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2nd MICROCARD Workshop on 6 and 7 July 2022

photo of the Liryc building in bright summer light

On the 6th and 7th of July 2022 our second workshop will take place, in the amphitheatre of the Liryc institute in Pessac, near Bordeaux. We expect about 40 participants on-site and a few dozen more online. The program will start at 9:30 and will take until about 5pm on both days. If necessary the meeting will go online, but the time and dates will not change.

transport and accomodation info

location on OpenStreetMap

Wednesday 6 July

09:30 opening session
Welcome, introduction, and state of the project
Mark Potse, coordinator
10:15  keynote lecture: The Long and Winding Road Toward Efficient High-Performance Computing
William Jalby (University of Versailles Saint-Quentin)
11:00coffee break
11:20 HPC code development
Porting the openCARP framework to modern accelerators leveraging Ginkgo's GPU capabilities
Fritz Göbel
Expansion of the openCARP DevOps toolchain for easier development, maintenance and usage
Marie Houillon
12:10lunch break
13:30numerical schemes
Boundary element and explicit stabilized methods for the cell-by-cell model in electrophysiology
Giacomo Rosilho de Souza, Simone Pezzuto, and Rolf Krause
14:00 Higher-order time integration with algebraic adaptivity in the cell-by-cell model
Fatemeh Chegini and Martin Weiser
14:30automated code generation (private session)
Data layout transformation and vectorization of ionic models
Arun Thangamani
15:00 Towards a GPU code generation of ionic models
Tiago Trevisan Jost
15:30coffee break
16:00 General Assembly (private)
This meeting takes place in the Salle du conseil and is only accessible to GA members.

Thursday 7 July

09:30 presentations by EAB members
Visualising cardiomyocyte nanostructure during health and disease
Eva Rog-Zielinska
Subcellular distribution and targeting of cardiac sodium channels
Carol Ann Remme
The fibrillating heart
Mélèze Hocini
10:45coffee break
11:00mesh adaptation and ionic models
Introduction to remeshing
Algiane Froehly
  Development of a massively parallel remeshing code for exascale geometries
Francesco Brarda and Algiane Froehly
  A practical algorithm to build geometric models of cardiac muscle structure
Mark Potse, Luca Cirrottola, and Algiane Froehly
12:00 Handling load, architecture and precision heterogeneity for ionic models
Denis Barthou and Vincent Alba
12:30lunch break
13:30solvers and preconditioners
13:30 A scalable BDDC preconditioner for the cardiac cell-by-cell model with a hybrid discontinuous Galerkin discretization
Luca Pavarino, Simone Scacchi, Ngoc Mai Monica Huynh, Fatemeh Chegini, and Martin Weiser
14:00 Parallel nonlinear solvers for implicit time discretizations in cardiac electrophysiology
Ngoc Mai Monica Huynh, Nicolás A. Barnafi, Luca Pavarino, and Simone Scacchi
14:30visit of the experimental platforms at Liryc
15:15coffee break
15:30 Inter-WP discussion on the implementation of the cell-by-cell model
This meeting takes place in the Salle du conseil and is limited to 30 participants.

PersonalizeAF workshop on 4 and 5 July 2022

The ITN PersonalizeAF will organize a workshop in July 2022, just before ours, at the same location.

Liryc summer school on cardiac electrophysiology, 27 June - 1 July 2022

The next Liryc summer school on cardiac electrophysiology will be held in the last week of June 2022 at the Liryc institute in Pessac, near Bordeaux. It is expected to be an on-site event.

1st MICROCARD Workshop on 4 February 2022

13:00 Welcome and introduction to MICROCARD [Mark Potse, coordinator]
13:15 keynote: 3D imaging of myocardial architecture using immunolabeling and confocal microscopy [Frank Sachse]
14:05 Deep learning approach for the segmentation of cardiomyocytes [Andrea Dorizza]
14:25 break
14:40 First results on the impact of dynamic power capping on performance and power consumption [Amina Guermouche]
15:00 Choice of a linear solver and preconditioner for µCARP [Hartwig Anzt]
15:20 FEM Discretization and Implementation of the Cell-by-Cell Model [Fatemeh Chegini]
15:40 break
16:00 Lifting the code generation of ionic models to novel compiler technology [Tiago Trevisan Jost]
16:20 Overview of the numerical scheme for µCARP [Yves Coudière]
16:40 discussion

MICROCARD Kick-off meeting on 19 April 2021

13:00 Welcome and presentation of the project [Mark Potse, coordinator]
13:30 Welcome by the director of Liryc [Pierre Jaïs]
13:45 Presentation of the EuroHPC Joint Undertaking [Daniel Opalka, project officer]
14:00 break
14:30 presentation of the teams
 Modeling team at Liryc [Mark Potse]
 STORM team at Inria [Denis Barthou]
 MMG consortium [Algiane Froehly]
 CAMUS team at Université de Strasbourg/Inria [Vincent Loechner]
 SIMULA [Xing Cai]
 Università degli studi di Pavia [Luca Pavarino]
 Università della Svizzera italiana [Rolf Krause]
 Biomedical Engineering at KIT [Axel Loewe]
 Steinbuch Centre for Computing at KIT [Hartwig Anzt]
 Zuse Institute Berlin [Martin Weiser]
 MEGWARE [Axel Auweter]
 Numericor [Aurel Neic]
 Orobix [Luca Antiga]
15:30 keynote: Cardiac electrophysiology and arrhythmia [Olivier Bernus, scientific director of Liryc]
16:15 conclusion [Mark Potse]

LinkedIn: @project MICROCARD

Twitter: @P_Microcard

Latest news

Open positions

We are looking for an engineer and a postdoc to work on meshing tools and a research software engineer to work on software integration.

MICROCARD is touring Europe

In June, the MICROCARD project was presented at the Teratec Forum 2022 on 14 and 15 June in Paris, and at the HiPEAC meeting in Budapest on June 20–22.

We will also present results at the ECCOMAS meeting in Oslo, the ISC High Performance meeting in Hamburg, and the CMBE meeting in Milan.

Leading the way in European supercomputing

MICROCARD is one of nine European supercomputing projects showcased in this brochure issued by CORDIS.


more news

Agenda

Monday 27 June

15:00 WP1 meeting

27-29 June

PASC 2022 meeting in Basel

7th International Conference on Computational and Mathematical Biomedical Engineering (CMBE21) in Milan.

27 June-1 July

Liryc summer school on cardiac electrophysiology (Bordeaux)

4 and 5 July

Workshop of the ITN PersonalizeAF at Liryc in Bordeaux

6 and 7 July

MICROCARD Workshop at Liryc in Bordeaux


full agenda

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