MCPunk 🤖

Chat with your codebase without embeddings by giving the LLM tools to search your code intelligently.

MCPunk lets you explore and understand codebases through conversation. It works by:

Breaking files into logical chunks (functions, classes, markdown sections)
Giving the LLM tools to search and query these chunks
Letting the LLM find the specific code it needs to answer your questions

No embeddings, no complex configuration - just clear, auditable searching that you can see and guide. It works great with Claude Desktop, or any other MCP client.

GitHub Repository

Built with the following in mind

Context is King - LLMs can be great but only if provided with appropriate context.
Context is Precious - LLMs need context, but they can't handle too much. A travesty! MCPunk is RAG that inherently provides the LLM contextual hints, allowing the LLM to really narrow in on only the relevant content.
Human in the Loop - You can see exactly what data the LLM has considered and how it found it, You can jump into chat and direct things wherever you want.

Setup

These are instructions for Claude Desktop, but MCPunk can be used anywhere MCP is used.

Install uv
Put the snippet below in your claude_desktop_config.json (Details about claude_desktop_config.json including location)
Restart Claude Desktop and you should see the tools available after a small delay, like the screengrab below
Chat away: "hey pal can you set up the ~/git/mcpunk project and tell me how python files are chunked"

("command": "uvx", might not work, and you may need to use e.g. "command": "/Users/michael/.local/bin/uvx",)

{
  "mcpServers": {
    "MCPunk": {
      "command": "uvx",
      "args": ["mcpunk"]
    }
  }
}

Usage Examples

Answer Questions About Your Codebase

[User] Hey pal can you please set up the ~/git/mcpunk repo, then help me understand how a user of mcpunk would get the git diff of the currently checked out branch in the repo that they have configured with mcpunk
[Claude] Call configure_project
[Claude] Call list_all_files_in_project
[Claude] Call find_files_by_chunk_content
[Claude] ... makes a total of 21 tool calls with MCPunk.
[Claude] Now I understand how the git diff functionality works in mcpunk. Let me summarize how a user would get the git diff of the currently checked out branch: To get a git diff of the currently checked out branch in a repo configured with mcpunk:
1. First, the user needs to configure mcpunk to work with their project by using the configure_project tool
2. To see what branches were recently checked out (to identify what to diff against)
3. Then, to get the diff between the current branch (HEAD) and a reference branch This will display the differences between the current branch (HEAD) and the specified reference branch. The ref parameter should be the name of the base branch (like "main" or "develop") that you want to compare against.
[User] Great job pal!

PR Review

[user] Hey pal can you please set up the ~/git/mcpunk repo and have a look at the current branch versus scratch/1.5
[Claude] Sets up ~/git/mcpunk and calls diff_with_ref for ref scratch/1.5
[Claude] I see you've made several changes, primarily adding a new test file tests/test_git_analysis.py...
[user] how does this fit into the rest of the codebase?
[Claude] Makes 5 tool calls for listing files by chunks, listing chunks, fetching chunk details
[Claude] I see - the code parses git reflog output to track recently checked out branches. The main function get_recent_branches takes a repo path and returns the last N branches that were checked out, using _branches_from_reflog as a helper to parse the raw reflog output.
[User] If you were in a rush and had to direct someone to review this work, what would you direct them to look at? Please outline discrete pieces of work
[Claude]
- The split("to ")[-1] in _branches_from_reflog looks fragile
- Test data only shows simple branch names, what about spaces/special chars?
- Is example_reflog representative of real git reflog output?
- Are we testing against actual git behavior?
[User] You're the best!

Work across multiple codebases

You can just ask your LLM to set up multiple projects, and it can freely query across them. Handy if one depends on the other, and they're in different repos. In this case the LLM should recognise this via imports.

What is MCPunk & Other Background

MCPunk is an MCP server that provides tools to

Configure a project, which is a directory of files. When configured, the files will be split into logical chunks. MCPunk is built for code, but really it could be applied to any documents, even images if you want to.
Search for files in a project containing specific text
Search for chunks in a file containing specific text
View the full contents of a specific chunk

Along with this, it provides a few chunkers built in. The most mature is the Python chunker.

MCPunk doesn't have to be used for conversation. It can be used as part of code review in a CI pipeline, for example. It's really general RAG.

sequenceDiagram
    participant User
    participant Claude as Claude Desktop
    participant MCPunk as MCPunk Server
    participant Files as File System

    Note over User,Files: Setup Phase
    User->>Claude: Ask question about codebase
    Claude->>MCPunk: configure_project(root_path, project_name)
    MCPunk->>Files: Scan files in root directory

    Note over MCPunk,Files: Chunking Process
    MCPunk->>MCPunk: For each file, apply appropriate chunker:
    MCPunk->>MCPunk: - PythonChunker: functions, classes, imports
    MCPunk->>MCPunk: - MarkdownChunker: sections by headings
    MCPunk->>MCPunk: - VueChunker: template/script/style sections
    MCPunk->>MCPunk: - WholeFileChunker: fallback
    MCPunk->>MCPunk: Split chunks >10K chars into parts

    MCPunk-->>Claude: Project configured with N files

    Note over User,Files: Navigation Phase<br>(LLM freely uses all these tools repeatedly to drill in)
    Claude->>MCPunk: list_all_files_in_project(project_name)
    MCPunk-->>Claude: File tree structure

    Claude->>MCPunk: find_files_by_chunk_content(project_name, "search term")
    MCPunk-->>Claude: Files containing matching chunks

    Claude->>MCPunk: find_matching_chunks_in_file(project_name, file_path, "search term")
    MCPunk-->>Claude: List of matching chunk IDs in file

    Claude->>MCPunk: chunk_details(chunk_id)
    MCPunk-->>Claude: Full content of specific chunk

    Claude->>User: Answer based on relevant code chunks

    Note over User,Files: Optional Git Analysis
    Claude->>MCPunk: list_most_recently_checked_out_branches(project_name)
    MCPunk->>Files: Parse git reflog
    MCPunk-->>Claude: List of recent branches

    Claude->>MCPunk: diff_with_ref(project_name, "main")
    MCPunk->>Files: Generate git diff
    MCPunk-->>Claude: Diff between HEAD and reference

Roaming RAG Crash Course

See

The gist of roaming RAG is

Break down content (a codebase, pdf files, whatever) into "chunks". Each chunk is a "small" logical item like a function, a section in a markdown document, or all imports in a code file.
Provide the LLM tools to search chunks. MCPunk does this by providing tools to search for files containing chunks with specific text, and to list the full contents of a specific chunk.

Compared to more traditional "vector search" RAG:

The LLM has to drill down to find chunks, and naturally is aware of their broader context (like what file they're in)
Chunks should always be coherent. Like a full function.
You can see exactly what the LLM is searching for, and it's generally obvious if it's searching poorly and you can help it out by suggesting improved search terms.
Requires exact search matching. MCPunk is NOT providing fuzzy search of any kind.

Chunks

A chunk is a subsection of a file. For example,

A single python function
A markdown section
All the imports from a Python file

Chunks are created from a file by chunkers, and MCPunk comes with a handful built in.

When a project is set up in MCPunk, it goes through all files and applies the first applicable chunker to it. The LLM can then use tools to (1) query for files containing chunks with specific text in them, (2) query all chunks in a specific file, and (3) fetch the full contents of a chunk.

This basic foundation enables claude to effectively navigate relatively large codebases by starting with a broad search for relevant files and narrowing in on relevant areas.

Built-in chunkers:

PythonChunker chunks things into classes, functions, file-level imports, and file-level statements (e.g. globals). Applicable to files ending in .py
VueChunker chunks into 'template', 'script', 'style' chunks - or whatever top-level <blah>....</blah> items exist. Applicable to files ending in .vue
MarkdownChunker chunks things into markdown sections (by heading). Applicable to files ending in .md
WholeFileChunker fallback chunker that creates a single chunk for the entire file. Applicable to any file.

Any chunk over 10k characters long (configurable) is automatically split into multiple chunks, with names suffixed with part1, part2, etc. This helps avoid blowing out context while still allowing reasonable navigation of chunks.

Custom Chunkers

Each type of file (e.g. Python vs C) needs a custom chunker. MCPunk comes with some built in. If no specific chunker matches a file, a default chunker that just slaps the whole file into one chunk is used.

The current suggested way to add chunks is to fork this project and add them, and run MCPunk per Development. To add a chunker

Add it in file_chunkers.py, inheriting from BaseChunker
Add it to ALL_CHUNKERS in file_breakdown.py

It would be possible to implement some kind of plugin system for modules to advertise that they have custom chunkers for MCPunk to use, like pytest's plugin system, but there are currently no plans to implement this (unless someone wants to do it).

Limitations

Sometimes LLM is poor at searching. e.g. search for "dependency", missing terms "dependencies". Room to stem things.
Sometimes LLM will try to find a specific piece of critical code but fail to find it, then continue without acknowledging it has limited contextual awareness.
"Large" projects are not well tested. A project with ~1000 Python files containing in total ~250k LoC works well. Takes ~5s to setup the project. As codebase size increases, time to perform initial chunking will increase, and likely more sophisticated searching will be required. The code is generally not written with massive codebases in mind - you will see things like all data stored in memory, searching done by iterating over all data, various things that are screaming out for basic optimisation.
Small projects are probably better off with all the code concatenated and thrown into context. MCPunk is really only appropriate where this is impractical.
In some cases it would obviously be better to allow the LLM to grab an entire file rather than have it pick out chunks one at a time. MCPunk has no mechanism for this. In practice, I have not found this to be a big issue.

Configuration

Various things can be configured via environment variables prefixed with MCPUNK_. For available options, see settings.py - these are loaded from env vars via Pydantic Settings.

For example, to configure the include_chars_in_response option:

{
  "mcpServers": {
    "MCPunk": {
      "command": "uvx",
      "args": ["mcpunk"],
      "env": {
        "MCPUNK_INCLUDE_CHARS_IN_RESPONSE": "false"
      }
    }
  }
}

Roadmap & State of Development

MCPunk is considered near feature complete. It has not had broad use, and as a user it is likely you will run into bugs or rough edges. Bug reports welcomed at https://github.com/jurasofish/mcpunk/issues

Roadmap Ideas

Add a bunch of prompts to help with using MCPunk. Without real "explain how to make a pancake to an alien"-type prompts things do fall a little flat.
Include module-level comments when extracting python module-level statements.
Possibly stemming for search
Change the whole "project" concept to not need files to actually exist - this leads to allowing "virtual" files inside the project.
- Consider changing files from having a path to having a URI, so coule be like file://... / http[s]:// / gitdiff:// / etc arbitrary URIs
Chunking of git diffs. Currently, there's a tool to fetch an entire diff. This might be very large. Instead, the tool could be changed to add_diff_to_project and it puts files under the gitdiff:// URI or under some fake path
Caching of a project, so it doesn't need to re-parse all files every time you restart MCP client. This may be tricky as changes to the code in a chunker will make cache invalid. Likely not to be prioritised, since it's not that slow for my use cases.
Ability for users to provide custom code to perform chunking, perhaps similar to pytest plugins
Something like tree sitter could possibly be used for a more generic chunker
Tracking of characters sent/received, ideally by chat.
State, logging, etc by chat

Development

see run_mcp_server.py.

If you set up claude desktop like below then you can restart it to see latest changes as you work on MCPunk from your local version of the repo.

{
  "mcpServers": {
    "MCPunk": {
      "command": "/Users/michael/.local/bin/uvx",
      "args": [
        "--from",
        "/Users/michael/git/mcpunk",
        "--no-cache",
        "mcpunk"
      ]
    }
  }
}

Testing, Linting, CI

See the Makefile and github actions workflows.