similar to: Cannot evaluate subset expression for sigmainverse

Hi, all: I met "Non-conforming parameters for function %*%" problem, when I run the Jags model in R. My model is like this: model{ for(i in 1:n){ for(j in 1:t[i]){ et[i,j]<-yt[i,j]-beta0+betax*xt[i,j]+betat*t[i,j] } for(a in 1:t[i]){ for(b in 1:t[i]){ sigma[i,a,b]<-pow(rho0,abs(t[a]-t[b])) } } phi[i]<-

Has anybody had issues running MCMC (either BUGS or JAGS) on data sets of this magnitude (ie 30k x 20-30). I've been trying to run a hierarchical random effects model on expression data but R completely stalls out on jobs run on 32bit R on our server (doesn't respond...then eventually crashes out with an exception fault). Would using 64bit R help with JAGS? (As far as I know there's

Dear all, I have a question regarding using JAGS and R. My problem is that every single time I want to call JAGS from R the latter crashes (i.e. it turns pale and the Windows tells me "R has stopped working". Strangely, if there is a mistake in my jags code, this will be reported without a crash. Only when the code is right and the model should start to run, R stops working. I already

Hello, I am trying to install rjags on R 3.0.0 that is running on CentOS 6.4. Jags is installed and seems to be working correctly. I get the following error when trying to install from source or CRAN, configure: error: "Problem with header file /usr/include/JAGS/Console.h " See `config.log' for more details JAGS was intalled with an rpm. Does not look like the rpm included

Hi, With the sid package jags (2.0.0-1) and r-base-core (2.11.0-1), I cannot install package rjags anymore (this used to work at some point; can't recall exactly at what R/JAGS versions): ---<--------------------cut here---------------start------------------->--- R> install.packages("rjags", configure.args="--with-jags-modules=/usr/lib/JAGS/modules-2.0.0")

Hello folks Earlier versions of jags and rjags installed on my system without any difficulty, but I'm having trouble with jags version 4.3.0-1ubuntu2~ubuntu14.04.1~ppa1 (from Michael Rutter's R ppa) and rjags version 4.6. The call to install.packages() I always used successfully now produces the error "cannot link to JAGS library in /usr/lib/x86_64-linux-gnu."? shown below

Hi, I'm trying to generate a GLMM for Y following a negative binomial distribution. The first step I'm taking as a beginner in the use of R2Jags is to generate a GLM for Y following a Poisson distribution (I heard it's good in order to get used to the coding language), so here I am and here I face the first error message for which I can't find any mistake of spelling. Could you

Hi, I'm trying to install rjags and R2jags with R version 2.14.1 (2011-12-22) on Linux Mint 12 machine using software repository: deb http://cran.fhcrc.org/bin/linux/ubuntu oneiric/ jags seems to install OK, but rjags gives a weird error about not finding fprec symbol. Here is a history of the problem including several attempts to work around it. (Because of Ben Bolker's recent

Hi All: I get the following error when trying to install the rjags package. I've installed the jags software and I'm using Fedora 10.0 and my sessionInfo is at the bottom of this email. I'm also sorry if this email ends up having control A's all over it. I still haven't figured how to fix that. Thanks. [1] "LOADING MASS LIBRARY" checking for

Anyone used jags.parallel in latest version of R2jags? Ubuntu Oneiric, just ran updates in R to get latest R2jags package which supposedly has added jags.parallel command to send chains to multiple cores ... but when I submit, I get: test <- jags.parallel(d, inits, param, model.file="rats.bug", n.chains=3, n.iter=2000) Error: could not find function

Greetings, I wonder if anyone can offer any help or advice--even direction to an appropriate source of advice. I am trying to install rjags 1.0.1 on Mac OS X 10.5 (see http://www-fis.iarc.fr/~martyn/software/jags/). I have R.app 2.6.1 installed. JAGS 1.0.1 is apparently successfully installed. I (think I) know this because when I type 'jags' into Terminal, I get the following:

I define priors in jags within r using a gamma distribution. I would like to control the shape but I have problems. Any help will be usefull. From help of dgamma ___________________ The Gamma distribution with parameters shape = a and scale = s has density f(x)= 1/(s^a Gamma(a)) x^(a-1) e^-(x/s) and rate=1/scale From jags user manual ____________________ dgamma(r, mu) has a density of

Trying to install latest rjags (3-5) from CRAN with JAGS 3.2.0 installed on Ubuntu 10.04, with r-devel ... the bottom line is that it fails while loading with /libs/rjags.so: undefined symbol: _ZN7Console15checkAdaptationERb Has anyone else seen this or is it a glitch somewhere in my system? thanks Ben Bolker ================== bolker at ubuntu-10-new:~/R/pkgs/rjags$ jags Welcome to

I have been having trouble with rjags on Ubuntu 10.04 > library(rjags) Loading required package: coda Loading required package: lattice linking to JAGS 3.2.0 module basemod loaded Error : .onLoad failed in loadNamespace() for 'rjags', details: call: dyn.load(file) error: unable to load shared object '/usr/lib/JAGS/modules-3/bugs.so': /usr/lib/JAGS/modules-3/bugs.so:

Hi all, I use the excellent packages rjags and cacheSweave, and unfortunately seem to have found an incompatibility between them. Below are a minimal .Rnw file and corresponding JAGS model file which illustrate the problem: *** JAGS model file; name=j.bug *** model { mu ~ dnorm(0,1.0E-5) sigma ~ dunif(0,100) for(i in 1:length(y)) { y[i] ~ dnorm(mu,sigma) } } *** *** .Rnw

Hi, Here is a step-by-step guide to exactly how I've installed R in Ubuntu: http://www.nabble.com/installing-R-on-Ubuntu-td10025949.html#a21894865 Regarding rjags, here is what happened: This webpage (http://yusung.blogspot.com/2009/01/install-jags-and-rjags-in-fedora.html) recommends logging into R as sudo R, and then typing: install.packages("rjags",

Hello, I can`t figure out how to include a text file for use in an example in the .Rd help files of an R package I am writing. I want the examples section of one help file to look like this: \examples{ # Load the JAGS model mod <- jags.model("model.txt") } The function jags.model tries to read in the file model.txt. So far every time I run R CMD check, I get an error message:

Hallo! I want to use the package bayesmix. Trying the examples I had no success. The reason is, I think: > haveJAGS() [1] FALSE Have read of JAGS executable (I could not find JAGS.exe in my R directory). What is JAGS? Where can I find or download it? Karl

Quick followup. Confirmed that TCl/Tk are both installed on the machine (they are, in both 32- and 64-bit flavours), as are all tcl and tk-related libs, devel packages, and about everything else I could find. It occurred to me that perhaps the R I compiled isn't 'tcltk' aware. I checked the config.log, and there is some hint that this might be the case. Just before ## File

There is a thread on this topic already: http://finzi.psych.upenn.edu/Rhelp10/2010-August/250934.html I'm rather mystified by a similar problem and wondering whether I've overlooked something obvious. I'm running with latest versions of R and all packages, and latest version of JAGS running under Windows 7. Here's the problem. I have some source code. It's given below -