See evalWithTimeout() of R.utils, e.g.
tryCatch({
evalWithTimeout({
slowFunction();
}, timeout=7*24*3600);
}, TimeoutException=function(ex) {
cat("Timeout. Skipping.\n");
})
help("evalWithTimeout") have more information and cross links.
/Henrik
On Thu, Jul 18, 2013 at 11:37 AM, ONKELINX, Thierry
<thierry.onkel...@inbo.be> wrote:
> Dear all,
>
> I am running the same model on several datasets, each dataset is a different
> species. The problem is that for some datasets the model is not converging.
> Currently I have an INLA model running for 35 days and still no results. The
> process still uses near 100% of the CPU and less than 1 GB RAM on virtual
> Ubuntu box with 8 GB RAM on a blade server.
>
> I can kill the process manual and make the script skip this model. However it
> would be more elegant if it was possible to automate this. E.g. let the model
> run but kill it automatically once it runs for more than 7 days. Once killed
> the model should throw an error so we can catch that in the error-handling.
>
> Any suggestions on how to do this?
>
> Best regards,
>
> Thierry
>
> ir. Thierry Onkelinx
> Instituut voor natuur- en bosonderzoek / Research Institute for Nature and
> Forest
> team Biometrie & Kwaliteitszorg / team Biometrics & Quality Assurance
> Kliniekstraat 25
> 1070 Anderlecht
> Belgium
> + 32 2 525 02 51
> + 32 54 43 61 85
> thierry.onkel...@inbo.be
> www.inbo.be
>
> To call in the statistician after the experiment is done may be no more than
> asking him to perform a post-mortem examination: he may be able to say what
> the experiment died of.
> ~ Sir Ronald Aylmer Fisher
>
> The plural of anecdote is not data.
> ~ Roger Brinner
>
> The combination of some data and an aching desire for an answer does not
> ensure that a reasonable answer can be extracted from a given body of data.
> ~ John Tukey
>
>
> * * * * * * * * * * * * * D I S C L A I M E R * * * * * * * * * * * * *
> Dit bericht en eventuele bijlagen geven enkel de visie van de schrijver weer
> en binden het INBO onder geen enkel beding, zolang dit bericht niet bevestigd
> is door een geldig ondertekend document.
> The views expressed in this message and any annex are purely those of the
> writer and may not be regarded as stating an official position of INBO, as
> long as the message is not confirmed by a duly signed document.
>
> ______________________________________________
> R-help@r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
______________________________________________
R-help@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
