UFIT-RC Documentation

Usage

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UFIT-RC Documentation

Home
Quick Start
Quick Start
- Introduction to RC
- Policies and Procedures
- From Zero to HiPerGator
- HiPerGator Components
  HiPerGator Components
- Development & Testing
- Practical Storage Use
Training
Training
Access
Access
- Introduction
- Eligibility Criteria
- Account Requests
  Account Requests
  - Overview
  - University of Florida Users
  - Federated Users
    Federated Users
    
    Federated Account Request
    
    Federated Account Liaisons
    
    Federated Login
  - External users
    External users
    
    Affiliated GatorLink Request
- Interfaces
  Interfaces
  - Introduction
  - Secure Shell
    Secure Shell
    
    Connecting with SSH
    
    Multi-Factor Authentication
    
    SSH Multiplexing
    
    Using SSH Keys
    
    Blocked Access
    
    Persistent Sessions
  - Web Interfaces
    Web Interfaces
    
    Jupyter (Python, R)
    
    OnDemand (Matlab, RStudio,...)
    
    Galaxy Genomics Framework
  - Graphical User Interface (GUI)
    Graphical User Interface (GUI)
    
    Running GUI Apps
    
    Playing Audio & Video
Resources
Resources
Data
Data
- Introduction
- Data Transfer
  Data Transfer
- Reference Data
  Reference Data
  - Hosted Reference Data
  - AI Reference Data
Software
Software
- Introduction
- Installed Applications
- HiPerGator UFRC Tools
- Modules System
- Modules Basic Usage
- Managing Conda Environments
  Managing Conda Environments
- Licensing
- Custom Installs
- GPU Use
- Scientific Domains
  Scientific Domains
  - Introduction
  - Domain
    Domain
    
    Biology
    
    Computer Vision
    
    Data Science
    
    Healthcare
    
    Natural Language Processing (NLP)
Job Scheduler
Job Scheduler
- Introduction
- Commands
- Account/QOS Limits
- Available Node Features
- Job Variables
- Job Script Examples
- Job Arrays
  Job Arrays
  - Job Arrays
  - Submitting Job Arrays
- GPU Access
- Idle GPU Policy and Guidance
- Job States
- Time Limits
- Reoccurring Jobs
- Out of Memory
- Temporary Directories
Services
Services
- Introduction
- RC Consulting
- Research Software Engineering
- Static Data Serving
- Web Application Hosting
  Web Application Hosting
Support
Support
Regulated Data
Regulated Data
- Introduction
- Procedures
  Procedures
- HiPerGator-RV
  HiPerGator-RV

Usage

run_dbcan EscheriaColiK12MG1655.fna prok --out_dir output_EscheriaColiK12MG1655 --use_signalP=TRUE --db_dir $HPC_DBCAN_REF/db

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