CRAN Package Check Results for Package spaMM

Last updated on 2015-08-31 12:48:01.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.5.1 26.31 73.25 99.56 NOTE
r-devel-linux-x86_64-debian-gcc 1.5.1 31.52 71.54 103.06 NOTE
r-devel-linux-x86_64-fedora-clang 1.5.1 201.64 NOTE
r-devel-linux-x86_64-fedora-gcc 1.5.1 193.34 NOTE
r-devel-osx-x86_64-clang 1.5.1 136.82 OK
r-devel-windows-ix86+x86_64 1.5.1 108.00 147.00 255.00 NOTE
r-patched-linux-x86_64 1.5.1 31.57 71.44 103.01 NOTE
r-patched-solaris-sparc 1.5.1 1179.40 OK
r-patched-solaris-x86 1.5.1 248.00 OK
r-release-linux-x86_64 1.5.1 32.77 71.91 104.68 NOTE
r-release-osx-x86_64-mavericks 1.5.1 NOTE
r-release-windows-ix86+x86_64 1.5.1 101.00 167.00 268.00 OK
r-oldrel-windows-ix86+x86_64 1.5.1 114.00 190.00 304.00 OK

Check Details

Version: 1.5.1
Check: installed package size
Result: NOTE
     installed size is 22.6Mb
     sub-directories of 1Mb or more:
     libs 21.9Mb
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-patched-linux-x86_64, r-release-linux-x86_64, r-release-osx-x86_64-mavericks

Version: 1.5.1
Check: R code for possible problems
Result: NOTE
    Beta: no visible global function definition for ‘make.link’
    GammaForDispGammaGLM: no visible global function definition for
     ‘make.link’
    GammaForDispGammaGLM : aic: no visible global function definition for
     ‘dgamma’
    GammaForDispGammaGLM : simfun: no visible global function definition
     for ‘rgamma’
    HLCor.obj: no visible global function definition for ‘gaussian’
    HLCor.obj: no visible global function definition for ‘relist’
    HLfit: no visible global function definition for ‘gaussian’
    HLfit : SEMbetalambda: no visible global function definition for
     ‘rnorm’
    HLfit : SEMbetalambda: no visible global function definition for ‘var’
    HLfit : provide.resglm: no visible global function definition for
     ‘as.formula’
    HLfit : provide.resglm: no visible global function definition for ‘glm’
    HLfit : provide.resglm: no visible global function definition for
     ‘coefficients’
    HLfit : generateInitLambda: no visible global function definition for
     ‘resid’
    HLfit : generateInitLambda: no visible global function definition for
     ‘deviance’
    HLfit : generateInitLambda : <anonymous>: no visible global function
     definition for ‘uniroot’
    HLfit : makeCovEst1: no visible global function definition for ‘optim’
    HLfit: no visible global function definition for ‘coefficients’
    HLfit: no visible global function definition for ‘as’
    HLfit: no visible global function definition for ‘deviance’
    HLfit: no visible global function definition for ‘dnorm’
    HLframes: no visible global function definition for ‘model.response’
    HLframes: no visible global function definition for ‘is.empty.model’
    HLframes: no visible global function definition for ‘model.matrix’
    HLframes: no visible binding for global variable ‘contrasts’
    Initialize.corMatern: no visible global function definition for
     ‘formula’
    LRT: no visible global function definition for ‘pchisq’
    Predictor: no visible global function definition for ‘as.formula’
    Predictor : <anonymous> : <anonymous>: no visible global function
     definition for ‘as.formula’
    asStandardFormula: no visible global function definition for
     ‘as.formula’
    auglinmodfit : compute.sscaled: no visible global function definition
     for ‘dnorm’
    calc.plot.dims: no visible global function definition for ‘par’
    checkRandLink: no visible global function definition for ‘gaussian’
    checkRandLink: no visible global function definition for ‘Gamma’
    clean_cs: no visible global function definition for ‘head’
    confint.HLfit: no visible global function definition for ‘qchisq’
    confint.HLfit: no visible global function definition for ‘qnorm’
    corrHLfit: no visible global function definition for ‘gaussian’
    corrHLfit: no visible global function definition for ‘title’
    corrHLfit: no visible global function definition for ‘points’
    corrHLfit : <anonymous>: no visible global function definition for
     ‘polygon’
    corrHLfit: no visible global function definition for ‘dnorm’
    corrHLfit: no visible global function definition for ‘pnorm’
    corrMM.LRT: no visible global function definition for ‘optim’
    corrMM.LRT: no visible global function definition for ‘optimize’
    corrMM.LRT: no visible global function definition for ‘pchisq’
    d2mudeta2fn: no visible global function definition for ‘dnorm’
    dispGammaGLM: no visible global function definition for ‘glm’
    eval.corrEst.args: no visible global function definition for
     ‘as.formula’
    extrapolhull: no visible global function definition for ‘runif’
    filled.mapMM: no visible global function definition for ‘as.formula’
    getCallHL: no visible global function definition for ‘getCall’
    getCovariate.corMatern: no visible global function definition for
     ‘formula’
    getCovariate.corMatern: no visible global function definition for
     ‘terms’
    getCovariate.corMatern: no visible global function definition for
     ‘model.matrix’
    getCovariate.corMatern: no visible global function definition for
     ‘model.frame’
    inverse.Gamma: no visible global function definition for ‘make.link’
    locoptim: no visible binding for global variable ‘nlminb’
    locoptim: no visible global function definition for ‘relist’
    locoptim: no visible binding for global variable ‘optimize’
    locoptimthroughSmooth : <anonymous>: no visible global function
     definition for ‘relist’
    locoptimthroughSmooth: no visible global function definition for
     ‘as.formula’
    locoptimthroughSmooth: no visible global function definition for
     ‘Gamma’
    locoptimthroughSmooth: no visible global function definition for
     ‘optimize’
    locoptimthroughSmooth: no visible global function definition for
     ‘optim’
    makeCovEst2: no visible global function definition for ‘optim’
    multi: no visible global function definition for ‘binomial’
    newetaFix: no visible global function definition for ‘model.offset’
    noOffset: no visible global function definition for ‘as.formula’
    noReForm: no visible global function definition for ‘is’
    plot.HLfit: no visible global function definition for ‘par’
    plot.HLfit: no visible global function definition for ‘dev.new’
    plot.HLfit: no visible global function definition for ‘loess.smooth’
    plot.HLfit: no visible global function definition for ‘lines’
    plot.HLfit: no visible global function definition for ‘qqnorm’
    plot.HLfit: no visible global function definition for ‘qqline’
    plot.HLfit: no visible global function definition for ‘hist’
    plot.HLfit: no visible global function definition for ‘title’
    plotScale: no visible global function definition for ‘plot.window’
    plotScale: no visible global function definition for ‘rect’
    plotScale: no visible global function definition for ‘axis’
    plotScale: no visible global function definition for ‘box’
    plotdhglm: no visible global function definition for ‘par’
    plotdhglm: no visible global function definition for ‘smooth.spline’
    plotdhglm: no visible global function definition for ‘lines’
    plotdhglm: no visible global function definition for ‘qqnorm’
    plotdhglm: no visible global function definition for ‘qqline’
    plotdhglm: no visible global function definition for ‘hist’
    post.process.ZALlist: no visible global function definition for ‘as’
    preprocess: no visible global function definition for ‘Gamma’
    preprocess: no visible global function definition for ‘var’
    preprocess: no visible global function definition for ‘model.offset’
    preprocess: no visible global function definition for ‘model.frame’
    preprocess: no visible global function definition for ‘as.formula’
    recent.mapMM: no visible global function definition for ‘par’
    recent.mapMM: no visible global function definition for ‘layout’
    recent.mapMM: no visible global function definition for ‘lcm’
    recent.mapMM: no visible global function definition for ‘plot.new’
    recent.mapMM: no visible global function definition for ‘plot.window’
    recent.mapMM: no visible binding for global variable ‘title’
    recent.mapMM: no visible global function definition for ‘Axis’
    recent.mapMM: no visible global function definition for ‘box’
    rntneg: no visible global function definition for ‘runif’
    rntneg: no visible global function definition for ‘pnorm’
    rntneg: no visible global function definition for ‘qnorm’
    rsimplex: no visible global function definition for ‘runif’
    sampleNearby : <anonymous>: no visible global function definition for
     ‘runif’
    selectLoglfn : <anonymous>: no visible global function definition for
     ‘dgamma’
    simulate.HLfit: no visible global function definition for ‘runif’
    simulate.HLfit : <anonymous>: no visible global function definition for
     ‘rnorm’
    simulate.HLfit : <anonymous>: no visible global function definition for
     ‘rgamma’
    simulate.HLfit : <anonymous>: no visible global function definition for
     ‘rbeta’
    simulate.HLfit : respv: no visible global function definition for
     ‘rnorm’
    simulate.HLfit : respv: no visible global function definition for
     ‘rpois’
    simulate.HLfit : respv: no visible global function definition for
     ‘rbinom’
    simulate.HLfit : respv: no visible global function definition for
     ‘rgamma’
    simulate.HLfitlist: no visible global function definition for ‘runif’
    spMMFactorList : locfn: no visible global function definition for
     ‘as.formula’
    spMMFactorList : locfn: no visible global function definition for ‘as’
    spMMFactorList : locfn: no visible global function definition for
     ‘validObject’
    spMMFactorList : locfn: no visible global function definition for
     ‘model.matrix’
    spaMM.colors: no visible global function definition for ‘topo.colors’
    spaMM.colors: no visible global function definition for ‘col2rgb’
    spaMM.colors: no visible global function definition for ‘rgb’
    spaMM.filled.contour: no visible global function definition for ‘par’
    spaMM.filled.contour: no visible global function definition for
     ‘layout’
    spaMM.filled.contour: no visible global function definition for ‘lcm’
    spaMM.filled.contour: no visible global function definition for
     ‘plot.new’
    spaMM.filled.contour: no visible global function definition for
     ‘plot.window’
    spaMM.filled.contour: no visible global function definition for
     ‘.filled.contour’
    spaMM.filled.contour: no visible global function definition for ‘title’
    spaMM.filled.contour: no visible global function definition for ‘Axis’
    spaMM.filled.contour: no visible global function definition for ‘box’
    spaMMLRT: no visible global function definition for ‘pchisq’
    spaMMplot2D: no visible global function definition for ‘par’
    spaMMplot2D: no visible global function definition for ‘layout’
    spaMMplot2D: no visible global function definition for ‘lcm’
    spaMMplot2D: no visible global function definition for ‘plot.new’
    spaMMplot2D: no visible global function definition for ‘plot.window’
    spaMMplot2D: no visible binding for global variable ‘title’
    spaMMplot2D: no visible global function definition for ‘Axis’
    spaMMplot2D: no visible global function definition for ‘box’
    summary.HLfit: no visible global function definition for ‘as.formula’
    theta.mu.canonical: no visible global function definition for
     ‘make.link’
    update.HLfit: no visible global function definition for ‘formula’
    update.HLfit: no visible global function definition for
     ‘update.formula’
    validData: no visible global function definition for ‘as.formula’
    Undefined global functions or variables:
     .filled.contour Axis Gamma as as.formula axis binomial box
     coefficients col2rgb contrasts dev.new deviance dgamma dnorm formula
     gaussian getCall glm head hist is is.empty.model layout lcm lines
     loess.smooth make.link model.frame model.matrix model.offset
     model.response nlminb optim optimize par pchisq plot.new plot.window
     pnorm points polygon qchisq qnorm qqline qqnorm rbeta rbinom rect
     relist resid rgamma rgb rnorm rpois runif smooth.spline terms title
     topo.colors uniroot update.formula validObject var
    Consider adding
     importFrom("grDevices", "col2rgb", "dev.new", "rgb", "topo.colors")
     importFrom("graphics", ".filled.contour", "Axis", "axis", "box",
     "hist", "layout", "lcm", "lines", "par", "plot.new",
     "plot.window", "points", "polygon", "rect", "title")
     importFrom("methods", "as", "is", "validObject")
     importFrom("stats", "Gamma", "as.formula", "binomial", "coefficients",
     "contrasts", "deviance", "dgamma", "dnorm", "formula",
     "gaussian", "getCall", "glm", "is.empty.model",
     "loess.smooth", "make.link", "model.frame", "model.matrix",
     "model.offset", "model.response", "nlminb", "optim",
     "optimize", "pchisq", "pnorm", "qchisq", "qnorm", "qqline",
     "qqnorm", "rbeta", "rbinom", "resid", "rgamma", "rnorm",
     "rpois", "runif", "smooth.spline", "terms", "uniroot",
     "update.formula", "var")
     importFrom("utils", "head", "relist")
    to your NAMESPACE (and ensure that your DESCRIPTION Imports field
    contains 'methods').
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

Version: 1.5.1
Check: package dependencies
Result: NOTE
    Package suggested but not available for checking: ‘lme4’
Flavor: r-release-osx-x86_64-mavericks