Research Cluster Q/A

This page includes commonly asked questions using the Research Cluster.

Question Topics:

Accessing & Launching Containers

  • After launching the container in terminal, a link will be provided. Copy and paste the link in the browser. Make sure you are not already logged into the datahub.

File uploads

Terminal: Files uploads

  • For researchers, enter ‘ls’ after logging in.

  • For administrators, enter ‘cd /datasets/home/72/072/kkt008/’ then ‘ls’

  • For researchers: Navigate to the OneDrive folder via terminal and follow instructions here. Afterwards, ssh into Research cluster and enter ‘ls’ to view files.

  • For administrators: At ‘sftp>’ step, enter ‘cd /datasets/home/72/072/kkt008/’. Then enter ‘put filename.txt’ to upload files.

  • For researchers:

    • For saving to team shared storage enter ‘cd /uss/sharename’ (after sftp>) as a the step prior to uploading files. To view files after logging into the RC, enter ‘cd /dsmlp/teams’.

      • Via the terminal navigate to the folder that stores the file(s).

      • Enter ‘ls’ to list the files.

      • Enter ‘sftp username@dsmlp-login.ucsd.edu’ and enter your AD password.

      • Enter ‘cd /uss/labname’.

        1. Entering this code will direct your uploads to the team storage. This command is not shown in the image below.

      • Enter ‘put filename.txt’. Repeat this code for every file to be uploaded.

      • Enter ‘exit’ or ‘quit’ when done uploading files.

      • Next, ssh in the Research Cluster ‘ssh dsmlp-login.ucsd.edu’ and enter AD password

      • Enter ‘cd /dsmlp/teams’ to view files in the shared storage.

  • For administrators:

    • At ‘sftp>’ step, enter ‘cd /uss’. Then 'cd /sharename'. Next, enter ‘put filename.txt’ to upload files.

Jupyter Notebook: File uploads

  1. Log in at datahub.ucsd.edu.

  2. Launch your preferred environment.

  3. Navigate to your teams folder.

  4. Select ‘Upload’ to transfer new files.

Software Installation

Terminal: Installing and Uninstalling Software/Packages

Jupyter Notebook: Installing and Uninstalling Software/Packages