CRAN Package Check Results for Package aroma.cn

Last updated on 2015-01-30 11:49:05.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.5.0 2.80 42.52 45.32 NOTE
r-devel-linux-x86_64-debian-gcc 1.5.0 2.92 41.19 44.11 NOTE
r-devel-linux-x86_64-fedora-clang 1.5.0 98.49 NOTE
r-devel-linux-x86_64-fedora-gcc 1.5.0 91.70 NOTE
r-devel-osx-x86_64-clang 1.5.0 103.61 NOTE
r-devel-windows-ix86+x86_64 1.5.0 13.00 57.00 70.00 NOTE
r-patched-linux-x86_64 1.5.0 3.30 55.99 59.28 NOTE
r-patched-solaris-sparc 1.5.0 663.60 NOTE
r-patched-solaris-x86 1.5.0 137.80 NOTE
r-release-linux-ix86 1.5.0 4.64 64.77 69.40 NOTE
r-release-linux-x86_64 1.5.0 3.30 53.95 57.26 NOTE
r-release-osx-x86_64-mavericks 1.5.0 NOTE
r-release-osx-x86_64-snowleopard 1.5.0 NOTE
r-release-windows-ix86+x86_64 1.5.0 13.00 95.00 108.00 NOTE
r-oldrel-windows-ix86+x86_64 1.5.0 14.00 92.00 106.00 OK

Check Details

Version: 1.5.0
Check: S3 generic/method consistency
Result: NOTE
    Found the following apparent S3 methods exported but not registered:
     callPeaks.data.frame makeSmoothSplinePredict.numeric
    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

Version: 1.5.0
Check: R code for possible problems
Result: NOTE
    backtransformOne.PrincipalCurveNormalization: no visible global
     function definition for ‘backtransformPrincipalCurve’
    backtransformOne.XYCurveNormalization: no visible global function
     definition for ‘backtransformXYCurve’
    calibrateC1C2.PairedPSCBS: no visible global function definition for
     ‘devSet’
    callAllelicBalanceByBAFs.PairedPSCBS: no visible global function
     definition for ‘findPeaksAndValleys’
    callGenotypes.TotalFracBSnpData: no visible global function definition
     for ‘findPeaksAndValleys’
    callXXorXY.numeric: no visible global function definition for
     ‘findPeaksAndValleys’
    drawC1C2Density.PairedPSCBS: no visible global function definition for
     ‘findPeaksAndValleys’
    estimateDeshearingParameter.PSCBS: no visible global function
     definition for ‘findPeaksAndValleys’
    estimateDeshearingParameter_20130815.PSCBS: no visible global function
     definition for ‘findPeaksAndValleys’
    fitC1C2Densities.PairedPSCBS : <anonymous>: no visible global function
     definition for ‘findPeaksAndValleys’
    fitC1C2Peaks.PairedPSCBS: no visible global function definition for
     ‘devSet’
    fitDeltaXYShearModel.matrix: no visible global function definition for
     ‘findPeaksAndValleys’
    fitOne.MultiSourceCopyNumberNormalization: no visible global function
     definition for ‘backtransformPrincipalCurve’
    fitOne.MultiSourceCopyNumberNormalization: no visible global function
     definition for ‘normalizeDifferencesToAverage’
    fitOne.PrincipalCurveNormalization: no visible global function
     definition for ‘fitPrincipalCurve’
    fitOne.XYCurveNormalization: no visible global function definition for
     ‘fitXYCurve’
    getAllNames.MultiSourceCopyNumberNormalization: no visible binding for
     global variable ‘getNames’
    getBacktransforms.PrincipalCurve: no visible global function definition
     for ‘backtransformPrincipalCurve’
    getOutputDataSet0.TotalCnSmoothing: no visible binding for global
     variable ‘Class’
    getOutputFileClass.TotalCnSmoothing: no visible binding for global
     variable ‘Class’
    getOutputFileSetClass.TotalCnSmoothing: no visible binding for global
     variable ‘Class’
    getPrincipalCurveEstimator.MultiSourceCopyNumberNormalization :
     robustSmoother: no visible global function definition for
     ‘robustSmoothSpline’
    getPrincipalCurveEstimator.MultiSourceCopyNumberNormalization : fcn: no
     visible global function definition for ‘fitPrincipalCurve’
    normalizeMirroredBAFsByRegions.matrix: no visible global function
     definition for ‘fitXYCurve’
    normalizeMirroredBAFsByRegions.matrix: no visible global function
     definition for ‘devSet’
    normalizeOne.MultiSourceCopyNumberNormalization: no visible global
     function definition for ‘backtransformPrincipalCurve’
    normalizePrincipalCurve.matrix: no visible global function definition
     for ‘fitPrincipalCurve’
    process.NaiveFracBGenotyping: no visible binding for global variable
     ‘AromaUnitGenotypeCallSet’
    process.NaiveFracBGenotyping: no visible binding for global variable
     ‘AromaUnitSignalBinarySet’
    smoothRawCopyNumbers.TotalCnBinnedSmoothing: no visible binding for
     global variable ‘colBinnedSmoothing.matrix’
    smoothRawCopyNumbers.TotalCnKernelSmoothing: no visible binding for
     global variable ‘colKernelSmoothing.matrix’
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-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-sparc, r-patched-solaris-x86, r-release-linux-ix86, r-release-linux-x86_64, r-release-osx-x86_64-mavericks, r-release-windows-ix86+x86_64

Version: 1.5.0
Check: package dependencies
Result: NOTE
    Package suggested but not available for checking: ‘GLAD’
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-osx-x86_64-clang, r-release-osx-x86_64-mavericks, r-release-osx-x86_64-snowleopard