CRAN Package Check Results for Package PSCBS

Last updated on 2015-09-04 22:47:01.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 0.44.0 9.86 198.05 207.91 NOTE
r-devel-linux-x86_64-debian-gcc 0.44.0 8.89 194.08 202.97 NOTE
r-devel-linux-x86_64-fedora-clang 0.44.0 368.15 NOTE
r-devel-linux-x86_64-fedora-gcc 0.44.0 359.68 NOTE
r-devel-osx-x86_64-clang 0.44.0 335.49 OK
r-devel-windows-ix86+x86_64 0.44.0 21.00 321.00 342.00 NOTE
r-patched-linux-x86_64 0.44.0 8.90 201.73 210.63 OK
r-patched-solaris-sparc 0.44.0 2219.80 OK --no-build-vignettes
r-patched-solaris-x86 0.44.0 610.30 OK
r-release-linux-x86_64 0.44.0 9.18 193.45 202.63 OK
r-release-osx-x86_64-mavericks 0.44.0 OK
r-release-windows-ix86+x86_64 0.44.0 28.00 333.00 361.00 OK
r-oldrel-windows-ix86+x86_64 0.44.0 30.00 357.00 387.00 OK

Check Details

Version: 0.44.0
Check: R code for possible problems
Result: NOTE
    .addC1C2WithStatitics : meanFcn: no visible global function definition
     for ‘median’
    .addC1C2WithStatitics : sdFcn: no visible global function definition
     for ‘mad’
    .addC1C2WithStatitics : sdFcn: no visible global function definition
     for ‘sd’
    .addC1C2WithStatitics: no visible global function definition for ‘cor’
    .addCACBWithStatitics : meanFcn: no visible global function definition
     for ‘median’
    .addCACBWithStatitics : sdFcn: no visible global function definition
     for ‘mad’
    .addCACBWithStatitics : sdFcn: no visible global function definition
     for ‘sd’
    .addCACBWithStatitics: no visible global function definition for ‘cor’
    arrowsC1C2.PairedPSCBS: no visible global function definition for
     ‘arrows’
    arrowsDeltaC1C2.PairedPSCBS: no visible global function definition for
     ‘arrows’
    as.character.CBS: no visible global function definition for ‘quantile’
    bootstrapDHByRegion.PairedPSCBS : <anonymous>: no visible global
     function definition for ‘quantile’
    bootstrapTCNandDHByRegion.PairedPSCBS : statsFcn: no visible global
     function definition for ‘quantile’
    callGainsAndLosses.CBS: no visible global function definition for
     ‘median’
    callOutliers.CBS: no visible global function definition for ‘mad’
    drawCentromeres.CBS: no visible global function definition for ‘abline’
    drawChangePoints.PSCBS: no visible global function definition for
     ‘abline’
    drawChangePoints.PSCBS: no visible global function definition for
     ‘mtext’
    drawChangePointsC1C2.PairedPSCBS: no visible global function definition
     for ‘lines’
    drawChangePointsC1C2.PairedPSCBS: no visible global function definition
     for ‘text’
    drawChromosomes.CBS: no visible global function definition for ‘mtext’
    drawChromosomes.CBS: no visible global function definition for ‘par’
    drawChromosomes.CBS: no visible global function definition for ‘abline’
    drawConfidenceBands.PairedPSCBS: no visible global function definition
     for ‘col2rgb’
    drawConfidenceBands.PairedPSCBS: no visible global function definition
     for ‘rgb’
    drawConfidenceBands.PairedPSCBS: no visible global function definition
     for ‘rect’
    drawKnownSegments.AbstractCBS: no visible global function definition
     for ‘abline’
    drawLevels.DNAcopy : <anonymous>: no visible global function definition
     for ‘lines’
    estimateDeltaABBySmallDH.PairedPSCBS: no visible global function
     definition for ‘quantile’
    estimateDeltaCN.CBS: no visible global function definition for
     ‘density’
    estimateDeltaCN.CBS: no visible global function definition for
     ‘weighted.mean’
    estimateDeltaCN.CBS: no visible global function definition for ‘median’
    estimateHighDHQuantileAtAB.PairedPSCBS: no visible global function
     definition for ‘median’
    estimateKappaByC1Density.PairedPSCBS: no visible global function
     definition for ‘density’
    estimateKappaByC1Density.PairedPSCBS: no visible binding for global
     variable ‘density’
    estimateMeanForDH.PairedPSCBS: no visible global function definition
     for ‘median’
    estimateMeanForDH.PairedPSCBS: no visible global function definition
     for ‘quantile’
    estimateStdDevForHeterozygousBAF.PairedPSCBS: no visible global
     function definition for ‘mad’
    getCallStatistics.CBS: no visible binding for global variable ‘start’
    getCallStatistics.CBS: no visible binding for global variable ‘end’
    highlightArmCalls.CBS: no visible global function definition for ‘par’
    highlightArmCalls.CBS: no visible global function definition for
     ‘abline’
    highlightArmCalls.CBS: no visible global function definition for
     ‘lines’
    highlightArmCalls.CBS: no visible global function definition for ‘rect’
    highlightCalls.CBS: no visible global function definition for ‘abline’
    highlightCalls.CBS: no visible global function definition for ‘points’
    highlightCalls.CBS: no visible global function definition for ‘lines’
    highlightLocusCalls.CBS: no visible global function definition for
     ‘points’
    linesDeltaC1C2.PairedPSCBS: no visible global function definition for
     ‘lines’
    plotC1C2.PairedPSCBS: no visible global function definition for ‘plot’
    plotC1C2.PairedPSCBS: no visible global function definition for
     ‘abline’
    plotDeltaC1C2.PairedPSCBS: no visible global function definition for
     ‘plot’
    plotDeltaC1C2.PairedPSCBS: no visible global function definition for
     ‘abline’
    plotTracks.CBS: no visible global function definition for ‘par’
    plotTracks.CBS: no visible global function definition for ‘plot’
    plotTracks.CBS: no visible global function definition for ‘abline’
    plotTracks1.PairedPSCBS: no visible global function definition for
     ‘par’
    plotTracks1.PairedPSCBS: no visible global function definition for
     ‘points’
    plotTracks1.PairedPSCBS: no visible global function definition for
     ‘plot’
    plotTracks1.PairedPSCBS: no visible global function definition for
     ‘abline’
    plotTracks1.PairedPSCBS: no visible global function definition for
     ‘mtext’
    plotTracks2.PairedPSCBS: no visible global function definition for
     ‘par’
    plotTracks2.PairedPSCBS: no visible global function definition for
     ‘plot’
    plotTracks2.PairedPSCBS: no visible global function definition for
     ‘abline’
    plotTracks2.PairedPSCBS: no visible global function definition for
     ‘points’
    plotTracks2.PairedPSCBS: no visible global function definition for
     ‘mtext’
    plotTracksManyChromosomes.CBS: no visible global function definition
     for ‘par’
    plotTracksManyChromosomes.CBS: no visible global function definition
     for ‘plot’
    plotTracksManyChromosomes.CBS: no visible global function definition
     for ‘points’
    plotTracksManyChromosomes.CBS: no visible global function definition
     for ‘mtext’
    plotTracksManyChromosomes.CBS: no visible global function definition
     for ‘abline’
    plotTracksManyChromosomes.CBS: no visible global function definition
     for ‘axis’
    plotTracksManyChromosomes.CBS: no visible global function definition
     for ‘box’
    plotTracksManyChromosomes.PairedPSCBS : drawXLabelTicks: no visible
     global function definition for ‘mtext’
    plotTracksManyChromosomes.PairedPSCBS : drawXLabelTicks: no visible
     global function definition for ‘axis’
    plotTracksManyChromosomes.PairedPSCBS: no visible global function
     definition for ‘par’
    plotTracksManyChromosomes.PairedPSCBS: no visible global function
     definition for ‘plot’
    plotTracksManyChromosomes.PairedPSCBS: no visible global function
     definition for ‘points’
    plotTracksManyChromosomes.PairedPSCBS: no visible global function
     definition for ‘abline’
    plotTracksManyChromosomes.PairedPSCBS: no visible global function
     definition for ‘mtext’
    plotTracksManyChromosomes.PairedPSCBS: no visible global function
     definition for ‘axis’
    plotTracksManyChromosomes.PairedPSCBS: no visible global function
     definition for ‘box’
    pointsC1C2.PairedPSCBS: no visible global function definition for
     ‘points’
    pointsDeltaC1C2.PairedPSCBS: no visible global function definition for
     ‘points’
    pruneByHClust.AbstractCBS: no visible global function definition for
     ‘cutree’
    segmentByCBS.default: no visible global function definition for
     ‘packageDescription’
    segmentByNonPairedPSCBS.default: no visible global function definition
     for ‘quantile’
    updateMeans.CBS: no visible binding for global variable ‘weighted.mean’
    weightedQuantile.default: no visible global function definition for
     ‘quantile’
    Undefined global functions or variables:
     abline arrows axis box col2rgb cor cutree density end lines mad
     median mtext packageDescription par plot points quantile rect rgb sd
     start text weighted.mean
    Consider adding
     importFrom("grDevices", "col2rgb", "rgb")
     importFrom("graphics", "abline", "arrows", "axis", "box", "lines",
     "mtext", "par", "plot", "points", "rect", "text")
     importFrom("stats", "cor", "cutree", "density", "end", "mad", "median",
     "quantile", "sd", "start", "weighted.mean")
     importFrom("utils", "packageDescription")
    to your NAMESPACE.
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