BioDynaMo workshop

1 Dec 2016, 09:30 → 2 Dec 2016, 17:30 Europe/Zurich

513/1-024 (CERN)

Thursday 1 December

09:30 Welcome coffee in R2

1 Welcome and Roundtable Introduction

Speaker: Fons Rademakers (CERN)

2 Workshop Agenda and Objectives - Day 1

Speaker: Fons Rademakers (CERN)

3 Overview of the science, user requirements and competitive landscape

Speakers: Marco Manca (CERN), Roman Bauer

11:00 Coffee break

4 System overview, architecture and responsibilities - Part 1

Speaker: Lukas Breitwieser (openlab)

cloud_architecture.pdf

12:30 Lunch

5 Spatial organization: data structures for scalability

Speaker: Vicktor Drobnyy

6 Data I/O: Data Structures for input, output, communication, etc.

15:30 Coffee break

7 Status of the BioDynaMo computational kernel

• Status
• Architecture
• Vectorization/parallelization optimizations
• Potential improvements

Speaker: Lukas Breitwieser (openlab)

17:00 Visit to CERN

19:25 Dinner

Friday 2 December

8 Workshop Agenda and Objectives - Day 2

Speaker: Fons Rademakers (CERN)

9 Wrap-up/Summary of day 1, integration in overall architecture

Speaker: Fons Rademakers (CERN)

11:00 Coffee break

10 Physics engines: general overview, engine selection and system integration

Speaker: Ilya Dmitrenok

11 Visualization engines for biology simulation

Speaker: Alexey Trusov

12:30 Lunch

12 Data sharing with Zenodo

Speaker: Lars Holm Nielsen (CERN)

13 Deployment Models: Overview

Speaker: Fons Rademakers (CERN)

14 Deployment Models; Single-Node Scenario

15:00 Coffee break

15 Deployment Models: Cloud Platform Scenario

Speaker: Alexey Kosterin

16 Deploymeny Models: HPC Scenario

17 Project Management and Governance

Speaker: Alberto Di Meglio (CERN)

18 Next steps, conclusions