This tutorial is aimed at all researchers interested in evaluating and improving the reproducibility of their research results. It will be based on practical examples with VIP and EGI.
Context
VIP is an open web portal for medical simulation and image data analysis. By effectively leveraging the computing and storage resources of the EGI federation, VIP offers its users high-level services enabling them to easily execute medical imaging applications on a large scale computing infrastructure.
Within the ReproVIP project, we aim at evaluating and improving the reproducibility of scientific results obtained with VIP. Our final goal is to provide an integrated, end-to-end solution, allowing researchers to launch reproducible executions in a transparent manner.
Content
This tutorial will include a theoretical (approx. 30min) and a practical part (approx 1 hour). During the theoretical part, the audience will learn about several issues in computational reproducibility (across computing environments, libraries, versions) and how they can be handled through technical solutions.
The practical part will focus on the tools and services provided by VIP and EGI for evaluating and improving reproducibility (e.g. Jupyter notebooks, Binder instances and the VIP API).
– As a first step, participants will carry out reproducibility experiments on a medical imaging application. This will be done through EGI notebooks making calls to the VIP platform, where the application is available as a service.
– The same notebooks will be used to perform analyses and visualize the variability of the application outputs between several executions.
– Finally, these notebooks will be used to learn how any scientific work can be shared through the EGI-Replay service, by deploying an EGI-Binder instance.
Requirements
Participants will need to bring their own laptops. The tutorial materials will be accessible online through their web browser.
This training session is led by:
- Gael Vila (CNRS)
- Alexandre Cornier (CNRS)
