A plugin for training and applying pssr
Project description
napari-pssr
A plugin for training and applying pssr
This napari plugin was generated with Cookiecutter using @napari's cookiecutter-napari-plugin template.
Installation
You can install napari-pssr
via pip:
pip install napari-pssr
Some libraries need to be updated to the most recent version to get all features. These will be updated once they are released on pypi
pip install git+https://github.com/bioimage-io/core-bioimage-io-python",
pip install git+https://github.com/funkey/gunpowder.git@patch-1.2.3",
To install latest development version :
pip install git+https://github.com/pattonw/napari-pssr.git
Model download
A sample model can be downloaded from https://github.com/pattonw/model-specs/tree/main/pssr
. This model comes with some restrictive dependencies. To use follow these steps.
- install this plugin following the directions provided above
- install bioimageio.core via
pip install bioimageio.core
orconda install -c conda-forge bioimageio.core
pip install fastai==1.0.55 tifffile libtiff czifile scikit-image
pip uninstall torch torchvision
(may need multiple runs)conda install pytorch==1.1.0 torchvision==0.3.0 cudatoolkit=10.0 -c pytorch
pip install pillow==6.1.0
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-pssr" is free and open source software
Issues
If you encounter any problems, please file an issue along with a detailed description.
Project details
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Source Distribution
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