CRAN Package Check Results for Package lme4

Last updated on 2014-04-08 11:53:01.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.1-5 40.86 322.45 363.31 NOTE
r-devel-linux-x86_64-debian-gcc 1.1-5 43.52 324.59 368.11 NOTE
r-devel-linux-x86_64-fedora-clang 1.1-5 813.63 NOTE
r-devel-linux-x86_64-fedora-gcc 1.1-5 792.04 NOTE
r-devel-macosx-x86_64-clang 1.1-5 572.84 OK
r-devel-macosx-x86_64-gcc 1.1-5 NOTE
r-prerel-linux-x86_64 1.1-5 44.44 321.31 365.75 NOTE
r-prerel-solaris-sparc 1.1-5 2044.30 ERROR
r-prerel-solaris-x86 1.1-5 450.70 ERROR
r-prerel-windows-ix86+x86_64 1.1-5 113.00 759.00 872.00 NOTE
r-release-linux-ix86 1.1-5 91.00 666.00 757.00 NOTE
r-release-linux-x86_64 1.1-5 44.18 320.11 364.29 NOTE
r-release-macosx-x86_64 1.1-5 NOTE
r-release-windows-ix86+x86_64 1.1-5 103.00 823.00 926.00 NOTE
r-oldrel-windows-ix86+x86_64 1.1-5 103.00 150.00 253.00 ERROR

Memtest notes: UBSAN UBSAN valgrind valgrind

Check Details

Version: 1.1-5
Check: installed package size
Result: NOTE
     installed size is 21.5Mb
     sub-directories of 1Mb or more:
     doc 1.1Mb
     libs 17.5Mb
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-macosx-x86_64-gcc, r-prerel-linux-x86_64, r-prerel-solaris-sparc, r-prerel-solaris-x86, r-prerel-windows-ix86+x86_64, r-release-linux-ix86, r-release-linux-x86_64, r-release-macosx-x86_64, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 1.1-5
Check: tests
Result: ERROR
    Running the tests in ‘tests/bootMer.R’ failed.
    Last 13 lines of output:
     > ## .progress="txt",PBargs=list(style=3)),"some bootstrap runs failed")
     >
     > if(.Platform$OS.type != "windows"){
     + boo01P <- bootMer(fm1, mySumm, nsim = 10, parallel="multicore", ncpus=2)
     + }
     >
     > boo01P.snow <- bootMer(fm1, mySumm, nsim = 10, parallel="snow", ncpus=2)
     >
     >
     > boo01P <- bootMer(fm1, mySumm, nsim = 10, parallel="multicore", ncpus=2)
     > }
     Error: unexpected '}' in "}"
     Execution halted
Flavors: r-prerel-solaris-sparc, r-prerel-solaris-x86

Version: 1.1-5
Check: running examples for arch 'i386'
Result: ERROR
    Running examples in 'lme4-Ex.R' failed
    The error most likely occurred in:
    
    > ### Name: drop1.merMod
    > ### Title: Drop all possible single fixed-effect terms from a mixed effect
    > ### model
    > ### Aliases: drop1.merMod
    > ### Keywords: misc
    >
    > ### ** Examples
    >
    > fm1 <- lmer(Reaction~Days+(Days|Subject),sleepstudy)
    > ## likelihood ratio tests
    > drop1(fm1,test="Chisq")
    Single term deletions
    
    Model:
    Reaction ~ Days + (Days | Subject)
     Df AIC LRT Pr(Chi)
    <none> 1763.9
    Days 1 1785.5 23.537 1.226e-06 ***
    ---
    Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
    > ## use Kenward-Roger corrected F test, or parametric bootstrap,
    > ## to test the significance of each dropped predictor
    > if (require(pbkrtest)) {
    + KRSumFun <- function(object, objectDrop, ...) {
    + krnames <- c("ndf","ddf","Fstat","p.value","F.scaling")
    + r <- if (missing(objectDrop)) {
    + setNames(rep(NA,length(krnames)),krnames)
    + } else {
    + krtest <- KRmodcomp(object,objectDrop)
    + unlist(krtest$stats[krnames])
    + }
    + attr(r,"method") <- c("Kenward-Roger via pbkrtest package")
    + r
    + }
    + drop1(fm1,test="user",sumFun=KRSumFun)
    +
    + if(lme4:::testLevel() >= 3) { ## takes about 16 sec
    + nsim <- 100
    + PBSumFun <- function(object, objectDrop, ...) {
    + pbnames <- c("stat","p.value")
    + r <- if (missing(objectDrop)) {
    + setNames(rep(NA,length(pbnames)),pbnames)
    + } else {
    + pbtest <- PBmodcomp(object,objectDrop,nsim=nsim)
    + unlist(pbtest$test[2,pbnames])
    + }
    + attr(r,"method") <- c("Parametric bootstrap via pbkrtest package")
    + r
    + }
    + system.time(drop1(fm1,test="user",sumFun=PBSumFun))
    + }
    + }
    Loading required package: pbkrtest
    Loading required package: MASS
    Loading required package: parallel
    Note: Method with signature 'sparseMatrix#ANY' chosen for function 'kronecker',
     target signature 'dgCMatrix#ngCMatrix'.
     "ANY#sparseMatrix" would also be valid
    Error in chol.default(forceSymmetric(SigmaG$Sigma)) :
     non-numeric argument to 'chol'
    Calls: drop1 ... vcovAdj_internal -> chol2inv -> chol -> chol.default
    Execution halted
Flavor: r-oldrel-windows-ix86+x86_64

Version: 1.1-5
Check: running examples for arch 'x64'
Result: ERROR
    Running examples in 'lme4-Ex.R' failed
    The error most likely occurred in:
    
    > ### Name: drop1.merMod
    > ### Title: Drop all possible single fixed-effect terms from a mixed effect
    > ### model
    > ### Aliases: drop1.merMod
    > ### Keywords: misc
    >
    > ### ** Examples
    >
    > fm1 <- lmer(Reaction~Days+(Days|Subject),sleepstudy)
    > ## likelihood ratio tests
    > drop1(fm1,test="Chisq")
    Single term deletions
    
    Model:
    Reaction ~ Days + (Days | Subject)
     Df AIC LRT Pr(Chi)
    <none> 1763.9
    Days 1 1785.5 23.537 1.226e-06 ***
    ---
    Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
    > ## use Kenward-Roger corrected F test, or parametric bootstrap,
    > ## to test the significance of each dropped predictor
    > if (require(pbkrtest)) {
    + KRSumFun <- function(object, objectDrop, ...) {
    + krnames <- c("ndf","ddf","Fstat","p.value","F.scaling")
    + r <- if (missing(objectDrop)) {
    + setNames(rep(NA,length(krnames)),krnames)
    + } else {
    + krtest <- KRmodcomp(object,objectDrop)
    + unlist(krtest$stats[krnames])
    + }
    + attr(r,"method") <- c("Kenward-Roger via pbkrtest package")
    + r
    + }
    + drop1(fm1,test="user",sumFun=KRSumFun)
    +
    + if(lme4:::testLevel() >= 3) { ## takes about 16 sec
    + nsim <- 100
    + PBSumFun <- function(object, objectDrop, ...) {
    + pbnames <- c("stat","p.value")
    + r <- if (missing(objectDrop)) {
    + setNames(rep(NA,length(pbnames)),pbnames)
    + } else {
    + pbtest <- PBmodcomp(object,objectDrop,nsim=nsim)
    + unlist(pbtest$test[2,pbnames])
    + }
    + attr(r,"method") <- c("Parametric bootstrap via pbkrtest package")
    + r
    + }
    + system.time(drop1(fm1,test="user",sumFun=PBSumFun))
    + }
    + }
    Loading required package: pbkrtest
    Loading required package: MASS
    Loading required package: parallel
    Note: Method with signature 'sparseMatrix#ANY' chosen for function 'kronecker',
     target signature 'dgCMatrix#ngCMatrix'.
     "ANY#sparseMatrix" would also be valid
    Error in chol.default(forceSymmetric(SigmaG$Sigma)) :
     non-numeric argument to 'chol'
    Calls: drop1 ... vcovAdj_internal -> chol2inv -> chol -> chol.default
    Execution halted
Flavor: r-oldrel-windows-ix86+x86_64