Topic outline

  • The Scipion framework

    In this module you will  learn what Scipion is and how it can be useful for you.

    If you already know about Scipion you can skip it but this nice presentation from Pablo Conesa, the Scipion project leader, might discover you new Scipion features that you did not know.

    Enjoy it!


    • The EOSC cloud infrastructure

      If you have arrived to this course you probably know what EOSC is but if you don't please watch the following short videos that will tell you what is the European Open Science Cloud and why it is so important for the research community.



      One of the core services offered in the EOSC marketplace is the EOSC cloud infrastructure which is a federation of cloud sites distributed along Europe. These sites offer cloud and HPC resources to the research community through what are called Virtual Organizations. A Virtual Organization is a way to group a number of users of a certain area of research that can use certain EOSC resources, such as cloud computing. In order to deploy your own EOSC cloud resources you should become member of a Virtual Organization that is supported by some federated site.

      In the next section you will learn how to deploy the ScipionCloud service from the EOSC marketplace and what requirements you need in terms of Virtual Organizations enrollment.

      • The ScipionCloud service

        In Section 1 you have learnt what the Scipion framework is and how it can help structural biologists to obtain high resolution volumes from electron microscopy images. Section 2 has shown what the EOSC ecosystem offers to European researchers, including a federated cloud infrastructure for computing.

        ScipionCloud is the combination of the two, offering a cloud virtual machine with the Scipion software installation ready to be used to start processing your data.

        In this section you will learn how to request or deploy your ScipionCloud infrastructure and how to make the best use of it.

        The service has to be deployed  in one of the EOSC cloud sites to run and there are two ways to proceed. For the INSTRUCT-ERIC research infrastructure users the service can be requested from the EOSC marketplace and deployment will be done through the cryoem.instruct-eric.eu Virtual Organization. Other users can deploy the service through the Infrastructure Manager once they have been enrolled in a Virtual Organization that has been granted access to some cloud sites in the EOSC cloud infrastructure.