Applications & Software

Installed Software and Applications

All software is installed centrally by the IT department in the cluster via Modules. If you need to request that a piece of software is installed, please reach out and request the software by sending an email to the IT Helpdesk at helpdesk@wistar.org.

Containers

Software has grown in complexity over the years making it difficult at times to install and run the software. Containers address this problem by storing the software and all of its dependencies (including a minimal operating system) in a single, large image so that there is nothing to install and when it comes time to run the software everything "just works". This makes the software both shareable and portable while the output becomes reproducible.

Containers can be utilized in the HPC Cluster with Apptainer (similar to docker). Please see the Apptainer page for more information.

Installing your own Software

You cannot install software in the Applications directory. If you need to request that a piece of software is installed, please reach out and request the software by sending a email to the IT Helpdesk at helpdesk@wistar.org.

NOTE: Do NOT install software in your Home Directory - there is a 10GB limit on home directories on purpose so that data and applications are not store there.

If your lab has need for their own software installation location, please reach out to the IT department, and we will configure a location to install applications. Please do not use your lab share to install applications - these are being backed up nightly and installed software does not need to be backed up.

Installed Modules

To find the most updated list of installed modules - you can run the following commands on the cluster:

Short List

module avail      # Shows ALL
module avail xyz  # Shows modules that contain xyz

List with Module Description

module spider      # Shows ALL with brief description
module spider xyz  # Shows modules that contain xyz - more detailed info

Load Module

module load xyz

Python Modules

Please see the Python Packages Excel Document for a complete list of installed Python modules.

R Packages

Please see the R Packages Excel Document for a complete list of installed R modules.