taking in account results of a gmml in despite of error warning about memory?
Hi to everyone, I have being trying to fit aglmm on binay and poisson data and when I run this model, with poisson data, the error below shows up. But still gives me results. Does this means that those are only partial results and shouldn't be taking into account, because the model didn't run fully?
glmmab.FMv<-glmer(abundance~c.census*avail.surface*abundance.prev +(0+spp|tree), data=db.e_St, family=poisson(link=log))
Error: cannot allocate vector of size 183 Kb In addition:Warning messages: 1: In structure(list(message = as.character(message), call = call), : Reached total allocation of 4061Mb: see help(memory.size) 2: In structure(list(message = as.character(message), call = call), : Reached total allocation of 4061Mb: see help(memory.size) I am using the latest version of R and R studio. As I have seen before that some complicated models don't run at all if I had already many other models as objects in the workspace, I did run this one with the minimum use of memory (just the database as an object). I also read that R is suppose to do not have memory problems any more, but I don't really know how to expand the use of memory by R on my pc. For what I observed with mem.limits() it appears unlimited (NA), but then if I type mem.limit(), 4061 shows up. Does that mean that I can not run those models in my pc at al?. Here, some more info in the data: Number of obs: 23407, groups:tree,89 Thanks to anyone who can shed some light on this, Glenda Mendieta-Leiva PhD candidate University of Oldenburg
On 28/11/2011 12:00, r-sig-mixed-models-request at r-project.org wrote:
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https://stat.ethz.ch/mailman/listinfo/r-sig-mixed-models or, via email, send a message with subject or body 'help' to r-sig-mixed-models-request at r-project.org You can reach the person managing the list at r-sig-mixed-models-owner at r-project.org When replying, please edit your Subject line so it is more specific than "Re: Contents of R-sig-mixed-models digest..." Today's Topics: 1. Population fit with glm works fine: totally off with glmer (Dieter Menne) ---------------------------------------------------------------------- Message: 1 Date: Mon, 28 Nov 2011 08:21:44 +0000 (UTC) From: Dieter Menne<dieter.menne at menne-biomed.de> To: r-sig-mixed-models at r-project.org Subject: [R-sig-ME] Population fit with glm works fine: totally off with glmer Message-ID:<loom.20111128T091939-576 at post.gmane.org> Content-Type: text/plain; charset=us-ascii Ben Bolker<bbolker at ...> writes: This (using the aforementioned Dorie package) library(blme) (fitbglmer<- summary(g3<- bglmer(Satiated~MealVol*Group+(1|Subject), family=binomial, data=sdata))) ## requires LATEST version of coefplot2 from r-forge: ## packages won't be rebuilt until tomorrow, probably library(coefplot2) coefplot2(list(gf1,gf2,gf3),col=c(1,2,4)) coefplot2(list(gf1,gf2,gf3),xlim=c(-0.05,0.15)) Thanks, Ben, I had already started with MCMCglmm, but did not know about blme. Dieter ------------------------------ _______________________________________________ R-sig-mixed-models mailing list R-sig-mixed-models at r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mixed-models End of R-sig-mixed-models Digest, Vol 59, Issue 39 **************************************************