yolo4r 1.0.1

Streamlined, modular, multi-source YOLO training & detection pipeline for research.

YOLO4r

You Only Look Once For Research

An open-source, automated animal-behavior detection pipeline.

Overview

YOLO4r (1.0.0) is a research-oriented, Ultralytics-based pipeline designed to make custom deep-learning model training & behavioral detection accessible to field & laboratory researchers.

YOLO4r supports:

• Multi-source real-time inference (video & live camera feeds).
• Structured logging of detections, interactions, & per-frame aggregate statistics.
• Automatic metadata extraction for precise timestamping.
• Full configurability & modular design for research reproducibility.

This project remains open-source & under active development as part of an undergraduate research initiative. Contributions & feedback are always welcome!

Features

Model Training

• Supports transfer learning, training from scratch, or incremental updating of an existing model.
• Automatically exports training metrics to:
  • Weights & Biases (W&B)
  • quick-summary.txt (local lightweight summary)
• Supports aggressive data augmentation & auto-detection of new data for retraining.

Detection Pipeline

• Multi-threaded inference across multiple sources (camera feeds & videos).
• Metadata-aware timestamping for accurate frame-aligned measurements.
• Centralized message handling using Printer for all info, warnings, errors, & save confirmations.
• Robust exception handling for model initialization, frame errors, & I/O failures.

Classes & Configuration

• YOLO4r uses user-defined class configurations:
  • FOCUS_CLASSES: primary subjects (e.g., animal species)
  • CONTEXT_CLASSES: contextual or environmental elements (e.g., feeders, water trays, etc)
• Class lists are stored in & managed through classes_config.yaml within the config folder, allowing for easy modification without editing code.

Default example model trained on 7 classes:

• M (Male Passer domesticus), F (Female Passer domesticus), Feeder, Main_Perch, Wooden_Perch, Sky_Perch, Nesting_Box

Measurement System

• Data collection centralized in single helper utility that handles:
  • Frame-level counts
  • Interval-level aggregation
  • Session summaries
  • Interaction tracking (focus vs. context classes)
• Exports structured .csv summaries:
  • counts.csv, average_counts.csv
  • interval_results.csv, session_summary.csv
  • interactions.csv Supports automatic calculation of ratios (e.g., M:F) & normalized detection rates.

Directory and Output Structure

Integrates a clean, timestamped log structure for both camera feeds & videos:

Camera sources:

/YOLO4r/logs/(model_name)/measurements/camera-feed/(source_name)/(system_timestamp)/measurements/
├── recordings/
│   └── usb0.mp4
└── scores/
    ├── source_metadata.json
    ├── frame-data/
    │   ├── interval_results.csv
    │   └── session_summary.csv
    ├── counts/
    │   ├── counts.csv
    │   └── average_counts.csv
    └── interactions/
        └── interactions.csv

Video sources:

/YOLO4r/logs/(model_name)/measurements/video-in/(source_name)/(video_timestamp)/measurements/
├── recordings/
│   └── video.mp4
└── scores/
    ├── source_metadata.json
    ├── frame-data/
    │   ├── interval_results.csv
    │   └── session_summary.csv
    ├── counts/
    │   ├── counts.csv
    │   └── average_counts.csv
    └── interactions/
        └── interactions.csv

• Folder names are automatically sanitized to avoid filesystem errors.
• Each source has its own isolated measurement subdirectory.

Installation

1. Install MiniConda or Conda:

https://www.anaconda.com/docs/getting-started/miniconda/main

https://www.anaconda.com/download

2. Create & activate environment using:

conda create -n YOLO4r python=3.10

conda activate YOLO4r

3. Install the package:

pip install yolo4r

Prerequisites

• Must use Python 3.10 or older.
• Keep in mind, training & detection require entirely separate system requirements.
• A computer with a relatively powerful CPU or has a GPU with CUDA enabled is required.

Execution

Initiate Training

- Transfer-learning by default:

yolo4r train

Option to specify weights from either OBB or standard YOLO11 model:

yolo4r train model=(yolo11n, yolo11l-obb, yolov8m, etc.)

This will default to using YOLO11n.pt if not specified.

Option to name the model:

yolo4r train name="my awesome run!!"

Option to specify dataset within data folder.

yolo4r train data="my awesome dataset!!

This will default to the most recent dataset within the /data folder.

- Update the most recently trained model:

yolo4r train update=(model name)

This refers to the most recent best.pt file to train from IF there are new images found in the dataset folder.

- Train a model only from custom dataset:

yolo4r train --scratch

Option to specify weights from either OBB or standard YOLO11 model.

yolo4r train architecture=(yolo11, yolo12, yolov8-obb, etc.)

This will default to YOLO11.yaml if not specified.

- Designed to allow users to debug training operation:

yolo4r train --test

- Process Label-Studio export folders:

yolo4r train labelstudio="my awesome export!!"

NOTE: Many of these commands can be set together, so here are a examples:

yolo4r train labelstudio=geckos model=yolo11m architecture=customgeckomodel

yolo4r train data=geckos model=yolo12 test

Initiate Detection

- Defaults to mostly recently trained model & initiates usb0:

yolo4r detect

- Initiate multiple sources in parallel:

yolo4r detect usb0 usb1 "video1.type" "video2.type"

- Designed to allow users to route to debug model:

yolo4r detect test