synap-git 0.2.0__tar.gz

synap_git-0.2.0/.gitignore

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+.DS_Store
+Thumbs.db
+.venv/
+__pycache__/
+*.py[cod]
+.pytest_cache/
+.mypy_cache/
+.ruff_cache/
+.coverage
+htmlcov/
+dist/
+build/
+*.egg-info/
+.synap/
+!.synap.example/
+*.db
+*.sqlite
+*.sqlite3
+*.db-journal
+*.db-wal
+*.db-shm
+.env
+.env.*
+.env.local

synap_git-0.2.0/.synap.example/README.md

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+# Example `.synap` Layout
+
+Synap stores local repository intelligence and agent memory in `.synap/`. This directory is strictly ignored by Git.
+
+```text
+.synap/
+  synap.db             # L1 (Code Graph) + L3 (Agent Memory) SQLite database
+  daemon_heartbeat.json  # Active status and PID of the Synap daemon
+  objects/               # Immutable file snapshots (content-addressed)
+  logs/                  # Runtime logs
+  wiki/                  # L2 (Knowledge Wiki) generated Markdown
+    overview.md          # Project-level summary
+    architecture.md      # System design and data flow
+    modules/             # Module-level documentation
+      [module].md
+    agent/               # Rendered agent history
+      decisions.md
+      lessons.md
+```

synap_git-0.2.0/CHANGELOG.md

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+# Changelog
+
+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).
+
+## [0.2.0] - 2026-05-26
+
+### Added — Final Polish & Release Readiness
+- CLI cost management: `synap cost show` (displays Rich aggregated pricing table and summary panel) and `synap cost 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`, and calculates `cost_usd` dynamically for retrieval and wiki generation passes.
+- Real-time daemon state: heartbeats integrated into `synap status`, `synap doctor`, and the Web UI status endpoints.
+- Premium Web UI dashboard polish: dual L3 memory (Approved vs Pending) view, real-time LLM cost analytics, and active daemon PID badge.
+- Defensive GHA release pipeline: `.github/workflows/release.yml` automates TestPyPI and PyPI publishing, tag alignment checking, and draft release generation.
+- 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.
+- `get_approved_memory()` and `get_pending_memory()` MCP tools exposing lesson trust status.
+- `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.
+- `approval_actor` field on lessons for full human-governance provenance.
+- `synap memory status` — counts of pending, approved, expired lessons.
+- `synap memory prune` — forces expiry evaluation and prunes dead memory.
+- `synap memory verify` — checks approved lessons' `files_affected` against current repo state; reports dangling references.
+- `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.
+- Symlink traversal prevention in `RepositoryScanner` (path-containment enforcement).
+- `TraceStore` writes structured operational traces to `.synap/trace_latest.json`.
+- Full hybrid retrieval tracing: latency timeline, token allocation, truncation explanations, structural hops, dirty-tree warnings.
+- `/api/v1/trace/latest` REST endpoint exposing the latest trace.
+- Diagnostic Web UI with visual latency timeline, source provenance table, and dirty-tree badge.
+- Daemon heartbeat file (`.synap/daemon_heartbeat.json`) with PID, uptime, and recovery metrics.
+- Daemon self-healing: SQLite corruption detected via `PRAGMA quick_check` triggers a wipe + re-bootstrap.
+- `synap rollback` — interactive rollback to a previous git commit with lesson preservation.
+- `synap recover` — explicit manual DB corruption recovery flow.
+- `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.
+- "Why-This-Context" retrieval tracing system.
+- Secure secret management via `python-keyring`.
+- `synap doctor` for system validation.
+- 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-0.2.0/LICENSE.md

@@ -0,0 +1,201 @@
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synap_git-0.2.0/PKG-INFO

@@ -0,0 +1,251 @@
+Metadata-Version: 2.4
+Name: synap-git
+Version: 0.2.0
+Summary: Persistent structural context infrastructure for AI coding agents.
+Project-URL: Homepage, https://github.com/saahilpal/synap-git
+Project-URL: Repository, https://github.com/saahilpal/synap-git
+Project-URL: Issues, https://github.com/saahilpal/synap-git/issues
+Project-URL: Changelog, https://github.com/saahilpal/synap-git/blob/main/CHANGELOG.md
+Author: Synap contributors
+License: Apache-2.0
+License-File: LICENSE.md
+Keywords: ai,context,developer-tools,git,mcp,repository-indexing
+Classifier: Development Status :: 4 - Beta
+Classifier: Intended Audience :: Developers
+Classifier: License :: OSI Approved :: Apache Software License
+Classifier: Operating System :: OS Independent
+Classifier: Programming Language :: Python :: 3
+Classifier: Programming Language :: Python :: 3.12
+Classifier: Topic :: Software Development :: Build Tools
+Classifier: Topic :: Software Development :: Libraries :: Python Modules
+Requires-Python: >=3.11
+Requires-Dist: click==8.1.8
+Requires-Dist: fastapi==0.115.11
+Requires-Dist: gitpython==3.1.44
+Requires-Dist: keyring==25.6.0
+Requires-Dist: markdown-it-py==3.0.0
+Requires-Dist: mcp==1.3.0
+Requires-Dist: msgpack==1.1.0
+Requires-Dist: pydantic-settings==2.8.1
+Requires-Dist: pydantic==2.10.6
+Requires-Dist: structlog==25.1.0
+Requires-Dist: tiktoken==0.9.0
+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
+Provides-Extra: dev
+Requires-Dist: bandit==1.8.3; extra == 'dev'
+Requires-Dist: httpx==0.28.1; extra == 'dev'
+Requires-Dist: mypy==1.15.0; extra == 'dev'
+Requires-Dist: pre-commit==4.1.0; extra == 'dev'
+Requires-Dist: pytest-asyncio==0.25.3; extra == 'dev'
+Requires-Dist: pytest-cov==6.0.0; extra == 'dev'
+Requires-Dist: pytest==8.3.4; extra == 'dev'
+Requires-Dist: ruff==0.9.9; extra == 'dev'
+Description-Content-Type: text/markdown
+
+# Synap 🧠
+
+<p align="center">
+  <b>The Deterministic Context Injector for AI Coding Agents.</b>
+</p>
+
+<p align="center">
+  <a href="https://github.com/saahilpal/synap-git/actions"><img src="https://img.shields.io/github/actions/workflow/status/saahilpal/synap-git/ci.yml?style=flat-square&color=3b82f6" alt="CI Status"></a>
+  <a href="LICENSE.md"><img src="https://img.shields.io/github/license/saahilpal/synap-git?style=flat-square&color=cbd5e1" alt="License"></a>
+  <a href="SYNAP_BUILD_SPEC.md"><img src="https://img.shields.io/badge/spec-v1.0-green?style=flat-square" alt="Spec Compliant"></a>
+</p>
+
+---
+
+Synap is **NOT a RAG system.** It is a strict, deterministic background daemon that mirrors your Git state and proactively pushes exact contextual boundaries to AI coding agents via the Model Context Protocol (MCP). Agents do not query Synap—Synap *injects* reality into Agents.
+
+## 🏛️ Philosophy & Vision
+
+1. **DETERMINISTIC FIRST:** If the agent sees it, it exists exactly as shown in the local filesystem.
+2. **PUSH, NOT PULL:** Agents are terrible at querying for what they don't know exists. Synap bounds their context upfront.
+3. **NOTHING HAPPENS SILENTLY:** Every action, decision, and LLM call is tracked, costed, and logged.
+4. **LOCAL ONLY:** Your code never leaves your machine unless you explicitly configure a remote LLM. All state is kept in `.synap/synap.db`.
+5. **MIRROR GIT EXACTLY:** Synap's state machine is perfectly synced to `HEAD`. If you switch branches, your agent's memory switches branches instantly.
+
+---
+
+## 🏗️ High-Level Architecture (HLD)
+
+Synap bridges the gap between your local file system, Git history, and the LLM via a 3-layer indexing strategy.
+
+```mermaid
+graph TD
+    subgraph Local Repository
+        FS[File System]
+        Git[Git History]
+    end
+
+    subgraph Synap Daemon
+        I[Indexer Engine]
+        DB[(SQLite synap.db)]
+        W[Wiki Engine .synap/wiki/]
+        M[Context Injector memory.py]
+    end
+
+    subgraph IDE / AI
+        MCP[MCP Server]
+        Agent[AI Coding Agent]
+    end
+
+    FS -->|Change Events| I
+    Git -->|Branch/Revert Events| I
+    I -->|L1 Structural| DB
+    I -->|L2 Semantic| W
+    I -->|L3 Behavioral| DB
+
+    DB --> M
+    W --> M
+    M -->|Injection Payload| MCP
+    MCP <-->|Read/Write Tools| Agent
+```
+
+---
+
+## 🧩 The 3 Layers of Context
+
+Synap provides three distinct layers of context to completely ground the agent:
+
+### 1. L1: Structural (The Truth)
+Deterministic mapping of code architecture using **Tree-sitter**.
+- Fast, 100% accurate symbol extraction.
+- Graph edges mapping `Imports`, `Inherits`, `Calls`, and `References`.
+- Primary Key: `sha256(path + content_hash)` to completely eliminate edge-case collisions.
+
+### 2. L2: Semantic (The "Why")
+Hierarchical generated documentation stored locally as Markdown files (`.synap/wiki/`).
+- **File Level:** What does this file do?
+- **Module Level:** How do these files relate?
+- **Project Level:** `overview.md` and `architecture.md`.
+
+### 3. L3: Behavioral (Agent Memory)
+Synap tracks the *history* of agent actions so the AI doesn't repeat past mistakes.
+- **Checkpoints:** The active task the agent is performing (`synap checkpoint`).
+- **Decisions:** Architecture decisions logged by the agent.
+- **Lessons:** Generated automatically when a developer runs `git revert` on an agent's commit!
+
+---
+
+## 🔄 Low-Level Data Flows (LLD)
+
+### Git Mirroring Flow
+Synap's daemon watches the Git repository. The state of the repository completely drives the context.
+
+```mermaid
+sequenceDiagram
+    participant Dev as Developer
+    participant Git as Git Repo
+    participant Daemon as Synap Daemon
+    participant DB as SQLite DB
+
+    Dev->>Git: git checkout feature-branch
+    Git-->>Daemon: Branch Switch Event
+    Daemon->>DB: Swap active context immediately
+
+    Dev->>Git: git revert <agent-commit>
+    Git-->>Daemon: Revert Detected (20-ancestor check)
+    Daemon->>DB: Log Pending Lesson (What failed?)
+    Daemon->>Dev: Prompt interactive review of failure
+```
+
+### Context Injection Flow
+When an Agent starts a task, it receives a strict, pre-packaged header injection.
+
+```mermaid
+sequenceDiagram
+    participant Agent
+    participant MCP as MCP Server
+    participant Memory as Context Injector
+    participant DB as SQLite DB
+
+    Agent->>MCP: Trigger Tool / Start Task
+    MCP->>Memory: build_injection_context()
+    Memory->>DB: Fetch Active Branch & Checkpoint
+    Memory->>DB: Fetch Approved Lessons
+    Memory->>DB: Check for Dirty Git Tree (Uncommitted changes)
+    Memory-->>MCP: Formatted Context Header
+    MCP-->>Agent: Proactive Context Grounding
+```
+
+---
+
+## 🚀 Quick Start
+
+### 1. Installation
+Install the Synap CLI via `pip` or `uv`:
+```bash
+pip install synapse
+# or using uv:
+uv tool install synapse
+```
+
+### 2. Setup & Initialize
+Interactive onboarding to set up your LLM providers (keys stored securely in your OS keyring).
+```bash
+synap setup .
+```
+Initialize the repo (Use `--skip-llm` to run in pure structural Mode A):
+```bash
+synap init .
+```
+
+### 3. Start the Daemon
+Run the background watcher to keep Synap perfectly synced with Git:
+```bash
+synap start .
+```
+
+### 4. Connect to IDE
+Start the MCP server to expose Synap to your AI Agent (Cursor, Windsurf, etc.):
+```bash
+synap mcp start .
+```
+
+---
+
+## 💻 CLI Command Reference
+
+Synap uses a powerful, strict CLI interface. Every destructive action prompts for approval.
+
+### Core Lifecycle
+- `synap init .` : Perform Pass 1 and Pass 2 indexing.
+- `synap start .` : Launch the background polling daemon.
+- `synap status .` : View active branch, indexed symbols, daemon state, and memory metrics.
+- `synap rollback .` : Rollback active state to a previous commit.
+- `synap recover .` : Recover from a corrupted database state.
+- `synap run .` : Run all Synap services (Daemon, MCP, UI) concurrently.
+
+### L3 Memory Management
+- `synap memory status .` : View counts of approved, pending, and expired lessons.
+- `synap memory prune .` : Prune expired rules and cleanup memory.
+- `synap memory verify .` : Detect dangling file references in active memory.
+- `synap lessons approve <id> .` : Approve a pending revert lesson to activate it.
+- `synap lessons reject <id> .` : Reject and discard a pending lesson.
+- `synap checkpoint create . --doing "..."` : Save the current context state.
+- `synap checkpoint list .` : List all checkpoints for the active branch in a table.
+- `synap checkpoint restore <id> .` : Show details of a checkpoint (or "latest").
+
+### Developer Tools
+- `synap wiki list .` : List all generated wiki documentation files.
+- `synap wiki show <filepath> .` : Render a specific wiki markdown page to the console.
+- `synap cost show .` : Display detailed aggregated LLM token usage and estimated costs.
+- `synap cost clear .` : Purge all LLM call cost history.
+- `synap doctor .` : Validate SQLite integrity, Tree-sitter, tokenizers, LLM providers, and daemon heartbeat.
+- `synap mcp verify .` : Verify MCP protocol, tool schemas, and contract stability.
+
+---
+
+## 🤝 Contributing
+
+Synap is built on the philosophy that AI tools must be transparent and controllable. If you're contributing:
+- Do not introduce implicit RAG features.
+- Adhere to the `SYNAP_BUILD_SPEC.md` strictly.
+- Ensure all states are stored exclusively in `synap.db` or `.synap/wiki/`.
+
+License: [Apache 2.0](LICENSE.md)