library(lme4) ## show important current settings {for reference, etc} -- [early, and also on Windows !]: str( lmerControl()) str(glmerControl()) str(nlmerControl()) ls.str(environment(nloptwrap)) ## fm1 <- lmer(Reaction ~ Days + (Days|Subject), sleepstudy) fm1ML <- refitML(fm1) REMLcrit(fm1) deviance(fm1ML) deviance(fm1,REML=FALSE) ## FIXME: not working yet (NA) deviance(fm1,REML=TRUE) ## from lme4.0 oldvals <- c(REML=1743.6282722424, ML=1751.98581103058) ## leave out ML values for REML fits for now ... stopifnot( all.equal(REMLcrit(fm1),deviance(fm1,REML=TRUE),deviance(fm1ML,REML=TRUE),oldvals["REML"]), all.equal(deviance(fm1ML),deviance(fm1ML,REML=FALSE),oldvals["ML"]), all.equal(REMLcrit(fm1)/-2,c(logLik(fm1)),c(logLik(fm1ML,REML=TRUE)),c(logLik(fm1,REML=TRUE))), all.equal(deviance(fm1ML)/-2,c(logLik(fm1ML,REML=FALSE)), c(logLik(fm1ML,REML=FALSE)))) ## should be: ## stopifnot( ## all.equal(deviance(fm1),deviance(fm1,REML=TRUE),deviance(fm1ML,REML=TRUE),oldvals["REML"]), ## all.equal(deviance(fm1ML),deviance(fm1,REML=FALSE),deviance(fm1ML,REML=FALSE),oldvals["ML"]), ## all.equal(deviance(fm1)/2,c(logLik(fm1)),c(logLik(fm1ML,REML=TRUE)),c(logLik(fm1,REML=TRUE))), ## all.equal(deviance(fm1ML)/2,c(logLik(fm1,REML=FALSE)),c(logLik(fm1ML,REML=FALSE)), ## c(logLik(fm1ML,REML=FALSE))))