Using HTCF

This repository includes information about software, data organization, and common workflows on the cluster.

Tip

You can share the link to this page with your preferred LLM to get personalized help with job scripts. As always, review carefully prior to running generated commands!

Getting Started

Logging on and running jobs

Configure your shell environment

VSCode Setup

git and Github

General Use

Tunneling to an interactive node to use the full set of VSCode features on the server

Python virtual environments

Running Jupyter Notebooks on the server using VSCode

Run R scripts from the command line

Managing software with Spack

Managing software using Conda

Data Storage

Storing raw and processed data files

Establishing data provenance

Moving large files with Globus

Workflows

Nextflow HTCF config

Miscellaneous

How do I access GitHub Copilot?