Optional Features

The template provides a set of optional features that can be added to your project. You can add these features to an existing project by re-running the copy command and updating your answers to the copier-questions.

Python Batteries Included

Adds a set of Python packages that we commonly use in our image processing and analysis projects.

napari

Adds napari to the project. To run napari, you can use the command pixi run napari.

nextflow

Adds nextflow as a dependency and a dummy workflow to source. The dummy workflow can be executed by running pixi run nextflow.

Unix installation and init scripts

Adds script to install and initialize pixi on Unix systems. We use these scripts with our local HPC setup.

Add Demo

Adds a demo processing step with config.py and run.py to the source/s01_demo directory. The config can be built with pixi run build_config and the demo can be executed with pixi run demo.