Installation

Installation#

In order to use PATATO, you must have a Python environment set up on your computer. We recommend using uv (https://docs.astral.sh/uv/) to run Python. This will help you to avoid dependency conflicts. You can alternatively use Anaconda or virtual environments.

You can install patato with uv like so:

uv add patato

Or, using pip:

pip install patato

To setup support for GPU-based reconstruction, please follow the installation guide in the documentation. .. tip:

If you are using Anaconda, you may wish to create a new environment before installing PATATO. This can be
done by running the following command in the Anaconda prompt:

    conda create -n patato python=3.11

Then activate the environment by running:

    conda activate patato

You can then install PATATO as normal.

Installation#

Option 1: Install using uv#

Once you have Python installed and uv setup, you can install PATATO using uv:

Install PATATO using uv.#
     uv add patato

To add GPU support, follow the guide on the JAX official guide here: (google/jax).

Option 2: Install using pip#

Once you have Python installed, you can install PATATO using pip:

Install PATATO using pip.#
     pip install patato

To add GPU support, follow the guide on the JAX official guide here: (google/jax).

Option 3: Install from source#

To install the most recent version of PATATO from GitHub:

Install PATATO from GitHub.#
 pip install git+https://github.com/BohndiekLab/patato

Option 4: Install from source (editable)#

To install the development version of PATATO from GitHub and allow editing for development purposes:

Install PATATO from source.#
     cd /path/to/installation/directory
     git clone https://github.com/BohndiekLab/patato
     cd patato
     pip install -e .
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