synap-git 2.1.6__tar.gz → 2.3.0__tar.gz

{synap_git-2.1.6 → synap_git-2.3.0}/.gitignore

@@ -25,3 +25,11 @@ build/
 .synapse/
 .synapse/*-wal
 .synapse/*-shm
+config.json
+status.json
+fix_exc.py
+test_embed.py
+.vscode/
+.idea/
+*.log
+coverage.xml

{synap_git-2.1.6 → synap_git-2.3.0}/CHANGELOG.md

@@ -5,15 +5,59 @@ All notable changes to this project will be documented in this file.
 The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/),
 and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html).
 
-## [2.1.5] - 2026-06-11
+## [2.2.0] - 2026-08-03
+
+## [2.3.0] - 2026-08-03
+
+### Added
+- **CLI Cost & Usage Command**: Expose `synap cost` (alias `synap usage`) to show aggregated LLM calls, token counts, and estimated USD cost in the terminal.
+- **Web UI: CLI Cost Integration**: The website CLI playground now surfaces an estimated cost line for sample commands so visitors can see token/cost economics.
+
+### Changed
+- **Frontend Defensive Rendering**: Guarded several UI paths against undefined symbol objects to prevent runtime errors in production (fixed `.type` property reads).
+
+### Chore
+- **Bumped package version** to `2.3.0`.
+- **Release automation**: prepared changelog and release tag for GitHub release `v2.3.0`.
+
+
+### Added
+
+- **AST Symbol Parser Expansion (AUD-02)**: Implemented Tree-sitter AST symbol extraction handlers for C#, PHP, Kotlin, Scala, and C.
+- **Event-Driven File Watcher (AUD-03)**: Replaced continuous 2s subprocess polling with `watchdog` filesystem event tracking, reducing idle CPU usage to near-zero.
+- **Daemon REST API Diagnostic Checks (AUD-06)**: Added daemon port availability and REST API endpoint status checks to `synap doctor`.
+- **Wiki Task Requeue Subcommand (AUD-08)**: Added `synap wiki retry` CLI subcommand and `retry_failed_wiki_queue` storage method to requeue permanently failed wiki tasks back to pending state.
+
+### Changed
+
+- **CLI `synap start` Control Flow (AUD-01)**: Fixed `synap start` so it exits cleanly when a daemon is already running unless `--foreground` is explicitly passed.
+- **SQLite WAL Performance Rationale (AUD-07)**: Documented `PRAGMA synchronous=NORMAL` in WAL mode as an intentional architectural tradeoff balancing write throughput and self-healing index recovery.
+
+### Fixed
+
+- **Graceful Embedding Provider Fallback (AUD-04)**: Configured Anthropic and OpenRouter providers to log a warning and return empty embedding vectors instead of raising unhandled `NotImplementedError`.
+- **Symbol Preservation on File Renames (AUD-05)**: Added `-M` rename detection to `git diff-tree` in incremental indexing to preserve file symbol history and edges across renames.
+
+## [2.1.7] - 2026-07-29
+
+### Added
+
+- **AI Engineer Rules**: Created standardized agent rulesets across `AGENTS.md`, `.cursorrules`, `.windsurfrules`, and `.github/copilot-instructions.md`.
+
+### Fixed
+
+- **Daemon Branch Switching Test Stability**: Resolved timing race condition in daemon branch checkout verification.
+- **CLI Setup Connectivity**: Fixed setup connectivity verification and non-TTY prompt fallback handling.
 
 ## [2.1.6] - 2026-06-29
 
 ### Added
+
 - **Universal Language Expansion**: Expanded tree-sitter AST parsing support from 4 hardcoded languages to dynamically supporting over ~50 languages using `tree-sitter-languages`. Also added dynamic shebang detection (`#!`) to parse extensionless scripts as python, ruby, node, and bash scripts.
 - **API Rate Limiting**: Implemented a global `RateLimitedProvider` to throttle LLM and embedding calls to 3 requests per second to mitigate resource exhaustion on the diagnostic API.
 
 ### Fixed
+
 - **Broad Exception Handling**: Eradicated remaining `except Exception:` blocks across diagnostics, daemon execution, indexer scanning, and module resolution, and replaced them with `OSError`, `sqlite3.Error`, and specific errors to prevent silent data corruption.
 - **Async Sleep Compatibility**: Fixed thread-blocking `time.sleep()` in LLM retries by delegating to `anyio.from_thread.run(anyio.sleep)` if invoked inside FastMCP worker threads.
 - **Edge Resolution & Source Paths**: Added support for resolving Javascript, Java, C++, Ruby, and more during import/edge resolution.
@@ -22,38 +66,45 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 - **Metadata Fixes**: Corrected repository URLs in `pyproject.toml` to correctly point to `synapse` instead of `synap-git`.
 
 ### Refactored
+
 - **Daemon Teardown**: Refactored the forceful SIGTERM daemon teardown logic to safely toggle via `force_exit=True` rather than a blanket catch-all. Makes programmatic `daemon.stop()` safer without blocking terminal UI interactions.
 
 ## [2.1.4] - 2026-06-11
 
 ### Fixed
+
 - **Graceful Shutdown Hang**: Fixed an edge case where `synap stop` would time out and forcefully terminate due to `concurrent.futures` threads preventing immediate python process exit when handling embeddings. The CLI now safely flushes databases and exits instantly.
 
 ## [2.1.3] - 2026-06-11
 
 ### Changed
+
 - **CLI Interactivity Enhancement**: Wrapped all long-running `synap` CLI commands (`init`, `start`, `stop`, `rollback`, `repair`) with interactive rich status spinners to ensure users never stare at an empty screen.
 - **Incremental Indexing Progress**: Added a rich progress status to the `_incremental_index` background loop to provide visibility into parsing tasks during cache hits.
 
 ## [2.1.2] - 2026-06-11
 
 ### Fixed
+
 - **CRITICAL: Daemon Thread Explosion**: Patched a massive concurrency edge case in `SynapRuntime` where large repository indexing would trigger unbounded `threading.Thread` loops for LLM embeddings. A bounded `ThreadPoolExecutor` has been introduced to prevent OOMs, OS thread starvation, and rate-limit hits during first-run indexing.
 - **Daemon Lifecycle**: Ensure `embedding_executor` shuts down cleanly without leaking background threads when the daemon loop receives SIGTERM.
 
 ## [2.1.1] - 2026-06-11
 
 ### Fixed
+
 - **CRITICAL: MCP StdIO Stream Corruption**: Fixed a bug where `synap mcp start` and `signal_low_context` would accidentally print progress bars or notifications to `sys.stdout` instead of `sys.stderr`, which corrupted the MCP protocol stream and disconnected IDEs like Cursor/Windsurf.
 - **UX Improvements**: Improved the silence logic in CLI initialization to prevent unnecessary rich formatting in JSON/MCP environments.
 
 ## [2.1.0] - 2026-05-29
 
 ### Added
+
 - **CLI `search` command**: New user-facing command for executing hybrid structural searches directly from the terminal.
 - **`embed_provider` configuration**: Added explicit control over the vector embedding provider via `SYNAP_EMBED_PROVIDER` or `config.toml`.
 
 ### Fixed
+
 - **CRITICAL: Metadata Nullability Bug**: Resolved a type mismatch in `CodeSymbol` where `metadata=None` caused background worker crashes. Enforced strict `dict` contract with `default_factory`.
 - **CRITICAL: Exception Swallowing**: Eradicated 26 instances of silent failure (`except Exception: pass`) across all core subsystems (API, Indexer, Storage, Retrieval, MCP, Providers). Replaced with structured, traceback-aware logging.
 - **CRITICAL: SQLite Schema Integrity**: Fixed `NOT NULL` constraint failure in `llm_calls` table by aligning schema with insertion logic and adding `cost_usd` support.
@@ -64,10 +115,12 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 ## [2.0.0] - 2026-05-29
 
 ### Added
+
 - **.synapignore Support**: Implemented context-aware filtering to prevent traversing symlinks, binary files, and files listed in `.synapignore` or `.gitignore`.
 - **FTS5 Integration**: Shifted semantic full-text search directly to SQLite FTS5 with bounding limits (`LIMIT 50`) for `O(1)` lexical retrieval scaling on 10,000+ file monorepos.
 
 ### Fixed
+
 - **LLM Hangs in Test Suite**: Isolated testing environment by strictly bypassing real LLM provider configs (`SYNAP_LLM_PROVIDER=""`) preventing test CI suite hangs.
 - **Repository Path Scoping in Hybrid Engine**: Fixed a bug where `repo_path` initialization mistakenly truncated the path to `/tmp` in tests, failing contextual snippet aggregation.
 - **Unbounded BM25 Expansion**: Bounded full-text search token extraction and BM25 results, preventing out-of-memory cascading in CTE traversal during monorepo indexing.
@@ -75,24 +128,29 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 ## [1.2.3] - 2026-05-28
 
 ### Added
+
 - **Architecture Documentation Consolidation:** Merged duplicate `docs/architecture.md` into the root-level `ARCHITECTURE.md` to ensure a single, consistent source of architectural truth.
 
 ### Fixed
+
 - **Release Version Sync:** Bumped package version in `src/synap_git/__init__.py` to `1.2.3` and updated configuration metadata to align with the release tag validation check in the pipeline.
 
 ## [1.1.2] - 2026-05-28
 
 ### Added
+
 - **Technical Documentation (`docs/`):** Added detailed manuals for architecture, CLI reference, configuration fields, MCP tools schemas, two-path indexing, wiki queues, and memory lifecycles.
 - **Main README:** Completely rewrote the `README.md` from scratch to align strictly with the implemented features, CLI commands, configuration options, and integration paths.
 
 ### Removed
+
 - **Obsolete Docs:** Purged stale `quickstart.md`, `retrieval.md`, `roadmap.md`, `diagnostics.md`, `performance.md`, `benchmarks.md`, and `security.md` documents.
 - **Draft Files:** Removed unreferenced root files `SYNAPSE_AUDIT_REPORT.md` and `SYNAPSE_AGENT_PROMPT.md  `.
 
 ## [1.1.1] - 2026-05-28
 
 ### Fixed
+
 - **CRITICAL: N+1 query loop during edge resolution:** Migrated structural edge resolution to bulk FETCH queries, eliminating thousands of database calls per indexing run.
 - **CRITICAL: SQLite Synchronous Pragma:** Enforced \`PRAGMA synchronous=NORMAL\` on every connection, multiplying write throughput by 10x-100x.
 - **SPEC: Content-Scoped File IDs:** Updated \`file_id\` formula to \`sha256(path + content_hash)\` ensuring temporal version isolation in the graph.
@@ -103,6 +161,7 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 - **LOW: Checkpoint Validation:** MCP \`create_checkpoint\` tool now validates all input fields to prevent malformed data.
 
 ### Added
+
 - **Interactive Review Flow:** New CLI command \`synap lessons review\` for interactive management of agent-proposed lessons.
 - **Context Monitoring:** New MCP tool \`signal_low_context\` for proactive agent context window monitoring.
 - **Configurable Maintenance:** Added \`checkpoint_threshold\` and \`lesson_expiry_days\` to \`config.toml\`.
@@ -110,35 +169,40 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 - **Onboarding Guidance:** \`synap init\` now provides explicit next steps for starting the system.
 
 ### Removed
+
 - **Mock LLM Mode:** \`MockLLMProvider\` removed from the production codebase to maintain strict operational integrity.
 
 ## [1.1.0] - 2026-05-28
 
 ### Added — Git-Snapshot Projection & Performance Refactoring
+
 - **Split Two-Path Indexing:** Separated initialization and incremental indexing into `_first_run_index` (full scan, CPU-parallelized) and `_incremental_index` (Git delta change detector).
 - **Asynchronous Wiki Generation Queue:** Decoupled slow, non-deterministic LLM wiki generation from structural indexing using a persistent database queue (`wiki_queue`) processed asynchronously by a daemon worker.
 - **Lazy Wiki Caching:** Added synchronous wiki generation fallback to CLI (`wiki show`), Web API, and MCP tools to dynamically build missing or stale pages on-demand.
 - **Process Pool Parallel Parsing:** Parallelized Tree-sitter parsing on first run across all CPU cores utilizing process-based concurrency with independent parser instances.
 - **SQLite Performance Hardening:**
-  - WAL mode and NORMAL synchronous configuration enabled during writes.
-  - Multi-row symbol and edge inserts batched into a single transaction via `executemany`.
-  - Dot-separated `module_key` pre-computation and indexing for $O(1)$ module resolution.
-  - SQLite FTS5 index integration for fast sub-millisecond symbol searches, avoiding full-table scans.
+    - WAL mode and NORMAL synchronous configuration enabled during writes.
+    - Multi-row symbol and edge inserts batched into a single transaction via `executemany`.
+    - Dot-separated `module_key` pre-computation and indexing for $O(1)$ module resolution.
+    - SQLite FTS5 index integration for fast sub-millisecond symbol searches, avoiding full-table scans.
 - **Web API Lazy Refreshes:** Updated the `/wiki/{filepath}` GET endpoint to perform lazy refreshes on stale or missing pages before returning content.
 
 ### Fixed
+
 - **FTS5 Cascade Delete:** Added database trigger `tgr_symbols_delete` to automatically clean up virtual `symbols_fts` entries when parent symbols are deleted.
 - **Duplicate File ID Collision:** Handled unique, path-scoped file identifier generation ensuring files with identical content (like empty `__init__.py`) do not conflict.
 
 ## [0.2.1] - 2026-05-27
 
 ### Added — Final Production Hardening & Release Execution
+
 - `synap rollback --commit <ref>` option: directly target a commit by hash/reference without interactive selection prompt.
 - `synap rollback --yes` / `-y` option: suppress confirmation prompt for non-interactive and scripted rollback flows.
 - Non-interactive guard in `synap rollback`: fails fast with a clear error when used in piped/CI contexts without `--commit` or `--yes`.
 - `synap rollback` invalid commit detection: validates commit reference via `git rev-parse --verify` and rejects unknown refs with a clear message.
 
 ### Fixed
+
 - **SQLite migration short-circuit bug**: legacy un-versioned databases (user_version = 0) incorrectly skipped `CREATE TABLE IF NOT EXISTS` execution, leaving the `symbols` table and others uninitialized. The premature short-circuit is removed; all schema tables are now created correctly before bumping to version 1.
 - **Python `import_from_statement` missing symbol extraction**: Tree-sitter AST parser only extracted the module identifier from `from X import Y` statements, discarding `Y`. Now correctly emits `module:symbol` pairs for all imported names, aliases, and grouped imports.
 - **Namespace-aware call edge resolution**: Pass 2 import resolver now splits `module:symbol` import entries to narrow edge targets to the correct module file, eliminating false-positive dependency edges to duplicate class names in sibling namespaces.
@@ -147,11 +211,13 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 - **Degraded mode retry logic**: confirmed 2-stage exponential backoff and graceful structural fallback under fully-offline and timeout conditions.
 
 ### Changed
+
 - Daemon resilience test (`test_daemon_resilience.py`) hardened against race condition where `SIGKILL` test read a stale PID from a prior run that had already exited.
 
 ## [0.2.0] - 2026-05-26
 
 ### Added — Final Polish & Release Readiness
+
 - CLI usage management: `synap usage show` (displays Rich aggregated usage table and summary panel) and `synap usage clear`.
 - CLI wiki management: `synap wiki list` and `synap wiki show <filepath>` (renders page in terminal via Rich Markdown).
 - LLM call database logging: records `prompt_tokens`, `completion_tokens` for retrieval and wiki generation passes.
@@ -161,6 +227,7 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 - Clean Typer execution wrapper: intercepts configuration and credential exceptions to output actionable suggestions (e.g. `synap setup`) instead of tracebacks.
 
 ### Added — Hardening Loop 2: MCP Stability & Protocol Polish
+
 - Deterministic MCP JSON envelope: every tool response carries `ok`, `data`, `warnings`, `trace_id`, `dirty_tree`.
 - Structured error objects with `code`, `message`, and `suggestion` fields for all failure paths.
 - `dirty_tree` propagation: agents are warned when the working tree is ahead of the index.
@@ -168,6 +235,7 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 - `synap mcp verify` command to assert full protocol contract compliance.
 
 ### Added — Hardening Loop 3: Lesson System Trust & Memory Lifecycle
+
 - Formal `LessonStatus` enum enforcing explicit state machine: `PENDING → APPROVED/REJECTED`, `APPROVED → EXPIRED`.
 - Retrieval gating: only `APPROVED`, non-expired lessons are injected into LLM context as `# APPROVED SYSTEM MEMORY`.
 - `prune_expired_lessons()` transitions stale lessons to `EXPIRED` state on demand.
@@ -178,6 +246,7 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 - `synap lessons approve <id>` and `synap lessons reject <id>` — explicit human governance over pending lessons.
 
 ### Added — Hardening Loop 4: Tracing, Git Compliance & Release Hardening
+
 - `GitIgnoreSpec` glob-to-regex parser in `RepositoryScanner` respects `.gitignore` patterns.
 - Auto-protection: `SynapRuntime.bootstrap()` automatically adds `.synap/` to `.gitignore`.
 - Enhanced binary file detection via extension blocklist + control-character ratio analysis.
@@ -193,18 +262,21 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 - `py.typed` marker for PEP 561 compliance.
 
 ### Changed
+
 - CI pipeline split into 4 focused jobs: `lint`, `test`, `benchmark` (main only), `release-validation`.
 - Release validation now runs `synap init` before `synap doctor` to ensure a valid Synap DB context.
 - `pytest` configured with `asyncio_default_fixture_loop_scope = "function"` to eliminate deprecation warnings.
 - Benchmark tests gated behind `benchmark` marker; skipped in fast PR CI passes.
 
 ### Fixed
+
 - `synap doctor` in CI release validation step previously ran against an uninitialized directory.
 - `ruff format` drift in `cli/main.py` and `indexer/daemon.py` resolved.
 
 ## [0.1.0] - 2026-05-25
 
 ### Added
+
 - Core deterministic indexing engine using Tree-sitter and Git content hashes.
 - 4-stage hybrid retrieval pipeline (Temporal, Structural, Lexical, Semantic).
 - Model Context Protocol (MCP) server for IDE integration.
@@ -214,11 +286,13 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 - Diagnostic UI dashboard.
 
 ### Changed
+
 - Refactored entire architecture from event-sourcing to deterministic Git projections.
 - Consolidated storage into unified SQLite schema with Recursive CTE support.
 - Upgraded documentation to production infrastructure standards.
 
 ### Removed
+
 - Legacy "cognitive OS" and "graph operating system" abstractions.
 - Speculative async priority queues and replay engines.
 - Brittle regex-based parsers.

{synap_git-2.1.6 → synap_git-2.3.0}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: synap-git
-Version: 2.1.6
+Version: 2.3.0
 Summary: Persistent structural context infrastructure for AI coding agents.
 Project-URL: Homepage, https://github.com/saahilpal/synapse
 Project-URL: Repository, https://github.com/saahilpal/synapse
@@ -37,6 +37,7 @@ Requires-Dist: tree-sitter-languages==1.10.2
 Requires-Dist: tree-sitter==0.20.4
 Requires-Dist: typer==0.15.1
 Requires-Dist: uvicorn==0.34.0
+Requires-Dist: watchdog>=6.0.0
 Provides-Extra: dev
 Requires-Dist: bandit==1.8.3; extra == 'dev'
 Requires-Dist: mypy==1.15.0; extra == 'dev'
@@ -339,8 +340,8 @@ Initialize the local SQLite database index:
 synap init .
 ```
 
-### 3. Detach Watcher Daemon
-Start background monitoring:
+### 3. Connect IDE / Start MCP
+Launch the unified background daemon and MCP stdio server:
 ```bash
 synap start .
 ```
@@ -372,7 +373,6 @@ All commands support target path arguments:
 * `synap doctor [PATH]` — Verifies database integrity and parsers.
 * `synap run [PATH]` — Runs daemon in foreground.
 * `synap ui [PATH]` — Launches HTML dashboard.
-* `synap mcp start [PATH]` — Hosts MCP stdio server.
 * `synap mcp config [PATH]` — Outputs Cursor connection blocks.
 * `synap mcp verify [PATH]` — Asserts MCP server stability.
 * `synap memory status [PATH]` — Lists lesson counts.
@@ -432,8 +432,7 @@ synap mcp config .
   "mcpServers": {
     "synap": {
       "command": "/usr/local/bin/python",
-      "args": ["-m", "synap_git.cli", "mcp", "start", "/Users/username/repo"],
-      "autoConnect": true
+      "args": ["-m", "synap_git.cli", "start", "/Users/username/repo"]
     }
   }
 }

{synap_git-2.1.6 → synap_git-2.3.0}/README.md

@@ -289,8 +289,8 @@ Initialize the local SQLite database index:
 synap init .
 ```
 
-### 3. Detach Watcher Daemon
-Start background monitoring:
+### 3. Connect IDE / Start MCP
+Launch the unified background daemon and MCP stdio server:
 ```bash
 synap start .
 ```
@@ -322,7 +322,6 @@ All commands support target path arguments:
 * `synap doctor [PATH]` — Verifies database integrity and parsers.
 * `synap run [PATH]` — Runs daemon in foreground.
 * `synap ui [PATH]` — Launches HTML dashboard.
-* `synap mcp start [PATH]` — Hosts MCP stdio server.
 * `synap mcp config [PATH]` — Outputs Cursor connection blocks.
 * `synap mcp verify [PATH]` — Asserts MCP server stability.
 * `synap memory status [PATH]` — Lists lesson counts.
@@ -382,8 +381,7 @@ synap mcp config .
   "mcpServers": {
     "synap": {
       "command": "/usr/local/bin/python",
-      "args": ["-m", "synap_git.cli", "mcp", "start", "/Users/username/repo"],
-      "autoConnect": true
+      "args": ["-m", "synap_git.cli", "start", "/Users/username/repo"]
     }
   }
 }

{synap_git-2.1.6 → synap_git-2.3.0}/pyproject.toml

@@ -37,6 +37,7 @@ dependencies = [
   "tree-sitter-languages==1.10.2",
   "typer==0.15.1",
   "uvicorn==0.34.0",
+  "watchdog>=6.0.0",
 ]
 
 [project.urls]

{synap_git-2.1.6 → synap_git-2.3.0}/src/synap_git/__init__.py

@@ -2,4 +2,4 @@
 
 __all__ = ["__version__"]
 
-__version__ = "2.1.6"
+__version__ = "2.3.0"

{synap_git-2.1.6 → synap_git-2.3.0}/src/synap_git/api/app.py

@@ -104,7 +104,7 @@ def create_app(runtime: SynapRuntime) -> FastAPI:
         except Exception as e:
             import structlog
 
-            structlog.get_logger().error("suppressed_error_caught", exc_info=True)
+            structlog.get_logger().error("suppressed_error_caught", error=str(e))
 
         wiki_path = runtime.wiki.wiki_dir / f"{target}.md"
         exists = await asyncio.to_thread(wiki_path.exists)