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3rd MICROCARD Workshop on 4 and 5 July 2023

On the 4th and 5th of July 2023 our third workshop will take place on the main campus of Strasbourg University.

WP3+5 meeting in Berlin, March 16 and 17, 2023

For 16 and 17 March 2023 the members of WP3 and WP5 are planning a live meeting at ZIB in Berlin. For practical information see the hints for visitors.

Thursday 16 March

09:00	opening session
09:30	spatial discretization status
11:30	time discretization status
14:00	preconditioner status
16:00	modularization concept discussion
17:00	µCARP software structure and concepts

Thursday 17 March

09:00	joint paper planning / scheduling
10:30	hands-on implementation and design
13:30	recap of insights gained and consequences for algorithmic development
15:30	report and project review planning pair programming and paper writing

2nd MICROCARD Workshop on 6 and 7 July 2022

On the 6th and 7th of July 2022 our second workshop took place in the amphitheatre of the Liryc institute in Pessac, near Bordeaux. Below the final program of the meeting is shown.

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 (LI PARAD laboratory, U. Versailles Saint-Quentin/U. Paris Saclay)
11:00	coffee break
11:15	numerical schemes
	Boundary element and explicit stabilized methods for the cell-by-cell model in electrophysiology
	Giacomo Rosilho de Souza, Simone Pezzuto, and Rolf Krause
	Higher-order time integration with algebraic adaptivity in the cell-by-cell model
	Fatemeh Chegini and Martin Weiser
12:15	lunch break
13:30	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
14:30	automated 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
15:30	coffee 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	invited presentations
	Visualising cardiomyocyte nanostructure during health and disease
	Eva Rog-Zielinska (Uni. Freiburg, MICROCARD EAB MEMBER)
	MicroCT in translational cardiology
	Richard Walton (Liryc)
10:20	optimization of ionic models
	Handling load, architecture and precision heterogeneity for ionic models
	Denis Barthou, Marie-Christine Counilh, and Vincent Alba
11:00	coffee break
11:20	mesh adaptation - chair: Axel Loewe
	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
12:20	clinical view
	The fibrillating heart
	Mélèze Hocini (Liryc, MICROCARD EAB member)
12:40	lunch break
13:30	solvers and preconditioners - chair: Simone Pezzuto
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
14:30	visit of the experimental platforms at Liryc
15:15	coffee 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]