Sustainable computational science: the ReScience initiative

Author:

Rougier Nicolas P.1,Hinsen Konrad2,Alexandre Frédéric1,Arildsen Thomas3,Barba Lorena A.4,Benureau Fabien C.Y.1,Brown C. Titus5,de Buyl Pierre6,Caglayan Ozan7,Davison Andrew P.8,Delsuc Marc-André9,Detorakis Georgios10,Diem Alexandra K.11,Drix Damien12,Enel Pierre13,Girard Benoît14,Guest Olivia15,Hall Matt G.16,Henriques Rafael N.17,Hinaut Xavier1,Jaron Kamil S.18,Khamassi Mehdi14,Klein Almar19,Manninen Tiina20,Marchesi Pietro21,McGlinn Daniel22,Metzner Christoph23,Petchey Owen24,Plesser Hans Ekkehard25,Poisot Timothée26,Ram Karthik27,Ram Yoav28,Roesch Etienne29,Rossant Cyrille30,Rostami Vahid31,Shifman Aaron32,Stachelek Jemma33,Stimberg Marcel34,Stollmeier Frank35,Vaggi Federico36,Viejo Guillaume14,Vitay Julien37,Vostinar Anya E.38,Yurchak Roman39,Zito Tiziano40

Affiliation:

1. INRIA Bordeaux Sud-Ouest, Talence, France

2. Centre de Biophysique Moléculaire UPR4301, CNRS, Orléans, France

3. Department of Electronic Systems, Technical Faculty of IT and Design, Aalborg University, Aalborg, Denmark

4. Department of Mechanical and Aerospace Engineering, The George Washington University, Washington, D.C., USA

5. Department of Population Health and Reproduction, University of California Davis, Davis, CA, USA

6. Instituut voor Theoretische Fysica, KU Leuven, Leuven, Belgium

7. Laboratoire d’Informatique (LIUM), Le Mans University, Le Mans, France

8. UNIC FRE 3693, CNRS, Gif-sur-Yvette, France

9. Institut de Génétique et de Biologie Moléculaire et Cellulaire, Illkirch, France

10. Department of Cognitive Sciences, University of California Irvine, Irvine, CA, USA

11. Computational Engineering and Design, University of Southampton, Southampton, United Kingdom

12. Humboldt Universität zu Berlin, Berlin, Germany

13. Department of Neuroscience, Mount Sinai School of Medicine, New York, NY, USA

14. Institute of Intelligent Systems and Robotics, Sorbonne Universités - UPMC Univ Paris 06 - CNRS, Paris, France

15. Experimental Psychology, University College London, London, Greater London, United Kingdom

16. UCL Great Ormond St Institute of Child Health, London, United Kingdom

17. Champalimaud Centre for the Unknown, Champalimaud Neuroscience Program, Lisbon, Portugal

18. Department of Ecology and Evolution, University of Lausanne, Lausanne, Switzerland

19. Independent scholar, Enschede, The Netherlands

20. BioMediTech Institute and Faculty of Biomedical Sciences and Engineering, Tampere University of Technology, Tampere, Finland

21. Swammerdam Institute for Life Sciences, University of Amsterdam, Amsterdam, The Netherlands

22. Department of Biology, College of Charleston, Charleston, SC, USA

23. Centre for Computer Science and Informatics Research, University of Hertfordshire, Hatfield, United Kingdom

24. Department of Evolutionary Biology and Environmental Studies, University of Zurich, Zurich, Switzerland

25. Faculty of Science and Technology, Norwegian University of Life Sciences, Aas, Norway

26. Département de Sciences Biologiques, Université de Montréal, Montréal, QC, Canada

27. Berkeley Institute for Data Science, University of California, Berkeley, CA, USA

28. Department of Biology, Stanford University, Stanford, CA, USA

29. Centre for Integrative Neuroscience, University of Reading, Reading, United Kingdom

30. Institute of Neurology, University College London, London, United Kingdom

31. Institute of Neuroscience & Medicine, Juelich Forschungszentrum, Jülich, Germany

32. Department of Biology, University of Ottawa, Ottawa, Ontario, Canada

33. Department of Fisheries and Wildlife, Michigan State University, East Lansing, MI, USA

34. Sorbonne Universités/UPMC Univ Paris 06/INSERM/CNRS/Institut de la Vision, Paris, France

35. Max Planck Institute for Dynamics and Self-Organization, Göttingen, Lower Saxony, Germany

36. Amazon, Seattle, WA, USA

37. Department of Computer Science, Chemnitz University of Technology, Chemnitz, Saxony, Germany

38. Department of Computer Science, Grinnell College, Grinnell, IA, USA

39. Symerio, Palaiseau, France

40. Neural Information Processing Group, Eberhard Karls Universität Tübingen, Tübingen, Germany

Abstract

Computer science offers a large set of tools for prototyping, writing, running, testing, validating, sharing and reproducing results; however, computational science lags behind. In the best case, authors may provide their source code as a compressed archive and they may feel confident their research is reproducible. But this is not exactly true. James Buckheit and David Donoho proposed more than two decades ago that an article about computational results is advertising, not scholarship. The actual scholarship is the full software environment, code, and data that produced the result. This implies new workflows, in particular in peer-reviews. Existing journals have been slow to adapt: source codes are rarely requested and are hardly ever actually executed to check that they produce the results advertised in the article. ReScience is a peer-reviewed journal that targets computational research and encourages the explicit replication of already published research, promoting new and open-source implementations in order to ensure that the original research can be replicated from its description. To achieve this goal, the whole publishing chain is radically different from other traditional scientific journals. ReScience resides on GitHub where each new implementation of a computational study is made available together with comments, explanations, and software tests.

Publisher

PeerJ

Subject

General Computer Science

Reference31 articles.

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