CRAN Package Check Results for Package synbreed

Last updated on 2015-08-30 15:47:04.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 0.11-10 3.54 52.00 55.53 NOTE
r-devel-linux-x86_64-debian-gcc 0.11-10 4.64 52.75 57.39 NOTE
r-devel-linux-x86_64-fedora-clang 0.11-10 111.93 NOTE
r-devel-linux-x86_64-fedora-gcc 0.11-10 103.38 NOTE
r-devel-osx-x86_64-clang 0.11-10 84.31 OK
r-devel-windows-ix86+x86_64 0.11-10 14.00 91.00 105.00 NOTE
r-patched-linux-x86_64 0.11-10 3.76 55.12 58.88 OK
r-patched-solaris-sparc 0.11-10 715.30 OK
r-patched-solaris-x86 0.11-10 164.40 OK
r-release-linux-x86_64 0.11-10 3.89 56.25 60.14 OK
r-release-osx-x86_64-mavericks 0.11-10 OK
r-release-windows-ix86+x86_64 0.11-10 16.00 96.00 112.00 OK
r-oldrel-windows-ix86+x86_64 0.11-10 23.00 156.00 179.00 OK

Check Details

Version: 0.11-10
Check: R code for possible problems
Result: NOTE
    LDDist : smooth.fit: no visible global function definition for ‘nls’
    LDDist : smooth.fit: no visible global function definition for ‘coef’
    LDDist : smooth.fit: no visible global function definition for ‘curve’
    LDDist: no visible global function definition for ‘pdf’
    LDDist: no visible global function definition for ‘png’
    LDDist: no visible global function definition for ‘plot’
    LDDist: no visible global function definition for ‘barplot’
    LDDist: no visible global function definition for ‘grey’
    LDDist: no visible global function definition for ‘legend’
    LDDist: no visible global function definition for ‘dev.off’
    LDMap: no visible global function definition for ‘pdf’
    LDMap: no visible global function definition for ‘png’
    LDMap: no visible global function definition for ‘dev.off’
    codeGeno: no visible global function definition for ‘runif’
    codeGeno: no visible global function definition for ‘cor’
    codeGeno: no visible global function definition for ‘write.table’
    create.gpData: no visible global function definition for ‘as.formula’
    create.gpData: no visible global function definition for ‘is’
    crossVal: no visible global function definition for ‘na.omit’
    crossVal: no visible global function definition for ‘runif’
    crossVal: no visible global function definition for ‘write.table’
    crossVal: no visible global function definition for ‘capture.output’
    crossVal: no visible global function definition for ‘cor’
    crossVal: no visible global function definition for ‘lm’
    gpData2data.frame: no visible global function definition for ‘as’
    gpMod: no visible global function definition for ‘terms’
    gpMod: no visible global function definition for ‘as.formula’
    gpMod: no visible global function definition for ‘model.matrix’
    gpMod: no visible binding for global variable ‘na.pass’
    gpMod: no visible global function definition for ‘capture.output’
    kin: no visible global function definition for ‘dist’
    manhattanPlot: no visible global function definition for ‘plot’
    manhattanPlot: no visible global function definition for ‘rainbow’
    manhattanPlot: no visible global function definition for ‘grey’
    manhattanPlot: no visible global function definition for ‘axis’
    manhattanPlot: no visible global function definition for ‘box’
    manhattanPlot: no visible global function definition for ‘points’
    pairwiseLD: no visible global function definition for ‘dist’
    pairwiseLD: no visible global function definition for ‘read.table’
    pairwiseLD: no visible global function definition for ‘cor’
    plot.pedigree: no visible global function definition for ‘plot’
    plot.pedigree: no visible global function definition for ‘axis’
    plot.relationshipMatrix: no visible global function definition for
     ‘quantile’
    plotGenMap: no visible global function definition for ‘par’
    plotGenMap: no visible global function definition for ‘pdf’
    plotGenMap: no visible global function definition for ‘png’
    plotGenMap: no visible global function definition for ‘layout’
    plotGenMap: no visible global function definition for ‘image’
    plotGenMap: no visible global function definition for ‘box’
    plotGenMap: no visible global function definition for ‘axis’
    plotGenMap: no visible global function definition for ‘plot’
    plotGenMap: no visible global function definition for ‘polygon’
    plotGenMap: no visible global function definition for ‘lines’
    plotGenMap: no visible global function definition for ‘text’
    plotGenMap: no visible global function definition for ‘dev.off’
    plotNeighbourLD: no visible global function definition for ‘par’
    plotNeighbourLD: no visible global function definition for ‘pdf’
    plotNeighbourLD: no visible global function definition for ‘png’
    plotNeighbourLD: no visible global function definition for ‘layout’
    plotNeighbourLD: no visible global function definition for ‘plot’
    plotNeighbourLD: no visible global function definition for ‘axis’
    plotNeighbourLD: no visible global function definition for ‘box’
    plotNeighbourLD: no visible global function definition for ‘smooth’
    plotNeighbourLD: no visible global function definition for ‘image’
    plotNeighbourLD: no visible global function definition for ‘polygon’
    plotNeighbourLD: no visible global function definition for ‘text’
    plotNeighbourLD: no visible global function definition for ‘dev.off’
    read.vcf2list: no visible global function definition for ‘read.table’
    read.vcf2matrix: no visible global function definition for ‘read.table’
    simul.phenotype: no visible global function definition for ‘step’
    simul.phenotype: no visible global function definition for ‘rnorm’
    summary.cvData: no visible global function definition for ‘sd’
    summary.gpData: no visible global function definition for ‘as’
    summaryGenMap: no visible global function definition for
     ‘weighted.mean’
    write.beagle: no visible global function definition for ‘str’
    write.beagle: no visible global function definition for ‘write.table’
    write.plink: no visible global function definition for ‘write.table’
    write.relationshipMatrix: no visible global function definition for
     ‘write.table’
    write.vcf: no visible global function definition for ‘str’
    write.vcf: no visible global function definition for ‘write.table’
    Undefined global functions or variables:
     as as.formula axis barplot box capture.output coef cor curve dev.off
     dist grey image is layout legend lines lm model.matrix na.omit
     na.pass nls par pdf plot png points polygon quantile rainbow
     read.table rnorm runif sd smooth step str terms text weighted.mean
     write.table
    Consider adding
     importFrom("grDevices", "dev.off", "grey", "pdf", "png", "rainbow")
     importFrom("graphics", "axis", "barplot", "box", "curve", "image",
     "layout", "legend", "lines", "par", "plot", "points",
     "polygon", "text")
     importFrom("methods", "as", "is")
     importFrom("stats", "as.formula", "coef", "cor", "dist", "lm",
     "model.matrix", "na.omit", "na.pass", "nls", "quantile",
     "rnorm", "runif", "sd", "smooth", "step", "terms",
     "weighted.mean")
     importFrom("utils", "capture.output", "read.table", "str",
     "write.table")
    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