Installation

How to install fcdproc package:

Once you have your bare-metal environment set-up (first option above), the next step is executing the fcdproc command-line. The fcdproc command-line options are documented in the Usage Notes section.

The fcdproc command-line adheres to the BIDS-Apps recommendations for the user interface. Therefore, the command-line has the following structure:

$ fcdproc <input_bids_path> <derivatives_path> <analysis_mode> <named_options>

Manually Prepared Environment (Python 3.7+)

Make sure all of fcdproc’s External Dependencies are installed. These tools must be installed and their binaries available in the system’s $PATH. As an additional installation setting, FreeSurfer requires a license file (see The FreeSurfer license).

On a functional Python 3.7 (or above) environment with pip installed, fcdproc can be installed using the habitual command

$ python -m pip install fcdproc

Check your installation with the --version argument

$ fcdproc --version

External Dependencies

fcdproc is written using Python 3.7 (or above), and is based on nipype.

fcdproc requires some other neuroimaging software tools that are not handled by the Python’s packaging system (Pypi) used to deploy the fcdproc package: