ToMoDL Reconstruction

napari-tomodl

A plugin for optical projection tomography reconstruction with model-based neural networks.

License MIT PyPI Python Version tests codecov napari hub

A plugin for optical projection tomography reconstruction with model-based neural networks.


This napari plugin was generated with Cookiecutter using @napari's cookiecutter-napari-plugin template.

Installation

This package requires torch-radon for optimized GPU tomographic reconstruction:

pip install 'torch-radon @ https://rosh-public.s3-eu-west-1.amazonaws.com/radon-v2/cuda-11.1/torch-1.8/torch_radon-2.0.0-cp38-cp38-linux_x86_64.whl'

and PyTorch == 1.8.0 via wheel, whica can be downloaded and installed with:

pip install 'torch @ https://download.pytorch.org/whl/cu111/torch-1.8.0%%2Bcu111-cp38-cp38-linux_x86_64.whl'

You can install napari-tomodl via pip:

pip install napari-tomodl

Contributing

Contributions are very welcome. Tests can be run with tox, please ensure the coverage at least stays the same before you submit a pull request.

License

Distributed under the terms of the MIT license, "napari-tomodl" is free and open source software

Issues

If you encounter any problems, please [file an issue] along with a detailed description.

Version:

  • 0.0.9

Last updated:

  • 20 March 2023

First released:

  • 15 March 2023

License:

  • MIT

Supported data:

  • Information not submitted

Plugin type:

GitHub activity:

  • Stars: 0
  • Forks: 0
  • Issues + PRs: 0

Python versions supported:

Operating system:

Requirements:

  • magicgui
  • qtpy
  • napari[all]
  • pyqt5
  • phantominator
  • monai
  • opencv-python
  • scikit-image

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