Publications

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2020
June 		Semi-automatic Assessment of I/O Behavior by Inspecting the Individual Client-Node Timelines -- An Explorative Study on 10^6 Jobs.
Eugen Betke and Julian Kunkel.
High Performance Computing: ISC High Performance 2020 (Lecture Notes in Computer Science).
June PDF UK Community Earth System Modelling for CMIP6.
Catherine A. Senior, Colin G. Jones, Richard A. Wood, Alistair Sellar, Stephen Belcher, Albert Klein‐Tank, Rowan Sutton, Jeremy Walton, Bryan Lawrence, Timothy Andrews, and Jane P. Mulcahy.
Journal of Advances in Modeling Earth Systems.
DOI https://dx.doi.org/10.1029/2019MS002004
May PDF Documenting Numerical Experiments in Support of the Coupled Model Intercomparison Project Phase 6 (CMIP6).
Charlotte Pascoe, Bryan N. Lawrence, Eric Guilyardi, Martin Juckes, and Karl E. Taylor.
Geoscientific Model Development 13(5).
DOI https://dx.doi.org/10.5194/gmd-13-2149-2020
April PDF Developing an Open Data Portal for the ESA Climate Change Initiative.
Philip Kershaw, Kevin Halsall, Bryan N. Lawrence, Victoria Bennett, Steve Donegan, Alan Iwi, Martin Juckes, Eduardo Pechorro, Ruth Petrie, Joe Singleton, Ag Stephens, Alison Waterfall, Antony Wilson, and Alexander Wood.
Data Science Journal.
DOI https://dx.doi.org/10.5334/dsj-2020-016
April High-Performance Techniques for Big Data Processing.
Philipp Neumann and Julian Kunkel.
Chapter in High-Performance Techniques for Big Data Processing.
January PDF The CMIP6 Data Request (DREQ, Version 01.00.31).
Martin Juckes, Karl E. Taylor, Paul J. Durack, Bryan Lawrence, Matthew S. Mizielinski, Alison Pamment, Jean-Yves Peterschmitt, Michel Rixen, and Stéphane Sénési.
Geoscientific Model Development 13(1).
DOI https://dx.doi.org/10.5194/gmd-13-201-2020
January PDF One Year HPC Certification Forum in Retrospective.
Julian Kunkel, Jean-Thomas Acquaviva, Kai Himstedt, Weronika Filinger, Anja Gerbes, and Lev Lafayette.
Journal of Computational Science Education.
DOI https://doi.org/10.22369/issn.2153-4136/11/1/6
January PDF Contributing HPC Skills to the HPC Certification Forum.
Julian Kunkel, Kai Himstedt, Weronika Filinger, Jean-Thomas Acquaviva, Anja Gerbes, and Lev Lafayette.
Journal of Computational Science Education.
DOI https://doi.org/10.22369/issn.2153-4136/11/1/17
PDF The HPC Certification Forum: Toward a Globally Acknowledged HPC Certification.
Julian Kunkel, Weronika Filinger, Christian Meesters, and Anja Gerbes.
Computing in Science and Engineering.
Multigrid preconditioners for the mixed finite element dynamical core of the LFRic atmospheric model.
Christopher Maynard, Thomas Melvin, and Eike Hermann Müller.
Unpublished.
2019
December 		PDF Footprinting Parallel I/O – Machine Learning to Classify Application’s I/O Behavior.
Eugen Betke and Julian Kunkel.
High Performance Computing: ISC High Performance 2019 International Workshops, Frankfurt/Main, Germany, June 16-20, 2019, Revised Selected Papers (Lecture Notes in Computer Science).
DOI https://doi.org/10.1007/978-3-030-34356-9_18
December PDF Scalable Parallelization of Stencils using MODA.
Nabeeh Jumah and Julian Kunkel.
High Performance Computing: ISC High Performance 2019 International Workshops, Frankfurt/Main, Germany, June 16-20, 2019, Revised Selected Papers (Lecture Notes in Computer Science).
DOI https://doi.org/10.1007/978-3-030-34356-9_13
December PDF Tracking User-Perceived I/O Slowdown via Probing.
Julian Kunkel and Eugen Betke.
High Performance Computing: ISC High Performance 2019 International Workshops, Frankfurt/Main, Germany, June 16-20, 2019, Revised Selected Papers (Lecture Notes in Computer Science).
DOI https://doi.org/10.1007/978-3-030-34356-9_15
October PDF Analysis of parallel I/O use on the UK national supercomputing service, ARCHER using Cray's LASSi and EPCC SAFE.
Andrew Turner, Dominic Sloan-Murphy, Karthee Sivalingam, Harvey Richardson, and Julian Kunkel.
CUG.
September PDF What Company Does My News Article Refer to? Tackling Multi Class Problems With Topic Modeling.
Max Lübbering, Julian Kunkel, and Patricio Farrell.
Proceedings of the Conference on "Lernen, Wissen, Daten, Analysen", Berlin, Germany, September 30 - October 2, 2019 (CEUR Workshop Proceedings).
July Optimizing Memory Bandwidth Efficiency with User-Preferred Kernel Merge.
Nabeeh Jumah and Julian Kunkel.
COLOC - Workshop on Data Locality (Lecture Notes in Computer Science).
June PDF Performance Conscious HPC (PeCoH) - 2019.
Kai Himstedt, Nathanael Hübbe, Sandra Schröder, Hendryk Bockelmann, Michael Kuhn, Julian Kunkel, Stephan Olbrich, Thomas Ludwig, Matthias Riebisch, Markus Stammberger, and Hinnerk Stüben.
Unpublished.
June PDF Advanced Computation and I/O Methods for Earth-System Simulations (AIMES).
Nabeeh Jumah, Julian Kunkel, Anastasiia Novikova, Thomas Ludwig, Thomas Dubos, Sunmin Park, Hisashi Yashiro, Günther Zängl, and John Thuburn.
Unpublished.
June PDF International HPC Certification Program.
Julian Kunkel, Kai Himstedt, Weronika Filinger, Jean-Thomas Acquaviva, Lev Lafayette, Anja Gerbes, Waseem Kamleh, and Sharan Kalwan.
Unpublished.
June PDF The Virtual Institute for I/O and the IO-500.
Julian Kunkel, Jay Lofstead, John Bent, and George Markomanolis.
Unpublished.
April PDF A blueprint for the new Strategic Research Agenda for High Performance Computing.
Gabriel Antoniu, Marc Asch, Peter Bauer, Costas Bekas, Pascale Bernier-Bruna, Francois Bodin, Laurent Cargemel, Paul Carpenter, Marc Duranton, Maike Gilliot, Hans-Christian Hoppe, Jens Krueger, Julian Kunkel, Erwin Laure, Jean-Francois Lavignon, Guy Lonsdale, Michael Malms, Fabio Martinelli, Sai Narasimhamurthy, Marcin Ostasz, Maria Perez, Dirk Pleiter, Andrea Reale, and Pascale Rosse-Laurent.
Technical Report ETP4HPC, EXDCI.
April Interference of Billing and Scheduling Strategies for Energy and Cost Savings in Modern Data Centers.
Julian Kunkel, Hayk Shoukourian, Reza Heidari, and Torsten Wilde.
Sustainable Computing: Informatics and Systems.
DOI https://doi.org/10.1016/j.suscom.2019.04.003
February Towards Green Scientific Data Compression Through High-Level I/O Interfaces.
Yevhen Alforov, Anastasiia Novikova, Michael Kuhn, Julian Kunkel, and Thomas Ludwig.
30th International Symposium on Computer Architecture and High Performance Computing.
DOI https://doi.org/10.1109/CAHPC.2018.8645921
February Toward Understanding I/O Behavior in HPC Workflows.
Jakob Lüttgau, Shane Snyder, Philip Carns, Justin M. Wozniak, Julian Kunkel, and Thomas Ludwig.
IEEE/ACM 3rd International Workshop on Parallel Data Storage \& Data Intensive Scalable Computing Systems (PDSW-DISCS).
DOI https://doi.org/10.1109/PDSW-DISCS.2018.00012
January Benefit of DDN's IME-Fuse and IME-Lustre File Systems for I/O Intensive HPC Applications.
Eugen Betke and Julian Kunkel.
High Performance Computing: ISC High Performance 2018 International Workshops, Frankfurt/Main, Germany, June 28, 2018, Revised Selected Papers (Lecture Notes in Computer Science).
DOI https://doi.org/10.1007/978-3-030-02465-9_9
January Performance Portability of Earth System Models with User-Controlled GGDML code Translation.
Nabeeh Jum'ah and Julian Kunkel.
High Performance Computing: ISC High Performance 2018 International Workshops, Frankfurt/Main, Germany, June 28, 2018, Revised Selected Papers (Lecture Notes in Computer Science).
DOI https://doi.org/10.1007/978-3-030-02465-9_50
January Tools for Analyzing Parallel I/O.
Julian Kunkel, Eugen Betke, Matt Bryson, Philip Carns, Rosemary Francis, Wolfgang Frings, Roland Laifer, and Sandra Mendez.
High Performance Computing: ISC High Performance 2018 International Workshops, Frankfurt/Main, Germany, June 28, 2018, Revised Selected Papers (Lecture Notes in Computer Science).
DOI https://doi.org/10.1007/978-3-030-02465-9_4
January PDF Towards an HPC Certification Program.
Julian Kunkel, Kai Himstedt, Nathanael Hübbe, Hinnerk Stüben, Sandra Schröder, Michael Kuhn, Matthias Riebisch, Stephan Olbrich, Thomas Ludwig, Weronika Filinger, Jean-Thomas Acquaviva, Anja Gerbes, and Lev Lafayette.
Journal of Computational Science Education.
DOI https://doi.org/10.22369/issn.2153-4136/10/1/14
January Understanding Metadata Latency with MDWorkbench.
Julian Kunkel and George S. Markomanolis.
High Performance Computing: ISC High Performance 2018 International Workshops, Frankfurt/Main, Germany, June 28, 2018, Revised Selected Papers (Lecture Notes in Computer Science).
DOI https://doi.org/10.1007/978-3-030-02465-9_5
January PDF Beating data bottlenecks in weather and climate science.
Bryan N. Lawrence, Julian Kunkel, Jonathan Churchill, Neil Massey, Philip Kershaw, and Matt Pritchard.
Extreme Data Workshop 2018 (Schriften des Forschungszentrums Jülich IAS Series).
January Cost and Performance Modeling for Earth System Data Management and Beyond.
Jakob Lüttgau and Julian Kunkel.
High Performance Computing: ISC High Performance 2018 International Workshops, Frankfurt/Main, Germany, June 28, 2018, Revised Selected Papers (Lecture Notes in Computer Science).
DOI https://doi.org/10.1007/978-3-030-02465-9_2
PDF LFRic: Meeting the challenges of scalability and performance portability in Weather and Climate models.
S.V. Adams and others.
Journal of Parallel and Distributed Computing.
DOI https://doi.org/10.1016/j.jpdc.2019.02.007
PDF Automatic Vectorization of Stencil Codes with the GGDML Language Extensions.
Nabeeh Jum'ah and Julian Kunkel.
Workshop on Programming Models for SIMD/Vector Processing (WPMVP'19), February 16, 2019, Washington, DC, USA (WPMVP).
DOI https://doi.org/10.1145/3303117.3306160
PDF Mixed-precision arithmetic in the ENDGame dynamical core of the Unified Model, a numerical weather prediction and climate model code.
C.M. Maynard and D.N. Walters.
Computer Physics Communications.
DOI https://doi.org/10.1016/j.cpc.2019.07.002
2018
November 		Comparison of Clang Abstract Syntax Trees using String Kernels.
Raul Torres, Julian Kunkel, Manuel F. Dolz, and Thomas Ludwig.
2018 International Conference on High Performance Computing \& Simulation (HPCS).
DOI https://doi.org/10.1109/HPCS.2018.00032
September PDF LFRic: Meeting the Challenges of Scalability and Performance Portability in Weather and Climate Models.
A. V. Adams, R. W. Ford, M. Hambley, J. M. Hobson, I. Kavcic, C. M. Maynard, T. Melvin, E. H Mueller, S. Mullerworth, A. R. Porter, M. Rezny, B. J. Shipway, and R. Wong.
ArXiv e-prints.
September PDF Requirements for a Global Data Infrastructure in Support of CMIP6.
Venkatramani Balaji, Karl E. Taylor, Martin Juckes, Bryan N. Lawrence, Paul J. Durack, Michael Lautenschlager, Chris Blanton, Luca Cinquini, Sebastien Denvil, Mark Elkington, Francesca Guglielmo, Eric Guilyardi, David Hassell, Slava Kharin, Stefan Kindermann, Sergey Nikonov, Aparna Radhakrishnan, Martina Stockhause, Tobias Weigel, and Dean Williams.
Geoscientific Model Development.
DOI https://dx.doi.org/10.5194/gmd-11-3659-2018
July A Similarity Study of I/O Traces via String Kernels.
Raul Torres, Julian Kunkel, Manuel F. Dolz, and Thomas Ludwig.
The Journal of Supercomputing.
DOI https://doi.org/10.1007/s11227-018-2471-x
June PDF Performance Conscious HPC (PeCoH) - 2018.
Kai Himstedt, Nathanael Hübbe, Sandra Schröder, Hendryk Bockelmann, Michael Kuhn, Julian Kunkel, Thomas Ludwig, Stephan Olbrich, Matthias Riebisch, Markus Stammberger, and Hinnerk Stüben.
Unpublished.
June PDF A user-controlled GGDML Code Translation Technique for Performance Portability of Earth System Models.
Nabeeh Jumah and Julian Kunkel.
Unpublished.
June PDF International HPC Certification Program.
Julian Kunkel, Kai Himstedt, Weronika Filinger, Jean-Thomas Acquaviva, William Jalby, and Lev Lafayette.
Unpublished.
June PDF The Virtual Institute for I/O and the IO-500.
Julian Kunkel, Jay Lofstead, and John Bent.
Unpublished.
June PDF Advanced Computation and I/O Methods for Earth-System Simulations (AIMES).
Julian Kunkel, Thomas Ludwig, Thomas Dubos, Naoya Maruyama, Takayuki Aoki, Günther Zängl, Hisashi Yashiro, Ryuji Yoshida, Hirofumi Tomita, Masaki Satoh, Yann Meurdesoif, Nabeeh Jumah, Anastasiia Novikova, and Anja Gerbes.
Unpublished.
May PDF Crossing the Chasm: How to Develop Weather and Climate Models for next Generation Computers?.
Bryan N. Lawrence, Michael Rezny, Reinhard Budich, Peter Bauer, Jörg Behrens, Mick Carter, Willem Deconinck, Rupert Ford, Christopher Maynard, Steven Mullerworth, Carlos Osuna, Andrew Porter, Kim Serradell, Sophie Valcke, Nils Wedi, and Simon Wilson.
Geoscientific Model Development 11(5).
DOI https://dx.doi.org/10.5194/gmd-11-1799-2018
April PDF Automatic Profiling for Climate Modeling.
Anja Gerbes, Nabeeh Jumah, and Julian Kunkel.
Unpublished.
April PDF A Survey of Storage Systems for High-Performance Computing.
Jakob Lüttgau, Michael Kuhn, Kira Duwe, Yevhen Alforov, Eugen Betke, Julian Kunkel, and Thomas Ludwig.
Supercomputing Frontiers and Innovations.
DOI https://doi.org/10.14529/jsfi180103
2017
December 		PDF Towards Decoupling the Selection of Compression Algorithms from Quality Constraints – an Investigation of Lossy Compression Efficiency.
Julian Kunkel, Anastasiia Novikova, and Eugen Betke.
Supercomputing Frontiers and Innovations.
DOI https://doi.org/10.14529/jsfi170402
November PDF Understanding Hardware and Software Metrics with respect to Power Consumption.
Julian Kunkel and Manuel F. Dolz.
Sustainable Computing: Informatics and Systems.
DOI https://doi.org/10.1016/j.suscom.2017.10.016
November Toward Decoupling the Selection of Compression Algorithms from Quality Constraints.
Julian Kunkel, Anastasia Novikova, and Eugen Betke.
Unpublished.
November PDF Towards Decoupling the Selection of Compression Algorithms from Quality Constraints – An Investigation of Lossy Compression Efficiency.
Julian Martin Kunkel, Anastasiia Novikova, and Eugen Betke.
Supercomputing Frontiers and Innovations 4(4).
DOI https://dx.doi.org/10.14529/jsfi170402
November Towards Structure-Aware Earth System Data Management.
Jakob Luettgau, Julian Kunkel, Bryan N. Lawrence, Sandro Fiore, and Huang Hua.
In 2nd International Workshop on Parallel Data Storage and Data Intensive Scalable Computing Systems (PDSW-DISCS'17).
November Adaptive Tier Selection for NetCDF and HDF5.
Jakob Lüttgau, Eugen Betke, Olga Perevalova, Julian Kunkel, and Michael Kuhn.
Unpublished.
October Icosahedral Modeling with GGDML.
Nabeeh Jumah, Julian Kunkel, Günther Zängl, Hisashi Yashiro, Thomas Dubos, and Yann Meurdesoif.
Unpublished.
June Wissenschaftliches Rechnen - Scientific Computing - 2016.
Yevhen Alforov, Eugen Betke, Konstantinos Chasapis, Anna Fuchs, Fabian Große, Nabeeh Jumah, Michael Kuhn, Julian Kunkel, Hermann Lenhart, Jakob Lüttgau, Philipp Neumann, Anastasiia Novikova, Jannek Squar, and Thomas Ludwig.
Technical Report Research Group: Scientific Computing, University of Hamburg.
June PDF Enhanced Adaptive Compression in Lustre.
Anna Fuchs, Michael Kuhn, Julian Kunkel, and Thomas Ludwig.
Unpublished.
June FortranTestGenerator: Automatic and Flexible Unit Test Generation for Legacy HPC Code.
Christian Hovy and Julian Kunkel.
Unpublished.
June PDF GGDML: Icosahedral Models Language Extensions.
Nabeeh Jumah, Julian Kunkel, Günther Zängl, Hisashi Yashiro, Thomas Dubos, and Yann Meurdesoif.
Journal of Computer Science Technology Updates.
DOI https://doi.org/10.15379/2410-2938.2017.04.01.01
June PDF Towards Performance Portability for Atmospheric and Climate Models with the GGDML DSL.
Nabeeh Jumah, Julian Kunkel, Günther Zängl, Hisashi Yashiro, Thomas Dubos, and Yann Meurdesoif.
Unpublished.
June PDF Performance Conscious HPC (PeCoH).
Julian Kunkel, Michael Kuhn, Thomas Ludwig, Matthias Riebisch, Stephan Olbrich, Hinnerk Stüben, Kai Himstedt, Hendryk Bockelmann, and Markus Stammberger.
Unpublished.
June The Virtual Institute for I/O and the IO-500.
Julian Kunkel, Jay Lofstead, and John Bent.
Unpublished.
June PDF Advanced Computation and I/O Methods for Earth-System Simulations (AIMES).
Julian Kunkel, Thomas Ludwig, Thomas Dubos, Naoya Maruyama, Takayuki Aoki, Günther Zängl, Hisashi Yashiro, Ryuji Yoshida, Hirofumi Tomita, Masaki Satoh, Yann Meurdesoif, Nabeeh Jumah, and Anastasiia Novikova.
Unpublished.
June PDF GGDML: Icosahedral Models Language Extensions.
{Nabeeh Jumah}, {Julian Kunkel}, {Günther Zängel}, {Hisashi Yashiro}, {Thomas Dubos}, and {Yann Meurdesoif}.
Journal of Computer Science Technology Updates 4(1).
DOI https://dx.doi.org/10.15379/2410-2938.2017.04.01.01
May SFS: A Tool for Large Scale Analysis of Compression Characteristics.
Julian Kunkel.
Technical Report 4, Research Group: Scientific Computing, University of Hamburg.
April PDF Interaktiver C-Programmierkurs, ICP.
Julian Kunkel and Jakob Lüttgau.
Chapter in Interaktiver C-Programmierkurs, ICP.
March PDF Intelligent Selection of Compiler Options to Optimize Compile Time and Performance.
Anja Gerbes, Julian Kunkel, and Nabeeh Jumah.
Unpublished.
January CPMIP: Measurements of Real Computational Performance of Earth System Models in CMIP6.
V. Balaji, E. Maisonnave, N. Zadeh, B. N. Lawrence, J. Biercamp, U. Fladrich, G. Aloisio, R. Benson, A. Caubel, J. Durachta, M.-A. Foujols, G. Lister, S. Mocavero, S. Underwood, and G. Wright.
Geosci. Model Dev. 10(1).
DOI https://dx.doi.org/10.5194/gmd-10-19-2017
Real-Time I/O-Monitoring of HPC Applications with SIOX, Elasticsearch, Grafana and FUSE.
Eugen Betke and Julian Kunkel.
High Performance Computing: ISC High Performance 2017 International Workshops, DRBSD, ExaComm, HCPM, HPC-IODC, IWOPH, IXPUG, P^3MA, VHPC, Visualization at Scale, WOPSSS (Lecture Notes in Computer Science).
DOI https://doi.org/10.1007/978-3-319-67630-2
An MPI-IO In-Memory Driver for Non-Volatile Pooled Memory of the Kove XPD.
Julian Kunkel and Eugen Betke.
High Performance Computing: ISC High Performance 2017 International Workshops, DRBSD, ExaComm, HCPM, HPC-IODC, IWOPH, IXPUG, P^3MA, VHPC, Visualization at Scale, WOPSSS (Lecture Notes in Computer Science).
DOI https://doi.org/10.1007/978-3-319-67630-2_48
Toward Decoupling the Selection of Compression Algorithms from Quality Constraints.
Julian Kunkel, Anastasiia Novikova, Eugen Betke, and Armin Schaare.
High Performance Computing: ISC High Performance 2017 International Workshops, DRBSD, ExaComm, HCPM, HPC-IODC, IWOPH, IXPUG, P^3MA, VHPC, Visualization at Scale, WOPSSS (Lecture Notes in Computer Science).
DOI https://doi.org/10.1007/978-3-319-67630-2_1
Simulation of Hierarchical Storage Systems for TCO and QoS.
Jakob Lüttgau and Julian Kunkel.
High Performance Computing: ISC High Performance 2017 International Workshops, DRBSD, ExaComm, HCPM, HPC-IODC, IWOPH, IXPUG, P^3MA, VHPC, Visualization at Scale, WOPSSS (Lecture Notes in Computer Science).
DOI https://doi.org/10.1007/978-3-319-67630-2_12
Evolving JASMIN: High Performance Analysis and the Data Deluge.
Neil Massey, Philip Kershaw, Matt Pritchard, Matt Pryor, Sam Pepler, Jonathan Churchill, and Bryan Lawrence.
Proc. of the 2017 Conference on Big Data from Space (BiDS’17).
DOI https://dx.doi.org/10.2760/383579
A Novel String Representation and Kernel Function for the Comparison of I/O Access Patterns.
Raul Torres, Julian Kunkel, Manuel Dolz, and Thomas Ludwig.
International Conference on Parallel Computing Technologies (Lecture Notes in Computer Science).
DOI https://doi.org/10.1007/978-3-319-62932-2_48
2016
November 		PDF Utilizing In-Memory Storage for MPI-IO.
Julian Kunkel and Eugen Betke.
Unpublished.
November PDF Interaktiver C-Programmierkurs, ICP.
Julian Kunkel and Jakob Lüttgau.
Synergie, Fachmagazin für Digitalisierung in der Lehre.
November PDF Modeling and Simulation of Tape Libraries for Hierarchical Storage Systems.
Jakob Lüttgau and Julian Kunkel.
Unpublished.
October PDF Analyzing Data Properties using Statistical Sampling -- Illustrated on Scientific File Formats.
Julian Kunkel.
Supercomputing Frontiers and Innovations.
DOI https://doi.org/10.14529/jsfi160304
October PDF Predicting I/O Performance in HPC Using Artificial Neural Networks.
Jan Fabian Schmid and Julian Kunkel.
Supercomputing Frontiers and Innovations.
DOI https://doi.org/10.14529/jsfi160303
June PDF Data Compression for Climate Data.
Michael Kuhn, Julian Kunkel, and Thomas Ludwig.
Supercomputing Frontiers and Innovations.
DOI https://doi.org/10.14529/jsfi160105
June Analyzing Data Properties using Statistical Sampling Techniques -- Illustrated on Scientific File Formats and Compression Features.
Julian Kunkel.
High Performance Computing: ISC High Performance 2016 International Workshops, ExaComm, E-MuCoCoS, HPC-IODC, IXPUG, IWOPH, P3MA, VHPC, WOPSSS (Lecture Notes in Computer Science).
DOI https://doi.org/10.1007/978-3-319-46079-6_10
June Analyzing Data Properties using Statistical Sampling Techniques – Illustrated on Scientific File Formats and Compression Features.
Julian Kunkel.
Unpublished.
June Predicting I/O-performance in HPC using Artificial Neural Networks.
Jan Fabian Schmid and Julian Kunkel.
Unpublished.
Towards Automatic and Flexible Unit Test Generation for Legacy HPC Code.
Christian Hovy and Julian Kunkel.
Proceedings of the Fourth International Workshop on Software Engineering for High Performance Computing in Computational Science and Engineering.
DOI https://doi.org/10.1109/SE-HPCCSE.2016.005
PDF Middleware for Earth System Data.
Julian Kunkel, Jakob Luettgau, Bryan N. Lawrence, Jens Jensen, Giuseppe Congiu, and John Readey.
In 1st International Workshop on Parallell Data Storage and Data Intensive Scalable Computing Systems (PDSW-DISCS'16).
PDF Exascale computing research priorities for the Met Office Forecasting Research.
CM Maynard and P Selwood.
Unpublished.
2015
November 		PDF Interaktiver C Kurs (ICP).
Julian Kunkel, Thomas Ludwig, Jakob Lüttgau, Dion Timmermann, Christian Kautz, and Volker Skwarek.
Unpublished.
July PDF Using Machine Learning to Predict the Performance of Non-Contiguous I/O.
Julian Kunkel, Michaela Zimmer, and Eugen Betke.
Unpublished.
July PDF Advanced Data Sieving for Non-Contigouous I/O.
Enno Zickler and Julian Kunkel.
Unpublished.
May PDF Monitoring energy consumption with SIOX.
Julian Kunkel, Alvaro Aguilera, Nathanael Hübbe, Marc Wiedemann, and Michaela Zimmer.
Computer Science -- Research and Development.
DOI https://doi.org/10.1007/s00450-014-0271-y
March Identifying Relevant Factors in the I/O-Path using Statistical Methods.
Julian Kunkel.
Technical Report 3, Research Group: Scientific Computing, University of Hamburg.
PDF A Highly Scalable Met Office NERC Cloud Model.
Nick Brown and others.
Proceedings of the 3rd International Conference on Exascale Applications and Software (EASC '15).
An analytical methodology to derive power models based on hardware and software metrics.
Manuel F. Dolz, Julian Kunkel, Konstantinos Chasapis, and Sandra Catalan.
Computer Science - Research and Development.
DOI https://doi.org/10.1007/s00450-015-0298-8
Predicting Performance of Non-Contiguous I/O with Machine Learning.
Julian Kunkel, Eugen Betke, and Michaela Zimmer.
High Performance Computing, 30th International Conference, ISC High Performance 2015 (Lecture Notes in Computer Science).
DOI https://doi.org/10.1007/978-3-319-20119-1_19
PDF Speicherung großer Datenmengen und Energieeffizienz.
Thomas Ludwig, Manuel Dolz, Michael Kuhn, Julian Kunkel, and Hermann Lenhart.
Technical Report Max-Planck-Gesselschaft.
2014
July 		The Development of a Data-Driven Application Benchmarking Approach to Performance Modelling.
A. Osprey, G.D. Riley, M. Manjunathaiah, and B.N. Lawrence.
2014 International Conference on High Performance Computing Simulation (HPCS).
DOI https://dx.doi.org/10.1109/HPCSim.2014.6903760
June PDF Whitepaper: E10 -- Exascale IO.
Andre Brinkmann, Toni Cortes, Hugo Falter, Julian Kunkel, and Sai Narasimhamurthy.
Technical Report .
June PDF Exascale Storage Systems -- An Analytical Study of Expenses.
Julian Kunkel, Michael Kuhn, and Thomas Ludwig.
Supercomputing Frontiers and Innovations.
June PDF SIOX: An Infrastructure for Monitoring and Optimization of HPC-I/O.
Julian Kunkel, Michaela Zimmer, Marc Wiedemann, Nathanael Hübbe, Alvaro Aguilera, Holger Mickler, Xuan Wang, Andrij Chut, and Thomas Bönisch.
Unpublished.
A Comparison of Trace Compression Methods for Massively Parallel Applications in Context of the SIOX Project.
Alvaro Aguilera, Holger Mickler, Julian Kunkel, Michaela Zimmer, Marc Wiedemann, and Ralph Müller-Pfefferkorn.
Tools for High Performance Computing 2013.
PDF Predicting Performance of Non-Contiguous I/O with Machine Learning.
Julian Kunkel, Eugen Betke, and Michaela Zimmer.
Parallel Data Storage Workshop (PDSW), Work in progress session.
The SIOX Architecture – Coupling Automatic Monitoring and Optimization of Parallel I/O.
Julian Kunkel, Michaela Zimmer, Nathanael Hübbe, Alvaro Aguilera, Holger Mickler, Xuan Wang, Andrij Chut, Thomas Bönisch, Jakob Lüttgau, Roman Michel, and Johann Weging.
Supercomputing (Supercomputing).
DOI https://doi.org/10.1007/978-3-319-07518-1_16
PDF Feign: In-Silico Laboratory for Researching I/O Strategies.
Jakob Lüttgau and Julian Kunkel.
Parallel Data Storage Workshop (PDSW), 2014 9th.
A quantum multiply-accumulator.
Christopher Maynard and Einar Pius.
Quantum Information Processing 13(5).
2013
November 		PDF ICON DSL: A Domain-Specific Language for climate modeling.
Raul Torres, Leonidas Lindarkis, Julian Kunkel, and Thomas Ludwig.
WOLFHPC 2013 Third International Workshop on Domain-Specific Languages and High-Level Frameworks for High Performance Computing.
July A Benchmark-Driven Modelling Approach for Evaluating Deployment Choices on a Multicore Architecture.
A. Osprey, G.D. Riley, M. Manjunathaiah, and B.N. Lawrence.
Proceedings of the International Conference on Parallel \& Distributed Processing Techniques \& Application (PDPTA'13).
June Evaluating Lossy Compression on Climate Data.
Nathanael Hübbe, Al Wegener, Julian Kunkel, Yi Ling, and Thomas Ludwig.
Supercomputing (Lecture Notes in Computer Science).
DOI https://doi.org/10.1007/978-3-642-38750-0_26
June Using Simulation to Validate Performance of MPI(-IO) Implementations.
Julian Kunkel.
Supercomputing (Lecture Notes in Computer Science).
DOI https://doi.org/10.1007/978-3-642-38750-0_14
June PDF Source-to-Source Translation for Climate Models.
Raul Torres, Leonidas Lindarkis, and Julian Kunkel.
Unpublished.
June Towards Self-optimization in HPC I/O.
Michaela Zimmer, Julian Kunkel, and Thomas Ludwig.
Supercomputing (Lecture Notes in Computer Science).
DOI https://doi.org/10.1007/978-3-642-38750-0_32
May PDF Reducing the HPC-Datastorage Footprint with MAFISC–Multidimensional Adaptive Filtering Improved Scientific Data Compression.
Nathanael Hübbe and Julian Kunkel.
Comput. Sci. 28(2-3).
DOI https://dx.doi.org/10.1007/s00450-012-0222-4
May PDF Reducing the HPC-Datastorage Footprint with MAFISC -- Multidimensional Adaptive Filtering Improved Scientific data Compression.
Nathanel Hübbe and Julian Kunkel.
Computer Science - Research and Development.
May PDF Towards I/O Analysis of HPC Systems and a Generic Architecture to Collect Access Patterns.
Marc Wiedemann, Julian Kunkel, Michaela Zimmer, Thomas Ludwig, Michael Resch, Thomas Bönisch, Xuan Wang, Andriy Chut, Alvaro Aguilera, Wolfgang E. Nagel, Michael Kluge, and Holger Mickler.
Computer Science - Research and Development.
May PDF Performance-optimized clinical IMRT planning on modern CPUs.
Peter Ziegenhein, Cornelis Ph Kamerling, Mark Bangert, Julian Kunkel, and Uwe Oelfke.
Physics in Medicine and Biology.
DOI https://doi.org/10.1088/0031-9155/58/11/3705
PDF GungHo Phase 1: Computational Science Report.
RJ Ford and others.
Unpublished.
Evaluating Lossy Compression on Climate Data.
Nathanael Hübbe, Al Wegener, Julian Martin Kunkel, Yi Ling, and Thomas Ludwig.
International Supercomputing Conference.
DOI https://dx.doi.org/10.1007/978-3-642-38750-0_26
2012
November 		A Study on Data Deduplication in HPC Storage Systems.
Dirk Meister, Jürgen Kaiser, Andre Brinkmann, Michael Kuhn, Julian Kunkel, and Toni Cortes.
Proceedings of the ACM/IEEE Conference on High Performance Computing (SC).
November A Study on Data Deduplication in HPC Storage Systems.
D. Meister, J. Kaiser, A. Brinkmann, T. Cortes, M. Kuhn, and J. Kunkel.
High Performance Computing, Networking, Storage and Analysis (SC), 2012 International Conference For.
DOI https://dx.doi.org/10.1109/SC.2012.14
June PDF Simulating parallel programs on application and system level.
Julian Kunkel.
Computer Science -- Research and Development.
DOI https://doi.org/10.1007/s00450-012-0208-2
Optimizations for Two-Phase Collective I/O.
Michael Kuhn, Julian Kunkel, Yuichi Tsujita, Hidetaka Muguruma, and Thomas Ludwig.
Applications, Tools and Techniques on the Road to Exascale Computing (Advances in Parallel Computing).
Simulation-Aided Performance Evaluation of Server-Side Input/Output Optimizations.
Michael Kuhn, Julian Kunkel, and Thomas Ludwig.
20th Euromicro International Conference on Parallel, Distributed and Network-Based Processing.
IOPm -- Modeling the I/O Path with a Functional Representation of Parallel File System and Hardware Architecture.
Julian Kunkel and Thomas Ludwig.
20th Euromicro International Conference on Parallel, Distributed and Network-Based Processing.
Simulating Application and System Interaction with PIOsimHD.
Julian Kunkel and Thomas Ludwig.
Proceedings of the Work in Progress Session, 20th Euromicro International Conference on Parallel, Distributed and Network-Based Processing (SEA-Publications).
Visualization of MPI(-IO) Datatypes.
Julian Kunkel and Thomas Ludwig.
Applications, Tools and Techniques on the Road to Exascale Computing (Advances in Parallel Computing).
Tracing and Visualization of Energy-Related Metrics.
Timo Minartz, Julian M. Kunkel, and Thomas Ludwig.
26th IEEE International Parallel \& Distributed Processing Symposium Workshops.
31.
Timo Minartz, Daniel Molka, Julian Kunkel, Michael Knobloch, Michael Kuhn, and Thomas Ludwig.
Chapter in Tool Environments to Measure Power Consumption and Computational Performance.
Scientific Computing: Performance and Efficiency in Climate Models.
Sandra Schröder, Michael Kuhn, Nathanael Hübbe, Julian Kunkel, Timo Minartz, Petra Nerge, Florens Wasserfall, and Thomas Ludwig.
Proceedings of the Work in Progress Session, 20th Euromicro International Conference on Parallel, Distributed and Network-Based Processing (SEA-Publications).
2011
January 		HDTrace – A Tracing and Simulation Environment of Application and System Interaction.
Julian Kunkel.
Technical Report 2, Research Group: Scientific Computing, University of Hamburg.
Towards an Energy-Aware Scientific I/O Interface -- Stretching the ADIOS Interface to Foster Performance Analysis and Energy Awareness.
Julian Kunkel, Timo Minartz, Michael Kuhn, and Thomas Ludwig.
Computer Science - Research and Development.
DOI https://doi.org/10.1007/s00450-011-0193-x
2010
November 		PDF System Performance Comparison of Stencil Operations with the Convey HC-1.
Julian Kunkel and Petra Nerge.
Technical Report 1, Research Group: Scientific Computing, University of Hamburg.
September PDF Classification of Network Computers Based on Distribution of ICMP-echo Round-trip Times.
Julian Kunkel, Jan C. Neddermeyer, and Thomas Ludwig.
Technical Report 1, Staats- und Universitätsbibliothek Hamburg.
June PDF Benchmarking Application I/O in the Community.
Julian Kunkel, Olga Mordvinova, Dennis Runz, Michael Kuhn, and Thomas Ludwig.
Unpublished.
April PDF Simulation of Cluster Power Consumption and Energy-to-Solution.
Timo Minartz, Julian Kunkel, and Thomas Ludwig.
Unpublished.
January PDF From experimental setup to bioinformatics: an RNAi screening platform to identify host factors involved in HIV-1 replication.
Kathleen Börner, Johannes Hermle, Christoph Sommer, Nigel P. Brown, Bettina Knapp, Bärbel Glass, Julian Kunkel, Gloria Torralba, Jürgen Reymann, Nina Beil, Jürgen Beneke, Rainer Pepperkok, Reinhard Schneider, Thomas Ludwig, Michael Hausmann, Fred Hamprecht, Holger Erfle, Lars Kaderali, Hans-Georg Kräusslich, and Maik J. Lehmann.
Biotechnology Journal.
DOI https://doi.org/10.1002/biot.200900226
PDF Collecting Energy Consumption of Scientific Data.
Julian Kunkel, Olga Mordvinova, Michael Kuhn, and Thomas Ludwig.
Computer Science - Research and Development.
DOI https://doi.org/10.1007/s00450-010-0121-5
PDF Simulation of power consumption of energy efficient cluster hardware.
Timo Minartz, Julian Kunkel, and Thomas Ludwig.
Computer Science - Research and Development.
DOI https://doi.org/10.1007/s00450-010-0120-6
PDF I/O Performance Evaluation with Parabench -- Programmable I/O Benchmark.
Olga Mordvinova, Dennis Runz, Julian Kunkel, and Thomas Ludwig.
Procedia Computer Science.
DOI https://doi.org/10.1016/j.procs.2010.04.238
PDF Tracing Performance of MPI-I/O with PVFS2: A Case Study of Optimization.
Yuichi Tsujita, Julian Kunkel, Stephan Krempel, and Thomas Ludwig.
Parallel Computing: From Multicores and GPU's to Petascale.
DOI https://doi.org/10.3233/978-1-60750-530-3-379
2009
December 		Tracing Internal Communication in MPI and MPI-I/O.
Julian Kunkel, Yuichi Tsujita, Olga Mordvinova, and Thomas Ludwig.
International Conference on Parallel and Distributed Computing, Applications and Technologies, PDCAT.
DOI https://doi.org/10.1109/PDCAT.2009.9
October USB Flash Drives as an Energy Efficiency Storage Alternative.
Olga Mordvinova, Julian Kunkel, Christian Baun, Thomas Ludwig, and Marcel Kunze.
Proceedings of the 10th IEEE/ACM International Conference on Grid Computing.
DOI https://doi.org/10.1109/GRID.2009.5353062
September PDF Dynamic File System Semantics to Enable Metadata Optimizations in PVFS.
Michael Kuhn, Julian Martin Kunkel, and Thomas Ludwig.
Concurrency and Computation: Practice and Experience 21(14).
DOI https://dx.doi.org/10.1002/cpe.1439
May Small-File Access in Parallel File Systems.
P. Carns, S. Lang, R. Ross, M. Vilayannur, J. Kunkel, and T. Ludwig.
2009 IEEE International Symposium on Parallel Distributed Processing.
DOI https://dx.doi.org/10.1109/IPDPS.2009.5161029
PDF Using Non-blocking I/O Operations in High Performance Computing to Reduce Execution Times.
David Buettner, Julian Kunkel, and Thomas Ludwig.
Proceedings of the 16th European PVM/MPI Users' Group Meeting on Recent Advances in Parallel Virtual Machine and Message Passing Interface.
DOI https://doi.org/10.1007/978-3-642-03770-2_20
PDF Small-file Access in Parallel File Systems.
Philip Carns, Sam Lang, Robert Ross, Murali Vilayannur, Julian Kunkel, and Thomas Ludwig.
IPDPS '09: Proceedings of the 2009 IEEE International Symposium on Parallel and Distributed Processing.
DOI https://doi.org/10.1109/IPDPS.2009.5161029
PDF Dynamic file system semantics to enable metadata optimizations in PVFS.
Michael Kuhn, Julian Kunkel, and Thomas Ludwig.
Concurrency and Computation: Practice and Experience.
DOI https://doi.org/10.1002/cpe.1439
Data Storage and Processing for High Throughput RNAi Screening.
Julian Kunkel, Thomas Ludwig, M. Hemberger, G. Torralba, E. Schmitt, M. Hausmann, V. Lindenstruth, N. Brown, and R. Schneider.
Unpublished.
2008
 		Directory-Based Metadata Optimizations for Small Files in PVFS.
Michael Kuhn, Julian Kunkel, and Thomas Ludwig.
Euro-Par '08: Proceedings of the 14th international Euro-Par conference on Parallel Processing.
DOI https://doi.org/10.1007/978-3-540-85451-7_11
PDF Bottleneck Detection in Parallel File Systems with Trace-Based Performance Monitoring.
Julian Kunkel and Thomas Ludwig.
Euro-Par '08: Proceedings of the 14th international Euro-Par conference on Parallel Processing.
DOI https://doi.org/10.1007/978-3-540-85451-7_23
2007
 		Performance Evaluation of the PVFS2 Architecture.
Julian Kunkel and Thomas Ludwig.
PDP '07: Proceedings of the 15th Euromicro International Conference on Parallel, Distributed and Network-Based Processing.
DOI https://doi.org/10.1109/PDP.2007.65
PDF Analysis of the MPI-IO Optimization Levels with the PIOViz Jumpshot Enhancement.
Thomas Ludwig, Stephan Krempel, Michael Kuhn, Julian Kunkel, and Christian Lohse.
Recent Advances in Parallel Virtual Machine and Message Passing Interface (Lecture Notes in Computer Science).
DOI https://doi.org/10.1007/978-3-540-75416-9_32
2006
 		PDF Tracing the MPI-IO Calls' Disk Accesses.
Thomas Ludwig, Stephan Krempel, Julian Kunkel, Frank Panse, and Dulip Withanage.
Recent Advances in Parallel Virtual Machine and Message Passing Interface (Lecture Notes in Computer Science).
DOI https://doi.org/10.1007/11846802_45

Advanced Computing for Environmental Science
University of Reading - School of Mathematical, Physical and Computational Sciences