regularly save output in nimble

[Dusit Ngoprasert]

Hi everyone,

I wonder, is there any package that works like "saveJAGS", but for nimble? I have a problem with the power outage after running three days. The model should run longer than that, so I am afraid to get nothing again. 

Best regards,

Dusit

[Dusit Ngoprasert]

Dear Cyril,

Thanks for your suggestion. I will check that link.

Best,

Dusit

On Jul 11, 2024, at 19:58, Cyril Milleret <cyril.m...@gmail.com> wrote:



Hi Dusit,

It is possible to save the state of the model following this vignette:
https://danielturek.github.io/public/saveMCMCstate/saveMCMCstate.html.

This means that you could run the model with a small number of iterations, save the state of the model, and then continue or restart (in case of power outage) the model to run more iterations, and so on… Saving the state of the model allows you to restart it in case anytime after it stopped running. 

For example: 

Run a few (XXXX) iterations:

 Cmcmc$run(XXXX)

Then save the state of the model and the posteriors (functions available in the vignette):

stateList <- list(modelState = getModelState(Cmodel),

                  mcmcState = getMCMCstate(conf, Cmcmc))

#save model state

saveRDS(stateList, file = fileName)

#save posteriors: 

samples <- Cmcmc$mvSamples

save(samples, file = « samples.RData”)

 

And then re-run more iterations:

Cmcmc$run(XXXX)

Then if you need to restart the model, you can do it using the model state that you saved. See instructions in the vignette.

Hope this helps,

 

Best,

Cyril

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[Cyril Milleret]

Hi everyone,

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