Project WP #641: WP5 - Supporting Blue Assessment: VREs Development [Months: 1-30]
|Status:||Closed||Start date:||May 29, 2017|
|Priority:||Normal||Due date:||Jul 31, 2017|
|Assignee:||Enrico Anello||% Done:|
Incorporate CMSY into DLM Tool package; consider both the standalone and integrated versions.
The aim is to have a scalable solution in the infrastructure in a VRE.
#2 Updated by Nathan Vaughan almost 2 years ago
Based on a further investigation of the latest cMSY model in comparison with the existing DLMtool implementation we are currently working on porting the non-Bayesian portions of the code to DLMtool. Furthermore, we will consider adding accounting for CPUE data as per the BSM methodology without Bayesian fitting if possible.
#3 Updated by Gianpaolo Coro almost 2 years ago
Dear Nathan, CMSY (summary presentation here https://goo.gl/8tnBpC) is made up of a Monte Carlo process and a Bayesian process using a Markov Chain Monte Carlo method. Indeed, the latter is usually more powerful and much faster than the former, and can also use CPUE data. Thus I'm wondering why you want to use only the Monte Carlo process. Further, both the processes can be disable through a flag at the beginning of the code.
#4 Updated by Nathan Vaughan almost 2 years ago
Thanks Gianpaolo, we are working to see what parts of CMSY can be incorporated into DLMtool as from a practical standpoint any DLMtool functions need to be able to run in <5seconds which we believed was an inherent block on using the bayesian component. However we hoped that the Monte Carlo approach could be scaled to produce some output within that timeframe. The primary requirement for DLMtool would be reasonable MSY outputs to test performance while the more accurate r/K results of the full CMSY package could be used for the final analysis. We will discuss this more with you and Anton once a prototype implementation is running. However any suggestions from you on how to speed the runtime to this 5sec range would be greatly appreciated. Cheers, Nathan
#6 Updated by Gianpaolo Coro almost 2 years ago
Dear Nathan, if you produce a new version of CMSY, please share it with me and I can integrate it with the e-Infrastructure. We are currently gathering new computational resources to support the CMSY/DLM tool case. I would propose a Skype call on the 11th of July at 16.00 to exchange updates (unfortunately I'll be in a meeting next week).
#7 Updated by Nathan Vaughan almost 2 years ago
Hey Gianpaolo, I will forward the code to you as soon as I complete the validation. Would you be able to join the weekly Skype call with Anton, Enrico, Nancie and me on July 13th or 20th? I'm sure they will also be interested to hear about the progress on the computational resources front.