[R] Coda not providing summary on mcmc object

[smith_cc]

The object is a mcmc sample from lmer. I am using R v2.7.1. Please let me
know what additional information I can provide, hopefully I am just making a
simple mistake. Thanks in advance!

> data(ratdrink, package = 'faraway')
> rd.er <- lmer(wt ~ weeks*treat + (1 | subject), data = ratdrink)
> rd.mc <- mcmcsamp(rd.er, 10000)
> library(coda)
Loading required package: lattice
> summary(rd.mc)
 Length   Class    Mode 
      1 merMCMC      S4 
> HPDinterval(rd.mc)
Error in UseMethod("HPDinterval") : 
  no applicable method for "HPDinterval"
> str(rd.mc)
Formal class 'merMCMC' [package "lme4"] with 9 slots
  ..@ Gp      : int [1:2] 0 27
  ..@ ST      : num [1, 1:10000] 1.179 0.878 0.864 0.760 0.614 ...
  ..@ call    : language lmer(formula = wt ~ weeks * treat + (1 | subject),
data = ratdrink)
  ..@ deviance: num [1:10000] 964 964 966 966 969 ...
  ..@ dims    : Named int [1:14] 1 135 6 27 1 1 1 2 5 1 ...
  .. ..- attr(*, "names")= chr [1:14] "nf" "n" "p" "q" ...
  ..@ fixef   : num [1:6, 1:10000] 52.880 26.480  4.780 -0.794 -9.370 ...
  .. ..- attr(*, "dimnames")=List of 2
  .. .. ..$ : chr [1:6] "(Intercept)" "weeks" "treatthiouracil"
"treatthyroxine" ...
  .. .. ..$ : NULL
  ..@ nc      : int 1
  ..@ ranef   : num[1:27, 0 ] 
  ..@ sigma   : num [1, 1:10000] 7.16 6.68 6.60 7.14 7.96 ...
> search()
 [1] ".GlobalEnv"        "package:lme4"      "package:Matrix"   
"package:coda"      "package:lattice"   "package:datasets" 
"package:grDevices"
 [8] "package:graphics"  "package:stats"     "package:utils"    
"package:methods"   "Autoloads"         "package:base"     
>  

Cheers,
Chad
-- 
View this message in context: http://www.nabble.com/Coda-not-providing-summary-on-mcmc-object-tp18204697p18204697.html
Sent from the R help mailing list archive at Nabble.com.