[R-sig-ME] glmmTMB, OpenMP and Ubuntu

[J. Marius RAKOTONDRAMANGA]

Dear Xaver,

Have a look on these two links, they may help you to install and configure
"openmpi-bin" on Ubuntu and "Rmpi" R packages:
1- https://zoomadmin.com/HowToInstall/UbuntuPackage/openmpi-bin
2- http://webhome.auburn.edu/~zengpen/tutorials/openMPI_with_R.pdf

Best regards,

---------
J. Marius RAKOTONDRAMANGA, MSc
PhD Student in Biostatistics/Biomathematics
Sorbonne Université (ex. UPMC)

Le lun. 7 sept. 2020 à 12:56, <mega-x using gmx.net> a écrit :

> Dear all,
>
>
>
> I am currently fitting a complex model with glmmTMB that involves random
> effects and covariance structures (spatiotemporal autocorrelation). I would
> like to try the experimental parallel optimization feature
> <https://cran.r-project.org/web/packages/glmmTMB/vignettes/parallel.html>
> to reduce computation time. To do this I've setup a virtual machine running
> Ubuntu 20.04 on 16+ cores. However, I found no information in how to setup
> OpenMP, R and glmmTMB. Is there a step by step guide that I can follow?
>
>
>
> The Vignette states the following:
>
> "If your OS supports OpenMP parallelization and R was installed using
> OpenMP, glmmTMB will automatically pick up the OpenMP flags from R's
> Makevars and compile the C++ model with OpenMP support."
>
> I was not able to find any information on how to install R using OpenMP.
>
>
>
> Best,
>
>
>
> Xaver
>
>
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>
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