Installation Guide

Installing fMRIproc requires a Python environment and several external software dependencies.

Setting Up the Environment

1. Create a Conda Environment (optional but recommended):

   conda create --name fmriproc python=3.11
   

2. Install fMRIproc via GitHub:

   pip install git+https://github.com/gjheij/fmriproc
   

3. Install ANTs via conda:

   conda install -c conda-forge ants
   

This installs the core Python package and scripts.

Configuring the Environment

To ensure smooth execution, fMRIproc uses a spinoza_config file for paths and settings (see Configuration Setup).

After installation, run:

spinoza_install setup

This will:

• Add spinoza_setup sourcing to ~/.bash_profile or ~/.zshrc.

• Register the correct path for spinoza_config.

• Optionally add conda activate fmriproc for auto-activation.

For a custom configuration location:

spinoza_install setup /path/to/custom_config