Publications

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AuthorTitleYearJournal/ProceedingsReftypeDOI/URL
Gawlok, S., Gerstner, P., Haupt, S., Heuveline, V., Kratzke, J., Lösel, P., Mang, K., Schmidtobreick, M., Schoch, N., Schween, N., Schwegler, J., Song, C. and Wlotzka, M.HiFlow3 – Technical Report on Release 2.0 2017Preprint Series of the Engineering Mathematics and Computing Lab
Vol. 0(06) 
articleDOIURL 
BibTeX:
@article{emclpp42879,
  author = {Simon Gawlok and Philipp Gerstner and Saskia Haupt and Vincent Heuveline and Jonas Kratzke and Philipp Lösel and Katrin Mang and Mareike Schmidtobreick and Nicolai Schoch and Nils Schween and Jonathan Schwegler and Chen Song and Martin Wlotzka},
  title = {HiFlow3 – Technical Report on Release 2.0},
  journal = {Preprint Series of the Engineering Mathematics and Computing Lab},
  year = {2017},
  volume = {0},
  number = {06},
  url = {https://journals.ub.uni-heidelberg.de/index.php/emcl-pp/article/view/42879},
  doi = {http://dx.doi.org/10.11588/emclpp.2017.06.42879}
}
Schoch, N. and Heuveline, V.Towards Cognition-Guided Patient-Specific FEM-based Cardiac Surgery Simulation 2017Lecture Notes in Computer Science, Proceedings of the "Functional Imaging and Modeling of the Heart (FIMH) 2017" articleDOI  
BibTeX:
@article{Schoch2017-CSA-FIMH,
  author = {Schoch, N. and Heuveline, V.},
  title = {Towards Cognition-Guided Patient-Specific FEM-based Cardiac Surgery Simulation},
  journal = {Lecture Notes in Computer Science, Proceedings of the "Functional Imaging and Modeling of the Heart (FIMH) 2017"},
  year = {2017},
  doi = {http://dx.doi.org/10.1007/978-3-319-59448-4_12}
}
Wlotzka, M., Heuveline, V., Klatt, S., Kraus, D., Haas, E., Kiese, R., Butterbach-Bahl, K., Kraft, P. and Breuer, L.Parallel multiphysics simulations using OpenPALM with application to hydrology-biogeochemistry coupling 2017Modeling, Simulation and Optimization of Complex Processes - HPSC 2015 inbook 
BibTeX:
@inbook{Wlotzka2017c,
  author = {Wlotzka, M. and Heuveline, V. and Klatt, S. and Kraus, D. and Haas, E. and Kiese, R. and Butterbach-Bahl, K. and Kraft, P. and Breuer, L.},
  title = {Parallel multiphysics simulations using OpenPALM with application to hydrology-biogeochemistry coupling},
  booktitle = {Modeling, Simulation and Optimization of Complex Processes - HPSC 2015},
  publisher = {Springer},
  year = {2017}
}
Wlotzka, M., Heuveline, V., Dolz, M.F., Heidari, M.R., Ludwig, T., Malossi, A.C.I. and Quintana-Orti, E.S.Energy-Aware High Performance Computing 2017ICT-Energy Concepts for Energy Efficiency and Sustainability incollection 
BibTeX:
@incollection{Wlotzka2017b,
  author = {Wlotzka, Martin and Heuveline, Vincent and Dolz, Manuel F and Heidari, M Reza and Ludwig, Thomas and Malossi, A Cristiano I and Quintana-Orti, Enrique S},
  title = {Energy-Aware High Performance Computing},
  booktitle = {ICT-Energy Concepts for Energy Efficiency and Sustainability},
  publisher = {InTech},
  year = {2017}
}
Song, C., Stoll, M., Giske, K., Bendl, R. and Heuveline, V.Sparse Grids for quantifying motion uncertainties in biomechanical models of radiotherapy patients 2017Preprint Series of the Engineering Mathematics and Computing Lab
Vol. 0(01) 
articleDOIURL 
BibTeX:
@article{Song2017a,
  author = {Chen Song and Markus Stoll and Kristina Giske and Rolf Bendl and Vincent Heuveline},
  title = {Sparse Grids for quantifying motion uncertainties in biomechanical models of radiotherapy patients},
  journal = {Preprint Series of the Engineering Mathematics and Computing Lab},
  year = {2017},
  volume = {0},
  number = {01},
  url = {http://journals.ub.uni-heidelberg.de/index.php/emcl-pp/article/view/35059},
  doi = {http://dx.doi.org/10.11588/emclpp.2017.01.35059}
}
Schoch, N. and Heuveline, V.Towards an Intelligent Framework for Personalized Simulation-enhanced Surgery Assistance: Linking a Simulation Ontology to a Reinforcement Learning Algorithm for Calibration of Numerical Simulations 2017Preprint Series of the Engineering Mathematics and Computing Lab
Vol. 0(05) 
articleDOIURL 
Abstract: Evolving our previous research results in the context of cognition-guidance and patient-specifity for simulation-enhanced cardiac surgery assistance, in this work we further investigate on (1) a machine learning framework which allows to patient-individually calibrate soft tissue material parameters for subsequent simulation, and (2) a profound knowledge management framework which may enhance the ontology-driven overall setup of the cognition-guided surgery simulation in a clinic environment. Rather than being a closed research work with an in-depth theory backup and a complete evaluation, we here present a technical report and some interesting experimental works that are to serve for further research and development.
BibTeX:
@article{emclpp42079,
  author = {Nicolai Schoch and Vincent Heuveline},
  title = {Towards an Intelligent Framework for Personalized Simulation-enhanced Surgery Assistance: Linking a Simulation Ontology to a Reinforcement Learning Algorithm for Calibration of Numerical Simulations},
  journal = {Preprint Series of the Engineering Mathematics and Computing Lab},
  year = {2017},
  volume = {0},
  number = {05},
  url = {https://journals.ub.uni-heidelberg.de/index.php/emcl-pp/article/view/42079},
  doi = {http://dx.doi.org/10.11588/emclpp.2017.05.42079}
}
Schoch, N., Engelhardt, S., De Simone, R., Wolf, I. and Heuveline, V.High Performance Computing for Cognition-Guided Cardiac Surgery:
Soft Tissue Simulation for Mitral Valve Reconstruction in
Knowledge-based Surgery Assistance
2017Proc. 6th International Conference on High-Performance
Scientific Computing 2015 (LNCS Springer), pp. [in press] 
article 
BibTeX:
@article{Schoch2015a,
  author = {Schoch, N.
and Engelhardt, S.
and De Simone, R.
and Wolf, I.
and Heuveline, V.}, title = {High Performance Computing for Cognition-Guided Cardiac Surgery:
Soft Tissue Simulation for Mitral Valve Reconstruction in
Knowledge-based Surgery Assistance}, journal = {Proc. 6th International Conference on High-Performance
Scientific Computing 2015 (LNCS Springer)}, publisher = {Springer Heidelberg}, year = {2017}, pages = {[in press]} }
Song, C. and Heuveline, V.Multilevel preconditioner of Polynomial Chaos Method for quantifying uncertainties in a blood pump 2017International Conference on Uncertainty Quantification in Computational Sciences and Engineering (UNCECOMP), Greece, 2017 inproceedings 
BibTeX:
@inproceedings{Song2017b,
  author = {Song, Chen and Heuveline, Vincent},
  title = {Multilevel preconditioner of Polynomial Chaos Method for quantifying uncertainties in a blood pump},
  booktitle = {International Conference on Uncertainty Quantification in Computational Sciences and Engineering (UNCECOMP), Greece, 2017},
  publisher = {Scopus, Elsevier},
  year = {2017}
}
Wlotzka, M. and Heuveline, V.Energy-efficient multigrid smoothers and grid transfer operators on multi-core and GPU clusters 2017Journal of Parallel and Distributed Computing
Vol. 100, pp. 181-192 
article 
BibTeX:
@article{Wlotzka2017a,
  author = {Wlotzka, Martin and Heuveline, Vincent},
  title = {Energy-efficient multigrid smoothers and grid transfer operators on multi-core and GPU clusters},
  journal = {Journal of Parallel and Distributed Computing},
  publisher = {Academic Press},
  year = {2017},
  volume = {100},
  pages = {181--192}
}
Wlotzka, M., Heuveline, V., Dolz, M.F., Heidari, M.R., Ludwig, T., Malossi, A.C.I. and Quintana-Orti, E.S.Energy-Aware High Performance Computing 2017ICT-Energy Concepts for Energy Efficiency and Sustainability incollection 
BibTeX:
@incollection{Wlotzka2017b,
  author = {Wlotzka, Martin and Heuveline, Vincent and Dolz, Manuel F and Heidari, M Reza and Ludwig, Thomas and Malossi, A Cristiano I and Quintana-Orti, Enrique S},
  title = {Energy-Aware High Performance Computing},
  booktitle = {ICT-Energy Concepts for Energy Efficiency and Sustainability},
  publisher = {InTech},
  year = {2017}
}
Schoch, N., Philipp, P., Weller, T., Engelhardt, S., Volovyk, M., Fetzer, A., Nolden, M., Simone, R.D., Wolf, I., Maleshkova, M., Rettinger, A., Studer, R. and Heuveline, V.Cognitive tools pipeline for assistance of mitral valve surgery 2016Proceedings of SPIE Medical Imaging 2016: Image-Guided Procedures, Robotic Interventions, and Modeling inproceedings 
BibTeX:
@inproceedings{SchochSPIE2016,
  author = {Nicolai Schoch and Patrick Philipp and Tobias Weller and Sandy Engelhardt and Mykola Volovyk and Andreas Fetzer and Marco Nolden and Raffaele De Simone and Ivo Wolf and Maria Maleshkova and Achim Rettinger and Rudi Studer and Vincent Heuveline},
  title = {Cognitive tools pipeline for assistance of mitral valve surgery},
  booktitle = {Proceedings of SPIE Medical Imaging 2016: Image-Guided Procedures, Robotic Interventions, and Modeling},
  year = {2016}
}
Kratzke, J. and Heuveline, V.An analytically solvable benchmark problem for fluid-structure interaction with uncertain parameters 2016Preprint Series of the Engineering Mathematics and Computing Lab(2) article 
BibTeX:
@article{Kratzke2016a,
  author = {Kratzke, Jonas and Heuveline, Vincent},
  title = {An analytically solvable benchmark problem for fluid-structure interaction with uncertain parameters},
  journal = {Preprint Series of the Engineering Mathematics and Computing Lab},
  year = {2016},
  number = {2}
}
Jonas Kratzke Fabian Rengier, C.W.C.J.B. and Heuveline, V.In vitro flow assessment: From PC-MRI to computational fluid dynamics including fluid-structure interaction 2016Proceedings of SPIE Medical Imaging 2016:Physics of Medical Imaging inproceedings 
BibTeX:
@inproceedings{KratzkeSPIE2016,
  author = {Jonas Kratzke, Fabian Rengier, Christian Weis, Carsten J. Beller and Vincent Heuveline},
  title = {In vitro flow assessment: From PC-MRI to computational fluid dynamics including fluid-structure interaction},
  booktitle = {Proceedings of SPIE Medical Imaging 2016:Physics of Medical Imaging},
  year = {2016}
}
Schick, M., Heuveline, V. and Le Ma, O.A Newton--Galerkin Method for Fluid Flow Exhibiting Uncertain Periodic Dynamics 2016SIAM Review
Vol. 58(1), pp. 119-140 
article 
BibTeX:
@article{Schick2016a,
  author = {Schick, Michael and Heuveline, Vincent and Le Ma, OP},
  title = {A Newton--Galerkin Method for Fluid Flow Exhibiting Uncertain Periodic Dynamics},
  journal = {SIAM Review},
  publisher = {Society for Industrial and Applied Mathematics},
  year = {2016},
  volume = {58},
  number = {1},
  pages = {119--140}
}
Wlotzka, M. and Heuveline, V.Energy-efficient multlgrid smoothers and grid transfer operators on multi-core and GPU clusters 2016Journal of Parallel and Distributed Computing articleDOI  
Abstract: We investigate time and energy to solution for the CPU- and GPU-based execution of the compute intensive smoother and grid transfer operators in a geometric multigrid linear solver. We use a hybrid parallel implementation for both shared and distributed memory multi-core host systems comprising CUDA-capable devices. Our numerical experiments are designed to assess the effect of combining an MPI-parallel multigrid framework with OpenMP host threads or CUDA accelerators instead of MPI-only CPU computations for various parallel setups. We present runtime and energy measurements from a quad-CPU test system equipped with two GPUs. We find that using an accelerated asynchronous smoother can yield substantial savings of time and energy to solution over using a host-only Jacobi smoother in small and medium sized host systems with one or two multi-core CPUs. The acceleration of the grid transfer operators also yields a benefit, yet smaller than the benefit from the smoother. For large host systems a hybrid MPI-OpenMP parallelization turns out to be most beneficial with respect to energy consumption, although it is not the fastest option.
Baumann, M., Heuveline, V., Scheck, L. and Jones, S.C.Goal-oriented adaptivity for idealised tropical cyclones: A binary interaction scenario 2015Meteorologische Zeitschrift, pp. - articleURL 
BibTeX:
@article{baumann2015,
  author = {Baumann, Martin and Heuveline, Vincent and Scheck, Leonhard and Jones, Sarah C.},
  title = {Goal-oriented adaptivity for idealised tropical cyclones: A binary interaction scenario},
  journal = {Meteorologische Zeitschrift},
  publisher = {Schweizerbart Science Publishers},
  year = {2015},
  pages = {-},
  url = {http://dx.doi.org/10.1127/metz/2015/0591}
}
Hahn, T., Huuk, T., Heuveline, V. and Hubbuch, J.Simulating and Optimizing Preparative Protein Chromatography with ChromX 2015Journal of Chemical Education
Vol. 6 
article 
BibTeX:
@article{hahnJCEchromx,
  author = {T. Hahn and T. Huuk and V. Heuveline and J. Hubbuch},
  title = {Simulating and Optimizing Preparative Protein Chromatography with ChromX},
  journal = {Journal of Chemical Education},
  year = {2015},
  volume = {6}
}
Hoffmann, M., Gawlok, S., Treiber, E., Karl, W. and Heuveline, V.Interdisciplinary Practical Course on Parallel Finite Element Method Using HiFlow^3 2015
Vol. 9523Euro-Par 2015: Parallel Processing Workshops, pp. 160-171 
incollectionDOIURL 
BibTeX:
@incollection{Hoffmann2015,
  author = {Hoffmann, Markus and Gawlok, Simon and Treiber, Eva and Karl, Wolfgang and Heuveline, Vincent},
  title = {Interdisciplinary Practical Course on Parallel Finite Element Method Using HiFlow^3},
  booktitle = {Euro-Par 2015: Parallel Processing Workshops},
  publisher = {Springer International Publishing},
  year = {2015},
  volume = {9523},
  pages = {160-171},
  url = {http://dx.doi.org/10.1007/978-3-319-27308-2_14},
  doi = {http://doi.org/10.1007/978-3-319-27308-2_14}
}
Kratzke, J., Schick, M. and Heuveline, V.Fluid-Structure Interaction Simulation of an Aortic Phantom with Uncertain Young's Modulus Using the Polynomial Chaos Expansion 2015
Vol. 807Applied Mechanics and Materials, pp. 34-44 
article 
BibTeX:
@article{Kratzke2015,
  author = {Kratzke, Jonas and Schick, Michael and Heuveline, Vincent},
  title = {Fluid-Structure Interaction Simulation of an Aortic Phantom with Uncertain Young's Modulus Using the Polynomial Chaos Expansion},
  booktitle = {Applied Mechanics and Materials},
  year = {2015},
  volume = {807},
  pages = {34-44}
}
Kratzke, J., Schoch, N., Weis, C., Mueller-Eschner, M., Speidel, S., Farag, M., Beller, C. and Heuveline, V.Enhancing 4D PC-MRI in an aortic phantom considering numerical simulations 2015Proceedings of SPIE Medical Imaging 2015: Physics of Medical Imaging inproceedings 
BibTeX:
@inproceedings{KratzkeSPIE2015,
  author = {Jonas Kratzke and Nicolai Schoch and Christian Weis and Matthias Mueller-Eschner and Stefanie Speidel and Mina Farag and Carsten Beller and Vincent Heuveline},
  title = {Enhancing 4D PC-MRI in an aortic phantom considering numerical simulations},
  booktitle = {Proceedings of SPIE Medical Imaging 2015: Physics of Medical Imaging},
  year = {2015}
}
Schick, M., Song, C. and Heuveline, V.A Polynomial Chaos Method for Uncertainty Quantification in Blood Pump Simulation 2015International Conference on Uncertainty Quantification in Computational Sciences and Engineering (UNCECOMP), Greece, 2015 inproceedings 
BibTeX:
@inproceedings{Schick2015,
  author = {Schick, Micheal and Song, Chen and Heuveline, Vincent},
  title = {A Polynomial Chaos Method for Uncertainty Quantification in Blood Pump Simulation},
  booktitle = {International Conference on Uncertainty Quantification in Computational Sciences and Engineering (UNCECOMP), Greece, 2015},
  publisher = {Scopus, Elsevier},
  year = {2015}
}
Schoch, N., Engelhardt, S., Zimmermann, N., Speidel, S., Simone, R.D., Wolf, I. and Heuveline, V.Integration of a biomechanical simulation for mitral valve reconstruction into a knowledge-based surgery assistance system 2015Proceedings of SPIE Medical Imaging 2015: Image-Guided Procedures, Robotic Interventions, and Modeling inproceedings 
BibTeX:
@inproceedings{SchochSPIE2015,
  author = {Nicolai Schoch and Sandy Engelhardt and Norbert Zimmermann and Stefanie Speidel and Raffaele De Simone and Ivo Wolf and Vincent Heuveline},
  title = {Integration of a biomechanical simulation for mitral valve reconstruction into a knowledge-based surgery assistance system},
  booktitle = {Proceedings of SPIE Medical Imaging 2015: Image-Guided Procedures, Robotic Interventions, and Modeling},
  year = {2015}
}
Schoch, N., Kißler, F., Stoll, M., Engelhardt, S., de Simone, R., Wolf, I., Bendl, R. and Heuveline, V.Comprehensive Pre- & Post-Processing for Numerical Simulations in Cardiac Surgery Assistance 2015EMCL Preprint Series misc 
BibTeX:
@misc{Schoch2015,
  author = {Schoch, Nicolai and Kißler, Fabian and Stoll, Markus and Engelhardt, Sandy and de Simone, Raffaele and Wolf, Ivo and Bendl, Rolf and Heuveline, Vincent},
  title = {Comprehensive Pre- & Post-Processing for Numerical Simulations in Cardiac Surgery Assistance},
  year = {2015}
}
Vincze, M., Borchert, S., Achatz, U., von Larcher, T., Baumann, M., Liersch, C., Remmler, S., Beck, T., Alexandrov, K.D., Egbers, C., Fröhlich, J., Heuveline, V., Hickel, S. and Harlander, U.Benchmarking in a rotating annulus: a comparative experimental and numerical study of baroclinic wave dynamics 2015Meteorologische Zeitschrift
Vol. 23(6), pp. 611-635 
articleURL 
BibTeX:
@article{vincze2015,
  author = {Vincze, Miklos and Borchert, Sebastian and Achatz, Ulrich and von Larcher, Thomas and Baumann, Martin and Liersch, Claudia and Remmler, Sebastian and Beck, Teresa and Alexandrov, Kiril D. and Egbers, Christoph and Fröhlich, Jochen and Heuveline, Vincent and Hickel, Stefan and Harlander, Uwe},
  title = {Benchmarking in a rotating annulus: a comparative experimental and numerical study of baroclinic wave dynamics},
  journal = {Meteorologische Zeitschrift},
  publisher = {Schweizerbart Science Publishers},
  year = {2015},
  volume = {23},
  number = {6},
  pages = {611-635},
  url = {http://dx.doi.org/10.1127/metz/2014/0600}
}
Wlotzka, M. and Heuveline, V.Block-asynchronous and Jacobi smoothers for a multigrid solver on GPU-accelerated HPC clusters 2015Preprint Series of the Engineering Mathematics and Computing Lab(03) article 
BibTeX:
@article{Wlotzka2015a,
  author = {Martin Wlotzka and Vincent Heuveline},
  title = {Block-asynchronous and Jacobi smoothers for a multigrid solver on GPU-accelerated HPC clusters},
  journal = {Preprint Series of the Engineering Mathematics and Computing Lab},
  year = {2015},
  number = {03}
}
Wlotzka, M. and Heuveline, V.Energy-aware mixed precision iterative refinement for linear systems on GPU-accelerated multi-node clusters 2015Proccedings of the 26th GI/ITG Workshop on Parallel Algorithms, Computer Architectures, and System Software inproceedings 
Abstract: Modern high-performance computing systems are often built as a cluster of interconnected compute nodes, where each node is built upon a hybrid hardware stack of multi-core processors and many-core accelerators. To efficiently use such systems, numerical methods must embrace the different levels of parallelism from the coarse-grained distributed memory cluster level to the fine-grained shared memory node level parallelism. Synchronization requirements of numerical methods may diminish parallel performance and result in increased energy consumption. We investigate block-asynchronous iteration methods in combination with mixed precision iterative refinement to address this issue. We depict our implementation for multi-node distributed systems using MPI with a hybrid node level parallelization for multi-core CPUs using OpenMP and multiple CUDA-capable accelerators. Our numerical experiments are based on a linear system arising from the finite element discretization of the Poisson equation. We present energy and runtime measurements for a quad-CPU and dual-GPU test system. We achieve temendous runtime and energy savings for block-asynchronous GPU-accelerated iteration using mixed precision compared to CPU-only computation. We also encounter configurations where the CPU-only computation is advantageous over the GPU-accelerated method.
BibTeX:
@inproceedings{Wlotzka2015,
  author = {M. Wlotzka and V. Heuveline},
  title = {Energy-aware mixed precision iterative refinement for linear systems on GPU-accelerated multi-node clusters},
  booktitle = {Proccedings of the 26th GI/ITG Workshop on Parallel Algorithms, Computer Architectures, and System Software},
  year = {2015}
}
Wlotzka, M., Malossi, A., Heuveline, V. and Bekas, C.Power and Energy Characterization of Finite Element Matrices on IBM Power 2015ICT-Energy Letters
Vol. 10 
article 
Bauer, W., Baumann, M., Scheck, L., Gassmann, A., Heuveline, V. and Jones, S.Simulation of tropical-cyclone-like vortices in shallow-water ICON-hex using goal-oriented r-adaptivity 2014Theoretical and Computational Fluid Dynamics
Vol. 28(1), pp. 107-128 
articleDOIURL 
Abstract: We demonstrate how efficient r-adapted grids for the prediction of tropical cyclone (TC) tracks can be constructed with the help of goal-oriented error estimates. The binary interaction of TCs in a barotropic model is used as a test case. We perform a linear sensitivity analysis for this problem to evaluate the contribution of each grid cell to an error measure correlated with the cyclone positions. This information allows us to estimate the local grid resolution required to minimize the TC position error. An algorithm involving the solution of a Poisson problem is employed to compute how grid points should be moved such that the desired local resolution is achieved. A hexagonal shallow-water version of the next-generation numerical weather prediction and climate model ICON is used to perform model runs on these adapted grids. The results show that for adequately chosen grid adaptation parameters, the accuracy of the track prediction can be maintained even when a coarser grid is used in regions for which the estimated error contribution is low. Accurate track predictions are obtained only when a grid with high resolution consisting of cells with nearly constant size and regular shape covers the part of the domain where the estimated error contribution is large. The number of grid points required to achieve a certain accuracy in the track prediction can be decreased substantially with our approach.
BibTeX:
@article{Bauer2014,
  author = {Bauer, Werner and Baumann, Martin and Scheck, Leonhard and Gassmann, Almut and Heuveline, Vincent and Jones, SarahC.},
  title = {Simulation of tropical-cyclone-like vortices in shallow-water ICON-hex using goal-oriented r-adaptivity},
  journal = {Theoretical and Computational Fluid Dynamics},
  publisher = {Springer Berlin Heidelberg},
  year = {2014},
  volume = {28},
  number = {1},
  pages = {107-128},
  url = {http://dx.doi.org/10.1007/s00162-013-0303-4},
  doi = {http://doi.org/10.1007/s00162-013-0303-4}
}
Song, C., Stavaker, K., Wlotzka, M., Fritzson, P. and Heuveline, V.PDE Modeling with Modelica via FMI Import of HiFlow3 C++ Components with Parallel Multi-Core Simulations 2014Proceedings of the 55th SIMS Conference on Modeling and Simulation inproceedings 
BibTeX:
@inproceedings{Song2014,
  author = {Song, Chen and Stavaker, Kristian and Wlotzka, Martin and Fritzson, Peter and Heuveline, Vincent},
  title = {PDE Modeling with Modelica via FMI Import of HiFlow3 C++ Components with Parallel Multi-Core Simulations},
  booktitle = {Proceedings of the 55th SIMS Conference on Modeling and Simulation},
  year = {2014}
}
Wlotzka, M. and Heuveline, V.A parallel solution scheme for multiphysics evolution problems using OpenPALM 2014EMCL Preprint Series misc 
BibTeX:
@misc{Wlotzka2014,
  author = {Wlotzka, Martin and Heuveline, Vincent},
  title = {A parallel solution scheme for multiphysics evolution problems using OpenPALM},
  year = {2014}
}
Stavaker, K., Ronnas, S., Wlotzka, M., Heuveline, V. and Fritzson, P.PDE Modeling with Modelica via FMI Import of HiFlow3 C++ Components 2013Proceedings of the 54th SIMS Conference on Modeling and Simulation inproceedings 
BibTeX:
@inproceedings{Stavaker2013,
  author = {Stavaker, Kristian and Ronnas, Staffan and Wlotzka, Martin and Heuveline, Vincent and Fritzson, Peter},
  title = {PDE Modeling with Modelica via FMI Import of HiFlow3 C++ Components},
  booktitle = {Proceedings of the 54th SIMS Conference on Modeling and Simulation},
  year = {2013}
}
Anzt, H., Augustin, W., Baumann, M., Gengenbach, T., Hahn, T., Helfrich-Schkarbanenko, A., Heuveline, V., Ketelaer, E., Lukarski, D., Nestler, A., Ritterbusch, S., Ronnas, S., Schick, M., Schmidtobreick, M., Subramanian, C., Weiss, J.-P., Wilhelm, F. and Wlotzka, M.HiFlow3: A Hardware-Aware Parallel Finite Element Package 2012Tools for High Performance Computing 2011, pp. 139-151 incollectionDOIURL 
BibTeX:
@incollection{hiflowtools,
  author = {Anzt, H. and Augustin, W. and Baumann, M. and Gengenbach, T. and Hahn, T. and Helfrich-Schkarbanenko, A. and Heuveline, V. and Ketelaer, E. and Lukarski, D. and Nestler, A. and Ritterbusch, S. and Ronnas, S. and Schick, M. and Schmidtobreick, M. and Subramanian, C. and Weiss, J.-P. and Wilhelm, F. and Wlotzka, M.},
  title = {HiFlow3: A Hardware-Aware Parallel Finite Element Package},
  booktitle = {Tools for High Performance Computing 2011},
  publisher = {Springer Berlin Heidelberg},
  year = {2012},
  pages = {139-151},
  url = {http://dx.doi.org/10.1007/978-3-642-31476-6_12},
  doi = {http://doi.org/10.1007/978-3-642-31476-6_12}
}
Barz, D.P.J., Bockelmann, H. and Heuveline, V.Electrokinetic optimization of a micromixer for lab-on-chip applications 2012EMCL Preprint Series(02)EMCL Preprint Series miscURL 
Abstract: This paper is concerned with the optimization of an electrokinetic micromixer suitable for Lab-on-Chip and other microfluidic applications. The mixing concept is based on the combination of an alternating electrical excitation applied to a pressure-driven base flow in a meandering microchannel geometry. The electrical excitation induces a secondary electrokinetic velocity component which results in a complex flow field within the meander bends. A mathematical model describing the physicochemical phenomena present within the micromixer is implemented in an in-house Finite-Element-Method code. We first perform simulations comparable to experiments concerned with the investigation of the flow field in the bends. The comparison of simulation and experiment reveals excellent agreement. Hence, the validated model and numerical schemes are employed for a numerical optimization of the micromixer performance. In detail, we optimize the secondary electrokinetic flow by finding the best electrical excitation parameters, i.e. frequency and amplitude, for a given waveform. The simulation results of two optimized electrical excitations featuring a discrete and a continuous waveform are compared and discussed. The results demonstrate that the micromixer is able to achieve high mixing degrees very rapidly.
Baumann, M., Heuveline, V., Scheck, L. and Jones, S.C.Construction of Economical Meshes for Tropical Cyclone Forecasting 201230th Conference on Hurricanes and Tropical Meteorology inproceedings 
BibTeX:
@inproceedings{Baumann_AMS_TC_Conference2012,
  author = {Baumann, M. and Heuveline, V. and Scheck, L. and Jones, S. C.},
  title = {Construction of Economical Meshes for Tropical Cyclone Forecasting},
  booktitle = {30th Conference on Hurricanes and Tropical Meteorology},
  year = {2012}
}
Heuveline, V. and Chandramowli, S.The Coffee-table Book of Pseudospectra 2012EMCL Preprint Series(03)EMCL Preprint Series miscURL 
BibTeX:
@misc{emcl-preprint-2012-03,
  author = {Heuveline, Vincent and Chandramowli, Subramanian},
  title = {The Coffee-table Book of Pseudospectra},
  journal = {EMCL Preprint Series},
  year = {2012},
  number = {03},
  url = {fileadmin/images/Publications/Preprints/emcl-preprint-2012-03.pdf}
}
Heuveline, V., Ketelaer, E., Ronnas, S., Schmidtobreick, M. and Wlotzka, M.Scalability Study of HiFlow3 based on a Fluid Flow Channel Benchmark 2012EMCL Preprint Series(05)EMCL Preprint Series miscURL 
Abstract: Exploiting the compute power of high performance computing clusters efficiently is a key ingredient in order to solve large, fully coupled systems modeled by partial differential equations with high accuracy. We study strong and weak scalability properties of the parallel Finite Element software package HiFlow3 for a challenging instationary 3D fluid flow problem. For this benchmark study, we ran several simulations with up to 10 millions of unknowns using up to 512 cores on the bwGRiD cluster in Karlsruhe. For large problem sizes, the software package showed good characteristics regarding efficiency and speedup.
BibTeX:
@misc{emcl-preprint-2012-05,
  author = {Heuveline, Vincent and Ketelaer, Eva and Ronnas, Staffan and Schmidtobreick, Mareike and Wlotzka, Martin},
  title = {Scalability Study of HiFlow3 based on a Fluid Flow Channel Benchmark},
  journal = {EMCL Preprint Series},
  year = {2012},
  number = {05},
  url = {fileadmin/images/Publications/Preprints/emcl-preprint-2012-05.pdf}
}
Ronnas, S., Gengenbach, T., Ketelaer, E. and Heuveline, V.Design and Implementation of Distributed Meshes in HiFlow3 2012Competence in High Performance Computing 2010, pp. 61-71 incollectionURL 
BibTeX:
@incollection{Ronnas2011,
  author = {Ronnas, Staffan and Gengenbach, Thomas and Ketelaer, Eva and Heuveline, Vincent},
  title = {Design and Implementation of Distributed Meshes in HiFlow3},
  booktitle = {Competence in High Performance Computing 2010},
  publisher = {Springer Berlin Heidelberg},
  year = {2012},
  pages = {61-71},
  note = {10.1007/978-3-642-24025-6_6},
  url = {http://dx.doi.org/10.1007/978-3-642-24025-6_6}
}
Anzt, H., Augustin, W., Baumann, M., Gengenbach, T., Hahn, T., Helfrich-Schkarbanenko, A., Heuveline, V., Ketelaer, E., Lukarski, D., Nestler, A., Ritterbusch, S., Rocker, B., Ronnås, S., Schick, M., Schmidtobreick, M., Subramanian, C., Weiss, J.-P., Wilhelm, F. and Wlotzka, M.HiFlow3 – A Multi-Purpose and Flexible Parallel Finite Element Package 2011Open Source CFD International Conference, pp. 1-15 inproceedings 
BibTeX:
@inproceedings{HiFlow3OSCIC2011,
  author = {Anzt, Hartwig and Augustin, Werner and Baumann, Martin and Gengenbach, Thomas and Hahn, Tobias and Helfrich-Schkarbanenko, Andreas and Heuveline, Vincent and Ketelaer, Eva and Lukarski, Dimitar and Nestler, Andrea and Ritterbusch, Sebastian and Rocker, Bjoern and Ronnås, Staffan and Schick, Michael and Schmidtobreick, Mareieke and Subramanian, Chandramowli and Weiss, Jan-Philipp and Wilhelm, Florian and Wlotzka, Martin},
  title = {HiFlow3 – A Multi-Purpose and Flexible Parallel Finite Element Package},
  booktitle = {Open Source CFD International Conference},
  year = {2011},
  pages = {1-15},
  note = {OSCIC 2011 Open Source CFD International Conference in Paris Chantilly}
}
Anzt, H., Dongarra, J., Gates, M. and Tomov, S.Block-asynchronous multigrid smoothers for GPU-accelerated systems 2011EMCL Preprint Series(15)EMCL Preprint Series miscURL 
Abstract: This paper explores the need for asynchronous iteration algorithms as smoothers in multigrid methods. The hardware target for the new algorithms is top-of-the-line, highly parallel hybrid architectures -- multicore-based systems enhanced with GPGPUs. These architectures are the most likely candidates for future high-end supercomputers. To pave the road for their efficient use, challenges related to the established notion that "data movement, not FLOPS, is the bottleneck to performance" must be resolved. Our work is in this direction -- we designed block-asynchronous multigrid smoothers that perform more flops in order to reduce synchronization, and hence data movement. We show that the extra flops are done for "free", while synchronization is reduced and the convergence properties of multigrid with classical smoothers like Gauss-Seidel are preserved.
BibTeX:
@misc{emcl-preprint-2011-15,
  author = {Anzt, Hartwig and Dongarra, Jack and Gates, Mark and Tomov, Stanimire},
  title = {Block-asynchronous multigrid smoothers for GPU-accelerated systems},
  journal = {EMCL Preprint Series},
  year = {2011},
  number = {15},
  url = {fileadmin/images/Publications/Preprints/emcl-preprint-2011-15.pdf}
}
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