Publications

[Extracted from DiVA, the publication database at KTH.]

Atzori, M.; Köpp, W.; Chien, W.; Massaro, D.; Mallor, F.; Peplinski, A.; Rezaei, M.; Jansson, N.; Markidis, S.; Vinuesa, R.; Laure, E.; Schlatter, P.; Weinkauf, T. (2021):
In-situ visualization of large-scale turbulence simulations in Nek5000 with ParaView Catalyst.
Report [Details]
Marco, K.; Gong, J.; Axner, L.; Laure, E.; Jan, N. (2020):
GPU-acceleration of A High Order Finite Difference Code Using Curvilinear Coordinates.
[Conference paper] the 2020 International Conference on Computing, Networks and Internet of Things; Proceedings of the 2020 International Conference on Computing, Networks and Internet of Things 41-47 [Details]
Ahmed, L.; Alogheli, H.; McShane, S.; Alvarsson, J.; Berg, A.; Larsson, A.; Schaal, W.; Laure, E.; Spjuth, O. (2020):
Predicting target profiles with confidence as a service using docking scores.
Journal of Cheminformatics 12: [Details]
Narasimhamurthy, S.; Danilov, N.; Wu, S.; Umanesan, G.; Markidis, S.; Rivas-Gomez, S.; Peng, I.; Laure, E.; Pleiter, D.; de Witt, S. (2019):
SAGE - Percipient Storage for Exascale Data Centric Computing.
Parallel Computing 83: 22-33 [Details]
Simmendinger, C.; Iakymchuk, R.; Cebamanos, L.; Akhmetova, D.; Bartsch, V.; Rotaru, T.; Rahn, M.; Laure, E.; Markidis, S. (2019):
Interoperability strategies for GASPI and MPI in large-scale scientific applications.
The international journal of high performance computing applications 33: 554-568 [Details]
Otero, E.; Gong, J.; Min, M.; Fischer, P.; Schlatter, P.; Laure, E. (2019):
OpenACC acceleration for the PN-PN-2 algorithm in Nek5000.
Journal of Parallel and Distributed Computing 132: 69-78 [Details]
Rivas Gomez, S.; Markidis, S.; Laure, E.; Brabazon, K.; Perks, O.; Narasimhamurthy, S. (2019):
Decoupled Strategy for Imbalanced Workloads in MapReduce Frameworks.
[Conference paper] 20th International Conference on High Performance Computing and Communications, 16th IEEE International Conference on Smart City and 4th IEEE International Conference on Data Science and Systems, HPCC/SmartCity/DSS 2018, 28 June 2018 through 30 June 2018; Proceedings - 20th International Conference on High Performance Computing and Communications, 16th International Conference on Smart City and 4th International Conference on Data Science and Systems, HPCC/SmartCity/DSS 2018 921-927 [Details]
Souza, A.; Rezaei, M.; Laure, E.; Tordsson, J. (2019):
Hybrid Resource Management for HPC and Data Intensive Workloads.
[Conference paper] 19th Annual IEEE/ACM International Symposium on Cluster, Cloud, and Grid Computing (CCGRID), MAY 14-17, 2019, Larnaca, CYPRUS; 2019 19TH IEEE/ACM INTERNATIONAL SYMPOSIUM ON CLUSTER, CLOUD AND GRID COMPUTING (CCGRID) 399-409 [Details]
Sishtla, C.; Olshevsky, V.; Chien, W.; Markidis, S.; Laure, E. (2019):
Particle-in-Cell Simulations of Plasma Dynamics in Cometary Environment.
[Conference paper] 13th International Conference on Numerical Modeling of Space Plasma Flows, ASTRONUM 2018; Panama City Beach; United States; 25 June 2018 through 29 June 2018; Journal of Physics [Details]
O'Donncha, F.; Iakymchuk, R.; Akhriev, A.; Gschwandtner, P.; Thoman, P.; Heller, T.; Aguilar, X.; Dichev, K.; Gillan, C.; Markidis, S.; Laure, E.; Ragnoli, E.; Vassiliadis, V.; Johnston, M.; Jordan, H.; Fahringer, T. (2019):
AllScale toolchain pilot applications - PDE based solvers using a parallel development environment.
Computer Physics Communications : [Details]
Chien, S.; Markidis, S.; Olshevsky, V.; Bulatov, Y.; Laure, E.; Vetter, J. (2019):
TensorFlow Doing HPC An Evaluation of TensorFlow Performance in HPC Applications.
[Conference paper] 33rd IEEE International Parallel and Distributed Processing Symposium (IPDPS), MAY 20-24, 2019, Rio de Janeiro, BRAZIL; 2019 IEEE International Parallel and Distributed Processing Symposium Workshops (IPDPSW) 509-518 [Details]
Laure, E.; Eriksson, O.; Lindahl, E.; Henningson, D. (2019):
The future of swedish e-science - Serc 2.0.
[Conference paper] 15th IEEE International Conference on eScience, eScience 2019, 24-27 September 2019, San Diego, United States; Proceedings - IEEE 15th International Conference on eScience, eScience 2019 413-420 [Details]
Otero, E.; Vinuesa, R.; Schlatter, P.; Marin, O.; Siegel, A.; Laure, E. (2019):
The effect of lossy data compression in computational fluid dynamics applications - Resilience and data postprocessing.
Chapter in book [Details]
Aguilar, X.; Jordan, H.; Heller, T.; Hirsch, A.; Fahringer, T.; Laure, E. (2019):
An On-Line Performance Introspection Framework for Task-Based Runtime Systems.
[Conference paper] 19th International Conference on Computational Science, ICCS 2019, Faro, Portugal, 12-14 June 2019; 19th International Conference on Computational Science, ICCS 2019 238-252 [Details]
Sishtla, C.; Chien, W.; Olshevsky, V.; Laure, E.; Markidis, S. (2019):
Multi-GPU acceleration of the iPIC3D implicit particle-in-cell code.
[Conference paper] 19th International Conference on Computational Science, ICCS 2019, Faro, Portugal, 12-14 June 2019; Proceedings Computational Science - ICCS 2019 - 19th International Conference, Faro, Portugal, June 12-14, 2019, Proceedings, Part V 612-618 [Details]
Ahmed, L.; Georgiev, V.; Capuccini, M.; Toor, S.; Schaal, W.; Laure, E.; Spjuth, O. (2018):
Efficient iterative virtual screening with Apache Spark and conformal prediction.
Journal of Cheminformatics 10: [Details]
Otero, E.; Gong, J.; Min, M.; Fischer, P.; Schlatter, P.; Laure, E. (2018):
OpenACC accelerator for the Pn-Pn-2 algorithm in Nek5000.
[Conference paper] The 5th International Conference on Exascale Applications and Software, 17th to 19th April 2018 in Edinburgh, Scotland; Proceedings of the 5th International Conference on Exascale Applications and Software [Details]
Peng, I.; Gioiosa, R.; Kestor, G.; Vetter, J.; Cicotti, P.; Laure, E.; Markidis, S. (2018):
Characterizing the performance benefit of hybrid memory system for HPC applications.
Parallel Computing 76: 57-69 [Details]
Thoman, P.; Hasanov, K.; Dichev, K.; Iakymchuk, R.; Aguilar, X.; Gschwandtner, P.; Lemarinier, P.; Markidis, S.; Jordan, H.; Laure, E.; Katrinis, K.; Nikolopoulos, D.; Fahringer, T. (2018):
A Taxonomy of Task-Based Technologies for High-Performance Computing.
[Conference paper] 12th International Conference on Parallel Processing and Applied Mathematics (PPAM), SEP 10-13, 2017, Lublin, POLAND; PARALLEL PROCESSING AND APPLIED MATHEMATICS (PPAM 2017), PT II 264-274 [Details]
Akhmetova, D.; Cebamanos, L.; Iakymchuk, R.; Rotaru, T.; Rahn, M.; Markidis, S.; Laure, E.; Bartsch, V.; Simmendinger, C. (2018):
Interoperability of GASPI and MPI in large scale scientific applications.
[Conference paper] 10 September 2017 through 13 September 2017; 12th International Conference on Parallel Processing and Applied Mathematics, PPAM 2017 277-287 [Details]
Chien, S.; Markidis, S.; Sishtla, C.; Santos, L.; Herman, P.; Nrasimhamurthy, S.; Laure, E. (2018):
Characterizing Deep-Learning I/O Workloads in TensorFlow.
[Conference paper] 3rd IEEE/ACM Joint International Workshop on Parallel Data Storage and Data Intensive Scalable Computing Systems, PDSW-DISCS 2018; Dallas; United States; 12 November 2018; Proceedings of PDSW-DISCS 2018: 3rd Joint International Workshop on Parallel Data Storage and Data Intensive Scalable Computing Systems, Held in conjunction with SC 2018: The International Conference for High Performance Computing, Networking, Storage and Analysis 54-63 [Details]
Al Ahad, M.; Simmendinger, C.; Iakymchuk, R.; Laure, E.; Markidis, S. (2018):
Efficient Algorithms for Collective Operations with Notified Communication in Shared Windows.
[Conference paper] 2018 IEEE/ACM PARALLEL APPLICATIONS WORKSHOP, ALTERNATIVES TO MPI (PAW-ATM); PROCEEDINGS OF PAW-ATM18 1-10 [Details]
Markidis, S.; Olshevsky, V.; Sishtla, C.; Chien, S.; Laure, E.; Lapenta, G. (2018):
PolyPIC - The polymorphic-particle-in-cell method for fluid-kinetic coupling.
Frontiers in Physics 6: [Details]
Chien, S.; Sishtla, C.; Markidis, S.; Jun, Z.; Peng, I.; Laure, E. (2018):
An Evaluation of the TensorFlow Programming Model for Solving Traditional HPC Problems.
[Conference paper] International Conference on Exascale Applications and Software; Proceedings of the 5th International Conference on Exascale Applications and Software 34 [Details]
Thoman, P.; Dichev, K.; Heller, T.; Iakymchuk, R.; Aguilar, X.; Hasanov, K.; Gschwandtner, P.; Lemarinier, P.; Markidis, S.; Jordan, H.; Fahringer, T.; Katrinis, K.; Laure, E.; Nikolopoulos, D. (2018):
A taxonomy of task-based parallel programming technologies for high-performance computing.
Journal of Supercomputing 74: 1422-1434 [Details]
Rivas-Gomez, S.; Gioiosa, R.; Peng, I.; Kestor, G.; Narasimhamurthy, S.; Laure, E.; Markidis, S. (2018):
MPI windows on storage for HPC applications.
Parallel Computing 77: 38-56 [Details]
Narasimhamurthy, S.; Danilov, N.; Wu, S.; Umanesan, G.; Chien, S.; Rivas-Gomez, S.; Peng, I.; Laure, E.; De Witt, S.; Pleiter, D.; Markidis, S. (2018):
The SAGE project - A storage centric approach for exascale computing.
[Conference paper] 15th ACM International Conference on Computing Frontiers, CF 2018, Ischia, Italy, 8 May 2018 through 10 May 2018; 2018 ACM International Conference on Computing Frontiers, CF 2018 - Proceedings 287-292 [Details]
Jansson, N.; Laure, E. (2018):
Towards a Parallel Algebraic Multigrid Solver Using PGAS.
[Conference paper] HPC Asia 2018: International Conference on High Performance Computing in Asia-Pacific Region, Tokyo, Japan, 29-31 January 2018; 2018 Workshop on High Performance Computing Asia 31-38 [Details]
Eriksson, O.; Laure, E.; Lindahl, E.; Henningson, D.; Ynnerman, A. (2018):
e-Science in Scandinavia.
Informatik-Spektrum 41: 398-404 [Details]
Markidis, S.; Chien, S.; Laure, E.; Peng, I.; Vetter, J. (2018):
NVIDIA tensor core programmability, performance & precision.
[Conference paper] 32nd IEEE International Parallel and Distributed Processing Symposium Workshops, IPDPSW 2018, Vancouver, Canada, 21 May 2018 through 25 May 2018; Proceedings - 2018 IEEE 32nd International Parallel and Distributed Processing Symposium Workshops, IPDPSW 2018 522-531 [Details]
Rivas-Gomez, S.; Pena, A.; Moloney, D.; Laure, E.; Markidis, S. (2018):
Exploring the vision processing unit as co-processor for inference.
[Conference paper] 32nd IEEE International Parallel and Distributed Processing Symposium Workshops, IPDPSW 2018, Vancouver, Canada, 21 May 2018 through 25 May 2018; Proceedings - 2018 IEEE 32nd International Parallel and Distributed Processing Symposium Workshops, IPDPSW 2018 589-598 [Details]
Capuccini, M.; Ahmed, L.; Schaal, W.; Laure, E.; Spjuth, O. (2017):
Large-scale virtual screening on public cloud resources with Apache Spark.
Journal of Cheminformatics 9: [Details]
Karlsson, A.; Olofsson, N.; Laure, E.; Clements, M. (2017):
A parallel microsimulation package for modelling cancer screening policies.
[Conference paper] 12th IEEE International Conference on e-Science, e-Science 2016, 23 October 2016 through 27 October 2016; Proceedings of the 2016 IEEE 12th International Conference on e-Science, e-Science 2016 323-330 [Details]
Peng, I.; Markidis, S.; Laure, E.; Kestor, G.; Gioiosa, R. (2017):
Idle period propagation in message-passing applications.
[Conference paper] 18th IEEE International Conference on High Performance Computing and Communications, 14th IEEE International Conference on Smart City and 2nd IEEE International Conference on Data Science and Systems, HPCC/SmartCity/DSS 2016, Sydney, Australia, 12 December 2016 through 14 December 2016; Proceedings - 18th IEEE International Conference on High Performance Computing and Communications, 14th IEEE International Conference on Smart City and 2nd IEEE International Conference on Data Science and Systems, HPCC/SmartCity/DSS 2016 937-944 [Details]
Peng, I.; Markidis, S.; Laure, E.; Kestor, G.; Gioiosa, R. (2017):
Exploring Application Performance on Emerging Hybrid-Memory Supercomputers.
[Conference paper] 18th IEEE International Conference on High Performance Computing and Communications, 14th IEEE International Conference on Smart City and 2nd IEEE International Conference on Data Science and Systems, HPCC/SmartCity/DSS 2016, Sydney, Australia, 12 December 2016 through 14 December 2016; Proceedings - 18th IEEE International Conference on High Performance Computing and Communications, 14th IEEE International Conference on Smart City and 2nd IEEE International Conference on Data Science and Systems, HPCC/SmartCity/DSS 2016 473-480 [Details]
Peng, I.; Gioiosa, R.; Kestor, G.; Cicotti, P.; Laure, E.; Markidis, S. (2017):
Exploring the performance benefit of hybrid memory system on HPC environments.
[Conference paper] 31st IEEE International Parallel and Distributed Processing Symposium Workshops, IPDPSW 2017, Orlando, United States, 29 May 2017 through 2 June 2017; Proceedings - 2017 IEEE 31st International Parallel and Distributed Processing Symposium Workshops, IPDPSW 2017 683-692 [Details]
Iakymchuk, R.; Quintana-Orti, E.; Laure, E.; Graillat, S. (2017):
Towards reproducible blocked lu factorization.
[Conference paper] 31st IEEE International Parallel and Distributed Processing Symposium Workshops, IPDPSW 2017, Orlando, United States, 29 May 2017 through 2 June 2017; Proceedings - 2017 IEEE 31st International Parallel and Distributed Processing Symposium Workshops, IPDPSW 2017 1598-1607 [Details]
Akhmetova, D.; Iakymchuk, R.; Ekeberg, Ö.; Laure, E. (2017):
Performance study of multithreaded MPI and Openmp tasking in a large scientific code.
[Conference paper] 31st IEEE International Parallel and Distributed Processing Symposium Workshops, IPDPSW 2017, Orlando, United States, 29 May 2017 through 2 June 2017; Proceedings - 2017 IEEE 31st International Parallel and Distributed Processing Symposium Workshops, IPDPSW 2017 756-765 [Details]
Peng, I.; Gioiosa, R.; Kestor, G.; Laure, E.; Markidis, S. (2017):
Preparing HPC Applications for the Exascale Era: A Decoupling Strategy.
[Conference paper] 46th International Conference on Parallel Processing, ICPP 2017, Bristol, United Kingdom, 14 August 2017 through 17 August 2017; 2017 46th International Conference on Parallel Processing (ICPP) 1-10 [Details]
Peng, I.; Markidis, S.; Gioiosa, R.; Kestor, G.; Laure, E. (2017):
MPI Streams for HPC Applications.
[Conference paper] International Research Workshop on Advanced High Performance Computing Systems, JUL, 2016, Cetraro, ITALY; New Frontiers in High Performance Computing and Big Data 75-92 [Details]
Peng, I.; Gioiosa, R.; Kestor, G.; Cicotti, P.; Laure, E.; Markidis, S. (2017):
RTHMS - A Tool for Data Placement on Hybrid Memory System.
[Conference paper] ACM SIGPLAN International Symposium on Memory Management (ISMM), JUN 18, 2017, Barcelona, SPAIN; ACM SIGPLAN NOTICES 82-91 [Details]
Gong, J.; Markidis, S.; Laure, E.; Otten, M.; Fischer, P.; Min, M. (2016):
Nekbone performance on GPUs with OpenACC and CUDA Fortran implementations.
Journal of Supercomputing 72: 4160-4180 [Details]
Iakymchuk, R.; Jordan, H.; Bo Peng, I.; Markidis, S.; Laure, E. (2016):
A Particle-in-Cell Method for Automatic Load-Balancing with the AllScale Environment.
[Conference paper] The Exascale Applications & Software Conference (EASC2016); [Details]
Markidis, S.; Peng, I.; Larsson Träff, J.; Rougier, A.; Bartsch, V.; Machado, R.; Rahn, M.; Hart, A.; Holmes, D.; Bull, M.; Laure, E. (2016):
The EPiGRAM Project - Preparing Parallel Programming Models for Exascale.
[Conference paper] International Supercomputing Conference (ISC High Performance), JUN 19-23, 2016, Frankfurt, GERMANY; HIGH PERFORMANCE COMPUTING, ISC HIGH PERFORMANCE 2016 INTERNATIONAL WORKSHOPS 56-68 [Details]
Bessani, A.; Brandt, J.; Bux, M.; Cogo, V.; Dimitrova, L.; Dowling, J.; Gholami, A.; Hakimzadeh, K.; Hummel, M.; Ismail, M.; Laure, E.; Leser, U.; Litton, J.; Martinez, R.; Niazi, S.; Reichel, J.; Zimmermann, K. (2016):
BiobankCloud - A platform for the secure storage, sharing, and processing of large biomedical data sets.
[Conference paper] 31 August 2015 through 4 September 2015; 1st International Workshop on Data Management and Analytics for Medicine and Healthcare, DMAH 2015 and Workshop on Big-Graphs Online Querying, Big-O(Q) 2015 held in conjunction with 41st International Conference on Very Large Data Bases, VLDB 2015 89-105 [Details]
Ahmed, L.; Edlund, Å.; Laure, E.; Whitmarsh, S. (2016):
Parallel real time seizure detection in large EEG data.
[Conference paper] International Conference on Internet of Things and Big Data, IoTBD 2016, Rome, Italy, 23 April 2016 through 25 April 2016; IoTBD 2016 - Proceedings of the International Conference on Internet of Things and Big Data 214-222 [Details]
Markidis, S.; Peng, I.; Iakymchuk, R.; Laure, E.; Kestor, G.; Gioiosa, R. (2016):
A performance characterization of streaming computing on supercomputers.
[Conference paper] International Conference on Computational Science, ICCS 2016, 6 June 2016 through 8 June 2016; Procedia Computer Science 98-107 [Details]
Aguilar, X.; Fürlinger, K.; Laure, E. (2016):
Online MPI trace compression using event flow graphs and wavelets.
[Conference paper] International Conference on Computational Science, ICCS 2016, 6 June 2016 through 8 June 2016; Procedia Computer Science 1497-1506 [Details]
Akhmetova, D.; Kestor, G.; Gioiosa, R.; Markidis, S.; Laure, E. (2015):
On the application task granularity and the interplay with the scheduling overhead in many-core shared memory systems.
[Conference paper] IEEE International Conference on Cluster Computing, CLUSTER 2015, 8 September 2015 through 11 September 2015; Proceedings - IEEE International Conference on Cluster Computing, ICCC 428-437 [Details]
Ivanov, I.; Machado, R.; Rahn, M.; Akhmetova, D.; Laure, E.; Gong, J.; Schlatter, P.; Henningson, D.; Fischer, P.; Markidis, S. (2015):
Evaluating New Communication Models in the Nek5000 Code for Exascale.
[Conference paper] EASC2015; [Details]

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