CRAN Package Check Results for Package msm

Last updated on 2015-07-03 21:46:38.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.5 6.13 103.33 109.46 NOTE
r-devel-linux-x86_64-debian-gcc 1.5 6.44 102.26 108.70 NOTE
r-devel-linux-x86_64-fedora-clang 1.5 219.92 NOTE
r-devel-linux-x86_64-fedora-gcc 1.5 196.86 NOTE
r-devel-osx-x86_64-clang 1.5 186.41 NOTE
r-devel-windows-ix86+x86_64 1.5 24.00 222.00 246.00 NOTE
r-patched-linux-x86_64 1.5 6.45 102.45 108.90 NOTE
r-patched-solaris-sparc 1.5 1391.20 NOTE
r-patched-solaris-x86 1.5 275.40 NOTE
r-release-linux-x86_64 1.5 6.44 102.26 108.70 NOTE
r-release-osx-x86_64-mavericks 1.5 OK
r-release-windows-ix86+x86_64 1.5 30.00 216.00 246.00 OK
r-oldrel-windows-ix86+x86_64 1.5 23.00 253.00 276.00 OK

Check Details

Version: 1.5
Check: S3 generic/method consistency
Result: NOTE
    Found the following apparent S3 methods exported but not registered:
     plot.prevalence.msm plot.survfit.msm
    See section ‘Registering S3 methods’ in the ‘Writing R Extensions’
    manual.
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-osx-x86_64-clang, r-patched-linux-x86_64, r-patched-solaris-sparc, r-patched-solaris-x86, r-release-linux-x86_64

Version: 1.5
Check: R code for possible problems
Result: NOTE
    Ccall.msm: no visible global function definition for ‘model.extract’
    Ccall.msm: no visible global function definition for ‘na.omit’
    bootdata.subject.msm: no visible global function definition for
     ‘model.frame’
    bootdata.trans.msm: no visible global function definition for
     ‘model.frame’
    crudeinits.msm: no visible global function definition for ‘model.frame’
    deltamethod : <anonymous>: no visible global function definition for
     ‘deriv’
    deriv.test: no visible global function definition for ‘numericDeriv’
    dmenorm: no visible global function definition for ‘pnorm’
    dmenorm: no visible global function definition for ‘dnorm’
    dmeunif: no visible global function definition for ‘pnorm’
    dpexp: no visible global function definition for ‘dexp’
    dpexp: no visible global function definition for ‘pexp’
    draic.msm: no visible global function definition for ‘model.frame’
    draic.msm : lh.restricted.obj: no visible global function definition
     for ‘as.formula’
    draic.msm: no visible global function definition for ‘optimHess’
    draic.msm: no visible global function definition for ‘qnorm’
    draic.msm: no visible global function definition for ‘pnorm’
    drlcv.msm: no visible global function definition for ‘model.frame’
    drlcv.msm: no visible global function definition for ‘as.formula’
    drlcv.msm : cv.fn: no visible global function definition for
     ‘as.formula’
    drlcv.msm: no visible global function definition for ‘qnorm’
    drlcv.msm: no visible global function definition for ‘pnorm’
    dtnorm: no visible global function definition for ‘pnorm’
    dtnorm: no visible global function definition for ‘dnorm’
    efpt.ci.msm : <anonymous>: no visible global function definition for
     ‘quantile’
    efpt.normci.msm : <anonymous>: no visible global function definition
     for ‘quantile’
    ematrix.ci.msm : <anonymous>: no visible global function definition for
     ‘quantile’
    ematrix.ci.msm : <anonymous>: no visible global function definition for
     ‘sd’
    ematrix.normci.msm : <anonymous>: no visible global function definition
     for ‘quantile’
    ematrix.normci.msm : <anonymous>: no visible global function definition
     for ‘sd’
    expected.ci.msm : <anonymous>: no visible global function definition
     for ‘quantile’
    expected.msm: no visible global function definition for ‘model.extract’
    expected.normci.msm : <anonymous>: no visible global function
     definition for ‘quantile’
    hazard.msm: no visible global function definition for ‘qnorm’
    hmmBeta : <anonymous>: no visible global function definition for
     ‘rbeta’
    hmmBinom : <anonymous>: no visible global function definition for
     ‘rbinom’
    hmmExp : <anonymous>: no visible global function definition for ‘rexp’
    hmmGamma : <anonymous>: no visible global function definition for
     ‘rgamma’
    hmmLNorm : <anonymous>: no visible global function definition for
     ‘rlnorm’
    hmmMETNorm : <anonymous>: no visible global function definition for
     ‘rnorm’
    hmmMEUnif : <anonymous>: no visible global function definition for
     ‘rnorm’
    hmmMEUnif : <anonymous>: no visible global function definition for
     ‘runif’
    hmmNBinom : <anonymous>: no visible global function definition for
     ‘rnbinom’
    hmmNorm : <anonymous>: no visible global function definition for
     ‘rnorm’
    hmmPois : <anonymous>: no visible global function definition for
     ‘rpois’
    hmmT : <anonymous>: no visible global function definition for ‘rt’
    hmmUnif : <anonymous>: no visible global function definition for
     ‘runif’
    hmmWeibull : <anonymous>: no visible global function definition for
     ‘rweibull’
    initp.ci.msm: no visible binding for global variable ‘quantile’
    initp.ci.msm: no visible global function definition for ‘quantile’
    logLik.msm: no visible global function definition for ‘model.extract’
    lrtest.msm: no visible global function definition for ‘logLik’
    lrtest.msm: no visible global function definition for ‘pchisq’
    model.matrix.wrap: no visible global function definition for
     ‘model.matrix’
    msm: no visible binding for global variable ‘na.omit’
    msm : <anonymous>: no visible global function definition for ‘terms’
    msm: no visible global function definition for ‘reformulate’
    msm : varnames: no visible global function definition for ‘terms’
    msm: no visible binding for global variable ‘na.pass’
    msm: no visible global function definition for ‘terms’
    msm: no visible binding for global variable ‘na.fail’
    msm: no visible global function definition for ‘model.matrix’
    msm: no visible binding for global variable ‘as.formula’
    msm: no visible global function definition for ‘qnorm’
    msm.check.state: no visible global function definition for ‘na.omit’
    msm.form.cri: no visible global function definition for ‘model.matrix’
    msm.form.hmm.agg: no visible global function definition for
     ‘model.extract’
    msm.form.mm.cov.agg: no visible global function definition for
     ‘model.matrix’
    msm.obs.to.fromto: no visible global function definition for
     ‘model.extract’
    msm.optim.bobyqa: no visible global function definition for ‘optimHess’
    msm.optim.fisher: no visible global function definition for ‘optimHess’
    msm.optim.fixed: no visible global function definition for ‘optimHess’
    msm.pci: no visible global function definition for ‘model.extract’
    msm.pci: no visible global function definition for ‘terms’
    msm.pci: no visible global function definition for ‘reformulate’
    na.omit.msmdata: no visible global function definition for ‘setNames’
    odds.msm: no visible global function definition for ‘qnorm’
    p.se.msm: no visible global function definition for ‘as.formula’
    p.se.msm: no visible global function definition for ‘plogis’
    p.se.msm: no visible global function definition for ‘qlogis’
    p.se.msm: no visible global function definition for ‘qnorm’
    pearson.msm : <anonymous>: no visible global function definition for
     ‘quantile’
    pearson.msm: no visible global function definition for ‘integrate’
    pearson.msm: no visible global function definition for ‘pchisq’
    phasemeans.ci.msm : <anonymous>: no visible global function definition
     for ‘quantile’
    phasemeans.normci.msm : <anonymous>: no visible global function
     definition for ‘quantile’
    plot.msm: no visible global function definition for ‘model.extract’
    plot.msm: no visible global function definition for ‘rainbow’
    plot.msm: no visible global function definition for ‘lines’
    plot.msm: no visible global function definition for ‘legend’
    plot.prevalence.msm: no visible global function definition for
     ‘model.extract’
    plot.prevalence.msm: no visible global function definition for ‘par’
    plot.prevalence.msm: no visible global function definition for ‘lines’
    plot.prevalence.msm: no visible global function definition for ‘legend’
    plot.survfit.msm: no visible global function definition for
     ‘model.extract’
    plot.survfit.msm: no visible global function definition for ‘lines’
    plot.survfit.msm: no visible global function definition for ‘legend’
    plotprog.msm: no visible global function definition for ‘na.omit’
    plotprog.msm: no visible global function definition for ‘model.frame’
    plotprog.msm: no visible global function definition for ‘rainbow’
    plotprog.msm: no visible global function definition for ‘lines’
    plotprog.msm: no visible global function definition for ‘legend’
    pmatrix.ci.msm : <anonymous>: no visible global function definition for
     ‘quantile’
    pmatrix.normci.msm : <anonymous>: no visible global function definition
     for ‘quantile’
    pmatrix.piecewise.ci.msm : <anonymous>: no visible global function
     definition for ‘quantile’
    pmatrix.piecewise.normci.msm : <anonymous>: no visible global function
     definition for ‘quantile’
    pmenorm: no visible global function definition for ‘integrate’
    pmeunif: no visible global function definition for ‘integrate’
    pnext.ci.msm : <anonymous>: no visible global function definition for
     ‘quantile’
    pnext.msm: no visible global function definition for ‘qnorm’
    pnext.normci.msm : <anonymous>: no visible global function definition
     for ‘quantile’
    ppass.ci.msm : <anonymous>: no visible global function definition for
     ‘quantile’
    ppass.normci.msm : <anonymous>: no visible global function definition
     for ‘quantile’
    ppexp: no visible global function definition for ‘pexp’
    prevalence.msm: no visible global function definition for
     ‘model.extract’
    ptnorm: no visible global function definition for ‘pnorm’
    qcut: no visible global function definition for ‘quantile’
    qgeneric: no visible global function definition for ‘uniroot’
    qmatrix.ci.msm : <anonymous>: no visible global function definition for
     ‘quantile’
    qmatrix.ci.msm : <anonymous>: no visible global function definition for
     ‘sd’
    qmatrix.diagse.msm: no visible global function definition for
     ‘as.formula’
    qmatrix.msm: no visible global function definition for ‘as.formula’
    qmatrix.msm: no visible global function definition for ‘qnorm’
    qmatrix.normci.msm : <anonymous>: no visible global function definition
     for ‘quantile’
    qmatrix.normci.msm : <anonymous>: no visible global function definition
     for ‘sd’
    qratio.ci.msm: no visible global function definition for ‘quantile’
    qratio.ci.msm: no visible global function definition for ‘sd’
    qratio.msm: no visible global function definition for ‘qnorm’
    qratio.normci.msm: no visible global function definition for ‘quantile’
    qratio.normci.msm: no visible global function definition for ‘sd’
    qratio.se.msm: no visible global function definition for ‘as.formula’
    r2phase: no visible global function definition for ‘rexp’
    r2phase: no visible global function definition for ‘rbinom’
    recreate.olddata: no visible global function definition for
     ‘model.extract’
    rmenorm: no visible global function definition for ‘rnorm’
    rmeunif: no visible global function definition for ‘rnorm’
    rmeunif: no visible global function definition for ‘runif’
    rpexp: no visible global function definition for ‘rexp’
    rtnorm: no visible global function definition for ‘rnorm’
    rtnorm: no visible global function definition for ‘rexp’
    rtnorm: no visible global function definition for ‘runif’
    sampletimes: no visible global function definition for ‘runif’
    scoreresid.msm: no visible global function definition for ‘text’
    surface.msm: no visible global function definition for ‘filled.contour’
    totlos.ci.msm : <anonymous>: no visible global function definition for
     ‘quantile’
    totlos.msm: no visible global function definition for ‘integrate’
    totlos.normci.msm : <anonymous>: no visible global function definition
     for ‘quantile’
    viterbi.msm: no visible global function definition for ‘model.matrix’
    Undefined global functions or variables:
     as.formula deriv dexp dnorm filled.contour integrate legend lines
     logLik model.extract model.frame model.matrix na.fail na.omit na.pass
     numericDeriv optimHess par pchisq pexp plogis pnorm qlogis qnorm
     quantile rainbow rbeta rbinom reformulate rexp rgamma rlnorm rnbinom
     rnorm rpois rt runif rweibull sd setNames terms text uniroot
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-windows-ix86+x86_64