SmartScope Documentation

  • SmartScope Home
  • Latest News
  • Beta Program
  • Installation
    • Minimal requirements
    • Installation with Docker or Podman
      • How to prepare your docker-compose file
      • Complete list of environment variables
    • Installation with Anaconda/Miniconda
    • Additionnal information on installation
      • Complete list of environment variables
  • Updating SmartScope
    • Updating a podman installation
  • Setup
    • Admin portal
    • SerialEM setup
  • Web Interface
    • Log in
    • Navigation
  • Running SmartScope
    • How to prepare SerialEM
    • Set up SmartScope
    • Session page
  • Testing and Troubleshooting
    • Testing SmartScope without the microscope
  • How to Cite
  • Contact Us
  • License

Versions

  • 0.8
  • v0.7

Branches

  • dev
  • stable
Theme by the Executable Book Project
  • repository
  • open issue
  • .rst

Running SmartScope

Running SmartScope

  • How to prepare SerialEM
  • Set up SmartScope
    • Setup Smartscope
    • General
    • Collection Parameters
    • Autoloader
    • Submitting
  • Session page
    • Top section
    • Control buttons
      • Start/Stop
      • Pause between grid
    • Admin control buttons
      • Force start
      • Remove scope lock file
      • Force-kill all session processes
    • Logs
    • Pop-up notifications
      • Scope lock warnings
      • Stop signal received
      • Pause between grid prompt

previous

Navigation

next

How to prepare SerialEM

By Jonathan Bouvette and Elizabeth Viverette
© Copyright 2022, NIEHS/NIH Molecular Microscopy Consortium and Bartesaghi Lab.