Team, Visitors, External Collaborators
Overall Objectives
Research Program
Application Domains
Highlights of the Year
New Software and Platforms
New Results
Bilateral Contracts and Grants with Industry
Partnerships and Cooperations
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Publications of the year

Doctoral Dissertations and Habilitation Theses

R. Akbarinia.
Parallel Techniques for Big Data Analytics, Université de Montpellier, May 2019, Habilitation à diriger des recherches.
M. Fontaine.
Alpha-stable processes for signal processing, Université de Lorraine, June 2019.
C. Pradal.
Dataflow architecture for modular and generic plant simulation systems, Université de Montpellier, July 2019.
R. Souza.
Supporting User Steering In Large-Scale Workflows With Provenance Data, UFRJ, Rio de Janeiro, December 2019.

Articles in International Peer-Reviewed Journals

R. Albasha, C. Fournier, C. Pradal, M. Chelle, J. Alejando Prieto, G. Louarn, T. Simonneau, E. Lebon.
HydroShoot: a functional-structural plant model for simulating hydraulic structure, gas and energy exchange dynamics of complex plant canopies under water deficit - application to grapevine (Vitisvinifera L.), in: in silico Plants, June 2019. [ DOI : 10.1093/insilicoplants/diz007 ]
E. Cano, D. Fitzgerald, A. Liutkus, M. D. Plumbley, F. Robert-Stöter.
Musical Source Separation: An Introduction, in: IEEE Signal Processing Magazine, January 2019, vol. 36, no 1, pp. 31-40. [ DOI : 10.1109/MSP.2018.2874719 ]
T.-W. Chen, L. Cabrera-Bosquet, S. Alvarez Prado, R. Perez, S. Artzet, C. Pradal, A. Coupel-Ledru, C. Fournier, F. Tardieu.
Genetic and environmental dissection of biomass accumulation in multi-genotype maize canopies, in: Journal of Experimental Botany, April 2019, vol. 70, no 9, pp. 2523-2534. [ DOI : 10.1093/jxb/ery309 ]
M. Fontaine, R. Badeau, A. Liutkus.
Separation of Alpha-Stable Random Vectors, in: Signal Processing, January 2020, 107465 p. [ DOI : 10.1016/j.sigpro.2020.107465 ]
N. N. Gaudio, A. E. G. Escobar-Gutiérrez, P. Casadebaig, J. Evers, F. F. Gerard, G. Louarn, N. Colbach, S. Munz, M. Launay, H. Marrou, R. Barillot, P. Hinsinger, J.-E. Bergez, D. Combes, J.-L. Durand, E. Frak, L. Pagès, C. Pradal, S. Saint-Jean, W. W. Van Der Werf, E. Justes.
Current knowledge and future research opportunities for modeling annual crop mixtures. A review, in: Agronomy for Sustainable Development, April 2019, vol. 39, no 2. [ DOI : 10.1007/s13593-019-0562-6 ]
J. Liu, N. Moreno Lemus, E. Pacitti, F. Porto, P. Valduriez.
Parallel Computation of PDFs on Big Spatial Data Using Spark, in: Distributed and Parallel Databases, 2019, pp. 1-38, forthcoming. [ DOI : 10.1007/s10619-019-07260-3 ]
T. Lorieul, K. D. Pearson, E. R. Ellwood, H. Goëau, J. Molino, P. W. Sweeney, J. M. Yost, J. Sachs, G. Nelson, P. S. Soltis, P. Bonnet, A. Joly, E. Mata-Montero.
Toward a large-scale and deep phenological stage annotation of herbarium specimens: Case studies from temperate, tropical, and equatorial floras, in: Applications in Plant Sciences, March 2019, vol. 7, no 3, e01233. [ DOI : 10.1002/aps3.1233 ]
S. Mahboubi, R. Akbarinia, P. Valduriez.
Privacy-Preserving Top-k Query Processing in Distributed Systems, in: Transactions on Large-Scale Data- and Knowledge-Centered Systems, 2019. [ DOI : 10.1007/978-3-662-60531-8_1 ]
K. Park, A. Joly, P. Valduriez.
DZI: An Air Index for Spatial Queries in One-dimensional Channels, in: Data and Knowledge Engineering, November 2019, vol. 124, 101748 p. [ DOI : 10.1016/j.datak.2019.101748 ]
R. Perez, C. Fournier, L. Cabrera-Bosquet, S. Artzet, C. Pradal, N. Brichet, T.-W. Chen, R. Chapuis, C. Welcker, F. Tardieu.
Changes in the vertical distribution of leaf area enhanced light interception efficiency in maize over generations of selection, in: Plant, Cell and Environment, June 2019, vol. 42, no 7, pp. 2105-2119. [ DOI : 10.1111/pce.13539 ]
C. Pradal, S. Cohen-Boulakia, P. Valduriez, D. Shasha.
VersionClimber: version upgrades without tears, in: Computing in Science & Engineering, 2019, vol. 21, no 5, pp. 87-93, forthcoming. [ DOI : 10.1109/MCSE.2019.2921898 ]
F. Reyes, B. Pallas, C. Pradal, F. Vaggi, D. Zanotelli, T. Marco, D. Gianelle, E. Costes.
MuSCA: a multi-scale source-sink carbon allocation model to 2 explore carbon allocation in plants. An application on static apple-tree, in: Annals of Botany, October 2019. [ DOI : 10.1093/aob/mcz122 ]
F. Robert-Stöter, S. Chakrabarty, B. Edler, E. A. P. Habets.
CountNet: Estimating the Number of Concurrent Speakers Using Supervised Learning, in: IEEE/ACM Transactions on Audio, Speech and Language Processing, February 2019, vol. 27, no 2, pp. 268-282. [ DOI : 10.1109/TASLP.2018.2877892 ]
R. Souza, V. Silva, J. J. Camata, A. L. G. A. Coutinho, P. Valduriez, M. Mattoso.
Keeping Track of User Steering Actions in Dynamic Workflows, in: Future Generation Computer Systems, October 2019, vol. 99, pp. 624-643, [ DOI : 10.1016/j.future.2019.05.011 ]
F.-R. Stöter, S. Uhlich, A. Liutkus, Y. Mitsufuji.
Open-Unmix - A Reference Implementation for Music Source Separation, in: Journal of Open Source Software, September 2019, vol. 4, no 41, 1667 p. [ DOI : 10.21105/joss.01667 ]
D.-E. Yagoubi, R. Akbarinia, F. Masseglia, T. Palpanas.
Massively Distributed Time Series Indexing and Querying, in: IEEE Transactions on Knowledge and Data Engineering, 2019, pp. 1-14. [ DOI : 10.1109/TKDE.2018.2880215 ]

Articles in National Peer-Reviewed Journals

C. Atlan, J.-P. Archambault, O. Banus, F. Bardeau, A. Blandeau, A. Cois, M. Courbin-Coulaud, G. Giraudon, S.-C. Lefèvre, V. Letard, B. Masse, F. Masseglia, B. Ninassi, S. De Quatrebarbes, M. Romero, D. Roy, T. Viéville.
Apprentissage de la pensée informatique : de la formation des enseignant·e·s à la formation de tou·te·s les citoyen·ne·s, in: Revue de l'EPI (Enseignement Public et Informatique), June 2019,

Invited Conferences

B. Deneu, M. Servajean, C. Botella, A. Joly.
Evaluation of Deep Species Distribution Models using Environment and Co-occurrences, in: CLEF 2019 - Conference and Labs of the Evaluation Forum, Lugano, Switzerland, September 2019,
M. M. Zekeng Ndadji, M. T. Tchendji, D. Parigot.
A Projection-Stable Grammatical Model to Specify Workflows for their P2P and Artifact-Centric Execution, in: CRI'2019 - Conférence de Recherche en Informatique, Yaoundé, Cameroon, December 2019.

International Conferences with Proceedings

C. Botella, M. Servajean, P. Bonnet, A. Joly.
Overview of GeoLifeCLEF 2019: plant species prediction using environment and animal occurrences, in: CLEF 2019 - Conference and Labs of the Evaluation Forum, Lugano, Switzerland, 2019, vol. CEUR Workshop Proceedings, no 2380.
M. Fontaine, A. A. Nugraha, R. Badeau, K. Yoshii, A. Liutkus.
Cauchy Multichannel Speech Enhancement with a Deep Speech Prior, in: EUSIPCO 2019 - 27th European Signal Processing Conference, Coruña, Spain, September 2019.
H. Goëau, P. Bonnet, A. Joly.
Overview of LifeCLEF Plant Identification task 2019: diving into data deficient tropical countries, in: CLEF 2019 - Conference and Labs of the Evaluation Forum, Lugano, Switzerland, Working Notes of CLEF 2019 - Conference and Labs of the Evaluation Forum, CEUR, September 2019, vol. 2380, pp. 1-13.
G. Heidsieck, D. De Oliveira, E. Pacitti, C. Pradal, F. Tardieu, P. Valduriez.
Adaptive Caching for Data-Intensive Scientific Workflows in the Cloud, in: DEXA 2019 - 30th International Conference on Database and Expert Systems Applications, Linz, Austria, August 2019.
A. Joly, H. Goëau, C. Botella, S. Kahl, M. Poupard, M. Servajean, H. Glotin, P. Bonnet, W.-P. Vellinga, R. Planqué, J. Schlüter, F.-R. Stöter, H. Müller.
LifeCLEF 2019: Biodiversity Identification and Prediction Challenges, in: ECIR 2019 - 41st European Conference on IR Research, Cologne, Germany, L. Azzopardi, B. Stein, N. Fuhr, P. Mayr, C. Hauff (editors), April 2019, vol. LNCS, no 11438, pp. 275-282. [ DOI : 10.1007/978-3-030-15719-7_37 ]
A. Joly, H. Goëau, C. Botella, S. Kahl, M. Servajean, H. Glotin, P. Bonnet, R. Planqué, F. Robert-Stöter, W.-P. Vellinga, H. Müller.
Overview of LifeCLEF 2019: Identification of Amazonian Plants, South & North American Birds, and Niche Prediction, in: CLEF 2019 - Conference and Labs of the Evaluation Forum, Lugano, Switzerland, F. Crestani, M. Brascher, J. Savoy, A. Rauber, H. Müller, D. E. Losada, G. H. Bürki, G. H. Bürki, L. Cappellato, N. Ferro (editors), Experimental IR Meets Multilinguality, Multimodality, and Interaction, August 2019, vol. LNCS, no 11696, pp. 387-401. [ DOI : 10.1007/978-3-030-28577-7_29 ]
B. Kolev, R. Akbarinia, R. Jimenez-Peris, O. Levchenko, F. Masseglia, M. Patino, P. Valduriez.
Parallel Streaming Implementation of Online Time Series Correlation Discovery on Sliding Windows with Regression Capabilities, in: CLOSER 2019 - 9th International Conference on Cloud Computing and Services Science, Heraklion, Greece, 2019, pp. 681-687.
S. Leglaive, U. Simsekli, A. Liutkus, L. Girin, R. Horaud.
Speech enhancement with variational autoencoders and alpha-stable distributions, in: ICASSP 2019 - 2019 IEEE International Conference on Acoustics, Speech and Signal Processing, Brighton, United Kingdom, IEEE, 2019, pp. 541-545, [ DOI : 10.1109/ICASSP.2019.8682546 ]
O. Levchenko, B. Kolev, D.-E. Yagoubi, D. Shasha, T. Palpanas, P. Valduriez, R. Akbarinia, F. Masseglia.
Distributed Algorithms to Find Similar Time Series, in: ECML-PKDD : European Conference on Machine Learning and Knowledge Discovery in Databases, Wurtzbourg, Germany, 2019.
A. Liutkus, U. Ş. Imşekli, S. Majewski, A. Durmus, F. Robert-Stöter.
Sliced-Wasserstein Flows: Nonparametric Generative Modeling via Optimal Transport and Diffusions, in: ICML 2019 - 36th International Conference on Machine Learning, Long Beach, United States, June 2019.
H. Lustosa, F. Porto, P. Valduriez.
SAVIME: A Database Management System for Simulation Data Analysis and Visualization, in: SBBD 2019 - Simpósio Brasileiro de Banco de Dados, Fortaleza, Brazil, SBC, October 2019, pp. 1-12.
K. Meguelati, B. Fontez, N. Hilgert, F. Masseglia.
Dirichlet Process Mixture Models made Scalable and Effective by means of Massive Distribution, in: SAC 2019 - 34th Symposium On Applied Computing, Limassol, Cyprus, ACM/SIGAPP, 2019, pp. 502-509. [ DOI : 10.1145/3297280.3297327 ]
K. Meguelati, B. Fontez, N. Hilgert, F. Masseglia.
High Dimensional Data Clustering by means of Distributed Dirichlet Process Mixture Models, in: IEEE International Conference on Big Data (IEEE BigData), Los-Angeles, United States, December 2019.
O. Rodriguez, R. Akbarinia, F. Ulliana.
Querying Key-Value Stores under Single-Key Constraints: Rewriting and Parallelization, in: RuleML+RR 2019 - the 3rd International Joint Conference on Rules and Reasoning, Bolzano, Italy, 2019.
R. Souza, L. Azevedo, V. Lourenço, E. Soares, R. Thiago, R. Brandão, D. Civitarese, E. Vital Brazil, M. Moreno, P. Valduriez, M. Mattoso, R. Cerqueira, M. Netto.
Provenance Data in the Machine Learning Lifecycle in Computational Science and Engineering, in: Workshop on Workflows in Support of Large-scale Science (WORKS ), co-located with the ACM/IEEE International Conference for High Performance Computing, Networking, Storage, and Analysis (SC), Denver, United States, ACM, November 2019, 10 p.
R. Souza, L. Azevedo, R. Thiago, E. Soares, M. Nery, M. Netto, E. Vital Brazil, R. Cerqueira, P. Valduriez, M. Mattoso.
Efficient Runtime Capture of Multiworkflow Data Using Provenance, in: eScience 2019 : 15th International eScience Conference, San Diego, United States, September 2019, pp. 1-10.

Conferences without Proceedings

C. Atlan, J.-P. Archambault, O. Banus, F. Bardeau, A. Blandeau, A. Cois, M. Courbin-Coulaud, G. Giraudon, S.-C. Lefèvre, V. Letard, B. Masse, F. Masseglia, B. Ninassi, S. De Quatrebarbes, M. Romero, D. Roy, T. Viéville.
Apprentissage de la pensée informatique : de la formation des enseignant·e·s à la formation de tou·te·s les citoyen·ne·s, in: EIAH'19 Wokshop - Apprentissage de la pensée informatique de la maternelle à l’Université : retours d’expériences et passage à l’échelle, Paris, France, June 2019.
S. Kahl, F.-R. Stöter, H. Goëau, H. Glotin, R. Planqué, W.-P. Vellinga, A. Joly.
Overview of BirdCLEF 2019: Large-Scale Bird Recognition in Soundscapes, in: CLEF 2019 : Conference and Labs of the Evaluation Forum, Lugano, Switzerland, CEUR Workshop Proceedings, CEUR, September 2019, vol. 2380, pp. 1-9.
T. Lorieul, A. Joly.
Vers un désenchevêtrement de l'ambiguïté de la tâche et de l'incertitude du modèle pour la classification avec option de rejet à l'aide de réseaux neuronaux, in: Conférence sur l'Apprentissage automatique (CAp), Toulouse, France, July 2019.
M. Negri, M. Servajean, B. Deneu, A. Joly.
Location-Based Plant Species Prediction Using A CNN Model Trained On Several Kingdoms - Best Method Of GeoLifeCLEF 2019 Challenge, in: CLEF 2019 - Conference and Labs of the Evaluation Forum - Information Access Evaluation meets Multilinguality, Multimodality, and Visualization, Lugano, Switzerland, September 2019.

Scientific Books (or Scientific Book chapters)

A. Joly, H. Goëau, H. Glotin, C. Spampinato, P. Bonnet, W.-P. Vellinga, J.-C. Lombardo, R. Planqué, S. Palazzo, H. Müller.
Biodiversity Information Retrieval Through Large Scale Content-Based Identification: A Long-Term Evaluation, in: Information Retrieval Evaluation in a Changing World: Lessons Learned from 20 Years of CLEF, N. Ferro, C. Peters (editors), The Information Retrieval Series, 2019, vol. 41, pp. 389-413, AcknowledgementsThe organization of the PlantCLEF task is supported by the French project Floris’Tic (Tela Botanica, Inria, CIRAD, INRA, IRD) funded in the context of the national investment program PIA. The organization of the BirdCLEF task is supported by the Xeno-Canto foundation for nature sounds as well as the French CNRS project SABIOD.ORG and EADM MADICS, and Floris’Tic. The annotations of some soundscapes were prepared with the late wonderful Lucio Pando at Explorama Lodges, with the support of Pam Bucur, Marie Trone and H. Glotin. The organization of the SeaCLEF task is supported by the Ceta-mada NGO and the French project Floris’Tic.. [ DOI : 10.1007/978-3-030-22948-1_16 ]
D. Oliveira, J. Liu, E. Pacitti.
Data-Intensive Workflow Management: For Clouds and Data-Intensive and Scalable Computing Environments, Synthesis Lectures on Data Management, Morgan&Claypool Publishers, May 2019, vol. 14, no 4, pp. 1-179. [ DOI : 10.2200/S00915ED1V01Y201904DTM060 ]
T. Özsu, P. Valduriez.
Principles of Distributed Database Systems - Fourth Edition, Springer, 2019, pp. 1-700, forthcoming.

Internal Reports

O. Beaumont, L. Eyraud-Dubois, J. Herrmann, A. Joly, A. Shilova.
Optimal checkpointing for heterogeneous chains: how to train deep neural networks with limited memory, Inria Bordeaux Sud-Ouest, November 2019, no RR-9302,
B. Caramiaux, F. Lotte, J. Geurts, G. Amato, M. Behrmann, F. Bimbot, F. Falchi, A. Garcia, J. Gibert, G. Gravier, H. Holken, H. Koenitz, S. Lefebvre, A. Liutkus, A. Perkis, R. Redondo, E. Turrin, T. Viéville, E. Vincent.
AI in the media and creative industries, New European Media (NEM), April 2019, pp. 1-35,


A. Affouard, J.-C. Lombardo, H. Goëau, P. Bonnet, A. Joly.
Pl@ntNet, April 2019, Software.
O. Buisson, J.-C. Lombardo, A. Joly.
Snoop, April 2019, Software.
O. Levchenko, D.-E. Yagoubi, R. Akbarinia, F. Masseglia, B. Kolev, D. Shasha, T. Palpanas, P. Valduriez.
Imitates, April 2019, Software.
M. Liroz-Gistau, R. Akbarinia, P. Valduriez.
FP-Hadoop, April 2019, Software.
F. Masseglia, J. Diener.
LogMagnet, April 2019, Software. [ DOI : 10.1145/2480362.2480419 ]
C. Pradal, C. Fournier, F. Boudon, P. Valduriez, E. Pacitti, Y. Y. Guédon, C. Godin.
OpenAlea, April 2019, OpenAlea 2.0 adds to OpenAlea 1.0 a high-level formalism dedicated to the modeling of morphogenesis that makes it possible to use several modeling paradigms (Blackboard, L-systems, Agents, Branching processes, Cellular Automata) expressed with different languages (Python, L-Py, R, Visual Programming, ...) to analyse and simulate shapes and their development..
M. Servajean, A. Joly.
ThePlantGame, April 2019, Software.