pykomodo 0.2.5

A Python-based parallel file chunking system for large codebases

A Python-based parallel file chunking system designed for processing large codebases into LLM-friendly chunks. The tool provides intelligent file filtering, multi-threaded processing, and advanced chunking capabilities optimized for machine learning contexts.

Core Features

• NEW Front end tool for chunking. Run komodo --dashboard

• Parallel Processing: Multi-threaded file reading with configurable thread pools

• Smart File Filtering:

  • Built-in patterns for common excludes (.git, node_modules, pycache, etc.)
  • Customizable ignore/unignore patterns
  • Intelligent binary file detection

• Flexible Chunking:

  • Equal-parts chunking: Split content into N equal chunks
  • Size-based chunking: Split by maximum chunk size
  • Semantic (AST-based) chunking for Python files
  • Dry-run mode: If you only want to see which files would be chunked
  • Token based chunking: Split by tokens for LLMs

• LLM Optimizations:

  • Metadata extraction (functions, classes, imports, docstrings)
  • Content relevance scoring
  • Redundancy removal across chunks
  • Configurable context window sizes

• Chunking PDF Files:

  • Split PDF content by pages and paragraphs (rather than lines)
  • Perform basic text cleanup to handle multi-column layouts, or text from HTML-like elements if present
  • Create multiple chunks for large PDFs while preserving some logical structure

• We scan your repos for api keys and automatically redact it. .env files are also ignored

Installation

pip install komodo==0.2.5

Link to pypi: https://pypi.org/project/pykomodo/

Quick Start

Command Line Usage

Here’s a complete list of available command-line options for the komodo tool:

Option	Description	Default Value
--dashboard	Launches the front end for chunking	N/A
--version	Show the version of komodo	N/A
dirs	Directories to process (space-separated; e.g., komodo dir1/ dir2/).	Current directory (.)
--equal-chunks N	Split content into N equal chunks. Mutually exclusive with --max-chunk-size.	None
--max-chunk-size M	Maximum size per chunk (tokens without --semantic-chunks; lines for .py with it).	None
--max-tokens N	Maximum tokens per chunk (uses token-based chunking).	None
--output-dir DIR	Directory where chunk files are saved.	"chunks"
--ignore PATTERN	Add a pattern to ignore (repeatable, e.g., --ignore "*.log").	None
--unignore PATTERN	Add a pattern to unignore (repeatable, overrides ignores).	None
--dry-run	List files that would be processed without creating chunks.	False
--priority PATTERN,SCORE	Set priority for file patterns (repeatable, e.g., --priority "*.py,10").	None
--num-threads N	Number of threads for parallel processing.	4
--enhanced	Use EnhancedParallelChunker for LLM optimizations.	False
--semantic-chunks	Enable AST-based chunking for .py files (splits by functions/classes).	False
--context-window N	Target LLM context window size in bytes (used with --enhanced).	4096
--min-relevance F	Minimum relevance score for chunks (0.0-1.0, used with --enhanced).	0.3
--no-metadata	Disable metadata extraction (used with --enhanced).	False (metadata enabled)
--keep-redundant	Keep redundant content across chunks (used with --enhanced).	False (removes redundancy)
--no-summaries	Disable summary generation (used with --enhanced; currently a placeholder in code).	False (summaries enabled)
--file-type TYPE	Only process files of this extension (e.g., pdf, py).	None

Notes:

• Options like --equal-chunks and --max-chunk-size cannot be used together (enforced by the CLI).
• Use --dry-run to test your ignore/unignore patterns or priority rules without generating output.

Basic usage

CLI

# Split into 5 equal chunks
komodo . --equal-chunks 5

# Process multiple directories
komodo path1/ path2/ --max-chunk-size 1000

Chunking Modes

Komodo offers flexible chunking strategies, with behavior varying based on options and the chunker type (ParallelChunker or EnhancedParallelChunker with --enhanced).

• Fixed Number of Chunks (--equal-chunks N):

  • Base Chunker: Keeps files whole, distributing them into N chunks with approximately equal total character counts. i.e. 5 different chunks or 5 text files.

    komodo . --equal-chunks 5 --output-dir chunks
    

  • Enhanced Chunker: Combines all file contents into one text blob, then splits into N chunks of roughly equal byte size, potentially splitting files mid-content.

    komodo . --equal-chunks 5 --enhanced
    

• Fixed Size Chunks (--max-chunk-size M): Without --semantic-chunks: Splits each file into chunks with at most M tokens (words), keeping lines whole. i.e. x number of chunks with 2000 tokens each or 5000 tokens each etc.

  komodo . --max-chunk-size 2000
  

  Important: You must specify either --equal-chunks or --max-chunk-size, but not both.

• With --semantic-chunks:

• For .py files: Aims for chunks of M lines, grouping top-level functions/classes as atomic units. If a function exceeds M lines, it becomes a single chunk.

• For non-.py files: Still splits by M tokens.

  komodo . --max-chunk-size 200 --semantic-chunks
  

• With --max-tokens:

  komodo . --max-tokens 1000 --output-dir chunks
  

• Precise token limits: Chunks content based on token counts rather than line counts
• Tiktoken integration: Uses OpenAI's tiktoken library when available for accurate LLM token counting
• Fallback tokenization: Falls back to word-based splitting when tiktoken is unavailable

• PDF Chunking:

  Uses PyMuPDF to split PDFs by pages and paragraphs, respecting --max-chunk-size in tokens.

  komodo . --max-chunk-size 500 /path/to/output --file-type pdf
  

  or

  komodo . --equal-chunks 10 --output-dir /path/to/output --file-type pdf
  

  IMPORTANT: Do note that for PDFs with a lot of images, this PDF chunker will NOT WORK. This current PDF chunker is NOT capable of chunking formulas/images

Ignoring & Unignoring Files

• Add ignore patterns with --ignore.

• Unignore specific patterns with --unignore.

• Komodo also has built-in ignores like .git, pycache, node_modules, etc.

  # Skip everything in "results/" (relative) and "docs/" (relative)
  komodo . --equal-chunks 5 \
    --ignore "results/**" \
    --ignore "docs/**"
  
  # Skip an absolute path
  komodo . --equal-chunks 5 \
    --ignore "/Users/oha/komodo/results/**"
  
  # Skip all .rst files, but unignore README.rst
  komodo . --equal-chunks 5 \
    --ignore "*.rst" \
    --unignore "README.rst"
  

  Note: If node_modules fails to be ignored, run this command instead komodo . --equal-chunks 5 --file-type js --ignore "**/node_modules/**". The key here is that you are specifying the file type.

  Safest (Recursive) Ignoring

  If you want to ensure that Komodo skips all files inside a particular directory (including all subfolders), you can use the ** wildcard before and after the folder name:

  # safest mode: skip everything in "results/" and "docs/" recursively
  komodo . --equal-chunks 5 \
    --ignore "**/results/**" \
    --ignore "**/docs/**"
  

  Pro Tip: If in doubt, just use /folder/ to recursively ignore that folder and everything beneath it. This is the most reliable way to avoid processing unwanted files in subdirectories.

  Fixed Number of Chunks with ignore mode

  • --ignore "/Users/oha/treeline/results/**" tells the chunker to skip any files in that absolute directory path.

  • --ignore "docs/*" tells it to skip any files under a relative folder named docs/.

    komodo . --equal-chunks 5 --ignore "/Users/oha/treeline/results/**" --ignore "docs/*" 
    

  Priority Rules

  Priority Rules help determine which files should be processed first or given more importance. Files with higher priority scores are processed first

  # With equal chunks, 10 which is .py is higher than 5, so 10 will get processed first
  komodo . \
    --equal-chunks 5 \
    --priority "*.py,10" \ 
    --priority "*.md,5" \
    --output-dir chunks
  
  # Or with max chunk size
  komodo . \
    --max-chunk-size 1000 \
    --priority "*.py,10" \
    --priority "*.md,5" \
    --output-dir chunks
  

LLM Optimization Options

Enable metadata extraction and content optimization:

komodo . \
  --equal-chunks 5 \
  --enhanced \
  --context-window 4096 \
  --min-relevance 0.3

komodo . \
  --equal-chunks 5 \
  --enhanced \
  --keep-redundant \
  --min-relevance 0.5

komodo . \
  --equal-chunks 5 \
  --enhanced \
  --no-metadata \
  --context-window 8192

Dry Run

If you only want to see which files would be chunked (and in what priority order), without actually writing any output chunks, you can specify --dry-run. This is especially helpful if you’re testing new ignore/unignore patterns or priority rules. Note again, there will be NO CHUNKING being done. This is just to let you see what files will be chunked.

Example:

## vanilla approach 
komodo . --equal-chunks 5 --dry-run

## with priorities for .py files. these get processed faster. but note this is just a dry run
komodo . --equal-chunks 5 --dry-run \
    --priority "*.py,10" \
    --priority "*.md,5"

No chunks are created. Komodo simply prints the would-be processed files, sorted by priority. This is an easy way to confirm your ignore patterns and see exactly which files the chunker will pick up.

Python API Usage

Basic usage:

from komodo import ParallelChunker

# Split into 5 equal chunks
chunker = ParallelChunker(
    equal_chunks=5,
    output_dir="chunks"
)
chunker.process_directory("path/to/code")

Advanced configuration:

chunker = ParallelChunker(
    equal_chunks=5,  # or max_chunk_size=1000
    
    user_ignore=["*.log", "node_modules/**"],
    user_unignore=["important.log"],
    binary_extensions=["exe", "dll", "so", "bin"],
    
    priority_rules=[
        ("*.py", 10),
        ("*.md", 5),
        ("*.txt", 1)
    ],
    
    output_dir="chunks",
    num_threads=4
)

chunker.process_directories(["src/", "docs/", "tests/"])

Basic configuration with file_type:

import os
from pykomodo.multi_dirs_chunker import ParallelChunker

os.makedirs("/Users/test/komodo/pdf", exist_ok=True)
output_dir = "/Users/test/komodo/pdf"

chunker = ParallelChunker(
    max_chunk_size=1000,
    output_dir=output_dir,
    file_type="pdf" 
)

chunker.process_directory("/Users/test/komodo/")

print("PDF processing completed successfully!")

Front-end Usage

To run the front end for chunking, just use komodo --dashboard

Advanced LLM Features

Metadata Extraction

Each chunk automatically extracts and includes:

• Function definitions
• Class declarations
• Import statements
• Docstrings

Relevance Scoring

Chunks are scored based on:

• Code/comment ratio
• Function/class density
• Documentation quality
• Import significance

Redundancy Removal

Automatically removes duplicate content across chunks while preserving unique context.

Example with LLM optimizations:

chunker = ParallelChunker(
    equal_chunks=5,
    extract_metadata=True,
    remove_redundancy=True,
    context_window=4096,
    min_relevance_score=0.3
)

File Type Restriction

The file_type parameter of the ParallelChunker constructor lets you restrict which file extensions you process.

import os
from pykomodo.multi_dirs_chunker import ParallelChunker

os.makedirs("/path/to/dir", exist_ok=True)
output_dir = "/path/to/dir"

chunker = ParallelChunker(
    max_chunk_size=1000,
    output_dir=output_dir,
    file_type="pdf" 
)

chunker.process_directory("/path/to/dir")

print("PDF processing completed successfully!")

Typed Classes & Pydantic-Based Configuration

Komodo’s main classes (ParallelChunker, EnhancedParallelChunker, etc.) now include type hints. Nothing changes at runtime, but if you’re using an IDE or a type checker like mypy, you’ll get improved error checking and auto-completion - or hopefully.

You can also use Pydantic to configure Komodo with strongly typed settings. For instance:

from pydantic import BaseModel, Field
from typing import List, Optional
from pykomodo.multi_dirs_chunker import ParallelChunker
from pykomodo.enhanced_chunker import EnhancedParallelChunker

class KomodoConfig(BaseModel):
    directories: List[str] = Field(default_factory=lambda: ["."], description="Directories to process.")
    equal_chunks: Optional[int] = None
    max_chunk_size: Optional[int] = None
    output_dir: str = "chunks"
    semantic_chunking: bool = False
    enhanced: bool = False
    context_window: int = 4096
    min_relevance_score: float = 0.3
    remove_redundancy: bool = True
    extract_metadata: bool = True

def run_chunker_with_config(config: KomodoConfig):
    ChunkerClass = EnhancedParallelChunker if config.enhanced else ParallelChunker

    chunker = ChunkerClass(
        equal_chunks=config.equal_chunks,
        max_chunk_size=config.max_chunk_size,
        output_dir=config.output_dir,
        semantic_chunking=config.semantic_chunking,
        context_window=config.context_window if config.enhanced else None,
        min_relevance_score=config.min_relevance_score if config.enhanced else None,
        remove_redundancy=config.remove_redundancy if config.enhanced else None,
        extract_metadata=config.extract_metadata if config.enhanced else None,
    )

    chunker.process_directories(config.directories)
    chunker.close()

if __name__ == "__main__":
    # example use with typed + validated config
    cfg = KomodoConfig(directories=["src/", "docs/"], equal_chunks=5, enhanced=True)
    run_chunker_with_config(cfg)

Common Use Cases

1. Preparing Context for LLMs

Split a large codebase into equal chunks suitable for LLM context windows:

chunker = ParallelChunker(
    equal_chunks=5,
    priority_rules=[
        ("*.py", 10),    
        ("README*", 8), 
    ],
    user_ignore=["tests/**", "**/__pycache__/**"],
    output_dir="llm_chunks"
)
chunker.process_directory("my_project")

Built-in Ignore Patterns

The chunker automatically ignores common non-text and build-related files:

• **/.git/**
• **/.idea/**
• __pycache__
• *.pyc
• *.pyo
• **/node_modules/**
• target
• venv

Common Gotchas

1. Leading Slash for Absolute Paths

• If you omit the leading / in a pattern like /Users/oha/..., Komodo treats it as relative and won’t match your actual absolute path.

2. /** vs. /*

• folder/** matches all files and subfolders under folder.
• folder/* only matches the immediate contents of folder, not deeper subdirectories.
• Overwriting Multiple --ignore Flags

3. Folder Name vs. Actual Path

• If your path is really src/komodo/content/results, but you only wrote results/**, you may need a double-star approach (**/results/**) to cover deeper paths.

Acknowledgments

This project was inspired by repomix, a repository content chunking tool.

Contributing

Contributions are welcome! Please feel free to submit a Pull Request.

License

Apache 2.0