HMS IT RC O2

All content
Space settings

Results will update as you type.

•
Get information about current and past jobs
•
Scratch Storage
•
Filesystem Quotas
User Training
•
Submitting data to GEO
•
Published Papers That Used O2, Orchestra, or Research Computing
•
Report CPU/Mem usage in slurm job standard output
•
Text for Grants Referring to the HMS Research Cluster
•
Troubleshooting Slurm Jobs
•
Filesystems
•
Security on O2
•
Moving from Orchestra to O2
•
Using Mathematica on O2
The O2 Open OnDemand Pilot
•
sratoolkit/2.10.7 to download NCBI SRA data
Using O2 GPU resources
•
Scratch_gpu Storage
•
766 Open Source Applications on O2 [BioGrids]
•
Using Slurm Basic
•
File Transfer
•
Get more informative slurm email notification
Local Software Installs
•
Batch small jobs together as a big job
•
UNIX Permissions Tutorial
•
Using X11 Applications Remotely
•
Public Databases
•
Over Efficient Jobs
•
sratoolkit/2.10.7 to download dbGAP data
•
Jupyter on O2
•
spp (1.15.2) for Chip-Seq
•
O2 cron service
•
How To Submit Parallel Jobs in O2
•
Personal Perl Packages
•
Using Aspera to Download Data
•
Get more informative slurm email notification and logs through rcbio/1.3.3
•
Understanding O2 Slurm Accounts/Associations and Unix Accounts/Groups
•
Juicer
•
Using AlphaFold on O2
Using MATLAB
•
Frequently Asked Questions and Answers
•
tmux: Keep Linux Sessions Alive (so you can go back to the same terminal window from anywhere, anytime)
•
Two Factor Authentication FAQ
•
How to troubleshoot the sratoolkit/2.10.7 module
RC workflows
•
UCSC Genome Browser and IGV access for data on O2
Running Singularity Containers in O2
•
Using Java on O2
•
GATK4 Mutect2 using Singularity Container
•
Job Priority
•
O2 HPC Cluster and Computing Nodes Hardware
•
Currently Available Software on O2
•
How to login to O2
Personal R Packages
•
How to Generate SSH Keys
•
Using Applications on O2
•
GATK4 RNA-Seq Germline using Singularity Container
•
Tensorflow on O2
•
How to choose a partition in O2
•
Personal Python Packages
•
Conda on O2
•
O2 Cluster Status
•
O2 Command CheatSheet
How to request or retain an O2 account
•
Rosetta License
•
Using Globus on O2
•
VSCode and Code Server on O2
•
Optimizing O2 Jobs
•
Orientation for New O2 Cluster Users
•
Using (Local)ColabFold on O2
•
CheckPointing with DMTCP
O2Portal
•
OpenFold On O2
•
Protein Structure Prediction on O2
•
Installing LocalColabFold Locally
•
Improving O2 Efficiency by Changing User Priority
•
Deleting Files from a Directory on O2 After Hitting the Storage Limit
•
Querying O2 Filesystem Quota Usage
•
Installing OpenFold Locally on O2
•
RStudio on O2
•
How to connect to your sbatch running job
•
Installing Difficult Conda Packages on O2
•
Helpful Tips and Tricks
•
Shared Containers on O2
•
Smart Slurm: Dynamic and accurate resource allocation for O2 jobs
•
RoseTTAFold All-Atom on O2
•
Nextflow (`nf-core`) on O2

You‘re viewing this with anonymous access, so some content might be blocked.

HMS IT RC O2

/

Job Priority

Owned by Raffaele Potami

Last updated: Apr 15, 2024 by Kathleen Chappell

9 min read

Loading data...