Publications HAL

2024

Conference papers

ref_biblio
Gaël Vila, Emmanuel Medernach, Inés Gonzalez, Axel Bonnet, Yohan Chatelain, et al.. The Impact of Hardware Variability on Applications Packaged with Docker and Guix: a Case Study in Neuroimaging. ACM REP'24, ACM, Jun 2024, Rennes, France. ⟨10.1145/3641525.3663626⟩. ⟨hal-04480308v2⟩
Accès au texte intégral et bibtex
https://hal.science/hal-04480308/file/The_Impact_of_Hardware_Variability_on_Applications_Packaged_with_Docker_and_Guix_revised_final.pdf BibTex

Reports

ref_biblio
Emmanuel Medernach, Gaël Vila, Axel Bonnet, Sorina Camarasu-Pop. ReproVIP Report #2.1.1 Application Deployment Strategies. CREATIS Université Lyon 1. 2024. ⟨hal-04551771⟩
Accès au texte intégral et bibtex
https://hal.science/hal-04551771/file/ReproVIP_Report__2_1_1.pdf BibTex
ref_biblio
Hippolyte Blot, Axel Bonnet, Sorina Camarasu-Pop. ReproVIP Report associated to Reproducibility Dashboard (D1.1.2) and CI platform (D 1.2.1). CREATIS Université Lyon 1. 2024. ⟨hal-04551781⟩
Accès au texte intégral et bibtex
https://hal.science/hal-04551781/file/ReproVIP_Report__1_1_2_and_1_2_1.pdf BibTex

2023

Conference papers

ref_biblio
Gaël Vila, Axel Bonnet, Fabien Chauveau, Sophie Gaillard, Françoise Durand-Dubief, et al.. Computational Reproducibility in Metabolite Quantification Applied to Short Echo Time in Vivo MR Spectroscopy. 20th IEEE International Symposium on Biomedical Imaging, ISBI 2023, IEEE, Apr 2023, Cartagena de Indias, Colombia. ⟨10.1109/ISBI53787.2023.10230744⟩. ⟨hal-04006152⟩
Accès au texte intégral et bibtex
https://hal.science/hal-04006152/file/Camera_Ready.pdf BibTex
ref_biblio
Morgane Des Ligneris, Axel Bonnet, Yohan Chatelain, Tristan Glatard, Michaël Sdika, et al.. Reproducibility of Tumor Segmentation Outcomes with a Deep Learning Model. International Symposium on Biomedical Imaging (ISBI), Apr 2023, Cartagena de Indias, Colombia. ⟨10.1109/ISBI53787.2023.10230482⟩. ⟨hal-04006057⟩
Accès au texte intégral et bibtex
https://hal.science/hal-04006057/file/ISBI23_paper_final.pdf BibTex

Reports

ref_biblio
Gaël Vila, Morgane Des Ligneris, Axel Bonnet, Tristan Glatard, Yohan Chatelain, et al.. ReproVIP Report #1.1.1 Selected Metrics and Reproducibility Results. CREATIS Université Lyon 1. 2023. ⟨hal-04045178⟩
Accès au texte intégral et bibtex
https://hal.science/hal-04045178/file/ReproVIP_Report__1_1_1.pdf BibTex

2022

Conference papers

ref_biblio
Gaël Vila, Axel Bonnet, Carole Frindel, Helene Ratiney, Frédéric Cervenansky, et al.. Projet ReproVIP. Journée Reproductibilité Labex PRIMES, Dec 2022, Lyon, France. ⟨hal-04006460⟩
Accès au texte intégral et bibtex
https://hal.science/hal-04006460/file/Projet_ReproVIP.pdf BibTex
ref_biblio
Axel Bonnet, Sandesh Patil, Sorina Camarasu-Pop, Tristan Glatard. Deploying container-based applications on EGI with VIP. JCAD 2022 - Journées Calcul Données, Oct 2022, Dijon, France. ⟨hal-03975757⟩
Accès au texte intégral et bibtex
https://hal.science/hal-03975757/file/Presentation_light_Orateur_Bonnet_Axel_Deploiement_Application_VIP.pdf BibTex
ref_biblio
Alexandre Cornier, Sorina Pop, Axel Bonnet, Enol Fernández, Valeria Ardizzone. Integrating EGI Check-in the Virtual Imaging Platform. International Symposium On Grids & Clouds (ISGC) 2022, Mar 2022, En ligne, France. ⟨hal-03708360⟩
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Poster communications

ref_biblio
Gaël Vila, Axel Bonnet, Frédéric Cervenansky, Claire Mouton, Sorina Camarasu-Pop, et al.. ReproVIP: Enhancing Reproducibility of Scientific Results in Medical Imaging. EGI Conference 2022, Sep 2022, Prague, France. ⟨hal-03789321⟩
Accès au texte intégral et bibtex
https://hal.science/hal-03789321/file/Poster_EGI-2022_v5.pdf BibTex
ref_biblio
Sandesh Patil, Axel Bonnet, Sorina Camarasu-Pop, Tristan Glatard. Deploying container-based applications on EGI with VIP. EGI2022 - EGI conference, Sep 2022, Prague, Czech Republic. pp.1-1. ⟨hal-03792703⟩
Accès au texte intégral et bibtex
https://hal.science/hal-03792703/file/EGI_2022_Sandesh_scp.pdf BibTex

2021

Journal articles

ref_biblio
Ahmad Ali, Guillaume Vanel, Sorina Camarasu-Pop, Axel Bonnet, Carole Frindel, et al.. MicroVIP: Microscopy image simulation on the Virtual Imaging Platform. SoftwareX, 2021, 16, pp.100854. ⟨10.1016/j.softx.2021.100854⟩. ⟨hal-03619436⟩
Accès au texte intégral et bibtex
https://hal.science/hal-03619436/file/S235271102100131X.pdf BibTex

Conference papers

ref_biblio
Sorina Camarasu-Pop, Axel Bonnet, Arthur Masson, Michael Kain, Michel Dojat, et al.. MSSEG-2: Un challenge d'imagerie médicale sur VIP. JCAD 2021, Dec 2021, En ligne, France. ⟨hal-03708108⟩
Accès au texte intégral et bibtex
https://hal.science/hal-03708108/file/Presentation_courte_Orateur_POP_Sorina_MSSEG-2_Un_challenge.pdf BibTex
ref_biblio
Sorina Camarasu-Pop, Axel Bonnet, Arthur Masson, Michael Kain, Michel Dojat, et al.. MSSEG-2: A medical imaging challenge on VIP. EGI Conference 2021, Oct 2021, En ligne, France. ⟨hal-03708105⟩
Accès au texte intégral et bibtex
https://hal.science/hal-03708105/file/EGI_VIP_MSSEG2_v3.pdf BibTex
ref_biblio
Axel Bonnet, Gaulthier Martin, Sorina Pop, Fréderic Cervenansky. Continuous integration and deployment on VIP. EGI Conference 2021, Oct 2021, En ligne, France. ⟨hal-03708107⟩
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BibTex

2019

Conference papers

ref_biblio
Camille Maumet, Xavier Rolland, Axel Bonnet, Sorina Camarasu-Pop, Argiro Kokogiannaki, et al.. Open research: linking the bits and pieces with OpenAIRE-connect. OHBM 2019 - 25th Annual Meeting of the Organization for Human Brain Mapping, Jun 2019, Rome, Italy. pp.1-6. ⟨inserm-02151177⟩
Accès au texte intégral et bibtex
https://inserm.hal.science/inserm-02151177/file/OHBM%202019_%20OpenAIRE-Connect%281%29.pdf BibTex
ref_biblio
Sorina Camarasu-Pop, Carole Lartizien, Thomas Grenier, Axel Bonnet, Pascal Wassong, et al.. Exploiting GPUs on distributed infrastructures for medical imaging applications with VIP and DIRAC. 42nd international convention on information and communication technology, electronics and microelectronics, May 2019, Opatija, Croatia. pp.190-195, ⟨10.23919/mipro.2019.8757075⟩. ⟨hal-02327867⟩
Accès au texte intégral et bibtex
https://hal.science/hal-02327867/file/Exploiting_GPUs_AT.pdf BibTex
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Maxime Chauvin, Gilles Mathieu, Sorina Camarasu-Pop, Axel Bonnet, Manuel Bardiès, et al.. Enabling Large Scale Data Production for OpenDose with GATE on the EGI Infrastructure. 2019 19th IEEE/ACM International Symposium on Cluster, Cloud and Grid Computing (CCGRID), May 2019, Larnaca, France. pp.658-665, ⟨10.1109/CCGRID.2019.00084⟩. ⟨inserm-02869860⟩
Accès au texte intégral et bibtex
https://inserm.hal.science/inserm-02869860/file/Final_Enabling_Large_Scale_Data_Production_for_OpenDose_with_GATE_on_the_EGI_Infrastructure.pdf BibTex

2018

Journal articles

ref_biblio
Tristan Glatard, Gregory Kiar, Tristan Aumentado-Armstrong, Natacha Beck, Pierre Bellec, et al.. Boutiques: a flexible framework to integrate command-line applications in computing platforms. GigaScience, 2018, 7 (5), ⟨10.1093/gigascience/giy016⟩. ⟨hal-01817780⟩
Accès au bibtex
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Conference papers

ref_biblio
Sorina Camarasu-Pop, Axel Bonnet, Camille Maumet, Michael Kain, Christian Barillot, et al.. Open Science for the Neuroinformatics community. DI4R 2018 - Digital Infrastructures for Research, Oct 2018, Lisbon, Portugal. pp.1. ⟨inserm-01846994⟩
Accès au texte intégral et bibtex
https://inserm.hal.science/inserm-01846994/file/DI4R%202018%20-%20Open%20Science%20for%20the%20Neuroinformatics%20community.pdf BibTex
ref_biblio
Sorina Camarasu-Pop, Axel Bonnet, Camille Maumet, Michael Kain, Christian Barillot, et al.. Interoperability with Boutiques and CARMIN. DI4R 2018 - Digital Infrastructures for Research, Oct 2018, Lisbon, Portugal. pp.1. ⟨inserm-01846997⟩
Accès au texte intégral et bibtex
https://inserm.hal.science/inserm-01846997/file/DI4R%202018%20-%20Interoperability%20with%20Boutiques%20and%20CARMIN.pdf BibTex