SimPrily
latest

Contents:

  • Introduction
  • Use Cases
  • Install and Environment Set up
  • Usage
  • High Throughput Computing
  • Calculating summary statistics on real data
  • Where to run SimPrily
  • Benchmarking
  • Tutorial with Docker
  • For Developers
SimPrily
  • Docs »
  • Welcome to SimPrily’s documentation!
  • Edit on GitHub

Welcome to SimPrily’s documentation!¶

Contents:

  • Introduction
  • Use Cases
  • Install and Environment Set up
  • Usage
    • Required Input
    • Optional Input
    • Command line argument to run
      • How to run with a Container
      • Examples
    • Additional information on input arguments
      • ID
      • output_dir
      • param_file.txt
      • model_file.csv
  • High Throughput Computing
    • Open Science Grid
      • Test with interactive Singularity container
      • Submit a Pegasus workflow
      • Monitoring and Debugging
      • How the Pegasus workflow works
    • Recommendations for other HTC workflows
  • Calculating summary statistics on real data
    • Data format
    • Usage
  • Where to run SimPrily
  • Benchmarking
  • Tutorial with Docker
    • 1. Define your simulation
    • 2. Create input files
    • 3. Perform test simulation
      • a. Pull Docker image
      • b. Run SimPrily
    • 4. Perform HTC simulations
      • a. Estimate the required resources
      • b. Decide where to run your simulations
      • c. Run in parallel on large server
      • d. Run as workflow on Open Science Grid
  • For Developers
    • Install and Environment Set up
      • Container
      • Open Science Grid Connect
      • Virtual environment
      • Local installation
    • Additional Information on Containers
      • Docker
      • Singularity
    • Testing
    • Creating Documentation
      • Resources
    • Other Notes

Indices and tables¶

  • Index
  • Module Index
  • Search Page
Next

© Copyright 2018, Ariella Gladstein Revision ac1c77b6.

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