Genomics Institute Computing Information: Difference between revisions
From UCSC Genomics Institute Computing Infrastructure Information
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== GI Public Computing Environment == | == GI Public Computing Environment == | ||
*[[How to access the public servers]] | *[[How to access the public servers]] | ||
*[https://logserv.gi.ucsc.edu/cgi-bin/public-groups.cgi '''/public/groups''' Data Usage Graphs] | |||
*[[Resetting your Public UNIX Password]] | |||
== GI Firewalled Computing Environment (PRISM) == | == GI Firewalled Computing Environment (PRISM) == | ||
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*[[Firewalled User Account and Storage Cost]] | *[[Firewalled User Account and Storage Cost]] | ||
*[[Grafana Performance Metrics]] | *[[Grafana Performance Metrics]] | ||
*[[Visual Studio Code (vscode) Configuration Tweaks]] | |||
*[http://logserv.gi.ucsc.edu/cgi-bin/private-groups.cgi '''/private/groups''' Data Usage Graphs] | |||
*[http://logserv.gi.ucsc.edu/cgi-bin/private-warm-archive.cgi '''/private/warm-archive''' Data Usage Graphs] | |||
*[[Resetting your VPN/PRISM Password]] | |||
==VPN Access== | ==VPN Access== | ||
*[[Requirement for users to get GI VPN access]] | *[[Requirement for users to get GI VPN access]] | ||
*[[Setting Up The VPN on MacOS]] | |||
*[[Setting Up The VPN on Windows]] | |||
*[[Setting Up The VPN on Linux]] | |||
*[[Multi Factor Authentication (MFA) Frequently Asked Questions]] | |||
*[[Duo Pushes Aren't Being Sent to My Phone!]] | |||
== NIH dbGaP Access Requirements == | == NIH dbGaP Access Requirements == | ||
*[[Requirements for dbGaP Access]] | *[[Requirements for dbGaP Access]] | ||
== Amazon Web Services Information == | == Amazon Web Services Information == | ||
| Line 27: | Line 34: | ||
*[[AWS Best Practices]] | *[[AWS Best Practices]] | ||
*[[AWS S3 Lifecycle Management]] | *[[AWS S3 Lifecycle Management]] | ||
== JupyterHub Notebooks Spawned via Slurm == | |||
*[[Access the JupyterHub Slurm Server]] | |||
*[[Create a Jupyter Virtual Environment]] | |||
*[[Change Default File Browser Directory]] | |||
== Slurm at the Genomics Institute == | == Slurm at the Genomics Institute == | ||
*[[Overview of using Slurm]] | *[[Overview of using Slurm]] | ||
*[[Slurm Best Practices]] | |||
*[[Cluster Etiquette]] | *[[Cluster Etiquette]] | ||
*[[Annotated Slurm Script]] | *[[Annotated Slurm Script]] | ||
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*[[GPU Resources]] | *[[GPU Resources]] | ||
*[[Quick Reference Guide]] | *[[Quick Reference Guide]] | ||
*[[Convenient Slurm Commands]] | |||
*[[Slurm Queues (Partitions) and Resource Management]] | *[[Slurm Queues (Partitions) and Resource Management]] | ||
*[[Slurm Tips for vg]] | *[[Slurm Tips for vg]] | ||
| Line 40: | Line 54: | ||
*[[Using Docker under Slurm]] | *[[Using Docker under Slurm]] | ||
*[[Phoenix WDL Tutorial]] | *[[Phoenix WDL Tutorial]] | ||
*[[Slurm Insights Dashboard]] | |||
==General Docker Information== | ==General Docker Information== | ||
| Line 46: | Line 61: | ||
== Problems or technical support == | == Problems or technical support == | ||
If you have any problems with the GI computing environment, please send an email to '''cluster-admin@soe.ucsc.edu''' | If you have any questions or problems with the GI computing environment, please send an email to '''cluster-admin@soe.ucsc.edu''' | ||
Latest revision as of 15:14, 18 July 2026
Welcome to the Genomic Institute Computing Information Repository! Browse the below topics for help in the area you are curious about.
GI Public Computing Environment
- How to access the public servers
- /public/groups Data Usage Graphs
- Resetting your Public UNIX Password
GI Firewalled Computing Environment (PRISM)
- Access to the Firewalled Compute Servers
- Firewalled Computing Resources Overview
- Firewalled Environment Storage Overview
- Firewalled User Account and Storage Cost
- Grafana Performance Metrics
- Visual Studio Code (vscode) Configuration Tweaks
- /private/groups Data Usage Graphs
- /private/warm-archive Data Usage Graphs
- Resetting your VPN/PRISM Password
VPN Access
- Requirement for users to get GI VPN access
- Setting Up The VPN on MacOS
- Setting Up The VPN on Windows
- Setting Up The VPN on Linux
- Multi Factor Authentication (MFA) Frequently Asked Questions
- Duo Pushes Aren't Being Sent to My Phone!
NIH dbGaP Access Requirements
Amazon Web Services Information
- Overview of Getting and Using an AWS IAM Account
- AWS Account List and Numbers
- AWS Shared Bucket Usage Graphs
- AWS Best Practices
- AWS S3 Lifecycle Management
JupyterHub Notebooks Spawned via Slurm
- Access the JupyterHub Slurm Server
- Create a Jupyter Virtual Environment
- Change Default File Browser Directory
Slurm at the Genomics Institute
- Overview of using Slurm
- Slurm Best Practices
- Cluster Etiquette
- Annotated Slurm Script
- Job Arrays
- GPU Resources
- Quick Reference Guide
- Convenient Slurm Commands
- Slurm Queues (Partitions) and Resource Management
- Slurm Tips for vg
- Slurm Tips for Toil
- Using Docker under Slurm
- Phoenix WDL Tutorial
- Slurm Insights Dashboard
General Docker Information
Problems or technical support
If you have any questions or problems with the GI computing environment, please send an email to cluster-admin@soe.ucsc.edu
