Publications

2020

• C. Weinhold, A. Lackorzynski, J. Bierbaum, M. Küttler, M. Planeta, H. Weisbach, M. Hille, H. Härtig, A. Margolin, D. Sharf, E. Levy, P. Gak, A. Barak, M. Gholami, F. Schintke, T. Schütt, A. Reinefeld, M. Lieber and W.E. Nagel, FFMK: A Fast and Fault-Tolerant Microkernel-Based System for Exascale Computing, in Proc. of SPPEXA Final Symposium 2019, "Software for Exascale Computing - SPPEXA 2016-2019", pp. 483-516, Springer, 2020 (doi:10.1007/978-3-030-47956-5_16)

2018

• I. Huismann, M. Lieber, J. Stiller, J. Fröhlich, Load Balancing for CPU-GPU Coupling in Computational Fluid Dynamics, in "Parallel Processing and Applied Mathematics", Proc. PPAM 2017, LNCS, vol. 10777, Springer, 2018 (doi:10.1007/978-3-319-78024-5_30)
• M. Lieber and W.E. Nagel, Highly scalable SFC-based dynamic load balancing and its application to atmospheric modeling, Future Generation Computer Systems, vol. 82, pp. 575-590, 2018 (doi:10.1016/j.future.2017.04.042, post-print version)
• J. Castrillon, M. Lieber, S. Klüppelholz, M. Völp, N. Asmussen, U. Aßmann, F. Baader, C. Baier, G. Fettweis, J. Fröhlich, A. Goens, S. Haas, D. Habich, H. Härtig, M. Hasler, I. Huismann, T. Karnagel, S. Karol, A. Kumar, W. Lehner, L. Leuschner, S. Ling, S. Märcker, C. Menard, J. Mey, W.E. Nagel, B. Nöthen, R. Peñaloza, M. Raitza, J. Stiller, A. Ungethüm, A. Voigt, S. Wunderlich, A Hardware/Software Stack for Heterogeneous Systems, IEEE Transactions on Multi-Scale Computing Systems, vol. 4, no. 3, pp. 243-259, 2018 (doi:10.1109/TMSCS.2017.2771750, full paper)

2017

• J. Castrillon, T.-W. Kuo, H. E. Riel, M. Lieber (Eds.), Wildly Heterogeneous Post-CMOS Technologies Meet Software (Dagstuhl Seminar 17061), Dagstuhl Reports, Vol. 7, Issue 2, 2017 (doi:10.4230/DagRep.7.2.1, Dagstuhl Seminar 17061 homepage)

2016

• M. Völp, S. Klüppelholz, J. Castrillon, H. Härtig, N. Asmussen, U. Aßmann, F. Baader, C. Baier, G. Fettweis, J. Fröhlich, A. Goens, S. Haas, D. Habich, M. Hasler, I. Huismann, T. Karnagel, S. Karol, W. Lehner, L. Leuschner, M. Lieber, S. Ling, S. Märcker, J. Mey, W.E. Nagel, B. Nöthen, R. Peñaloza, M. Raitza, J. Stiller, A. Ungethüm, A. Voigt, The Orchestration Stack: The Impossible Task of Designing Software for Unknown Future Post-CMOS Hardware, in Proc. PMES 2016, 1st Intl. Workshop on Post-Moore's Era Supercomputing at SC16, 2016 (full paper)
• M. Lieber, K. Gößner, W.E. Nagel, The Potential of Diffusive Load Balancing at Large Scale, in Proc. "EuroMPI 2016", pp. 154-157, 2016 (doi:10.1145/2966884.2966887, full paper, presentation)
• M. Weber, R. Geisler, T. Hilbrich, M. Lieber, R. Brendel, R. Tschüter, H. Brunst, W.E. Nagel, Detection and Visualization of Performance Variations to Guide Identification of Application Bottlenecks, in Proc. "PSTI 2016", 45th International Conference on Parallel Processing Workshops (ICPPW), 2016 (doi:10.1109/ICPPW.2016.50)
• C. Weinhold, A. Lackorzynski, J. Bierbaum, M. Küttler, M. Planeta, H. Härtig, A. Shiloh, E. Levy, T. Ben-Nun, A. Barak, T. Steinke, T. Schütt, J. Fajerski, A. Reinefeld, M. Lieber, W.E. Nagel, FFMK: A Fast and Fault-tolerant Microkernel-based System for Exascale Computing, in Proc. of SPPEXA Symposium 2016, "Software for Exascale Computing - SPPEXA 2013-2015", LNCSE Vol. 113, pp. 405-426, 2016 (doi:10.1007/978-3-319-40528-5_18)

2015

• A. Barak, Z. Drezner, E. Levy, M. Lieber, A. Shiloh, Resilient gossip algorithms for collecting online management information in exascale clusters, Concurrency and Computation: Practice and Experience, Vol. 27, Issue 17, pp. 4797-4818, 2015 (doi:10.1002/cpe.3465, pre-print version)

2014

• M. Lieber and W.E. Nagel, Scalable High-Quality 1D Partitioning, in Proceedings of the 2014 International Conference on High Performance Computing and Simulation (HPCS 2014), pp. 112-119, 2014, Outstanding Paper Award (doi:10.1109/HPCSim.2014.6903676, full paper, presentation)
• E. Levy, A. Barak, A. Shiloh, M. Lieber, C. Weinhold, H. Härtig, Overhead of a Decentralized Gossip Algorithm on the Performance of HPC Applications, in "ROSS '14", Proceedings of the 4th International Workshop on Runtime and Operating Systems for Supercomputers, 2014 (doi:10.1145/2612262.2612271, full paper)
• M. Lieber, W.E. Nagel, and H. Mix, Scalability Tuning of the Load Balancing and Coupling Framework FD4, in "NIC Symposium 2014", NIC Series, Vol. 47, pp. 363-370, 2014 (full paper, full proceedings)

2013

• B.J. Haas, A. Papanicolaou, M. Yassour, M. Grabherr, P.D. Blood, J. Bowden, M.B. Couger, D. Eccles, B. Li, M. Lieber, M.D. MacManes, M. Ott, J. Orvis, N. Pochet, F. Strozzi, N. Weeks, R. Westerman, T. William, C.N. Dewey, R. Henschel, R.D. LeDuc, N. Friedman and A. Regev, De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis, Nature Protocols 8, 1494-1512, 2013 (doi:10.1038/nprot.2013.084)

2012

• M. Lieber, Dynamische Lastbalancierung und Modellkopplung zur hochskalierbaren Simulation von Wolkenprozessen, PhD Thesis, Technische Universität Dresden, 2012 (abstract and full text)
• R. Henschel, M. Lieber, L. Wu, P.M. Nista, B.J. Haas, R.D. LeDuc, Trinity RNA-Seq Assembler Performance Optimization, in Proc. of XSEDE '12, "Proceedings of the 1st Conference of the Extreme Science and Engineering Discovery Environment: Bridging from the eXtreme to the campus and beyond", ACM, pp. 45:1-45:8, 2012 (doi:10.1145/2335755.2335842, post-print version)
• M. Lieber, V. Grützun, R. Wolke, M.S. Müller, and W.E. Nagel, Highly Scalable Dynamic Load Balancing in the Atmospheric Modeling System COSMO-SPECS+FD4, in Proc. of PARA 2010, "Applied Parallel and Scientific Computing", LNCS Vol. 7133, pp. 131-141, 2012 (doi:10.1007/978-3-642-28151-8_13, full paper, presentation, The original publication is available at www.springerlink.com)

2010

• M. Lieber, V. Grützun, R. Wolke, M.S. Müller, and W.E. Nagel, FD4: A Framework for Highly Scalable Load Balancing and Coupling of Multiphase Models, in Proc. of ICNAAM 2010, AIP Conference Proceedings 1281(1), 1639-1642, 2010 (doi:10.1063/1.3498143, full paper, presentation)
• M. Lieber, R. Wolke, V. Grützun, M.S. Müller, and W.E. Nagel, A framework for detailed multiphase cloud modeling on HPC systems, in Proc. of ParCo09, "Advances in Parallel Computing", Vol. 19, pp. 281-288, 2010 (doi:10.3233/978-1-60750-530-3-281, full paper, presentation)

2009

• C.A. Stewart, M. Link, D.S. McCaulay, G. Rodgers, G. Turner, D. Hancock, R. Repasky, F. Saied, M. Pierce, R. Aiken, M.S. Müller, M. Jurenz, M. Lieber, J. Tillotson, B. Plale, Implementation, performance, and science results from a 30.7 TFLOPS IBM BladeCenter cluster, Concurrency and Computation: Practice and Experience, Vol. 22, Issue 2, pp. 157-174, 2009 (doi:10.1002/cpe.1539)

2008

• A. Knüpfer, H. Brunst, J. Doleschal, M. Jurenz, M. Lieber, H. Mickler, M.S. Müller and W.E. Nagel, The Vampir Performance Analysis Tool-Set, 2nd Parallel Tools Workshop, HLRS Stuttgart, 2008 (doi:10.1007/978-3-540-68564-7_9)
• M. Lieber and R. Wolke, Optimizing the coupling in parallel air quality model systems, Environmental Modelling & Software, Vol. 23, Issue 2, pp. 235-243, February 2008 (doi:10.1016/j.envsoft.2007.06.007, post-print version)
• M. Müller, A. Knüpfer, M. Jurenz, M. Lieber, H. Brunst, H. Mix and W.E. Nagel, Developing Scalable Applications with Vampir, VampirServer and VampirTrace, in Proc. of ParCo07 "Parallel Computing: Architectures, Algorithms and Applications", Vol. 15, pp. 637-644, 2008 (abstract)

2007

• R. Wolke, M. Lieber, B. Heinold, J. Helmert, W. Schröder, E. Renner, An improved coupling scheme in the parallel modelling system LM-MUSCAT, in "Air Pollution Modeling and its Application XVIII", Developments in Environmental Science, Volume 6, pp. 820-822, Elsevier, 2007 (doi:10.1016/S1474-8177(07)06828-3)

2006

• R. Wolke, B. Heinold, J. Helmert, D. Hinneburg, M. Lieber, E. Renner, W. Schröder and I. Tegen, Modelling of Atmospheric Chemistry Transport Processes, in "NIC Symposium 2006", NIC Series, Vol. 32 (full proceedings)