ExTASY 0.2

Github Page

https://github.com/radical-cybertools/ExTASY

Mailing List

• Users : https://groups.google.com/forum/#!forum/extasy-project
• Developers : https://groups.google.com/forum/#!forum/extasy-devel

Build Status

Contents

• 1. Introduction
  • 1.1. What is ExTASY ?
• 2. Installation & Setup
  • 2.1. Installation
  • 2.2. Preparing the Environment
    • 2.2.1. MongoDB Server
    • 2.2.2. HPC Cluster Access
• 3. Getting Started
  • 3.1. SimulationAnalysisLoop (SAL): The Pattern
  • 3.2. Components of the API
• 4. Running Generic Examples
  • 4.1. Multiple Simulations Single Analysis Application with SAL pattern
    • 4.1.1. Run locally
    • 4.1.2. Run remotely
    • 4.1.3. Example Script
  • 4.2. Multiple Simulations Multiple Analysis Application with SAL pattern
    • 4.2.1. Run locally
    • 4.2.2. Run remotely
    • 4.2.3. Example Script
• 5. Running a Coco/Amber Workload
  • 5.1. Running on Stampede
    • 5.1.1. Running using Example Workload Config and Resource Config
  • 5.2. Running on Archer
    • 5.2.1. Running using Example Workload Config and Resource Config
  • 5.3. Running on localhost
  • 5.4. Understanding the Output of the Examples
• 6. Running a Gromacs/LSDMap Workload
  • 6.1. Running on Stampede
    • 6.1.1. Running using Example Workload Config and Resource Config
  • 6.2. Running on Archer
    • 6.2.1. Running using Example Workload Config and Resource Config
  • 6.3. Running on localhost
  • 6.4. Understanding the Output of the Examples
• 7. API Reference
  • 7.1. Execution Context API
    • 7.1.1. class radical.ensemblemd.SingleClusterEnvironment (resource, cores, walltime, database_url, queue = None, username = None, allocation = None, cleanup = False)
  • 7.2. Execution Pattern API
    • 7.2.1. pre_loop()
    • 7.2.2. simulation_step(iteration, instance)
    • 7.2.3. analysis_step(iteration, instance)
    • 7.2.4. post_loop()
  • 7.3. Application Kernel API
    • 7.3.1. class radical.ensemblemd.Kernel (name, args = None)
  • 7.4. Exceptions & Errors
• 8. Customization
  • 8.1. Writing New Application Kernels
  • 8.2. Writing a Custom Resource Configuration File
• 9. List of Pre-Configured Resources
  • 9.1. RESOURCE_FUTUREGRID
    • 9.1.1. BRAVO
    • 9.1.2. INDIA
    • 9.1.3. ECHO
    • 9.1.4. XRAY
    • 9.1.5. XRAY_CCM
    • 9.1.6. DELTA
  • 9.2. RESOURCE_ORNL
    • 9.2.1. TITAN
  • 9.3. RESOURCE_IU
    • 9.3.1. BIGRED2
    • 9.3.2. BIGRED2_CCM
  • 9.4. RESOURCE_RADICAL
    • 9.4.1. TUTORIAL
  • 9.5. RESOURCE_RICE
    • 9.5.1. DAVINCI
    • 9.5.2. BIOU
  • 9.6. RESOURCE_XSEDE
    • 9.6.1. LONESTAR
    • 9.6.2. STAMPEDE_YARN
    • 9.6.3. STAMPEDE
    • 9.6.4. BLACKLIGHT
    • 9.6.5. COMET
    • 9.6.6. SUPERMIC
    • 9.6.7. COMET_ORTE
    • 9.6.8. TRESTLES
    • 9.6.9. GORDON
  • 9.7. RESOURCE_LOCAL
    • 9.7.1. LOCALHOST_YARN
    • 9.7.2. LOCALHOST_ANACONDA
    • 9.7.3. LOCALHOST
  • 9.8. RESOURCE_NCAR
    • 9.8.1. YELLOWSTONE
  • 9.9. RESOURCE_STFC
    • 9.9.1. JOULE
  • 9.10. RESOURCE_EPSRC
    • 9.10.1. ARCHER
    • 9.10.2. ARCHER_ORTE
  • 9.11. RESOURCE_DAS4
    • 9.11.1. FS2
  • 9.12. RESOURCE_NCSA
    • 9.12.1. BW_CCM
    • 9.12.2. BW
    • 9.12.3. BW_APRUN
  • 9.13. RESOURCE_NERSC
    • 9.13.1. EDISON_CCM
    • 9.13.2. EDISON
    • 9.13.3. HOPPER
    • 9.13.4. HOPPER_APRUN
    • 9.13.5. HOPPER_CCM
    • 9.13.6. EDISON_APRUN
  • 9.14. RESOURCE_LRZ
    • 9.14.1. SUPERMUC
• 10. Troubleshooting
  • 10.1. Execution fails with “Couldn’t read packet: Connection reset by peer”
  • 10.2. Configuring SSH Access
  • 10.3. Error: Permission denied (publickey,keyboard-interactive) in AGENT.STDERR
  • 10.4. Error: Couldn’t create new session
  • 10.5. Error: Prompted for unkown password
  • 10.6. Error: Pilot has FAILED. Can’t recover
  • 10.7. Couldn’t send packet: Broken pipe
  • 10.8. Writing a Custom Resource Configuration File
• 11. Miscellaneous
  • 11.1. List of Supported Kernels

Indices and tables

• Index
• Search Page