neuroglancer-scripts
Advanced tools
Tools for converting volumetric images and surface meshes to the pre-computed format of Neuroglancer_.
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.. image:: https://github.com/HumanBrainProject/neuroglancer-scripts/actions/workflows/tox.yaml/badge.svg :target: https://github.com/HumanBrainProject/neuroglancer-scripts/actions/workflows/tox.yaml :alt: Build Status
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The easiest way to install the latest stable version of neuroglancer-scripts is
through pip. Using a virtual environment is recommended:
.. code-block:: shell
python3 -m venv venv/ . venv/bin/activate pip install neuroglancer-scripts
See the documentation <http://neuroglancer-scripts.readthedocs.io/>_.
The code is hosted on https://github.com/HumanBrainProject/neuroglancer-scripts.
Useful commands for development:
.. code-block:: shell
git clone https://github.com/HumanBrainProject/neuroglancer-scripts.git
cd neuroglancer-scripts python3 -m venv venv/ . venv/bin/activate pip install -e .[dev]
pytest # run tests pytest --cov=neuroglancer_scripts --cov-report=html # detailed test coverage report tox # run tests under all supported Python versions
pre-commit install # install the pre-commit hook
This repository uses pre-commit_ to ensure that all committed code follows minimal quality standards. Please install it and configure it to run as a pre-commit hook in your local repository (see above). Also, please note that the code quality checks may need a more recent version of Python than that required by neuroglancer_scripts itself (> 3.8 at the time of this writing).
.. _Neuroglancer: https://github.com/google/neuroglancer .. _pre-commit: https://pre-commit.com/
cloud-volume <https://github.com/seung-lab/cloud-volume>_ (BSD 3-Clause licensed) for compressed morton code and shard/minishard mask implementation.
FAQs
Conversion of images to the Neuroglancer pre-computed format
We found that neuroglancer-scripts demonstrated a healthy version release cadence and project activity because the last version was released less than a year ago. It has 1 open source maintainer collaborating on the project.
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