RELION

Compute Resources

• Have questions or need help with compute, including activation or issues? Follow this link.

• User Agreement

Docker Usage

• The information contained on this page assumes that you have a knowledge base of using Docker to create images and push them to a repository for use. If you need to review that information, please see the links below.

• Docker and the RIS Compute Service

• Docker Basics: Building, Tagging, & Pushing A Custom Docker Image

Image Details

• Docker image hosted at gcr.io/ris-registry-shared/relion.

• Versions Available <tags>:

  • latest, 3.1

  • ood

• Software Included:

  • Relion (https://www3.mrc-lmb.cam.ac.uk/relion//index.php/Main_Page)

  • CTFFIND (https://grigoriefflab.umassmed.edu/ctffind4)

  • GCTF (hhttps://www2.mrc-lmb.cam.ac.uk/research/locally-developed-software/zhang-software/)

  • MotionCor2 (https://emcore.ucsf.edu/ucsf-motioncor2)

Requirements for Usage in RIS

• Interactions GUI sessions are done via the Custom noVNC Image application in Open On Demand (OOD).

• You can find out more about OOD here: Compute Quick Start.

• There are two fields beyond the basics that will need information specific to this image.

  • Environment Variables

  • Docker Image

Environment Variables

• This information should be space separated in the field.

PASSWORD=password

• Optional variables

  • GUI display size. This can be changed with the following variables.

    • Width default: 1024

    • Height default: 768

  DISPLAY_WIDTH=<width> DISPLAY_HEIGHT=<height>
  

Docker Image

gcr.io/ris-registry-shared/relion:<tag>

• Fill out the rest of the fields with the appropriate information (explained in the quick start).

• Launch the job through the methods described in the quick start.

• Once in an interactive relion session using the following command:

relion