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hpapdata-utils

This repository includes some utilities to handle hpapdata.

  • rename_histology.py: based on this script (in hpap-apps repository)
  • rename_imc.py: based on this script (in pennsieve-utils repository)

1. Requirements:

  1. Python 3.7+

  2. requirements.txt

2. Setup

Run the following commands before using any Python scripts in this repository:

# Create a Python virtual environment
python3 -m venv venv-hpapdata-utils

# Activate the virtual environment
source venv-hpapdata-utils/bin/activate

# Install required packages
cd <path>/hpapdata-utils
pip install -r requirements.txt

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