cisTEM Dockerimage

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

Software Included

• cisTem (https://cistem.org/software)

Development Notes

• The official cisTEM documentation can be found here.

Dockerfile

• The cisTEM image is hosted at the following location.

gcr.io/ris-registry-shared/cistem

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/cistem

• 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 cisTEM session using the following command:

cisTEM