePagination to eliminate try-catch, improving readability and maintaining error handling through response checks.
- Cleaned up useSSE by removing unnecessary try-catch around JSON parsing, ensuring clarity in message handling.
- Enhanced useSettings by streamlining the saving process, removing try-catch, and directly checking the result for success.

* refactor: add error handling back to SearchManager Chroma calls

- Wrap queryChroma calls in try-catch to prevent generator crashes
- Log Chroma errors as warnings and fall back gracefully
- Fixes generator failures when Chroma has issues
- Part of anti-pattern cleanup recovery

* feat: Add generator failure investigation report and observation duplication regression report

- Created a comprehensive investigation report detailing the root cause of generator failures during anti-pattern cleanup, including the impact, investigation process, and implemented fixes.
- Documented the critical regression causing observation duplication due to race conditions in the SDK agent, outlining symptoms, root cause analysis, and proposed fixes.

* fix: address PR #528 review comments - atomic cleanup and detector improvements

This commit addresses critical review feedback from PR #528:

## 1. Atomic Message Cleanup (Fix Race Condition)

**Problem**: SessionRoutes.ts generator error handler had race condition
- Queried messages then marked failed in loop
- If crash during loop → partial marking → inconsistent state

**Solution**:
- Added `markSessionMessagesFailed()` to PendingMessageStore.ts
- Single atomic UPDATE statement replaces loop
- Follows existing pattern from `resetProcessingToPending()`

**Files**:
- src/services/sqlite/PendingMessageStore.ts (new method)
- src/services/worker/http/routes/SessionRoutes.ts (use new method)

## 2. Anti-Pattern Detector Improvements

**Problem**: Detector didn't recognize logger.failure() method
- Lines 212 & 335 already included "failure"
- Lines 112-113 (PARTIAL_ERROR_LOGGING detection) did not

**Solution**: Updated regex patterns to include "failure" for consistency

**Files**:
- scripts/anti-pattern-test/detect-error-handling-antipatterns.ts

## 3. Documentation

**PR Comment**: Added clarification on memory_session_id fix location
- Points to SessionStore.ts:1155
- Explains why NULL initialization prevents message injection bug

## Review Response

Addresses "Must Address Before Merge" items from review:
✅ Clarified memory_session_id bug fix location (via PR comment)
✅ Made generator error handler message cleanup atomic
❌ Deferred comprehensive test suite to follow-up PR (keeps PR focused)

## Testing

- Build passes with no errors
- Anti-pattern detector runs successfully
- Atomic cleanup follows proven pattern from existing methods

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Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

* fix: FOREIGN KEY constraint and missing failed_at_epoch column

Two critical bugs fixed:

1. Missing failed_at_epoch column in pending_messages table
   - Added migration 20 to create the column
   - Fixes error when trying to mark messages as failed

2. FOREIGN KEY constraint failed when storing observations
   - All three agents (SDK, Gemini, OpenRouter) were passing
     session.contentSessionId instead of session.memorySessionId
   - storeObservationsAndMarkComplete expects memorySessionId
   - Added null check and clear error message

However, observations still not saving - see investigation report.

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Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

* Refactor hook input parsing to improve error handling

- Added a nested try-catch block in new-hook.ts, save-hook.ts, and summary-hook.ts to handle JSON parsing errors more gracefully.
- Replaced direct error throwing with logging of the error details using logger.error.
- Ensured that the process exits cleanly after handling input in all three hooks.

---------

Co-authored-by: Claude Opus 4.5 <noreply@anthropic.com>
 2026-01-03 18:51:59 -05:00
Alex Newman ad8ac7970d fix: Chroma connection errors and remove dead last_user_message code (#525) 
* fix: distinguish connection errors from collection-not-found in ChromaSync

Previously, ensureCollection() caught ALL errors from chroma_get_collection_info
and assumed they meant "collection doesn't exist". This caused connection errors
like "Not connected" to trigger unnecessary collection creation attempts.

Now connection-related errors are re-thrown immediately instead of being
misinterpreted as missing collections.

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Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* fix: improve error handling for Chroma connection and collection creation

* fix: remove dead last_user_message from summarize flow

The last_user_message field was extracted from transcripts but never used.
In Claude Code transcripts, "user" type messages are mostly tool_results,
not actual user input. The user's original request is already stored in
user_prompts table.

This removes the false warning "Missing last_user_message when queueing
summary" which was complaining about missing data that didn't exist and
wasn't needed.

Changes:
- summary-hook: Only extract last_assistant_message
- SessionRoutes: Remove last_user_message from request body handling
- SessionManager.queueSummarize: Remove lastUserMessage parameter
- PendingMessage interface: Remove last_user_message field
- SDKSession interface: Remove last_user_message field
- All agents: Remove last_user_message from buildSummaryPrompt calls

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Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* build artifacts for plugin

* Enhance error handling across multiple services

- Improved logging in `BranchManager.ts` to capture recovery checkout failures.
- Updated `PaginationHelper.ts` to log when file paths are plain strings instead of valid JSON.
- Enhanced error logging in `SDKAgent.ts` for Claude executable detection failures.
- Added logging for plain string handling in `SearchManager.ts` for files read and edited.
- Improved logging in `paths.ts` for git root detection failures.
- Enhanced JSON parsing error handling in `timeline-formatting.ts` with previews of failed inputs.
- Updated `transcript-parser.ts` to log summary of parse errors after processing transcript lines.
- Established a baseline for error handling practices in `error-handling-baseline.txt`.
- Documented error handling anti-pattern rules in `CLAUDE.md` to prevent silent failures and improve code quality.

* Add error handling anti-pattern detection script and guidelines

- Introduced `detect-error-handling-antipatterns.ts` to identify common error handling issues in TypeScript code.
- Created comprehensive documentation in `CLAUDE.md` outlining forbidden patterns, allowed patterns, and critical path protection rules.
- Implemented checks for empty catch blocks, logging practices, and try-catch block sizes to prevent silent failures and improve debugging.
- Established a reporting mechanism to summarize detected anti-patterns with severity levels.

* feat: add console filter bar and log line parsing with filtering capabilities

- Introduced a console filter bar with options to filter logs by level and component.
- Implemented parsing of log lines to extract structured data including timestamp, level, component, and correlation ID.
- Added functionality to toggle individual and all levels/components for filtering.
- Enhanced log line rendering with color coding based on log level and special message types.
- Improved responsiveness of the filter bar for smaller screens.

---------

Co-authored-by: Claude Opus 4.5 <noreply@anthropic.com>
 2026-01-02 14:45:50 -05:00
Alex Newman 417acb0f81 fix: comprehensive error handling improvements and architecture documentation (#522) 
* Add enforceable anti-pattern detection for try-catch abuse

PROBLEM:
- Overly-broad try-catch blocks waste 10+ hours of debugging time
- Empty catch blocks silently swallow errors
- AI assistants use try-catch to paper over uncertainty instead of doing research

SOLUTION:
1. Created detect-error-handling-antipatterns.ts test
   - Detects empty catch blocks (45 CRITICAL found)
   - Detects catch without logging (45 CRITICAL total)
   - Detects large try blocks (>10 lines)
   - Detects generic catch without type checking
   - Detects catch-and-continue on critical paths
   - Exit code 1 if critical issues found

2. Updated CLAUDE.md with MANDATORY ERROR HANDLING RULES
   - 5-question pre-flight checklist before any try-catch
   - FORBIDDEN patterns with examples
   - ALLOWED patterns with examples
   - Meta-rule: UNCERTAINTY TRIGGERS RESEARCH, NOT TRY-CATCH
   - Critical path protection list

3. Created comprehensive try-catch audit report
   - Documents all 96 try-catch blocks in worker service
   - Identifies critical issue at worker-service.ts:748-750
   - Categorizes patterns and provides recommendations

This is enforceable via test, not just instructions that can be ignored.

Current state: 163 anti-patterns detected (45 critical, 47 high, 71 medium)
Next: Fix critical issues identified by test

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Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

* fix: add logging to 5 critical empty catch blocks (Wave 1)

Wave 1 of error handling cleanup - fixing empty catch blocks that
silently swallow errors without any trace.

Fixed files:
- src/bin/import-xml-observations.ts:80 - Log skipped invalid JSON
- src/utils/bun-path.ts:33 - Log when bun not in PATH
- src/utils/cursor-utils.ts:44 - Log failed registry reads
- src/utils/cursor-utils.ts:149 - Log corrupt MCP config
- src/shared/worker-utils.ts:128 - Log failed health checks

All catch blocks now have proper logging with context and error details.

Progress: 41 → 39 CRITICAL issues remaining

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Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

* fix: add logging to promise catches on critical paths (Wave 2)

Wave 2 of error handling cleanup - fixing empty promise catch handlers
that silently swallow errors on critical code paths. These are the
patterns that caused the 10-hour debugging session.

Fixed empty promise catches:
- worker-service.ts:642 - Background initialization failures
- SDKAgent.ts:372,446 - Session processor errors
- GeminiAgent.ts:408,475 - Finalization failures
- OpenRouterAgent.ts:451,518 - Finalization failures
- SessionManager.ts:289 - Generator promise failures

Added justification comments to catch-and-continue blocks:
- worker-service.ts:68 - PID file removal (cleanup, non-critical)
- worker-service.ts:130 - Cursor context update (non-critical)

All promise rejection handlers now log errors with context, preventing
silent failures that were nearly impossible to debug.

Note: The anti-pattern detector only tracks try-catch blocks, not
standalone promise chains. These fixes address the root cause of the
original 10-hour debugging session even though the detector count
remains unchanged.

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Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

* fix: add logging and documentation to error handling patterns (Wave 3)

Wave 3 of error handling cleanup - comprehensive review and fixes for
remaining critical issues identified by the anti-pattern detector.

Changes organized by severity:

**Wave 3.1: Fixed 2 EMPTY_CATCH blocks**
- worker-service.ts:162 - Health check polling now logs failures
- worker-service.ts:610 - Process cleanup logs failures

**Wave 3.2: Reviewed 12 CATCH_AND_CONTINUE patterns**
- Verified all are correct (log errors AND exit/return HTTP errors)
- Added justification comment to session recovery (line 829)
- All patterns properly notify callers of failures

**Wave 3.3: Fixed 29 NO_LOGGING_IN_CATCH issues**

Added logging to 16 catch blocks:
- UI layer: useSettings.ts, useContextPreview.ts (console logging)
- Servers: mcp-server.ts health checks and tool execution
- Worker: version fetch, cleanup, config corruption
- Routes: error handler, session recovery, settings validation
- Services: branch checkout, timeline queries

Documented 13 intentional exceptions with comments explaining why:
- Hot paths (port checks, process checks in tight loops)
- Error accumulation (transcript parser collects for batch retrieval)
- Special cases (logger can't log its own failures)
- Fallback parsing (JSON parse in optional data structures)

All changes follow error handling guidelines from CLAUDE.md:
- Appropriate log levels (error/warn/debug)
- Context objects with relevant details
- Descriptive messages explaining failures
- Error extraction pattern for Error instances

Progress: 41 → 29 detector warnings
Remaining warnings are conservative flags on verified-correct patterns
(catch-and-continue blocks that properly log + notify callers).

Build verified successful. All error handling now provides visibility
for debugging while avoiding excessive logging on hot paths.

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Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

* feat: add queue:clear command to remove failed messages

Added functionality to clear failed messages from the observation queue:

**Changes:**
- PendingMessageStore: Added clearFailed() method to delete failed messages
- DataRoutes: Added DELETE /api/pending-queue/failed endpoint
- CLI: Created scripts/clear-failed-queue.ts for interactive queue clearing
- package.json: Added npm run queue:clear script

**Usage:**
  npm run queue:clear          # Interactive - prompts for confirmation
  npm run queue:clear -- --force  # Non-interactive - clears without prompt

Failed messages are observations that exceeded max retry count. They
remain in the queue for debugging but won't be processed. This command
removes them to clean up the queue.

Works alongside existing queue:check and queue:process commands to
provide complete queue management capabilities.

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Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

* feat: add --all flag to queue:clear for complete queue reset

Extended queue clearing functionality to support clearing all messages,
not just failed ones.

**Changes:**
- PendingMessageStore: Added clearAll() method to clear pending, processing, and failed
- DataRoutes: Added DELETE /api/pending-queue/all endpoint
- clear-failed-queue.ts: Added --all flag to clear everything
- Updated help text and UI to distinguish between failed-only and all-clear modes

**Usage:**
  npm run queue:clear              # Clear failed only (interactive)
  npm run queue:clear -- --all     # Clear ALL messages (interactive)
  npm run queue:clear -- --all --force  # Clear all without confirmation

The --all flag provides a complete queue reset, removing pending,
processing, and failed messages. Useful when you want a fresh start
or need to cancel stuck sessions.

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Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

* feat: add comprehensive documentation for session ID architecture and validation tests

* feat: add logs viewer with clear functionality to UI

- Add LogsRoutes API endpoint for fetching and clearing worker logs
- Create LogsModal component with auto-refresh and clear button
- Integrate logs viewer button into Header component
- Add comprehensive CSS styling for logs modal
- Logs accessible via new document icon button in header

Logs viewer features:
- Display last 1000 lines of current day's log file
- Auto-refresh toggle (2s interval)
- Clear logs button with confirmation
- Monospace font for readable log output
- Responsive modal design matching existing UI

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

* refactor: redesign logs as Chrome DevTools-style console drawer

Major UX improvements to match Chrome DevTools console:
- Convert from modal to bottom drawer that slides up
- Move toggle button to bottom-left corner (floating button)
- Add draggable resize handle for height adjustment
- Use plain monospace font (SF Mono/Monaco/Consolas) instead of Monaspace
- Simplify controls with icon-only buttons
- Add Console tab UI matching DevTools aesthetic

Changes:
- Renamed LogsModal to LogsDrawer with drawer implementation
- Added resize functionality with mouse drag
- Removed logs button from header
- Added floating console toggle button in bottom-left
- Updated all CSS to match Chrome console styling
- Minimum height: 150px, maximum: window height - 100px

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Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

* fix: suppress /api/logs endpoint logging to reduce noise

Skip logging GET /api/logs requests in HTTP middleware to prevent
log spam from auto-refresh polling (every 2s). Keeps the auto-refresh
feature functional while eliminating the repetitive log entries.

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Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

* refactor: enhance error handling guidelines with approved overrides for justified exceptions

---------

Co-authored-by: Claude Sonnet 4.5 <noreply@anthropic.com>
 2026-01-01 23:38:22 -05:00
Lindsey Catlett d9e966d8f4 fix: make migration 17 fully idempotent for databases in intermediate states (#481) 
* fix: make migration 17 idempotent and standardize column names

Migration 17 renamed columns from sdk_session_id to memory_session_id,
but the migration wasn't fully idempotent - it could fail on databases
in intermediate states. This caused errors like:
- "no such column: sdk_session_id" (when columns already renamed)
- "table observations has no column named memory_session_id" (when not renamed)

Changes:
- Rewrite renameSessionIdColumns() to check each table individually
- Use safeRenameColumn() helper that handles all edge cases gracefully
- Deprecate migration 19 (repair migration) since 17 is now idempotent
- Update maintenance scripts to use memory_session_id column name
- Update test files to use new column names

Fixes column mismatch bug in v8.2.6+

* Merge origin/main into column-mismatch

---------

Co-authored-by: Alex Newman <thedotmack@gmail.com>
 2025-12-29 23:30:04 -05:00
Alex Newman f1aa4c3943 fix: wrap migration 17 in transaction and update docs 
- Add BEGIN/COMMIT/ROLLBACK to session ID column rename migration
- Update claude-desktop.mdx to reflect streamlined MCP tools
- Remove obsolete skill zip download instructions

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Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2025-12-28 23:43:34 -05:00
Alex Newman 656a7f7c0f Refactor session ID references from sdk_session_id to memory_session_id across multiple services and database queries 
- Updated SQL queries in cleanup-duplicates.ts and context-generator.ts to use memory_session_id.
- Modified interfaces in context-generator.ts to reflect the new session ID naming.
- Implemented a repair migration in SessionStore.ts to rename columns in existing tables.
- Adjusted FormattingService.ts and SDKAgent.ts to utilize memory_session_id for session handling.
- Ensured SearchManager.ts retrieves summaries and observations using the updated memory_session_id.
 2025-12-28 23:13:47 -05:00
Alex Newman 30b142d318 fix(session): Semantic renaming and memory session ID capture for resume 
This commit fixes the session ID confusion identified in PR #475:

PROBLEM:
- Using contentSessionId (user's Claude Code session) for SDK resume was wrong
- Memory agent conversation should persist across the entire user session
- Each SDK call was starting fresh, losing memory agent continuity

SOLUTION:
1. Semantic Renaming (clarity):
   - claudeSessionId → contentSessionId (user's observed session)
   - sdkSessionId → memorySessionId (memory agent's session for resume)
   - Database migration 17 renames columns accordingly

2. Memory Session ID Capture:
   - SDKAgent captures session_id from first SDK message
   - Persists to database via updateMemorySessionId()
   - SessionManager loads memorySessionId on session init

3. Resume Logic Fixed:
   - Only resume if memorySessionId captured from previous interaction
   - Enables memory agent continuity across user prompts

Files changed: 33 (types, database, agents, hooks, routes)

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Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
 2025-12-28 22:19:57 -05:00
Alex Newman b8ce27bd31 feat(queue): Simplify queue processing and enhance reliability 
- Implemented atomic message claiming in PendingMessageStore with claimNextMessage.
- Removed obsolete peekPending method to streamline message retrieval.
- Introduced SessionQueueProcessor for robust async message iteration, replacing complex polling logic.
- Refactored SessionManager to eliminate in-memory queue state, relying on PendingMessageStore for message tracking.
- Cleaned up session handling logic, removing recursive restarts and session deletion on empty queues.
- Enhanced error handling and logging for generator failures and session processing.
- Updated SessionRoutes to handle crash recovery more effectively without deleting sessions.
 2025-12-28 16:28:58 -05:00
Alex Newman 2ec9e58607 fix: integrate centralized logger across services and hooks for improved logging consistency 2025-12-27 20:45:28 -05:00
Alex Newman 266c746d50 feat: Fix observation timestamps, refactor session management, and enhance worker reliability (#437) 
* Refactor worker version checks and increase timeout settings

- Updated the default hook timeout from 5000ms to 120000ms for improved stability.
- Modified the worker version check to log a warning instead of restarting the worker on version mismatch.
- Removed legacy PM2 cleanup and worker start logic, simplifying the ensureWorkerRunning function.
- Enhanced polling mechanism for worker readiness with increased retries and reduced interval.

* feat: implement worker queue polling to ensure processing completion before proceeding

* refactor: change worker command from start to restart in hooks configuration

* refactor: remove session management complexity

- Simplify createSDKSession to pure INSERT OR IGNORE
- Remove auto-create logic from storeObservation/storeSummary
- Delete 11 unused session management methods
- Derive prompt_number from user_prompts count
- Keep sdk_sessions table schema unchanged for compatibility

* refactor: simplify session management by removing unused methods and auto-creation logic

* Refactor session prompt number retrieval in SessionRoutes

- Updated the method of obtaining the prompt number from the session.
- Replaced `store.getPromptCounter(sessionDbId)` with `store.getPromptNumberFromUserPrompts(claudeSessionId)` for better clarity and accuracy.
- Adjusted the logic for incrementing the prompt number to derive it from the user prompts count instead of directly incrementing a counter.

* refactor: replace getPromptCounter with getPromptNumberFromUserPrompts in SessionManager

Phase 7 of session management simplification. Updates SessionManager to derive
prompt numbers from user_prompts table count instead of using the deprecated
prompt_counter column.

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Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

* refactor: simplify SessionCompletionHandler to use direct SQL query

Phase 8: Remove call to findActiveSDKSession() and replace with direct
database query in SessionCompletionHandler.completeByClaudeId().

This removes dependency on the deleted findActiveSDKSession() method
and simplifies the code by using a straightforward SELECT query.

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Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

* refactor: remove markSessionCompleted call from SDKAgent

- Delete call to markSessionCompleted() in SDKAgent.ts
- Session status is no longer tracked or updated
- Part of phase 9: simplifying session management

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Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

* refactor: remove markSessionComplete method (Phase 10)

- Deleted markSessionComplete() method from DatabaseManager
- Removed markSessionComplete call from SessionCompletionHandler
- Session completion status no longer tracked in database
- Part of session management simplification effort

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Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

* refactor: replace deleted updateSDKSessionId calls in import script (Phase 11)

- Replace updateSDKSessionId() calls with direct SQL UPDATE statements
- Method was deleted in Phase 3 as part of session management simplification
- Import script now uses direct database access consistently

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Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

* test: add validation for SQL updates in sdk_sessions table

* refactor: enhance worker-cli to support manual and automated runs

* Remove cleanup hook and associated session completion logic

- Deleted the cleanup-hook implementation from the hooks directory.
- Removed the session completion endpoint that was used by the cleanup hook.
- Updated the SessionCompletionHandler to eliminate the completeByClaudeId method and its dependencies.
- Adjusted the SessionRoutes to reflect the removal of the session completion route.

* fix: update worker-cli command to use bun for consistency

* feat: Implement timestamp fix for observations and enhance processing logic

- Added `earliestPendingTimestamp` to `ActiveSession` to track the original timestamp of the earliest pending message.
- Updated `SDKAgent` to capture and utilize the earliest pending timestamp during response processing.
- Modified `SessionManager` to track the earliest timestamp when yielding messages.
- Created scripts for fixing corrupted timestamps, validating fixes, and investigating timestamp issues.
- Verified that all corrupted observations have been repaired and logic for future processing is sound.
- Ensured orphan processing can be safely re-enabled after validation.

* feat: Enhance SessionStore to support custom database paths and add timestamp fields for observations and summaries

* Refactor pending queue processing and add management endpoints

- Disabled automatic recovery of orphaned queues on startup; users must now use the new /api/pending-queue/process endpoint.
- Updated processOrphanedQueues method to processPendingQueues with improved session handling and return detailed results.
- Added new API endpoints for managing pending queues: GET /api/pending-queue and POST /api/pending-queue/process.
- Introduced a new script (check-pending-queue.ts) for checking and processing pending observation queues interactively or automatically.
- Enhanced logging and error handling for better monitoring of session processing.

* updated agent sdk

* feat: Add manual recovery guide and queue management endpoints to documentation

---------

Co-authored-by: Claude Sonnet 4.5 <noreply@anthropic.com>
 2025-12-25 15:36:46 -05:00
Alex Newman 3ea0b60b9f feat: Mode system with inheritance and multilingual support (#412) 
* feat: add domain management system with support for multiple domain profiles

- Introduced DomainManager class for loading and managing domain profiles.
- Added support for a default domain ('code') and fallback mechanisms.
- Implemented domain configuration validation and error handling.
- Created types for domain configuration, observation types, and concepts.
- Added new directory for domain profiles and ensured its existence.
- Updated SettingsDefaultsManager to include CLAUDE_MEM_DOMAIN setting.

* Refactor domain management to mode management

- Removed DomainManager class and replaced it with ModeManager for better clarity and functionality.
- Updated types from DomainConfig to ModeConfig and DomainPrompts to ModePrompts.
- Changed references from domains to modes in the settings and paths.
- Ensured backward compatibility by maintaining the fallback mechanism to the 'code' mode.

* feat: add migration 008 to support mode-agnostic observations and refactor service layer references in documentation

* feat: add new modes for code development and email investigation with detailed observation types and concepts

* Refactor observation parsing and prompt generation to incorporate mode-specific configurations

- Updated `parseObservations` function to use 'observation' as a universal fallback type instead of 'change', utilizing active mode's valid observation types.
- Modified `buildInitPrompt` and `buildContinuationPrompt` functions to accept a `ModeConfig` parameter, allowing for dynamic prompt content based on the active mode.
- Enhanced `ModePrompts` interface to include additional guidance for observers, such as recording focus and skip guidance.
- Adjusted the SDKAgent to load the active mode and pass it to prompt generation functions, ensuring prompts are tailored to the current mode's context.

* fix: correct mode prompt injection to preserve exact wording and type list visibility

- Add script to extract prompts from main branch prompts.ts into code.yaml
- Fix prompts.ts to show type list in XML template (e.g., "[ bugfix | feature | ... ]")
- Keep 'change' as fallback type in parser.ts (maintain backwards compatibility)
- Regenerate code.yaml with exact wording from original hardcoded prompts
- Build succeeds with no TypeScript errors

* fix: update ModeManager to load JSON mode files and improve validation

- Changed ModeManager to load mode configurations from JSON files instead of YAML.
- Removed the requirement for an "observation" type and updated validation to require at least one observation type.
- Updated fallback behavior in the parser to use the first type from the active mode's type list.
- Added comprehensive tests for mode loading, prompt injection, and parser integration, ensuring correct behavior across different modes.
- Introduced new mode JSON files for "Code Development" and "Email Investigation" with detailed observation types and prompts.

* Add mode configuration loading and update licensing information for Ragtime

- Implemented loading of mode configuration in WorkerService before database initialization.
- Added PolyForm Noncommercial License 1.0.0 to Ragtime directory.
- Created README.md for Ragtime with licensing details and usage guidelines.

* fix: add datasets directory to .gitignore to prevent accidental commits

* refactor: remove unused plugin package.json file

* chore: add package.json for claude-mem plugin with version 7.4.5

* refactor: remove outdated tests and improve error handling

- Deleted tests for ChromaSync error handling, smart install, strip memory tags, and user prompt tag stripping due to redundancy or outdated logic.
- Removed vitest configuration as it is no longer needed.
- Added a comprehensive implementation plan for fixing the modes system, addressing critical issues and improving functionality.
- Created a detailed test analysis report highlighting the quality and effectiveness of the current test suite, identifying areas for improvement.
- Introduced a new plugin package.json for runtime dependencies related to claude-mem hooks.

* refactor: remove parser regression tests to streamline codebase

* docs: update CLAUDE.md to clarify test management and changelog generation

* refactor: remove migration008 for mode-agnostic observations

* Refactor observation type handling to use ModeManager for icons and emojis

- Removed direct mappings of observation types to icons and work emojis in context-generator, FormattingService, SearchManager, and TimelineService.
- Integrated ModeManager to dynamically retrieve icons and emojis based on the active mode.
- Improved maintainability by centralizing the logic for observation type representation.

* Refactor observation metadata constants and update context generator

- Removed the explicit declaration of OBSERVATION_TYPES and OBSERVATION_CONCEPTS from observation-metadata.ts.
- Introduced fallback default strings for DEFAULT_OBSERVATION_TYPES_STRING and DEFAULT_OBSERVATION_CONCEPTS_STRING.
- Updated context-generator.ts to utilize observation types and concepts from ModeManager instead of constants.

* refactor: remove intermediate error handling from hooks (Phase 1)

Apply "fail fast" error handling strategy - errors propagate and crash loud
instead of being caught, wrapped, and re-thrown at intermediate layers.

Changes:
- Remove try/catch around fetch calls in all hooks - let errors throw
- Add try/catch ONLY around JSON.parse at entry points
- Delete error-handler.ts and hook-error-handler.ts (no longer needed)
- Update worker-utils.ts: functions now throw instead of returning null
- Update transcript-parser.ts: throw on missing path, empty file, malformed JSON
- Remove all handleWorkerError, handleFetchError imports

Philosophy: If something breaks, we KNOW it broke. No silent failures.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* refactor: remove intermediate error handling from worker service (Phase 2)

Apply "fail fast" error handling strategy to worker service layer.

Changes:
- worker-service.ts: Remove try/catch from version endpoint, cleanup,
  MCP close, process enumeration, force kill, and isAlive check
- SessionRoutes.ts: Remove try/catch from JSON.stringify calls, remove
  .catch() from Chroma sync and SDK agent calls
- SettingsRoutes.ts: Remove try/catch from toggleMcp()
- DatabaseManager.ts: Remove .catch() from backfill and close operations
- SDKAgent.ts: Keep outer try/catch (top-level), remove .catch() from
  Chroma sync operations
- SSEBroadcaster.ts: Remove try/catch from broadcast and sendToClient

Philosophy: Errors propagate and crash loud. BaseRouteHandler.wrapHandler
provides top-level catching for HTTP routes.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* refactor: remove error swallowing from SQLite services (Phase 3)

Apply "fail fast" error handling strategy to database layer.

SessionStore.ts migrations:
- ensureWorkerPortColumn(): Remove outer try/catch, let it throw
- ensurePromptTrackingColumns(): Remove outer try/catch, let it throw
- removeSessionSummariesUniqueConstraint(): Keep inner transaction
  rollback, remove outer catch
- addObservationHierarchicalFields(): Remove outer try/catch
- makeObservationsTextNullable(): Keep inner transaction rollback,
  remove outer catch
- createUserPromptsTable(): Keep inner transaction rollback, remove
  outer catch
- getFilesForSession(): Remove try/catch around JSON.parse

SessionSearch.ts:
- ensureFTSTables(): Remove try/catch, let it throw

Philosophy: Migration errors that are swallowed mean we think the
database is fine when it's not. Keep only inner transaction rollback
try/catch blocks.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* refactor: remove error hiding from utilities (Phase 4)

Apply "fail fast" error handling strategy to utility layer.

logger.ts:
- formatTool(): Remove try/catch, let JSON.parse throw on malformed input

context-generator.ts:
- loadContextConfig(): Remove try/catch, let parseInt throw on invalid settings
- Transcript extraction: Remove try/catch, let file read errors propagate

ChromaSync.ts:
- close(): Remove nested try/catch blocks, let close errors propagate

Philosophy: No silent fallbacks or hidden defaults. If something breaks,
we know it broke immediately.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* feat: serve static UI assets and update package root path

- Added middleware to serve static UI assets (JS, CSS, fonts, etc.) in ViewerRoutes.
- Updated getPackageRoot function to correctly return the package root directory as one level up from the current directory.

* feat: Enhance mode loading with inheritance support

- Introduced parseInheritance method to handle parent--override mode IDs.
- Added deepMerge method for recursively merging mode configurations.
- Updated loadMode method to support inheritance, loading parent modes and applying overrides.
- Improved error handling for missing mode files and logging for better traceability.

* fix(modes): correct inheritance file resolution and path handling

* Refactor code structure for improved readability and maintainability

* feat: Add mode configuration documentation and examples

* fix: Improve concurrency handling in translateReadme function

* Refactor SDK prompts to enhance clarity and structure

- Updated the `buildInitPrompt` and `buildContinuationPrompt` functions in `prompts.ts` to improve the organization of prompt components, including the addition of language instructions and footer messages.
- Removed redundant instructions and emphasized the importance of recording observations.
- Modified the `ModePrompts` interface in `types.ts` to include new properties for system identity, language instructions, and output format header, ensuring better flexibility and clarity in prompt generation.

* Enhance prompts with language instructions and XML formatting

- Updated `buildInitPrompt`, `buildSummaryPrompt`, and `buildContinuationPrompt` functions to include detailed language instructions in XML comments.
- Ensured that language instructions guide users to keep XML tags in English while writing content in the specified language.
- Modified the `buildSummaryPrompt` function to accept `mode` as a parameter for consistency.
- Adjusted the call to `buildSummaryPrompt` in `SDKAgent` to pass the `mode` argument.

* Refactor XML prompt generation in SDK

- Updated the buildInitPrompt, buildSummaryPrompt, and buildContinuationPrompt functions to use new placeholders for XML elements, improving maintainability and readability.
- Removed redundant language instructions in comments for clarity.
- Added new properties to ModePrompts interface for better structure and organization of XML placeholders and section headers.

* feat: Update observation prompts and structure across multiple languages

* chore: Remove planning docs and update Ragtime README

Remove ephemeral development artifacts:
- .claude/plans/modes-system-fixes.md
- .claude/test-analysis-report.md
- PROMPT_INJECTION_ANALYSIS.md

Update ragtime/README.md to explain:
- Feature is not yet implemented
- Dependency on modes system (now complete in PR #412)
- Ready to be scripted out in future release

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

* fix: Move summary prompts to mode files for multilingual support

Summary prompts were hardcoded in English in prompts.ts, breaking
multilingual support. Now properly mode-based:

- Added summary_instruction, summary_context_label,
  summary_format_instruction, summary_footer to code.json
- Updated buildSummaryPrompt() to use mode fields instead of hardcoded text
- Added summary_footer with language instructions to all 10 language modes
- Language modes keep English prompts + language requirement footer

This fixes the gaslighting where we claimed full multilingual support
but summaries were still generated in English.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

* chore: Clean up README by removing local preview instructions and streamlining beta features section

* Add translated README files for Ukrainian, Vietnamese, and Chinese languages

* Add new language modes for code development in multiple languages

- Introduced JSON configurations for Code Development in Greek, Finnish, Hebrew, Hindi, Hungarian, Indonesian, Italian, Dutch, Norwegian, Polish, Brazilian Portuguese, Romanian, Swedish, Turkish, and Ukrainian.
- Each configuration includes prompts for observations, summaries, and instructions tailored to the respective language.
- Ensured that all prompts emphasize the importance of generating observations without referencing the agent's actions.

* Add multilingual support links to README files in various languages

- Updated README.id.md, README.it.md, README.ja.md, README.ko.md, README.nl.md, README.no.md, README.pl.md, README.pt-br.md, README.ro.md, README.ru.md, README.sv.md, README.th.md, README.tr.md, README.uk.md, README.vi.md, and README.zh.md to include links to other language versions.
- Each README now features a centered paragraph with flags and links for easy navigation between different language documents.

---------

Co-authored-by: Claude Opus 4.5 <noreply@anthropic.com>
 2025-12-22 20:14:18 -05:00
Alex Newman db3794762f chore: remove all better-sqlite3 references from codebase (#357) 
* fix: export/import scripts now use API instead of direct DB access

Export script fix:
- Add format=json parameter to SearchManager for raw data output
- Add getSdkSessionsBySessionIds method to SessionStore
- Add POST /api/sdk-sessions/batch endpoint to DataRoutes
- Refactor export-memories.ts to use HTTP API

Import script fix:
- Add import methods to SessionStore with duplicate detection
- Add POST /api/import endpoint to DataRoutes
- Refactor import-memories.ts to use HTTP API

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* fix: update analyze-transformations-smart.js to use bun:sqlite

Replace better-sqlite3 import with bun:sqlite to align with v7.1.0 migration.

* chore: remove all better-sqlite3 references from codebase

- Updated scripts/analyze-transformations-smart.js to use bun:sqlite
- Merged PR #332: Refactored import/export scripts to use worker API instead of direct DB access
- Updated PM2-to-Bun migration documentation

All better-sqlite3 references have been removed from source code.
Documentation references remain as appropriate historical context.

* build: update plugin artifacts with merged changes

Include built artifacts from PR #332 merge and analyze-transformations-smart.js update.

---------

Co-authored-by: lee <loyalpartner@163.com>
Co-authored-by: Claude Opus 4.5 <noreply@anthropic.com>
 2025-12-16 17:57:40 -05:00
Alex Newman d6cd9e6059 fix: implement pending_messages cleanup to prevent unbounded growth 
Fixes #353 - Observations not being saved due to incomplete pending messages implementation

Changes:
- PendingMessageStore.markProcessed() now clears tool_input and tool_response
- PendingMessageStore.cleanupProcessed() changed from time-based to count-based retention
- Keeps most recent 100 processed messages for UI display
- SDKAgent.processSDKResponse() calls cleanup after marking messages processed

This prevents the database from growing unbounded with duplicate transcript data.
The pending_messages table now only stores full transcripts for pending/processing
messages, while processed messages keep metadata only.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
 2025-12-16 16:45:04 -05:00
Alex Newman 282345f379 backup: Phase 1 agent work (security, persistence, batch endpoint) 
This is a backup of all work done by the 3 Phase 1 agents:

Agent A - Command Injection Fix (Issue #354):
- Fixed command injection in BranchManager.ts
- Fixed unnecessary shell usage in bun-path.ts
- Added comprehensive security test suite
- Created SECURITY.md and SECURITY_AUDIT_REPORT.md

Agent B - Observation Persistence Fix (Issue #353):
- Added PendingMessageStore from PR #335
- Integrated persistent queue into SessionManager
- Modified SDKAgent to mark messages complete
- Updated SessionStore with pending_messages migration
- Updated worker-types.ts with new interfaces

Agent C - Batch Endpoint Verification (Issue #348):
- Created batch-observations.test.ts
- Updated worker-service.mdx documentation

Also includes:
- Documentation context files (biomimetic, windows struggles)
- Build artifacts from agent testing

This work will be re-evaluated after v7.3.0 release.
 2025-12-16 15:44:06 -05:00
Alex Newman 61488042d8 Mem-search enhancements: table output, simplified API, Sonnet default, and removed fake URIs (#317) 
* feat: Add batch fetching for observations and update documentation

- Implemented a new endpoint for fetching multiple observations by IDs in a single request.
- Updated the DataRoutes to include a POST /api/observations/batch endpoint.
- Enhanced SKILL.md documentation to reflect changes in the search process and batch fetching capabilities.
- Increased the default limit for search results from 5 to 40 for better usability.

* feat!: Fix timeline parameter passing with SearchManager alignment

BREAKING CHANGE: Timeline MCP tools now use standardized parameter names
- anchor_id → anchor
- before → depth_before
- after → depth_after
- obs_type → type (timeline tool only)

Fixes timeline endpoint failures caused by parameter name mismatch between
MCP layer and SearchManager. Adds new SessionStore methods for fetching
prompts and session summaries by ID.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

* docs: reframe timeline parameter fix as bug fix, not breaking change

The timeline tools were completely broken due to parameter name mismatch.
There's nothing to migrate from since the old parameters never worked.

Co-authored-by: Alex Newman <thedotmack@users.noreply.github.com>

* Refactor mem-search documentation and optimize API tool definitions

- Updated SKILL.md to emphasize batch fetching for observations, clarifying usage and efficiency.
- Removed deprecated tools from mcp-server.ts and streamlined tool definitions for clarity.
- Enhanced formatting in FormattingService.ts for better output readability.
- Adjusted SearchManager.ts to improve result headers and removed unnecessary search tips from combined text.

* Refactor FormattingService and SearchManager for table-based output

- Updated FormattingService to format search results as tables, including methods for formatting observations, sessions, and user prompts.
- Removed JSON format handling from SearchManager and streamlined result formatting to consistently use table format.
- Enhanced readability and consistency in search tips and formatting logic.
- Introduced token estimation for observations and improved time formatting.

* refactor: update documentation and API references for version bump and search functionalities

* Refactor code structure for improved readability and maintainability

* chore: change default model from haiku to sonnet

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

* feat: unify timeline formatting across search and context services

Extract shared timeline formatting utilities into reusable module to align
MCP search output format with context-generator's date/file-grouped format.

Changes:
- Create src/shared/timeline-formatting.ts with reusable utilities
  (parseJsonArray, formatDateTime, formatTime, formatDate, toRelativePath,
  extractFirstFile, groupByDate)
- Refactor context-generator.ts to use shared utilities
- Update SearchManager.search() to use date/file grouping
- Add search-specific row formatters to FormattingService
- Fix timeline methods to extract actual file paths from metadata
  instead of hardcoding 'General'
- Remove Work column from search output (kept in context output)

Result: Consistent date/file-grouped markdown formatting across both
systems while maintaining their different column requirements.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

* refactor: remove redundant legend from search output

Remove legend from search/timeline results since it's already shown
in SessionStart context. Saves ~30 tokens per search result.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

* Refactor session summary rendering to remove links

- Removed link generation for session summaries in context generation and search manager.
- Updated output formatting to exclude links while maintaining the session summary structure.
- Adjusted related components in TimelineService to ensure consistency across the application.

* fix: move skillPath declaration outside try block to fix scoping bug

The skillPath variable was declared inside the try block but referenced
in the catch block for error logging. Since const is block-scoped, this
would cause a ReferenceError when the error handler executes.

Moved skillPath declaration before the try block so it's accessible in
both try and catch scopes.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

* fix: address PR #317 code review feedback

**Critical Fixes:**
- Replace happy_path_error__with_fallback debug calls with proper logger methods in mcp-server.ts
- All HTTP API calls now use logger.debug/error for consistent logging

**Code Quality Improvements:**
- Extract 90-day recency window magic numbers to named constants
- Added RECENCY_WINDOW_DAYS and RECENCY_WINDOW_MS constants in SearchManager

**Documentation:**
- Document model cost implications of Haiku → Sonnet upgrade in CHANGELOG
- Provide clear migration path for users who want to revert to Haiku

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

* refactor: simplify CHANGELOG - remove cost documentation

Removed model cost comparison documentation per user feedback.
Kept only the technical code quality improvements.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

---------

Co-authored-by: Claude Sonnet 4.5 <noreply@anthropic.com>
Co-authored-by: claude[bot] <41898282+claude[bot]@users.noreply.github.com>
Co-authored-by: Alex Newman <thedotmack@users.noreply.github.com>
 2025-12-14 21:58:11 -05:00
Alex Newman 52d2f72a82 Standardize and enhance error handling across hooks and worker service (#295) 
* Enhance error logging in hooks

- Added detailed error logging in context-hook, new-hook, save-hook, and summary-hook to capture status, project, port, and relevant session information on failures.
- Improved error messages thrown in save-hook and summary-hook to include specific context about the failure.

* Refactor migration logging to use console.log instead of console.error

- Updated SessionSearch and SessionStore classes to replace console.error with console.log for migration-related messages.
- Added notes in the documentation to clarify the use of console.log for migration messages due to the unavailability of the structured logger during constructor execution.

* Refactor SDKAgent and silent-debug utility to simplify error handling

- Updated SDKAgent to use direct defaults instead of happy_path_error__with_fallback for non-critical fields such as last_user_message, last_assistant_message, title, filesRead, filesModified, concepts, and summary.request.
- Enhanced silent-debug documentation to clarify appropriate use cases for happy_path_error__with_fallback, emphasizing its role in handling unexpected null/undefined values while discouraging its use for nullable fields with valid defaults.

* fix: correct happy_path_error__with_fallback usage to prevent false errors

Fixes false "Missing cwd" and "Missing transcript_path" errors that were
flooding silent.log even when values were present.

Root cause: happy_path_error__with_fallback was being called unconditionally
instead of only when the value was actually missing.

Pattern changed from:
  value: happy_path_error__with_fallback('Missing', {}, value || '')

To correct usage:
  value: value || happy_path_error__with_fallback('Missing', {}, '')

Fixed in:
- src/hooks/save-hook.ts (PostToolUse hook)
- src/hooks/summary-hook.ts (Stop hook)
- src/services/worker/http/routes/SessionRoutes.ts (2 instances)

Impact: Eliminates false error noise, making actual errors visible.

Addresses issue #260 - users were seeing "Missing cwd" errors despite
Claude Code correctly passing all required fields.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

* Enhance error logging and handling across services

- Improved error messages in SessionStore to include project context when fetching boundary observations and timestamps.
- Updated ChromaSync error handling to provide more informative messages regarding client initialization failures, including the project context.
- Enhanced error logging in WorkerService to include the package path when reading version fails.
- Added detailed error logging in worker-utils to capture expected and running versions during health checks.
- Extended WorkerErrorMessageOptions to include actualError for more informative restart instructions.

* Refactor error handling in hooks to use standardized fetch error handler

- Introduced a new error handler `handleFetchError` in `shared/error-handler.ts` to standardize logging and user-facing error messages for fetch failures across hooks.
- Updated `context-hook.ts`, `new-hook.ts`, `save-hook.ts`, and `summary-hook.ts` to utilize the new error handler, improving consistency and maintainability.
- Removed redundant imports and error handling logic related to worker restart instructions from the hooks.

* feat: add comprehensive error handling tests for hooks and ChromaSync client

---------

Co-authored-by: Claude Sonnet 4.5 <noreply@anthropic.com>
 2025-12-13 23:25:43 -05:00
Alex Newman a0b4381dc8 Merge feature/import-export: Add memory export/import scripts with duplicate prevention 2025-12-13 17:53:18 -05:00
Alex Newman ded9671a82 Refactor worker port handling and improve logging 
- Replaced hardcoded migration port with dynamic port retrieval using `getWorkerPort()` in worker-cli.ts.
- Updated context generator to clarify error handling comments.
- Introduced timeout constants in ProcessManager for better maintainability.
- Configured SQLite settings using constants for mmap size and cache size in DatabaseManager.
- Added timeout constants for Git and NPM commands in BranchManager.
- Enhanced error logging in FormattingService and SearchManager to provide more context on failures.
- Removed deprecated silentDebug function and replaced its usage with logger.debug.
- Updated tests to use dynamic worker port retrieval instead of hardcoded values.
 2025-12-11 14:49:47 -05:00
Alex Newman e4bd0ae461 refactor: migrate from better-sqlite3 to bun:sqlite 
- Updated build-hooks.js to remove better-sqlite3 dependency and use bun:sqlite.
- Modified smart-install.js to eliminate checks and installations related to better-sqlite3.
- Refactored Database.ts, SessionSearch.ts, SessionStore.ts, and migrations.ts to import and utilize bun:sqlite.
- Replaced exec and pragma calls with appropriate run methods for bun:sqlite compatibility.
- Removed unnecessary native module verification and installation logic for better-sqlite3.
 2025-12-10 22:11:55 -05:00
Alex Newman 4e7ed75fa9 Fix critical bugs in export/import feature (PR #225) 
Addressed all 6 bugs identified in code reviews:

CRITICAL FIXES:
1. SessionStore.ts: Fixed concepts filter bug - removed empty params.push()
   that was breaking SQL parameter alignment (line 849)

2. import-memories.ts: Removed worker_port and prompt_counter fields from
   sdk_sessions insert to fix schema mismatch with fresh databases

3. export-memories.ts: Fixed hardcoded port - now reads from settings via
   SettingsDefaultsManager.loadFromFile()

HIGH PRIORITY:
4. export-memories.ts: Added database existence check with clear error
   message before opening database connection

5. export-memories.ts: Fixed variable shadowing - renamed local 'query'
   variable to 'sessionQuery' (line 90)

MEDIUM PRIORITY:
6. export-memories.ts: Improved type safety - added ObservationRecord,
   SdkSessionRecord, SessionSummaryRecord, UserPromptRecord interfaces

All fixes tested and verified:
- Export script successfully exports with project filtering
- Import script works on existing database with duplicate prevention
- Port configuration read from settings.json
- Type safety improvements prevent compile-time errors

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
 2025-12-10 20:15:26 -05:00
Alex Newman 73be8f7a63 Fix export/import feature: JSON format and project filtering 
Two critical fixes for the memory export/import feature:

1. **SearchManager empty results bug**: The /api/search endpoint
   with format=json now returns {observations: [], sessions: [],
   prompts: []} when no results are found, instead of the MCP
   protocol format. This fixes the export-memories script which
   expects consistent JSON structure regardless of result count.

2. **Project filtering support**: Updated SessionStore methods
   (getObservationsByIds, getSessionSummariesByIds, getUserPromptsByIds)
   to accept and apply project filter parameter. This enables
   proper project-based filtering during ChromaDB hybrid search
   result hydration.

Testing:
- Export with results: ✅ 50 observations exported
- Export with empty results: ✅ Proper JSON structure
- Round-trip import: ✅ Duplicate prevention working
- Project filtering: ✅ claude-mem (51 obs) vs rad-mem (1 obs)

Fixes export/import feature blocking bugs.
 2025-12-10 18:04:49 -05:00
Alex Newman 922f04e66a refactor: improve type safety by removing 'as any' casts 
Created database.ts with proper database result types and replaced 38+ 'as any' casts throughout the codebase with proper type annotations.

Changes:
- Created src/types/database.ts with TableColumnInfo, IndexInfo, and database record types
- Fixed all type casts in SessionStore.ts (migrations, query results)
- Fixed type casts in SessionSearch.ts, SettingsManager.ts, SettingsRoutes.ts
- Improved MCP server JSON schema typing

All builds pass and worker service runs successfully.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
 2025-12-07 21:41:40 -05:00
Alex Newman 476f81ceca fix: move SQL query from route handler to SessionStore for better separation of concerns 
Extracted SQL query from handleSessionInit route handler into SessionStore.getLatestUserPrompt()
method to fix abstraction leak and improve type safety.

Changes:
- Added getLatestUserPrompt() method to SessionStore with proper return type
- Replaced raw SQL query in SessionRoutes with type-safe method call
- Removed direct database access through dbManager.getSessionStore().db
- Improved separation of concerns (data layer vs HTTP layer)

Benefits:
- Type safety: Explicit return type instead of 'as any' cast
- Maintainability: SQL query logic belongs in data layer
- Testability: Can test query logic independently from HTTP layer
- Consistency: Follows existing pattern of query methods in SessionStore

Phase 3 Complete: SQL abstraction leak fixed in session init endpoint.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
 2025-12-07 21:28:36 -05:00
Alex Newman 83b4806718 Refactor logging and improve service initialization 
- Updated logging in `search-server.ts` to use `silentDebug` for non-critical messages, reducing console noise.
- Added a health check endpoint in `worker-service.ts` to improve service monitoring.
- Modified the worker service startup process to start the HTTP server immediately and perform slow initialization in the background.
- Refactored database initialization in `Database.ts` to use the correct `Database` class.
- Implemented a port availability check in `context-hook.ts` to ensure the worker service is ready before making requests.
 2025-12-07 18:13:07 -05:00
Alex Newman 9855ccf66d Refactor context-hook to use execSync for fetching context and simplify output structure; migrate from bun:sqlite to better-sqlite3 in Database and migrations; update SearchRoutes to dynamically import context generator for improved context handling. 2025-12-07 17:23:30 -05:00
Alex Newman 2b223b7cd9 feat: Add dual-tag system for meta-observation control (#153) 
* feat: Add dual-tag system for meta-observation control

Implements <private> and <claude-mem-context> tag stripping at hook layer
to give users fine-grained control over what gets persisted in observations
and enable future real-time context injection without recursive storage.

**Features:**
- stripMemoryTags() function in save-hook.ts
- Strips both <private> and <claude-mem-context> tags before sending to worker
- Always active (no configuration needed)
- Comprehensive test suite (19 tests, all passing)
- User documentation for <private> tag
- Technical architecture documentation

**Architecture:**
- Edge processing pattern (filter at hook, not worker)
- Defensive type handling with silentDebug
- Supports multiline, nested, and multiple tags
- Enables strategic orchestration for internal tools

**User-Facing:**
- <private> tag for manual privacy control (documented)
- Prevents sensitive data from persisting in observations

**Infrastructure:**
- <claude-mem-context> tag ready for real-time context feature
- Prevents recursive storage when context injection ships

**Files:**
- src/hooks/save-hook.ts: Core implementation
- tests/strip-memory-tags.test.ts: Test suite (19/19 passing)
- docs/public/usage/private-tags.mdx: User guide
- docs/public/docs.json: Navigation update
- docs/context/dual-tag-system-architecture.md: Technical docs
- plugin/scripts/save-hook.js: Built hook

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude <noreply@anthropic.com>

* fix: Strip private tags from user prompts and skip memory ops for fully private prompts

Fixes critical privacy bug where <private> tags were not being stripped from
user prompts before storage in user_prompts table, making private content
searchable via mem-search.

Changes:

1. new-hook.ts: Skip memory operations for fully private prompts
   - If cleaned prompt is empty after stripping tags, skip saveUserPrompt
   - Skip worker init to avoid wasting resources on empty prompts
   - Logs: "(fully private - skipped)"

2. save-hook.ts: Skip observations for fully private prompts
   - Check if user prompt was entirely private before creating observations
   - Respects user intent: fully private prompt = no observations at all
   - Prevents "thoughts pop up" issue where private prompts create public observations

3. SessionStore.ts: Add getUserPrompt() method
   - Retrieves prompt text by session_id and prompt_number
   - Used by save-hook to check if prompt was private

4. Tests: Added 4 new tests for fully private prompt detection (16 total, all passing)

5. Docs: Updated private-tags.mdx to reflect correct behavior
   - User prompts ARE now filtered before storage
   - Private content never reaches database or search indices

Privacy Protection:
- Fully private prompts: No user_prompt saved, no worker init, no observations
- Partially private prompts: Tags stripped, content sanitized before storage
- Zero leaks: Private content never indexed or searchable

Addresses reviewer feedback on PR #153 about user prompt filtering.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude <noreply@anthropic.com>

* feat: Enhance memory tag handling and indexing in user prompts

- Added a new index `idx_user_prompts_lookup` on `user_prompts` for improved query performance based on `claude_session_id` and `prompt_number`.
- Refactored memory tag stripping functionality into dedicated utility functions: `stripMemoryTagsFromJson` and `stripMemoryTagsFromPrompt` for better separation of concerns and reusability.
- Updated hooks (`new-hook.ts` and `save-hook.ts`) to utilize the new tag stripping functions, ensuring private content is not stored or searchable.
- Removed redundant inline tag stripping functions from hooks to streamline code.
- Added tests for the new tag stripping utilities to ensure functionality and prevent regressions.

---------

Co-authored-by: Claude <noreply@anthropic.com>
 2025-11-30 22:57:26 -05:00
Alex Newman 5d23c60b76 fix: Update project name when session already exists in createSDKSession 
**Problem:**
- Sessions created with empty project names couldn't be updated
- INSERT OR IGNORE skipped updates when session already existed
- Context-hook couldn't find observations (WHERE project = 'claude-mem')
- 364 observations had empty project names

**Root Cause:**
createSDKSession() used INSERT OR IGNORE for idempotency, but never
updated project/prompt fields when session already existed. If SAVE hook
created session first (with empty project), NEW hook couldn't fix it.

**Solution:**
When INSERT is ignored (session exists), UPDATE project and user_prompt
if we have non-empty values. This ensures project name gets set even
when session was created by SAVE hook or with incomplete data.

**Impact:**
- New sessions will always have correct project name
- Backfilled 364 historical observations with project='claude-mem'
- Context injection will now work (finds observations by project)

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude <noreply@anthropic.com>
 2025-11-23 16:06:46 -05:00
Alex Newman c5e68a17c8 refactor: Clean up search architecture, remove experimental contextualize endpoint (#133) 
* Refactor code structure for improved readability and maintainability

* Add test results for search API and related functionalities

- Created test result files for various search-related functionalities, including:
  - test-11-search-server-changes.json
  - test-12-context-hook-changes.json
  - test-13-worker-service-changes.json
  - test-14-patterns.json
  - test-15-gotchas.json
  - test-16-discoveries.json
  - test-17-all-bugfixes.json
  - test-18-all-features.json
  - test-19-all-decisions.json
  - test-20-session-search.json
  - test-21-prompt-search.json
  - test-22-decisions-endpoint.json
  - test-23-changes-endpoint.json
  - test-24-how-it-works-endpoint.json
  - test-25-contextualize-endpoint.json
  - test-26-timeline-around-observation.json
  - test-27-multi-param-combo.json
  - test-28-file-type-combo.json

- Each test result file captures specific search failures or outcomes, including issues with undefined properties and successful execution of search queries.
- Enhanced documentation of search architecture and testing strategies, ensuring compliance with established guidelines and improving overall search functionality.

* feat: Enhance unified search API with catch-all parameters and backward compatibility

- Implemented a unified search API at /api/search that accepts catch-all parameters for filtering by type, observation type, concepts, and files.
- Maintained backward compatibility by keeping granular endpoints functional while routing through the same infrastructure.
- Completed comprehensive testing of search capabilities with real-world query scenarios.

fix: Address missing debug output in search API query tests

- Flushed PM2 logs and executed search queries to verify functionality.
- Diagnosed absence of "Raw Chroma" debug messages in worker logs, indicating potential issues with logging or query processing.

refactor: Improve build and deployment pipeline for claude-mem plugin

- Successfully built and synced all hooks and services to the marketplace directory.
- Ensured all dependencies are installed and up-to-date in the deployment location.

feat: Implement hybrid search filters with 90-day recency window

- Enhanced search server to apply a 90-day recency filter to Chroma results before categorizing by document type.

fix: Correct parameter handling in searchUserPrompts method

- Added support for filter-only queries and improved dual-path logic for clarity.

refactor: Rename FTS5 method to clarify fallback status

- Renamed escapeFTS5 to escapeFTS5_fallback_when_chroma_unavailable to indicate its temporary usage.

feat: Introduce contextualize tool for comprehensive project overview

- Added a new tool to fetch recent observations, sessions, and user prompts, providing a quick project overview.

feat: Add semantic shortcut tools for common search patterns

- Implemented 'decisions', 'changes', and 'how_it_works' tools for convenient access to frequently searched observation categories.

feat: Unified timeline tool supports anchor and query modes

- Combined get_context_timeline and get_timeline_by_query into a single interface for timeline exploration.

feat: Unified search tool added to MCP server

- New tool queries all memory types simultaneously, providing combined chronological results for improved search efficiency.

* Refactor search functionality to clarify FTS5 fallback usage

- Updated `worker-service.cjs` to replace FTS5 fallback function with a more descriptive name and improved error handling.
- Enhanced documentation in `SKILL.md` to specify the unified API endpoint and clarify the behavior of the search engine, including the conditions under which FTS5 is used.
- Modified `search-server.ts` to provide clearer logging and descriptions regarding the fallback to FTS5 when UVX/Python is unavailable.
- Renamed and updated the `SessionSearch.ts` methods to reflect the conditions for using FTS5, emphasizing the lack of semantic understanding in fallback scenarios.

* feat: Add ID-based fetch endpoints and simplify mem-search skill

**Problem:**
- Search returns IDs but no way to fetch by ID
- Skill documentation was bloated with too many options
- Claude wasn't using IDs because we didn't tell it how

**Solution:**
1. Added three new HTTP endpoints:
   - GET /api/observation/:id
   - GET /api/session/:id
   - GET /api/prompt/:id

2. Completely rewrote SKILL.md:
   - Stripped complexity down to essentials
   - Clear 3-step prescriptive workflow: Search → Review IDs → Fetch by ID
   - Emphasized ID usage: "The IDs are there for a reason - USE THEM"
   - Removed confusing multi-endpoint documentation
   - Kept only unified search with filters

**Impact:**
- Token efficiency: Claude can now fetch full details only for relevant IDs
- Clarity: One clear workflow instead of 10+ options to choose from
- Usability: IDs are no longer wasted context - they're actionable

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude <noreply@anthropic.com>

* chore: Move internal docs to private directory

Moved POSTMORTEM and planning docs to ./private to exclude from PR reviews.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude <noreply@anthropic.com>

* refactor: Remove experimental contextualize endpoint

- Removed contextualize MCP tool from search-server (saves ~4KB)
- Disabled FTS5 fallback paths in SessionSearch (now vector-first)
- Cleaned up CLAUDE.md documentation
- Removed contextualize-rewrite-plan.md doc

Rationale:
- Contextualize is better suited as a skill (LLM-powered) than an endpoint
- Search API already provides vector search with configurable limits
- Created issue #132 to track future contextualize skill implementation

Changes:
- src/servers/search-server.ts: Removed contextualize tool definition
- src/services/sqlite/SessionSearch.ts: Disabled FTS5 fallback, added deprecation warnings
- CLAUDE.md: Cleaned up outdated skill documentation
- docs/: Removed contextualize plan document

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude <noreply@anthropic.com>

* refactor: Complete FTS5 cleanup - remove all deprecated search code

This completes the FTS5 cleanup work by removing all commented-out
FTS5 search code while preserving database tables for backward compatibility.

Changes:
- Removed 200+ lines of commented FTS5 search code from SessionSearch.ts
- Removed deprecated degraded_search_query__when_uvx_unavailable method
- Updated all method documentation to clarify vector-first architecture
- Updated class documentation to reflect filter-only query support
- Updated CLAUDE.md to remove FTS5 search references
- Clarified that FTS5 tables exist for backward compatibility only
- Updated "Why SQLite FTS5" section to "Why Vector-First Search"

Database impact: NONE - FTS5 tables remain intact for existing installations

Search architecture:
- ChromaDB: All text-based vector search queries
- SQLite: Filter-only queries (date ranges, metadata, no query text)
- FTS5 tables: Maintained but unused (backward compatibility)

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude <noreply@anthropic.com>

* refactor: Remove all FTS5 fallback execution code from search-server

Completes the FTS5 cleanup by removing all fallback execution paths
that attempted to use FTS5 when ChromaDB was unavailable.

Changes:
- Removed all FTS5 fallback code execution paths
- When ChromaDB fails or is unavailable, return empty results with helpful error messages
- Updated all deprecated tool descriptions (search_observations, search_sessions, search_user_prompts)
- Changed error messages to indicate FTS5 fallback has been removed
- Added installation instructions for UVX/Python when vector search is unavailable
- Updated comments from "hybrid search" to "vector-first search"
- Removed ~100 lines of dead FTS5 fallback code

Database impact: NONE - FTS5 tables remain intact (backward compatibility)

Search behavior when ChromaDB unavailable:
- Text queries: Return empty results with error explaining ChromaDB is required
- Filter-only queries (no text): Continue to work via direct SQLite

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude <noreply@anthropic.com>

* fix: Address PR 133 review feedback

Critical fixes:
- Remove contextualize endpoint from worker-service (route + handler)
- Fix build script logging to show correct .cjs extension (was .mjs)

Documentation improvements:
- Add comprehensive FTS5 retention rationale documentation
- Include v7.0.0 removal TODO for future cleanup

Testing:
- Build succeeds with correct output logging
- Worker restarts successfully (30th restart)
- Contextualize endpoint properly removed (404 response)
- Search endpoint verified working

This addresses all critical review feedback from PR 133.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude <noreply@anthropic.com>

---------

Co-authored-by: Claude <noreply@anthropic.com>
 2025-11-21 18:59:23 -05:00
Alex Newman bdf79a439b fix: Change discovery_tokens migration from version 7 to 11 
Root cause: The ensureDiscoveryTokensColumn migration was using version 7,
which was already taken by removeSessionSummariesUniqueConstraint. This
duplicate version number caused migration tracking issues in some databases.

Changes:
- Updated migration version from 7 to 11 (next available)
- Added schema_versions check to prevent unnecessary re-runs
- Updated comments to clarify the version number conflict
- Added error propagation (already present, but now more reliable)

This resolves issue #121 where users were seeing "no such column: discovery_tokens"
errors after upgrading to v6.0.6.

Affected users can manually add the columns:
  ALTER TABLE observations ADD COLUMN discovery_tokens INTEGER DEFAULT 0;
  ALTER TABLE session_summaries ADD COLUMN discovery_tokens INTEGER DEFAULT 0;

Or wait for v6.0.7 release which includes this fix.

Fixes #121

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude <noreply@anthropic.com>
 2025-11-17 13:43:34 -05:00
Alex Newman 798dec972e chore: Bump version to 6.0.6 
Critical bugfix for database migration issue (Issue #121)

Changes:
- Fix migration logic to always verify column existence
- Remove early return that trusted schema_versions alone
- Ensures discovery_tokens columns exist before queries
- Prevents "no such column" errors for all users

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude <noreply@anthropic.com>
 2025-11-17 13:18:49 -05:00
Alex Newman 3cbc041c8b feat: Add ROI tracking with discovery_tokens for observations and session summaries (#111) 
* feat: Add discovery_tokens for ROI tracking in observations and session summaries

- Introduced `discovery_tokens` column in `observations` and `session_summaries` tables to track token costs associated with discovering and creating each observation and summary.
- Updated relevant services and hooks to calculate and display ROI metrics based on discovery tokens.
- Enhanced context economics reporting to include savings from reusing previous observations.
- Implemented migration to ensure the new column is added to existing tables.
- Adjusted data models and sync processes to accommodate the new `discovery_tokens` field.

* refactor: streamline context hook by removing unused functions and updating terminology

- Removed the estimateTokens and getObservations helper functions as they were not utilized.
- Updated the legend and output messages to replace "discovery" with "work" for clarity.
- Changed the emoji representation for different observation types to better reflect their purpose.
- Enhanced output formatting for improved readability and understanding of token usage.

* Refactor user-message-hook and context-hook for improved clarity and functionality

- Updated user-message-hook.js to enhance error messaging and improve variable naming for clarity.
- Modified context-hook.ts to include a new column key section, improved context index instructions, and added emoji icons for observation types.
- Adjusted footer messages in context-hook.ts to emphasize token savings and access to past research.
- Changed user-message-hook.ts to update the feedback and support message for clarity.

* fix: Critical ROI tracking fixes from PR review

Addresses critical findings from PR #111 review:

1. **Fixed incorrect discovery token calculation** (src/services/worker/SDKAgent.ts)
   - Changed from passing cumulative total to per-response delta
   - Now correctly tracks token cost for each observation/summary
   - Captures token state before/after response processing
   - Prevents all observations getting inflated cumulative values

2. **Fixed schema version mismatch** (src/services/sqlite/SessionStore.ts)
   - Changed ensureDiscoveryTokensColumn() from version 11 to version 7
   - Now matches migration007 definition in migrations.ts
   - Ensures consistent version tracking across migration system

These fixes ensure ROI metrics accurately reflect token costs.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude <noreply@anthropic.com>

---------

Co-authored-by: Claude <noreply@anthropic.com>
 2025-11-15 19:34:53 -05:00
basher83 97d565e3cd Replace search skill with mem-search (#91) 
* feat: add mem-search skill with progressive disclosure architecture

Add comprehensive mem-search skill for accessing claude-mem's persistent
cross-session memory database. Implements progressive disclosure workflow
and token-efficient search patterns.

Features:
- 12 search operations (observations, sessions, prompts, by-type, by-concept, by-file, timelines, etc.)
- Progressive disclosure principles to minimize token usage
- Anti-patterns documentation to guide LLM behavior
- HTTP API integration for all search functionality
- Common workflows with composition examples

Structure:
- SKILL.md: Entry point with temporal trigger patterns
- principles/: Progressive disclosure + anti-patterns
- operations/: 12 search operation files

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude <noreply@anthropic.com>

* docs: add CHANGELOG entry for mem-search skill

Document mem-search skill addition in Unreleased section with:
- 100% effectiveness compliance metrics
- Comparison to previous search skill implementation
- Progressive disclosure architecture details
- Reference to audit report documentation

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude <noreply@anthropic.com>

* docs: add mem-search skill audit report

Add comprehensive audit report validating mem-search skill against
Anthropic's official skill-creator documentation.

Report includes:
- Effectiveness metrics comparison (search vs mem-search)
- Critical issues analysis for production readiness
- Compliance validation across 6 key dimensions
- Reference implementation guidance

Result: mem-search achieves 100% compliance vs search's 67%

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude <noreply@anthropic.com>

* feat: Add comprehensive search architecture analysis document

- Document current state of dual search architectures (HTTP API and MCP)
- Analyze HTTP endpoints and MCP search server architectures
- Identify DRY violations across search implementations
- Evaluate the use of curl as the optimal approach for search
- Provide architectural recommendations for immediate and long-term improvements
- Outline action plan for cleanup, feature parity, DRY refactoring

* refactor: Remove deprecated search skill documentation and operations

* refactor: Reorganize documentation into public and context directories

Changes:
- Created docs/public/ for Mintlify documentation (.mdx files)
- Created docs/context/ for internal planning and implementation docs
- Moved all .mdx files and assets to docs/public/
- Moved all internal .md files to docs/context/
- Added CLAUDE.md to both directories explaining their purpose
- Updated docs.json paths to work with new structure

Benefits:
- Clear separation between user-facing and internal documentation
- Easier to maintain Mintlify docs in dedicated directory
- Internal context files organized separately

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude <noreply@anthropic.com>

* Enhance session management and continuity in hooks

- Updated new-hook.ts to clarify session_id threading and idempotent session creation.
- Modified prompts.ts to require claudeSessionId for continuation prompts, ensuring session context is maintained.
- Improved SessionStore.ts documentation on createSDKSession to emphasize idempotent behavior and session connection.
- Refined SDKAgent.ts to detail continuation prompt logic and its reliance on session.claudeSessionId for unified session handling.

---------

Co-authored-by: Claude <noreply@anthropic.com>
Co-authored-by: Alex Newman <thedotmack@gmail.com>
 2025-11-11 16:15:07 -05:00
Alex Newman f27c73b469 Fix project filter synchronization issues in viewer UI (#70) 
* feat: Enhance session and summary handling

- Update SQL query in SessionStore to exclude null or empty projects.
- Add 'investigated' field to Summary interface for better tracking.
- Modify App component to handle pagination more efficiently based on current filters.
- Update SummaryCard to display the 'investigated' field if present.
- Refactor usePagination hook to reset pagination state when filters change.
- Adjust mergeAndDeduplicateByProject function to ensure it only merges unfiltered data.

* refactor: address PR feedback - remove redundancies and fix dependency cycles

Fixes based on PR #70 review feedback:

Required:
- Fixed useEffect dependency cycle in App.tsx (removed handleLoadMore from deps)

Recommended:
- Removed redundant filter detection from App.tsx (usePagination handles this)
- Removed redundant stateRef update effect from usePagination.ts
- Simplified mergeAndDeduplicateByProject by removing defensive validation
- Removed unused imports (useRef, useEffect)

All changes follow CLAUDE.md principles: DRY, fail-fast, no defensive programming.

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude <noreply@anthropic.com>

* fix: Reset paginated data arrays when filter changes

Critical fix for data mixing bug identified in PR review follow-up.

Problem:
When filter changes, usePagination correctly resets its offset to 0, but
the paginated state arrays (observations, summaries, prompts) were NOT
being reset. This caused data from different projects to mix together
because setState appends to the existing array.

Example:
- User views Project A: [A1, A2, A3]
- User switches to Project B
- API fetches [B1, B2, B3]
- setState does: [...prev, ...new] = [A1, A2, A3, B1, B2, B3] ❌

Solution:
Added a separate useEffect that resets all three paginated arrays when
currentFilter changes. This happens BEFORE handleLoadMore fetches new
data, ensuring clean state for the new filter.

Files changed:
- src/ui/viewer/App.tsx: Added useEffect to reset arrays on filter change
- plugin/ui/viewer-bundle.js: Built UI bundle

Testing:
1. Select Project A, verify data loads
2. Switch to Project B
3. Verify ONLY Project B data is shown (no mixing)
4. Switch back to "All Projects"
5. Verify all data appears correctly

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude <noreply@anthropic.com>

* refactor: Combine filter change useEffect hooks for guaranteed order

Merged two separate useEffect hooks into one to:
1. Guarantee execution order (reset THEN load)
2. Reduce complexity (one hook instead of two)
3. Make intent clearer with single comment

Before:
- useEffect #1: handleLoadMore() on filter change
- useEffect #2: Reset arrays on filter change
- React could run these in any order

After:
- Single useEffect: Reset arrays THEN handleLoadMore()
- Execution order is now guaranteed

Files changed:
- src/ui/viewer/App.tsx: Combined useEffect hooks
- plugin/ui/viewer-bundle.js: Built UI bundle

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude <noreply@anthropic.com>

---------

Co-authored-by: Claude <noreply@anthropic.com>
 2025-11-07 20:28:12 -05:00
Alex Newman 4bc467f7ed feat: Implement Worker Service for long-running HTTP service with PM2 management 
- Introduced WorkerService class to handle HTTP requests and manage sessions.
- Added endpoints for health check, session management, and data retrieval.
- Integrated ChromaSync for background data synchronization.
- Implemented SSE for real-time updates to connected clients.
- Added error handling and logging throughout the service.
- Cached Claude executable path for improved performance.
- Included settings management for user configuration.
- Established database interactions for session and observation management.
 2025-11-07 13:26:13 -05:00
Alex Newman f45c782c07 Refactor SDK exports and remove unused functions; update search-server formatting functions to eliminate unused parameters; adjust SQLite migration function parameter; add TypeScript error documentation with detailed fixes and priority order. 2025-11-06 22:27:12 -05:00
Alex Newman 79ff1849f0 feat: Add web-based viewer UI for real-time memory stream (#58) 
* Add viewer HTML for claude-mem with live stream and settings interface

- Implemented a responsive layout with left and right columns for observations and settings.
- Added status indicators for connection state.
- Integrated server-sent events (SSE) for real-time updates on observations and summaries.
- Created dynamic project filter dropdown based on available observations.
- Developed settings section for environment variables and worker stats.
- Included functionality to save settings and load current stats from the server.
- Enhanced UI with custom styles for better user experience.

* Remove draft implementation plan for v5.1 web UI

* feat: Implement viewer UI with sidebar, feed, and settings management

- Add main viewer template (HTML) with styling for dark mode.
- Create App component to manage state and render Header, Feed, and Sidebar.
- Implement Feed component to display observations and summaries with filtering.
- Develop Header component for project selection and connection status.
- Create ObservationCard and SummaryCard components for displaying individual items.
- Implement Sidebar for settings management and displaying worker/database stats.
- Add hooks for managing SSE connections, settings, and stats fetching.
- Define types for observations, summaries, settings, and stats.

* Enhance UI components and improve layout

- Updated padding and layout for the feed and card components in viewer.html, viewer-template.html, and viewer.html to improve visual spacing and alignment.
- Increased card margins and padding for better readability and aesthetics.
- Adjusted font sizes, weights, and line heights for card titles and subtitles to enhance text clarity and hierarchy.
- Added a new feed-content class to center the feed items and limit their maximum width.
- Modified the Header component to improve the settings icon's SVG structure for better rendering.
- Enhanced the Sidebar component by adding a close button with an SVG icon, improving user experience for closing settings.
- Updated the Sidebar component's props to include an onClose function for handling sidebar closure.

* feat: Add user prompts feature with UI integration

- Implemented a new method in SessionStore to retrieve recent user prompts.
- Updated WorkerService to fetch and broadcast user prompts to clients.
- Enhanced the Feed component to display user prompts alongside observations and summaries.
- Created a new PromptCard component for rendering individual user prompts.
- Modified useSSE hook to handle new prompt events and processing status.
- Updated viewer templates and styles to accommodate the new prompts feature.

* feat: Add project filtering and pagination for observations

- Implemented `getAllProjects` method in `SessionStore` to retrieve unique projects from the database.
- Added `/api/observations` endpoint in `WorkerService` for paginated observations fetching.
- Enhanced `App` component to manage paginated observations and integrate with the new API.
- Updated `Feed` component to support infinite scrolling and loading more observations.
- Modified `Header` to display processing status.
- Refactored `PromptCard` to remove unnecessary processing indicator.
- Introduced `usePagination` hook to handle pagination logic for observations.
- Updated `useSSE` hook to include projects in the state.
- Adjusted types to accommodate new project data.

* Refactor viewer build process and remove deprecated HTML template

- Updated build-viewer.js to copy HTML template to build output with improved logging.
- Removed src/ui/viewer.html as it is no longer needed.
- Enhanced App component to merge observations while removing duplicates using useMemo.
- Improved Feed component to utilize a ref for onLoadMore callback and adjusted infinite scroll logic.
- Updated Sidebar component to use default settings from constants and removed redundant formatting functions.
- Refactored usePagination hook to streamline loading logic and prevent concurrent requests.
- Updated useSSE hook to use centralized API endpoints and improved reconnection logic.
- Refactored useSettings and useStats hooks to utilize constants for API endpoints and timing.
- Introduced ErrorBoundary component for better error handling in the viewer.
- Centralized API endpoint paths, default settings, timing constants, and UI-related constants into dedicated files.
- Added utility functions for formatting uptime and bytes for consistent display across components.

* feat: Enhance session management and pagination for user prompts, summaries, and observations

- Added project field to user prompts in the database and API responses.
- Implemented new API endpoints for fetching summaries and prompts with pagination.
- Updated WorkerService to handle new endpoints and filter results by project.
- Modified App component to manage paginated data for prompts and summaries.
- Refactored Feed component to remove unnecessary filtering and handle combined data.
- Improved usePagination hook to support multiple data types and project filtering.
- Adjusted useSSE hook to only load projects initially, with data fetched via pagination.
- Updated types to include project information for user prompts.

* feat: add SummarySkeleton component and data utility for merging items

- Introduced SummarySkeleton component for displaying loading state in the UI.
- Implemented mergeAndDeduplicateByProject utility function to merge real-time and paginated data while removing duplicates based on project filtering.

* Enhance UI and functionality of the viewer component

- Updated sidebar transition effects to use translate3d for improved performance.
- Added a sidebar header with title and connection status indicators.
- Modified the PromptCard to display project name instead of prompt number.
- Introduced a GitHub and X (Twitter) link in the header for easy access.
- Improved styling for setting descriptions and card hover effects.
- Enhanced Sidebar component to include connection status and updated layout.

* fix: reduce timeout for worker health checks and ensure proper responsiveness
 2025-11-05 22:54:38 -05:00
Alex Newman 633f89a5fb feat: Implement user prompt syncing to Chroma and enhance timeline querying 
- Added `getObservationById` method to retrieve observations by ID in SessionStore.
- Introduced `getSessionSummariesByIds` and `getUserPromptsByIds` methods for fetching session summaries and user prompts by IDs.
- Developed `getTimelineAroundTimestamp` and `getTimelineAroundObservation` methods to provide a unified timeline of observations, sessions, and prompts around a specified anchor point.
- Enhanced ChromaSync to format and sync user prompts, including a new `syncUserPrompt` method.
- Updated WorkerService to sync the latest user prompt to Chroma after updating the worker port.
- Created tests for timeline querying and MCP handler logic to ensure functionality.
- Documented the implementation plan for user prompts and timeline context tool in the Chroma search completion plan.
 2025-11-03 16:55:33 -05:00
Alex Newman 02130c49d1 close to win 2025-11-01 21:33:08 -04:00
Alex Newman 309e8a7139 Implement hybrid search: Chroma semantic + SQLite temporal 
Core implementation:
- Added Chroma MCP client integration to search-server.ts
- Implemented queryChroma() helper with Python dict parsing
- Added VECTOR_DB_DIR constant to paths.ts
- Added SessionStore.getObservationsByIds() method

Search handlers updated:
- search_observations: Semantic-first with 90-day temporal filter
- find_by_concept/type/file: Metadata-first, semantic-enhanced ranking
- All handlers fall back to FTS5 if Chroma unavailable

Technical details:
- Direct MCP client usage (no abstractions)
- Regex parsing of Chroma Python dict responses
- Semantic ranking preserved in final results
- Graceful degradation to FTS5-only search

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude <noreply@anthropic.com>
 2025-10-31 23:00:04 -04:00
Alex Newman 81fdf28347 Fix critical bug: getSessionById missing claude_session_id 
Critical bugfix for NOT NULL constraint violation.

Problem:
- Worker service calls getSessionById(sessionDbId) to fetch session data
- Worker then uses dbSession.claude_session_id to create ActiveSession
- But getSessionById was NOT selecting claude_session_id from database
- Result: claudeSessionId = undefined in worker
- Caused: "NOT NULL constraint failed: sdk_sessions.claude_session_id" errors
- Impact: Observations and summaries couldn't be stored

Root cause:
- SessionStore.getSessionById() SQL query missing claude_session_id column
- Line 710-713: "SELECT id, sdk_session_id, project, user_prompt"
- Should be: "SELECT id, claude_session_id, sdk_session_id, project, user_prompt"

Fix:
- Added claude_session_id to SELECT query in getSessionById
- Updated return type to include claude_session_id: string
- Now worker correctly receives claude_session_id from database
- Session ID from hook flows properly through entire system

Files changed:
- src/services/sqlite/SessionStore.ts (getSessionById method)

Testing:
- Build succeeded
- Ready for PM2 restart and live testing

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude <noreply@anthropic.com>
 2025-10-24 22:18:03 -04:00
Alex Newman 322cb94c43 Release v4.2.6: Critical bugfix for observation validation 
Critical Bugfix:
- Fixed overly defensive observation validation blocking observations from being saved
- Parser now NEVER skips observations - always saves them
- Invalid or missing type defaults to "change" (generic catch-all type)
- Removed validation requiring title, subtitle, and narrative fields
- Prevents critical data loss - partial observations better than no observations

Impact:
- Before: Missing title, subtitle, OR narrative caused entire observation to be discarded
- After: ALL observations preserved regardless of field completeness
- Even partial observations contain valuable data: concepts, files_read, files_modified, facts
- LLMs make mistakes - system must be resilient and save everything
- Consistent with v4.2.5 summary fix

Technical changes:
- Updated src/sdk/parser.ts:52-67 to never skip observations
- Uses "change" as fallback type for invalid/missing types (no schema change)
- Updated ParsedObservation interface to allow null for title, subtitle, narrative
- Updated SessionStore.storeObservation signature to accept nullable fields
- Updated built worker-service.cjs
- Bumped version to 4.2.6 in all metadata files

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude <noreply@anthropic.com>
 2025-10-24 21:25:44 -04:00
copilot-swe-agent[bot] dad3a104b4 Fix FTS5 injection vulnerability with proper escaping and comprehensive tests 
Co-authored-by: thedotmack <683968+thedotmack@users.noreply.github.com>
 2025-10-23 09:22:31 +00:00