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Online collaborative environment to run the eastern bluefin tuna stock assessment workflow ArchiMer
Imzilen, Taha; Bonhommeau, Sylvain; Rouyer, Tristan; Kell, Laurence T; Barde, Julien.
In this note, we describe an approach which makes possible to execute online the set of codes used for eastern bluefin tuna (BFT-E) stock assess-ment at ICCAT. 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 new approach has a lot of scientific benefits, but very few participants would be able to reproduce it without specific skills. Since november 2015, the H2020 BlueBridge project is funding an engineer to set up a WebSite (or VRE for Virtual Research Environment) where users will be able to parametrize and execute various steps of the BFT-E stock assessment workflow. By repackaging codes provided by ICCAT BFT-E working group the same codes are...
Tipo: Text Palavras-chave: Bluefin tuna; Scientific cloud; Stock assessment; Grid computing; Online processing.
Ano: 2017 URL: http://archimer.ifremer.fr/doc/00403/51471/52042.pdf
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Online collaborative environment to run Stock Assessment work ow: an option for IOTC? ArchiMer
Imzilen, Taha; Bonhommeau, Sylvain; Rouyer, Tristan; Kell, Laurence T; Chassot, Emmanuel; Barde, Julien.
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 uncertainty in assessment results and associated scienti_c advice. However, very few participants would be able to reproduce it without...
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Ano: 2016 URL: http://archimer.ifremer.fr/doc/00360/47135/47084.pdf
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Stability of the relationships among demersal fish assemblages and environmental-trawling drivers at large spatio-temporal scales in the northern Mediterranean Sea ArchiMer
Mérigot, Bastien; Gaertner, Jean-claude; Brind’amour, Anik; Carbonara, Pierluigi; Esteban, Antonio; Garcia-ruiz, Cristina; Gristina, Michele; Imzilen, Taha; Jadaud, Angelique; Joksimovic, Aleksandar; Kavadas, Stefanos; Kolitari, Jerina; Maina, Irida; Maiorano, Porzia; Manfredi, Chiara; Micallef, Reno; Peristeraki, Panagiota; Relini, Giulio; Sbrana, Mario; Spedicato, Maria Teresa; Thasitis, Ioannis; Vittori, Stefania; Vrgoc, Nedo.
Trawling pressure and environmental changes may affect the composition of fish assemblages. Our knowledge on large spatio-temporal patterns of demersal fish composition remains incomplete for the Mediterranean Sea. We investigated (1) the spatio-temporal stability of demersal assemblages, (2) the relationships between these assemblages and potential structuring factors (trawling pressure and environmental conditions) in order to assess the dynamic of the assemblage structure at the scale of the northern Mediterranean Sea. We analysed a dataset of 18062 hauls from 10 to 800 m depth performed annually during the last two decades across 17 Geographical Sub-Areas (GSAs) (MEDITS program). A multi-table analysis (STATICO-CoA) evidenced a strong inter-GSAs...
Tipo: Text Palavras-chave: Species composition; Stability; Demersal assemblages; Environment; Fishing pressure; Large scale; Co-inertia analysis; STATICO-CoA.
Ano: 2019 URL: https://archimer.ifremer.fr/doc/00584/69629/67485.pdf
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An online tool to easily run stock assessment models, using SS3 and SWO as an example ArchiMer
Nieblas, Anne-elise; Bonhommeau, Sylvain; Imzilen, Taha; Fu, Dan; Fiorellato, Fabio; Barde, Julien.
Tipo: Text
Ano: 2017 URL: http://archimer.ifremer.fr/doc/00403/51439/52008.pdf
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