git clone https://github.com/Buglakova/imzml2np
cd imzml2np
python -m venv imzml2np
source imzml2np/bin/activate
pip install -r requirements.txt
pip install -e .
python extract_ion_images.py sample.imzML metadata.csv ion_images.npy --tol 5 --base_mz 200
metadata.csv must have mz column, otherwise it's possible to use function load_db to calculate mz given formula, adduct and charge. There may also be other columns.