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JHPCE

Overview

JHPCE

Home
Home
- About Us
  About Us
- Getting Started
  Getting Started
  - New user form
  - New PI information and form
    New PI information and form
    
    New PI Information
    
    New PI Form
  - Orientation/Logging In
    Orientation/Logging In
    
    Overview
    
    JHPCE Orientation (PDF download)
    
    C-SUB Orientation (PDF)
  - Leaving JHPCE as a User or PI
  - New C-SUB PI or user?
  - Policies
  - HIPAA on JHPCE
- Getting Help
  Getting Help
  - Password Reset/Google Auth
  - Basics
  - Submitting Good Queries
  - Support Email List Archives
  - External Guides
  - Glossary
  - How to read a manual page (pdf)
  - Tools For Site Developers
    Tools For Site Developers
    
    Handy Features
    
    Tips & Conventions
    
    Wishlist
- FAQ
- Accessing the cluster
  Accessing the cluster
  - Overview
  - SSH
  - X11
  - MobaXterm
  - Transferring files in or out
    Transferring files in or out
    
    Overview
    
    Globus
    
    OneDrive via rclone
- Managing Files
  Managing Files
  - Files Overview
  - Sharing Files
  - ACL
  - Copying within cluster
  - Rsync: A Key File Mgmt Tool
    Rsync: A Key File Mgmt Tool
    
    Using Rsync
    
    Itemize Output Key
    
    Itemize Manual Page
  - Archive Files
  - Navigating Deep Directory Trees
  - Data Security
  - Encrypting filesystems with ENCFS
  - Storage Tips
  - Copying within cluster
- Storage Policies and Practices
  Storage Policies and Practices
- Software
  Software
  - Overview
  - Local Software
    Local Software
    
    Matlab
    
    Python
    
    R and RStudio
    
    SAS
    
    Stata
  - Modules
  - Installing Your Own
    Installing Your Own
    
    Compile from Source
    
    Conda Environment
    
    Python Packages
    
    R Packages
  - JHPCE-created
  - Helpful GUI Programs
- Job scheduler (SLURM)
  Job scheduler (SLURM)
  - Getting Started
  - About Jobs
  - Partitions
  - Memory Usage
  - Time Limits
  - Command tips and reference
    Command tips and reference
    
    Cmd tips and reference
    
    sacct tips
    
    sacctmgr tips
    
    scontrol tips
    
    squeue tips
    
    reportseff tips
  - Interactive Jobs
  - Crafting Batch Jobs
  - Monitoring Your Jobs
  - When Will My Job Start?
  - Quality of Service (QOS)
  - Job Environment
  - Node Features
  - Example User Guides
  - SLURM FAQ
- User Guides/Tutorials
  User Guides/Tutorials
  - GPU
    GPU
    
    Using GPUs on JHPCE
    
    Alphafold
  - VS Code
  - Cost Calculator
- Web Portal
  Web Portal
- C-SUB
  C-SUB
- JADE
  JADE
  - About
  - Transitioning to JADE
    Transitioning to JADE
    
    CMS Users
    CMS Users
    
    Overview
    
    Change details
    
    Path Changes chart (pdf)
    
    Path Changes doc (pdf)
    
    dbGaP Users
    dbGaP Users
    
    Overview
  - Accessing JADE
    Accessing JADE
    
    Overview
    
    SSH
    
    X11
    
    MobaXterm
    
    Transferring files in or out
    Transferring files in or out
    
    Overview
    
    SFTP
    
    Globus

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