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2018 IEEE 14th International Conference on e-Science (e-Science)

Oct. 29 2018 to Nov. 1 2018

Amsterdam, Netherlands

Table of Contents

[Title page i]Freely available from IEEE.pp. 1-1
[Title page iii]Freely available from IEEE.pp. 3-3
[Copyright notice]Freely available from IEEE.pp. 4-4
Table of ContentsFreely available from IEEE.pp. 5-21
Message from the Program ChairsFreely available from IEEE.pp. 21-22
Organizing CommitteeFreely available from IEEE.pp. 23-25
International Steering and Supervisory CommitteeFreely available from IEEE.pp. 26-26
Program CommitteesFreely available from IEEE.pp. 27-32
The Role of Data Stewardship in Software Sustainability and ReproducibilityFreely available from IEEE.pp. 1-8
by Maria J. Cruz, Shalini Kurapati, Yasemin Turkyilmaz-van der Velden
Talk to Me: A Case Study on Coordinating Expertise in Large-Scale Scientific Software ProjectsFreely available from IEEE.pp. 9-18
by Reed Milewicz, Elaine Raybourn
Lesson Development for Open Source Software Best Practices AdoptionFreely available from IEEE.pp. 19-20
by Mateusz Kuzak, Jen Harrow, Rafael C. Jimenez, Paula Andrea Martinez, Fotis E. Psomopoulos, Radka Svobodová Vařeková, Allegra Via
Reflections from a Decade of Running CCPForgeFreely available from IEEE.pp. 21-22
by Catherine Jones, Alan Kyffin, Gemma Poulter
Painting the Picture of Software Impact with the Research Software DirectoryFreely available from IEEE.pp. 23-24
by Jurriaan H. Spaaks, Tom Klaver, Stefan Verhoeven, Jason Maassen, Tom Bakker, Atze van der Ploeg, Ben van Werkhoven, Willem van Hage, Rob V. van Nieuwpoort
Mapping the Research Software Sustainability SpaceFreely available from IEEE.pp. 25-30
by Stephan Druskat, Daniel S. Katz
Building a Sustainable Structure for Research Software Engineering ActivitiesFreely available from IEEE.pp. 31-32
by Jeremy Cohen, Daniel S. Katz, Michelle Barker, Robert Haines, Neil Chue Hong
Research Software Discovery: An OverviewFreely available from IEEE.pp. 33-37
by Alexander Struck
Survey on Research Software Engineering in the NetherlandsFreely available from IEEE.pp. 38-39
by Ben van Werkhoven, Tom Bakker, Olivier Philippe, Simon Hettrick
The Archive and Package (arcp) URI SchemeFreely available from IEEE.pp. 40-44
by Stian Soiland-Reyes, Marcos Cáceres
Preserving Reproducibility: Provenance and Executable Containers in DataONE Data PackagesFreely available from IEEE.pp. 45-49
by Bryce Mecum, Matthew B. Jones, Dave Vieglais, Craig Willis
A Research Object-Based Toolkit to Support the Earth Science Research LifecycleFreely available from IEEE.pp. 50-57
by Raul Palma, Andres Garcia-Silva, Jose Manuel Gomez-Perez, Marcin Krystek
Digital Methods in Holocaust Studies: The European Holocaust Research InfrastructureFreely available from IEEE.pp. 58-66
by Daan de Leeuw, Mike Bryant, Michal Frankl, Ivelina Nikolova, Vladimir Alexiev
Catching Toad Calls in the Cloud: Commodity Edge Computing for Flexible Analysis of Big Sound DataFreely available from IEEE.pp. 67-74
by Paul Roe, Meriem Ferroudj, Michael Towsey, Lin Schwarzkopf
FATBIRD: A Tool for Flight and Trajectories Analyses of BirdsFreely available from IEEE.pp. 75-82
by Daniyal Kazempour, Anna Beer, Friederike Herzog, Daniel Kaltenthaler, Johannes-Y. Lohrer, Thomas Seidl
Nanopublications: A Growing Resource of Provenance-Centric Scientific Linked DataFreely available from IEEE.pp. 83-92
by Tobias Kuhn, Albert Meroño-Peñuela, Alexander Malic, Jorrit H. Poelen, Allen H. Hurlbert, Emilio Centeno Ortiz, Laura I. Furlong, Núria Queralt-Rosinach, Christine Chichester, Juan M. Banda, Egon Willighagen, Friederike Ehrhart, Chris Evelo, Tareq B. Malas, Michel Dumontier
ScienceSearch: Enabling Search through Automatic Metadata GenerationFreely available from IEEE.pp. 93-104
by Gonzalo P. Rodrigo, Matt Henderson, Gunther H. Weber, Colin Ophus, Katie Antypas, Lavanya Ramakrishnan
Curation of Image Data for Medical ResearchFreely available from IEEE.pp. 105-113
by Lasse Wollatz, Mark Scott, Steven J. Johnston, Peter M. Lackie, Simon J. Cox
How FAIR Can you Get? Image Retrieval as a Use Case to Calculate FAIR MetricsFreely available from IEEE.pp. 114-124
by Tobias Weber, Dieter Kranzlmüller
Specimens as Research Objects: Reconciliation Across Distributed Repositories to Enable Metadata PropagationFreely available from IEEE.pp. 125-135
by Nicky Nicolson, Alan Paton, Sarah Phillips, Allan Tucker
Fast and Reproducible LOFAR Workflows with AGLOWFreely available from IEEE.pp. 136-144
by A.P. Mechev, J.B.R. Oonk, T. Shimwell, A. Plaat, H.T. Intema, H.J.A. Rottgering
Visual Programming Languages for Programmers with Dyslexia: An ExperimentFreely available from IEEE.pp. 145-155
by Jose L. Fuertes, Luis F. Gonzalez, Loic Martinez
An Algebra for Robust Workflow TransformationsFreely available from IEEE.pp. 156-167
by Nicholas Hazekamp, Douglas Thain
Orchestral: A Lightweight Framework for Parallel Simulations of Cell-Cell CommunicationFreely available from IEEE.pp. 168-176
by Adrien Coulier, Andreas Hellander
Pilot-Streaming: A Stream Processing Framework for High-Performance ComputingFreely available from IEEE.pp. 177-188
by Georgios Chantzialexiou, Andre Luckow, Shantenu Jha
Concurrent and Adaptive Extreme Scale Binding Free Energy CalculationsFreely available from IEEE.pp. 189-200
by Jumana Dakka, Kristof Farkas-Pall, Matteo Turilli, David W. Wright, Peter V. Coveney, Shantenu Jha
Educational Outreach & Stakeholder Role Evolution in a Cyberinfrastructure ProjectFreely available from IEEE.pp. 201-211
by David P. Randall, Drew Paine, Charlotte P. Lee
A Survey of Software Metric Use in Research Software DevelopmentFreely available from IEEE.pp. 212-222
by Nasir U. Eisty, George K. Thiruvathukal, Jeffrey C. Carver
Building NDStore Through Hierarchical Storage Management and Microservice ProcessingFreely available from IEEE.pp. 223-233
by Kunal Lillaney, Dean Kleissas, Alexander Eusman, Eric Perlman, William Gray Roncal, Joshua T. Vogelstein, Randal Burns
Designing Scientific SPARQL Queries Using Autocompletion by SnippetsFreely available from IEEE.pp. 234-244
by Karima Rafes, Serge Abiteboul, Sarah Cohen-Boulakia, Bastien Rance
Big Provenance Stream Processing for Data Intensive ComputationsFreely available from IEEE.pp. 245-255
by Isuru Suriarachchi, Sachith Withana, Beth Plale
Skluma: An Extensible Metadata Extraction Pipeline for Disorganized DataFreely available from IEEE.pp. 256-266
by Tyler J. Skluzacek, Rohan Kumar, Ryan Chard, Galen Harrison, Paul Beckman, Kyle Chard, Ian T. Foster
Message from the eScience 2018 Program Committee Chairs for the Focused Session on Weather & Climate Science in the Digital EraFreely available from IEEE.pp. 267-267
by Peter Bauer, Martine de Vos
A Hybrid-Resolution Earth System ModelFreely available from IEEE.pp. 268-269
by Marc Stringer, Colin Jones, Richard Hill, Mohit Dalvi, Colin Johnson, Jeremy Walton
Resolving clouds in a global atmosphere model - A multiscale approach with nested modelsFreely available from IEEE.pp. 270-270
by Fredrik Jansson, Gijs van den Oord, Pier Siebesma, Daan Crommelin
Increasing parallelism in climate models via additional component concurrencyFreely available from IEEE.pp. 271-271
by Jörg Behrens, Joachim Biercamp, Hendryk Bockelmann, Philipp Neumann
Extracting Flood Maps from Social Media for AssimilationFreely available from IEEE.pp. 272-273
by Etienne Brangbour, Pierrick Bruneau, Stéphane Marchand-Maillet
Toward a Cloud Ecosystem for Modeling as a ServiceFreely available from IEEE.pp. 274-275
by Mohan Ramamurthy
Machine Learning for Applied Weather PredictionFreely available from IEEE.pp. 276-277
by Sue Ellen Haupt, Jim Cowie, Seth Linden, Tyler McCandless, Branko Kosovic, Stefano Alessandrini
Visibility Prediction Based on Kilometric NWP Model Outputs Using Machine-Learning RegressionFreely available from IEEE.pp. 278-278
by Driss Bari
Weather Reanalysis on an Urban Scale using WRFFreely available from IEEE.pp. 279-280
by Ronald van Haren, Sytse Koopmans, Gert-Jan Steeneveld, Natalie Theeuwes, Remko Uijlenhoet, Albert A.M. Holtslag
Detecting probability of ice formation on overhead lines of the dutch railway networkFreely available from IEEE.pp. 281-282
by Irene Garcia-Marti, Gerard van der Schrier, Jan Willem Noteboom, Paul Diks
A Web Service Architecture for Objective Station Classification PurposesFreely available from IEEE.pp. 283-284
by Martin G. Schultz, Sander Apweiler, Jan Vogelsang, Björn Hagemeier, Felix Kleinert, Daniel Mallmann
Message from the eScience 2018 Program Committee Chairs for the Focused Session on Data Handling and Analytics for HealthFreely available from IEEE.pp. 285-285
by Jaap Heringa, Vincent van Hees
Gross Motor Activity Patterns in Depression and AnxietyFreely available from IEEE.pp. 286-286
by Sonia Difrancesco, Vadim Zipunnikov, Robert A. Schoevers, Harriëtte Riese, Niki Antypa, Brenda W.J.H. Penninx, Kathleen R. Merikangas, Albert A. M. van Hemert, Femke Lamers
NordScreen - An Interactive Tool for Presenting Cervical Cancer Screening Indicators in the Nordic CountriesFreely available from IEEE.pp. 287-287
by Veli-Matti Partanen, Maiju Pankakoski, Zurab Bzhalava, Piret Veerus, Ahti Anttila, Tytti Sarkeala, Ameli Tropé, Stefan Lönnberg, Sirpa Heinävaara, Joakim Dillner, Ágúst Ingi Ágústsson
Stratifying Cervical Cancer Risk with Registry DataFreely available from IEEE.pp. 288-289
by Nicholas Baltzer, Mari Nygård, Karin Sundström, Joakim Dillner, Jan Nygård, Jan Komorowski
Automating the Placement of Time Series Models for IoT Healthcare ApplicationsFreely available from IEEE.pp. 290-291
by Lauren Roberts, Peter Michalák, Sarah Heaps, Michael Trenell, Darren Wilkinson, Paul Watson
Semantically Enriched Literature Search Combining Text Mining, QSPR and Ontologies in Scientific WorkflowsFreely available from IEEE.pp. 292-292
by Magnus Palmblad
Differences in the commonly used genotype imputation algorithms and their imputation accuracy estimatesFreely available from IEEE.pp. 293-294
by Kalle Pärn, Matti Pirinen, Mart Kals, Reedik Mägi, Veikko Salomaa, Michael Boehnke, Ira Hall, Nathan Stitziel, Nelson Freimer, Mark Daly, Aarno Palotie, Samuli Ripatti, Priit Palta
Mining Events Preceding a Cancer DiagnosisFreely available from IEEE.pp. 295-296
by Rebecka Weegar
The Impact of Social Versus Individual Learning for Agents' Risk Perception During EpidemicsFreely available from IEEE.pp. 297-298
by Shaheen A. Abdulkareem, Ellen-Wien Augustijn, Katarzyna Musial, Yaseen T. Mustafa, Tatiana Filatova
Workflows Orchestrating Workflows: Thousands of Queries and Their Fault Tolerance Using APIs of Omics Web ResourcesFreely available from IEEE.pp. 299-300
by Yassene Mohammed
Machine Learning for Multi-Omics Data Integration and Variant Pathogenicity EstimationFreely available from IEEE.pp. 301-301
by Shuang Li, K. Joeri van der Velde, Morris A. Swertz
Remote Cloud-Based Automated Stroke Rehabilitation Assessment Using WearablesFreely available from IEEE.pp. 302-302
by Shane Halloran, Jian Qing Shi, Yu Guan, Xi Chen, Michael Dunne-Willows, Janet Eyre
A portable and scalable workflow for detecting structural variants in whole-genome sequencing dataFreely available from IEEE.pp. 303-304
by Arnold Kuzniar, Jason Maassen, Stefan Verhoeven, Luca Santuari, Carl Shneider, Wigard Kloosterman, Jeroen de Ridder
Analytics pipeline for left ventricle segmentation and volume estimation on cardiac MRI using deep learningFreely available from IEEE.pp. 305-306
by Mai H. Nguyen, Ehab Abdelmaguid, Jolene Huang, Sanjay Kenchareddy, Disha Singla, Laura Wilke, Marcus Bobar, Eric D. Carruth, Dylan Uys, Ilkay Altintas, Evan D. Muse, Giorgio Quer, Steven Steinhubl
Message from the eScience 2018 Program Committee Chairs for the Focused Session on Advances in eScience for the Humanities and Social SciencesFreely available from IEEE.pp. 307-307
by Claes de Vreese, Carlos Martinez-Ortiz
Filter and Annotate: Towards Automatic Identification of Genuine MetaphoricityFreely available from IEEE.pp. 308-309
by Erik-Lân Do Dinh, Iryna Gurevych, Petra Gehring
Extracting Theory from Black Boxes: Using Machine Vision APIs in Communication ResearchFreely available from IEEE.pp. 310-311
by Theo Araujo, Irina Lock, Bob Van De Velde
Understanding evolving communities in transnational board interlock networksFreely available from IEEE.pp. 312-313
by Dafne E. Van Kuppevelt, Frank W. Takes, Eelke M. Heemskerk
TI-One: Active Research Data Management in a Modern Philosophy DepartmentFreely available from IEEE.pp. 314-315
by Gioele Barabucci, Mark Eschweiler, Andreas Speer
Software Engineering and Digital Research InfrastructuresFreely available from IEEE.pp. 316-317
by Carsten Thiel, Dieter Van Uytvanck, Tibor Kálmán
Automatically Detecting Incivility in Online Discussions of News MediaFreely available from IEEE.pp. 318-319
by Johannes Daxenberger, Marc Ziegele, Iryna Gurevych, Oliver Quiring
Social network-epistemologyFreely available from IEEE.pp. 320-321
by M. Alfano, S. Cunningham, W. Meulemans, I. Rutter, M. Sondag, B. Speckmann, E. Sullivan
Democratizing Ancient Mesopotamian Research through Digital ScholarshipFreely available from IEEE.pp. 322-322
by Raquel Alegre, Anastasis Georgoulas, Stuart Grieve, Eleanor Robson
Using Facial Expressions of Students for Detecting Levels of Intrinsic MotivationFreely available from IEEE.pp. 323-324
by Pedro Bispo Santos, Caroline Verena Wahle, Iryna Gurevych
Bringing Data Science to Qualitative AnalysisFreely available from IEEE.pp. 325-326
by You-Wei Cheah, Drew Paine, Devarshi Ghoshal, Lavanya Ramakrishnan
Linking Text and Knowledge Using the INCEpTION Annotation PlatformFreely available from IEEE.pp. 327-328
by Richard Eckart De Castilho, Jan-Christoph Klie, Naveen Kumar, Beto Boullosa, Iryna Gurevych
INCA: Infrastructure for Content AnalysisFreely available from IEEE.pp. 329-330
by Damian Trilling, Bob Van De Velde, Anne C. Kroon, Felicia Löcherbach, Theo Araujo, Joanna Strycharz, Tamara Raats, Lisa De Klerk, Jeroen G.F. Jonkman
Message from the eScience 2018 Program Committee Chairs for the Focused Session on Exascale Computing for High-Energy PhysicsFreely available from IEEE.pp. 331-331
by Jeff Templon, Yifat Dzigan
Understanding the Performance of a Prototype of a WLCG Data Lake for HL-LHCFreely available from IEEE.pp. 332-333
by Jaroslava Schovancová, Simone Campana, Xavier Espinal Curull, Maria Girone, Ivan Kadochnikov, Gavin John McCance
Modelling high-energy physics data transfersFreely available from IEEE.pp. 334-335
by Joaquin Bogado, Fernando Monticelli, Javier Diaz, Mario Lassnig, Ilija Vukotic
Distributed and On-demand Cache for CMS Experiment at LHCFreely available from IEEE.pp. 336-337
by Diego Ciangottini, Daniele Spiga, Tommaso Boccali, Giacinto Donvito, Daniele Cesini, Giuseppe Bagliesi, Enrico Mazzone, Antonio Falabella
Fine-Grained Processing Towards HL-LHC Computing in ATLASFreely available from IEEE.pp. 338-338
by Doug Benjamin, Paolo Calafiura, Taylor Childers, Kaushik De, Alessandro Di Girolamo, Esteban Fullana, Wen Guan, Tadashi Maeno, Nicolo Magini, Paul Nilsson, Danila Oleynik, Shaojun Sun, Vakho Tsulaia, Peter Van Gemmeren, Torre Wenaus, Wei Yang
Implementation of the ATLAS Trigger Within the ATLAS Multi-threaded Software Framework AthenaMTFreely available from IEEE.pp. 339-339
by Tim Martin
Modeling Impact of Execution Strategies on Resource UtilizationFreely available from IEEE.pp. 340-340
by Alexey Poyda, Mikhail Titov, Alexei Klimentov, Jack Wells, Sarp Oral, Kaushik De, Danila Oleynik, Shantenu Jha
Towards Exascale Computing for High Energy Physics: The ATLAS Experience at ORNLFreely available from IEEE.pp. 341-342
by V Ananthraj, K De, S Jha, A Klimentov, D Oleynik, S Oral, A Merzky, R Mashinistov, S Panitkin, P Svirin, M Turilli, J Wells, S Wilkinson
Simulating HEP Workflows on Heterogeneous ArchitecturesFreely available from IEEE.pp. 343-343
by Charles Leggett, Illya Shapoval
TrackML: A High Energy Physics Particle Tracking ChallengeFreely available from IEEE.pp. 344-344
by Polo Calafiura, Steven Farrell, Heather Gray, Jean-Roch Vlimant, Vincenzo Innocente, Andreas Salzburger, Sabrina Amrouche, Tobias Golling, Moritz Kiehn, Victor Estrade, Cécile Germaint, Isabelle Guyon, Ed Moyse, David Rousseau, Yetkin Yilmaz, Vladimir Vava Gligorov, Mikhail Hushchyn, Andrey Ustyuzhanin
Automated Parallel Calculation of Collaborative Statistical Models in RooFitFreely available from IEEE.pp. 345-346
by E. G. Patrick Bos, Inti Pelupessy, Vincent A. Croft, Wouter Verkerke, Carsten D. Burgard
Strategies for Modeling Extreme Luminosities in the CMS SimulationFreely available from IEEE.pp. 347-347
by Michael D. Hildreth, Elizabeth Sexton-Kennedy, Kevin Pedro, Matti Kortelainen
Deep Generative Models for Fast Shower Simulation in ATLASFreely available from IEEE.pp. 348-348
by Dalila Salamani, Stefan Gadatsch, Tobias Golling, Graeme Andrew Stewart, Aishik Ghosh, David Rousseau, Ahmed Hasib, Jana Schaarschmidt
Poster Abstracts eScience 2018 ConferenceFreely available from IEEE.pp. 349-349
by Ben van Werkhoven, Adriënne Mendrik, Rob van Nieuwpoort
3bij3: A Framework for Testing Effects of Recommender Systems on News ExposureFreely available from IEEE.pp. 350-351
by Felicia Löcherbach, Damian Trilling
A First Look at the JX Workflow LanguageFreely available from IEEE.pp. 352-353
by Tim Shaffer, Kyle M.D. Sweeney, Nathaniel Kremer-Herman, Douglas Thain
A Spark-Based Platform to Extract Phenological Information from Satellite ImagesFreely available from IEEE.pp. 354-355
by Viktor Bakayov, Romulo Goncalves, Raul Zurita-Milla, Emma Izquierdo-Verdiguier
Assessing and visualising online information qualityFreely available from IEEE.pp. 356-357
by Davide Ceolin, Jacco Van Ossenbruggen, Lora Aroyo, Ozkan Sener, Robin Sharma, Lesia Tkacz, Julia Noordegraaf
ATLAS Trigger and Data Acquisition Upgrades for the High Luminosity LHCFreely available from IEEE.pp. 358-359
by M. E. Pozo Astigarraga
Automated Composition of Scientific Workflows in Mass Spectrometry-Based ProteomicsFreely available from IEEE.pp. 360-361
by Anna-Lena Lamprecht, Magnus Palmblad, Jon Ison, Veit Schwämmle
Automated composition of scientific workflows: A case study on geographic data manipulationFreely available from IEEE.pp. 362-363
by Vedran Kasalica, Anna-Lena Lamprecht
Automatic Recommendations for Data Coding: A Use Case from Medical and Teacher EducationFreely available from IEEE.pp. 364-365
by Claudia Schulz, Michael Sailer, Jan Kiesewetter, Elisabeth Bauer, Frank Fischer, Martin R. Fischer, Iryna Gurevych
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