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Online collaborative environment to run stock assessment workflow : an option for IOTC ?

Abstract : In this note, we present an approach which has been recently used to execute online the set of codes used for eastern blue n tuna (BFT-E) stock assessment at ICCAT. We aim at discussing the possible interest of the approach to the IOTC Community for focusing on Indian ocean tuna and tuna-like stocks and running other assesment models such as Stock Synthesis 3 (SS3). In 2014, ICCAT BFT-E working group has been able to execute thousands of model runs by using parallelization of R and Fortran codes on a supercomputer. This approach has a lot of scienti c bene ts, in particular for better including the multiple sources of uncer- tainty in assessment results and associated scienti c advice. However, very few participants would be able to reproduce it without speci c technical skills. Since November 2015, a WebSite or VRE for Virtual Research En- vironment has been set up within the H2020 BlueBridge project to enable users to easily parametrize and execute various steps of the BFT-E stock assessment work ow. By repackaging codes provided by ICCAT BFT-E working group, the same codes are now executable online. They can be parametrized, executed and edited by anybody from a simple web page and data outputs are delivered in standard data format. At this stage, this VRE comes with various collaborative Web Services: (i) a workspace to share documents or data, (ii) Web pages or RStudio server to process data online, and (iii) an automated report service to dynamically generate documents packaging these results. Such a collaborative environment enables to store and access the whole set of data and source codes to replicate past results or to try new parametrizations of the model with usual tools or simple web forms. Such an approach might bring more transparency and collaboration within working groups.
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Contributor : Julien Barde Connect in order to contact the contributor
Submitted on : Wednesday, January 10, 2018 - 8:55:48 AM
Last modification on : Wednesday, October 26, 2022 - 8:12:23 AM




Julien Barde, Emmanuel Chassot, Rouyer Tristan, Sylvain Bonhommeau, Lawrence Kell, et al.. Online collaborative environment to run stock assessment workflow : an option for IOTC ?. 2016. ⟨ird-01679571⟩



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