Knowledge Base
Accounts
Cannot Connect to Hoffman2 (10 articles)
-
Connection refused jupyter notebook or JupyterLab on Hoffman2
New
Tuesday, March 5, 2024 jupyter notebooks on h2 jupyter h2jupynb jupyter nb jupyter lab
-
VSCode
Monday, February 5, 2024 vscode code
-
SSH connection breaks - packet_write_wait/Broken pipe
Updated: Tuesday, March 10, 2020 ssh packet_write_wait broken pipe ipqos
-
Why can't I connect to the Hoffman2 cluster from mednet or UCLAHealthSecure?
Updated: Monday, October 28, 2019 vpn virtual private network mednet
-
Connecting to the campus VPN
Updated: Monday, October 28, 2019 vpn virtual private network
User Accounts (3 articles)
-
New Account Request Sponsor Approval
Friday, February 24, 2023 gim sim account management
-
Hoffman2 Account Management
Updated: Friday, February 24, 2023 gim sim account management
-
I forgot my password - how do I change or reset it?
Updated: Monday, February 27, 2023
Other (1 articles)
-
Registering as a new sponsor on the Hoffman2 Cluster
Updated: Monday, October 28, 2019
Applications, Compilers, and Libraries
Adapting an App for Use on Hoffman2 (5 articles)
-
Running Seurat version 5 on the Hoffman2 Cluster
New
Updated
Updated: Tuesday, March 12, 2024 r seurat tutorial
-
Running CrystalExplorer on the Hoffman2 Cluster
Updated: Tuesday, February 20, 2024 chemistry crystal crystalexplorer
-
Using AlphaFold on Hoffman2
Updated: Wednesday, December 20, 2023
-
Guide for Installing TensorFlow and PyTorch
Updated: Tuesday, February 20, 2024
-
How to run BIOBAKERY on the Hoffman2 Cluster
Friday, May 5, 2023
Code/Programming/Scripts (2 articles)
-
After loading Intel 13.cs module, why is mpicc/mpicxx/mpif90 still not using Intel compiler?
Updated: Monday, October 28, 2019
-
How to load in your environment the previously used Intel compiler
Updated: Monday, October 28, 2019
Jupyter on Hoffman2 (2 articles)
-
Running Seurat v5 via Jupyter
New
Updated
Updated: Tuesday, March 12, 2024
-
Troubleshooting jupyter notebooks session not starting
Updated: Thursday, April 13, 2023 jupyter notebooks on h2 jupyter jupyter nb
Licensed Software (2 articles)
-
Running Ansys on a local Widows machine while checking out a license on the Hoffman2 cluster (YOU NEED A VALID LICENSE INSTALLED ON THE CLUSTER - WE HAVE NO PUBLIC LICENSES FOR ANSYS)
Updated: Thursday, March 10, 2022
-
ssh port forwarding from windows computers
Updated: Monday, October 28, 2019
Software Installation Help (Project/Home directory) (7 articles)
-
NGLview on the Hoffman2 Cluster
Updated: Wednesday, January 31, 2024 jupyter notebooks on h2 h2jupynb jupyter nb nlgview quantum chemistry jupyter lab
-
Installing Gossamer bioinformatics suite in your $HOME
Thursday, December 5, 2019 gossamer cmake electus goss gossple xenome
-
Installing HTSeq in python 2
Updated: Monday, October 28, 2019
-
How to build angsd on Hoffman2
Updated: Thursday, April 8, 2021 angsd htslib htslib angsd
-
Python environments on Hoffman2
Updated: Monday, October 28, 2019
Other (1 articles)
-
Qiime2 on the Hoffman2 Cluster
Updated: Monday, September 26, 2022
Job Errors/Job Scheduler
How to Submit a Job (6 articles)
-
qsub command not found
Updated: Monday, October 28, 2019
-
Requesting the appropriate amount of resources for jobs on the Hoffman2 cluster
Updated: Monday, October 28, 2019
-
Why cannot I submit too many individual jobs?
Updated: Monday, October 28, 2019
-
How do I request large memory to run multi-threaded (single node) program?
Updated: Monday, October 28, 2019
-
How do I request large memory to run sequential (1-core) program?
Updated: Monday, October 28, 2019
Job Not Starting (2 articles)
-
Why is my job still waiting in the queue?
Updated: Monday, October 28, 2019 sge uge job scheduler wait
-
Why my highp job did not start in 24 hours?
Updated: Monday, October 28, 2019
Job Status (2 articles)
-
I have a lot of jobs in error state E. How do I find out what the problem is?
Updated: Monday, October 28, 2019
-
An OIT/IDRE consultant sent me an email about a lot of left over jobs running under my userid. How do I delete them?
Updated: Monday, October 28, 2019
Other (2 articles)
-
$TMPDIR for interactive job on Hoffman2
Updated: Monday, October 28, 2019
-
How many cores does my job get with "exclusive"?
Updated: Monday, October 28, 2019
Node and Storage Purchases
Node and Storage Purchases (4 articles)
-
What is the lifetime of a compute node?
Monday, May 1, 2023
-
Purchasing HPC Storage on the Hoffman2 Cluster
Updated: Thursday, April 14, 2022
-
Purchasing nodes on the Hoffman2 Cluster
Updated: Thursday, April 14, 2022
-
Buying HPC storage on the Hoffman2 cluster
Updated: Wednesday, November 10, 2021
Other (1 articles)
-
Hoffman2 HPC Storage: Home, project and nobackup directories
Updated: Monday, October 28, 2019 home project nobackup hpc storage directory directories
Storage and Filesystems
Access / Permissions / Quotas (1 articles)
-
Data Sharing on Hoffman2
Updated: Friday, May 1, 2020
Cloud Storage (AWS, Box, etc.) (1 articles)
-
Can I use Dropbox on Hoffman2?
Updated: Monday, October 28, 2019
File Transfer and Globus (4 articles)
-
Instructions on how to install the aspera connect tool on Hoffman2
Updated: Monday, November 13, 2023
-
What endpoint do I use with Globus?
Friday, October 15, 2021
-
High-speed file transfer with Globus
Updated: Monday, October 28, 2019
-
Globus: Your task is currently receiving the error: ENDPOINT_TOO_BUSY
Updated: Monday, October 28, 2019
General Requests (3 articles)
-
I deleted a file in my home directory. How can I recover it?
Updated: Monday, October 28, 2019
-
/u/scratch file retention policy
Updated: Monday, October 28, 2019
-
Hoffman2 Cluster Filesystem Classifications
Updated: Monday, October 28, 2019
Other
Policies (1 articles)
-
How can I acknowledge Hoffman2 Shared Cluster in my presentations or publications?
Updated: Monday, October 28, 2019
jupyter nb (3)
jupyter notebooks on h2 (3)
account management (2)
gim (2)
h2jupynb (2)
jupyter (2)
jupyter lab (2)
sim (2)
ssh (2)
virtual private network (2)
View all ...
vpn (2)
(1)
angsd (1)
angsd htslib (1)
broken pipe (1)
chemistry (1)
cmake (1)
code (1)
connection (1)
crystal (1)
crystalexplorer (1)
directories (1)
directory (1)
drops (1)
electus (1)
goss (1)
gossamer (1)
gossple (1)
home (1)
hpc (1)
htslib (1)
ipqos (1)
job scheduler (1)
mednet (1)
nlgview (1)
nobackup (1)
packet_write_wait (1)
problem (1)
project (1)
quantum chemistry (1)
r (1)
seurat (1)
sge (1)
storage (1)
tutorial (1)
uge (1)
vscode (1)
wait (1)
xenome (1)