CRAN Package Check Results for Package chipPCR

Last updated on 2017-10-24 10:47:43.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 0.0.8-10 5.19 99.98 105.17 NOTE
r-devel-linux-x86_64-debian-gcc 0.0.8-10 5.02 103.46 108.48 NOTE
r-devel-linux-x86_64-fedora-clang 0.0.8-10 233.21 NOTE
r-devel-linux-x86_64-fedora-gcc 0.0.8-10 218.59 NOTE
r-devel-windows-ix86+x86_64 0.0.8-10 14.00 156.00 170.00 NOTE
r-patched-linux-x86_64 0.0.8-10 5.12 100.75 105.86 NOTE
r-patched-solaris-x86 0.0.8-10 271.70 NOTE
r-release-linux-x86_64 0.0.8-10 5.17 98.81 103.98 NOTE
r-release-windows-ix86+x86_64 0.0.8-10 19.00 230.00 249.00 NOTE
r-release-osx-x86_64 0.0.8-10 WARN
r-oldrel-windows-ix86+x86_64 0.0.8-10 13.00 148.00 161.00 NOTE
r-oldrel-osx-x86_64 0.0.8-10 NOTE

Check Details

Version: 0.0.8-10
Check: R code for possible problems
Result: NOTE
    AmpSim: no visible global function definition for ‘sd’
    AmpSim: no visible global function definition for ‘rnorm’
    RGt: no visible global function definition for ‘na.omit’
    RGt : <anonymous>: no visible global function definition for ‘lm’
    amptester: no visible global function definition for ‘shapiro.test’
    amptester : <anonymous>: no visible global function definition for ‘lm’
    amptester : <anonymous>: no visible global function definition for
     ‘cor’
    amptester : <anonymous>: no visible global function definition for
     ‘rstudent’
    amptester: no visible global function definition for ‘na.omit’
    amptester: no visible global function definition for ‘median’
    amptester: no visible global function definition for ‘mad’
    amptester: no visible global function definition for ‘rnorm’
    amptester: no visible global function definition for ‘wilcox.test’
    amptester: no visible global function definition for ‘head’
    amptester: no visible global function definition for ‘tail’
    amptester : pco: no visible global function definition for ‘predict’
    amptester : pco: no visible global function definition for
     ‘smooth.spline’
    amptester: no visible global function definition for ‘coef’
    amptester: no visible global function definition for ‘lm’
    lm.coefs : lm.fit : <anonymous>: no visible global function definition
     for ‘lm’
    normalizer : <anonymous>: no visible global function definition for
     ‘quantile’
    normalizer : <anonymous>: no visible global function definition for
     ‘sd’
    plotCurves: no visible global function definition for ‘matplot’
    plotCurves: no visible global function definition for ‘par’
    plotCurves: no visible global function definition for ‘layout’
    plotCurves : <anonymous>: no visible global function definition for
     ‘rect’
    plotCurves : <anonymous>: no visible global function definition for
     ‘par’
    plotCurves : <anonymous>: no visible global function definition for
     ‘text’
    plotCurves : <anonymous>: no visible global function definition for
     ‘rug’
    plotCurves : <anonymous>: no visible global function definition for
     ‘axis’
    plotCurves : <anonymous>: no visible global function definition for
     ‘lines’
    rtg.test : <anonymous>: no visible global function definition for ‘lm’
    rtg.test : <anonymous>: no visible global function definition for ‘cor’
    rtg.test : <anonymous>: no visible global function definition for
     ‘rstudent’
    th.cyc: no visible global function definition for ‘quantile’
    th.cyc: no visible global function definition for ‘mad’
    th.est: no visible global function definition for ‘tail’
    th.est: no visible global function definition for ‘head’
    th.est: no visible global function definition for ‘lm’
    plot,amptest-ANY: no visible global function definition for ‘head’
    plot,amptest-ANY: no visible global function definition for ‘tail’
    plot,amptest-ANY: no visible global function definition for ‘median’
    plot,amptest-ANY: no visible global function definition for ‘mad’
    plot,amptest-ANY: no visible global function definition for
     ‘shapiro.test’
    plot,amptest-ANY: no visible global function definition for
     ‘wilcox.test’
    plot,amptest-ANY: no visible global function definition for ‘layout’
    plot,amptest-ANY: no visible global function definition for ‘abline’
    plot,amptest-ANY: no visible global function definition for ‘text’
    plot,amptest-ANY: no visible global function definition for ‘arrows’
    plot,amptest-ANY: no visible global function definition for ‘mtext’
    plot,amptest-ANY: no visible global function definition for ‘axis’
    plot,bg-ANY: no visible global function definition for ‘abline’
    plot,bg-ANY: no visible global function definition for ‘text’
    plot,der-ANY: no visible global function definition for ‘points’
    plot,eff-ANY: no visible global function definition for ‘predict.lm’
    plot,eff-ANY: no visible global function definition for ‘polygon’
    plot,eff-ANY: no visible global function definition for ‘adjustcolor’
    plot,eff-ANY: no visible global function definition for ‘arrows’
    plot,eff-ANY: no visible global function definition for ‘abline’
    plot,eff-ANY: no visible global function definition for ‘legend’
    plot,refMFI-ANY: no visible global function definition for ‘par’
    plot,refMFI-ANY: no visible global function definition for ‘layout’
    plot,refMFI-ANY: no visible global function definition for ‘arrows’
    plot,refMFI-ANY: no visible global function definition for ‘mtext’
    plot,refMFI-ANY: no visible global function definition for ‘abline’
    plot,refMFI-refMFI: no visible global function definition for ‘par’
    plot,refMFI-refMFI: no visible global function definition for ‘layout’
    plot,refMFI-refMFI: no visible global function definition for ‘points’
    plot,refMFI-refMFI: no visible global function definition for
     ‘adjustcolor’
    plot,refMFI-refMFI: no visible global function definition for ‘arrows’
    plot,refMFI-refMFI: no visible global function definition for ‘mtext’
    plot,refMFI-refMFI: no visible global function definition for ‘abline’
    plot,refMFI-refMFI: no visible global function definition for ‘legend’
    plot,refMFI-refMFI: no visible global function definition for ‘lines’
    qqline,refMFI: no visible binding for global variable ‘qnorm’
    Undefined global functions or variables:
     abline adjustcolor arrows axis coef cor head layout legend lines lm
     mad matplot median mtext na.omit par points polygon predict
     predict.lm qnorm quantile rect rnorm rstudent rug sd shapiro.test
     smooth.spline tail text wilcox.test
    Consider adding
     importFrom("grDevices", "adjustcolor")
     importFrom("graphics", "abline", "arrows", "axis", "layout", "legend",
     "lines", "matplot", "mtext", "par", "points", "polygon",
     "rect", "rug", "text")
     importFrom("stats", "coef", "cor", "lm", "mad", "median", "na.omit",
     "predict", "predict.lm", "qnorm", "quantile", "rnorm",
     "rstudent", "sd", "shapiro.test", "smooth.spline",
     "wilcox.test")
     importFrom("utils", "head", "tail")
    to your NAMESPACE file.
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, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-windows-ix86+x86_64, r-release-osx-x86_64, r-oldrel-windows-ix86+x86_64, r-oldrel-osx-x86_64

Version: 0.0.8-10
Check: re-building of vignette outputs
Result: WARN
    Error in re-building vignettes:
     ...
    16.42065372042111612.6709691596414
    The distribution of the curve data indicates noise. The data should be visually
    inspected with a plot (see examples of diffQ).
    Approximate and calculated Tm varri. This is an expected behaviour
    
     but the calculation should be confirmed with a plot (see examples of diffQ).
    6.533866827983022021.9375753397427
    The Tm calculation (fit, adj. R squared ~ 0.849, NRMSE ~ 0.088) is not optimal presumably
    due to noisy data. Check raw melting curve (see examples of diffQ).
    Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet, :
     Running 'texi2dvi' on 'chipPCR.tex' failed.
    LaTeX errors:
    ! LaTeX Error: File `titlesec.sty' not found.
    
    Type X to quit or <RETURN> to proceed,
    or enter new name. (Default extension: sty)
    
    ! Emergency stop.
    <read *>
    
    l.56 \usepackage
     {natbib}^^M
    ! ==> Fatal error occurred, no output PDF file produced!
    Calls: buildVignettes -> texi2pdf -> texi2dvi
    Execution halted
Flavor: r-release-osx-x86_64