similar to: Very slow optim()

Dear R-help list, I am working on an optimization with R by evaluating a likelihood function that contains lots of Gamma calculations (BGNBD: Hardie Fader Lee 2005 Management Science). Since I am forced to implement lower bounds for the four parameters included in the model, I chose the optim() function mith L-BFGS-B as method. But the likelihood often returns inf-values which L-BFGS-B

Hi I implemented the age-structure model in Gove et al (2002) in R, which is a nonlinear statistical model. However running the model in R was very slow. So Dave Fournier suggested to use the AD Model Builder Software package and helped me implement the model there. ADMB was incredibly fast in running the model: While running the model in R took 5-10 minutes, depending on the

De: Rubén Roa Enviado el: jueves, 17 de noviembre de 2011 9:53 Para: 'Users@admb-project.org' Asunto: Reporting a conflict between ADMB and Rtools on Windows systems Hi, I have to work under Windows, it's a company policy. I've just found that there is a conflict between tools used to build R packages (Rtools) and ADMB due to the need to put Rtools compiler's

>>>>> Duncan Murdoch >>>>> on Sun, 26 Mar 2023 12:41:03 -0400 writes: > On 26/03/2023 11:54 a.m., J C Nash wrote: >> A tangential email discussion with Simon U. has >> highlighted a long-standing matter that some tools in the >> base R distribution are outdated, but that so many >> examples and other tools may use

I'm having problems using Microsoft Access 2000 mdb files on a Samba share. The same database worked very well on a Windows server. I had hoped Samba would be a drop in replacement for a Windows server but apparently Access needs special Samba configuration. In Access I sometimes get Run-time error '3035': System resource exceeded. I don't see any errors in the log file when

Hi I'm trying to run an admb model from R by using the system () command. The admb model runs fine when running it from the admb command line or when using emacs. However when I try it with system() then R crashes every time. And I tried using the R command line and RGui and in both it crashes. I also tried it from different computers. What I do is I first set the directory where I keep

library(glmmADMB) #Example for glmm.admb data(epil2) glmm.admb(y~Base*trt+Age +Visit,random=~Visit,group="subject",data=epil2,family="nbinom") Gives: Error in glmm.admb(y ~ Base * trt + Age + Visit, random = ~Visit, group = "subject", : The function maximizer failed ****************** R version 2.4.1 RC (2006-12-14 r40181) powerpc-apple-darwin8.8.0 locale: C

Hello, after upgrading from 3.0.8 to 3.0.14a I started have problems in my network. Environment: - clients with W2KSP4 - Linux Debian Sarge server with Samba acting as PDC. There was no other changes on server configuration. Problems: 1) Only some users cannot reach their home share automatically after login. I am using "login drive = J:" to auto-setup connection after login. 2) Only

Dear R users, Does anyone know how to get standard errors of the parameter estimates in glmm.admb? Thanks, Istvan

Dear All, As you know, glmmADMB package use ML method for estimation. Is it possible to use REML estimation method for zero-inflated Poisson distribution? For ML method, poi_ML <- glmm.admb(los ~ psihigh + trt.mod + trt.high + psihigh*trt.mod + psihigh*trt.high + 1, random = ~1, group="site", family="poisson", data=edcap) summary(poi_ML) How can I control to use REML

Hello all, In a previous posting regarding glmm.admb it is stated that glmm.admb can handle 2 nested random effects. I can only fit a single random term at the moment, and wondered if anyone could provide me with some information on how to specify a model with 2 (nested or cross-classified) random terms? Thanks, Jarrod.

Hi All, Following Mike Praeger's posting on this list, I'm happy to pass on that AD Model Builder is now freely available from the ADMB Foundation. http://admb-foundation.org/ Two areas where AD Model builder would be especially useful to R users are multi-parmater smooth optimization as in larg scale maximum likelihood estimation and the analysis of general nonlinear random

R glmmADMB question I am trying to use glmm.admb (the latest alpha version from the R forge website 0.6.4) to model my count data that is overdispersed using a negative binomial family but keep getting the following error message: Error in glmm.admb(data$total_bites_rounded ~ age_class_back, random = ~food.dif.id, : Argument "group" must be a character string specifying the

Dear R-users, Half a year ago we put out the R package "glmmADMB" for fitting overdispersed count data. http://otter-rsch.com/admbre/examples/glmmadmb/glmmADMB.html Several people who used this package have requested additional features. We now have a new version ready. The major new feature is that glmmADMB allows Bernoulli responses with logistic and probit links. In addition there

Dear Dr Skaug and R users, just discovered glmm.admb in R, and it seems a very useful tool. However, I ran into a problem when I compare two models: m1<-glmm.admb(survival~light*species*damage, random=~1, group="table", data=bm, family="binomial", link="logit") m1.1<-glmm.admb(survival~(light+species+damage)^2, random=~1, group="table", data=bm,

Dear List, Some of you have been following the discussion of the GPL and its inclusion in the glmmADMB package we created for R users. I would like to provide a bit of background and include an email we received from Prof. Ripley so that everyone can be aware of how some might use the GPL to try to force access to proprietary software. I think this is interesting because many have voiced the

Dear R-users, A recent post (Feb 16) to R-help inquired about fitting a glmm with a negative binomial distribution. Professor Ripley responded that this was a difficult problem with the simpler Poisson model already being a difficult case: https://stat.ethz.ch/pipermail/r-help/2005-February/064708.html Since we are developing software for fitting general nonlinear random effects models we

Hello everybody, I have a problem with accessing class attributes. I think it might be due to namespace access restrictions or something similar, but I'm unable to figure it out, maybe someone knows the trick how to do it ... I'm trying to extract some information from the summary object for a model fitted using the lmer function from the lme4 package: smry <- summary(lmer(foo

I am attempting to build a package on r-forge and running into a weird error. I have been in correspondence with the R-forge admins and am turning to r-devel on the remote chance that someone might have a guess as to what is going wrong or a suggestion about further diagnostics/experiments I could try ... The package seems to build fine on my system(s) with R CMD build --compact-vignettes

Hello Folks, I'm after some help regarding mixed models. Basically I have sampled a number of different animals at 10 independent sites and am trying to create a mixed model to account for the variation between sites my current model looks like this: mm<-glmm.admb(Hep~Sex+Mass, random=~Mouse, group=Location, data=alan, family="binomial", link="logit") I numbered each