Python pipeline for neuroimaging data. Documentation at https://clpipe.readthedocs.io/en/latest/index.html
If you run into issues, find bugs, or have feature requests, please create an issue in this repository. If you have longer questions about the pipeline, or specific questions about the design choices, please get in contact with the creator of this pipeline, Teague Henry (ycp6wm@virginia.edu)
If you use clpipe to process data for a publication, please cite the Zenodo repository linked above. A manuscript describing clpipe is being prepared, and once published, will be the citation for the pipeline.
- Ensure you are a member of the rc_hng_psx group
- Open a Longleaf terminal session
- Make the HNG modules available with the following command:
module use /proj/hng/software/modules - Now save this module source to your default collection:
module save - Once HNG modules are added, the clpipe module can be added and/or saved at any time:
module add clpipe
All clpipe commands should now be accessible.
- Open a Longleaf terminal session
- Switch to python 3.7 using
module add python/3.7.14 - Install clpipe from GitHub with
pip3 install --user --upgrade git+https://github.com/cohenlabUNC/clpipe.git
All necessary dependencies should install to your local Python library, and the console commands should be immediately useable.