CRAN Package Check Results for Package npde

Last updated on 2015-09-04 22:46:56.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 2.0 3.33 34.06 37.39 NOTE
r-devel-linux-x86_64-debian-gcc 2.0 3.34 32.97 36.31 NOTE
r-devel-linux-x86_64-fedora-clang 2.0 75.37 NOTE
r-devel-linux-x86_64-fedora-gcc 2.0 72.59 NOTE
r-devel-osx-x86_64-clang 2.0 66.51 NOTE
r-devel-windows-ix86+x86_64 2.0 8.00 58.00 66.00 NOTE
r-patched-linux-x86_64 2.0 3.54 34.34 37.88 NOTE
r-patched-solaris-sparc 2.0 459.60 NOTE
r-patched-solaris-x86 2.0 92.50 NOTE
r-release-linux-x86_64 2.0 3.61 37.91 41.52 NOTE
r-release-osx-x86_64-mavericks 2.0 NOTE
r-release-windows-ix86+x86_64 2.0 10.00 58.00 68.00 NOTE
r-oldrel-windows-ix86+x86_64 2.0 12.00 65.00 77.00 NOTE

Check Details

Version: 2.0
Check: DESCRIPTION meta-information
Result: NOTE
    Malformed Description field: should contain one or more complete sentences.
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-x86_64, r-release-osx-x86_64-mavericks, r-release-windows-ix86+x86_64

Version: 2.0
Check: top-level files
Result: NOTE
    Non-standard file/directory found at top level:
     ‘doc’
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

Version: 2.0
Check: dependencies in R code
Result: NOTE
    Packages in Depends field not imported from:
     ‘mclust’ ‘methods’
     These packages need to be imported from (in the NAMESPACE file)
     for when this namespace is loaded but not attached.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-windows-ix86+x86_64

Version: 2.0
Check: R code for possible problems
Result: NOTE
    File ‘npde/R/zzz.R’:
     .onLoad calls:
     packageStartupMessage(" Loading library npde, version 2.0, August 2012\n please direct bugs, questions and feedback to emmanuelle.comets@inserm.fr\n")
    
    See section ‘Good practice’ in '?.onAttach'.
    
    autonpde: no visible global function definition for ‘new’
    aux.plot.dist: no visible global function definition for ‘rnorm’
    aux.plot.dist: no visible global function definition for ‘runif’
    aux.plot.dist: no visible global function definition for ‘qnorm’
    aux.plot.dist: no visible binding for global variable ‘quantile’
    aux.plot.dist: no visible global function definition for ‘polygon’
    aux.plot.dist: no visible global function definition for ‘lines’
    aux.plot.dist: no visible global function definition for ‘points’
    aux.plot.dist: no visible global function definition for ‘abline’
    aux.plot.hist: no visible global function definition for ‘rnorm’
    aux.plot.hist: no visible global function definition for ‘runif’
    aux.plot.hist: no visible global function definition for ‘hist’
    aux.plot.hist: no visible binding for global variable ‘quantile’
    aux.plot.hist: no visible global function definition for ‘rect’
    aux.plot.hist: no visible global function definition for ‘segments’
    aux.plot.hist: no visible global function definition for ‘dnorm’
    aux.plot.hist: no visible global function definition for ‘lines’
    aux.plot.hist: no visible global function definition for ‘abline’
    aux.scatter: no visible global function definition for ‘polygon’
    aux.scatter: no visible global function definition for ‘lines’
    aux.scatter: no visible binding for global variable ‘quantile’
    aux.scatter: no visible global function definition for ‘points’
    aux.scatter: no visible global function definition for ‘abline’
    aux.scatter.box: no visible global function definition for ‘boxplot’
    aux.scatter.box: no visible global function definition for ‘abline’
    calcnpde: no visible global function definition for ‘cov’
    calcnpde.sim: no visible global function definition for ‘cov’
    compute.bands: no visible global function definition for ‘rnorm’
    compute.bands: no visible global function definition for ‘runif’
    compute.bands: no visible binding for global variable ‘quantile’
    compute.bands: no visible global function definition for ‘qnorm’
    compute.bands.true: no visible binding for global variable ‘quantile’
    compute.vpc.pi : <anonymous>: no visible global function definition for
     ‘quantile’
    computenpde.loq: no visible global function definition for ‘runif’
    computenpde.loq: no visible global function definition for ‘qnorm’
    computenpde.omit: no visible global function definition for ‘runif’
    computenpde.omit: no visible global function definition for ‘qnorm’
    computepd.cdf: no visible global function definition for ‘runif’
    computepd.omit: no visible global function definition for ‘runif’
    computepd.replace: no visible global function definition for ‘runif’
    default.npde.plots: no visible global function definition for ‘par’
    dist.pred.sim: no visible global function definition for ‘runif’
    dist.pred.sim: no visible global function definition for ‘qnorm’
    gof.test.NpdeObject: no visible global function definition for ‘qnorm’
    gof.test.NpdeObject: no visible global function definition for ‘runif’
    gof.test.NpdeObject: no visible global function definition for ‘anova’
    gof.test.NpdeObject: no visible global function definition for ‘lm’
    gof.test.NpdeObject: no visible global function definition for
     ‘kruskal.test’
    gof.test.NpdeObject: no visible global function definition for
     ‘cor.test’
    gof.test.NpdeObject: no visible global function definition for
     ‘quantile’
    gof.test.NpdeRes: no visible global function definition for ‘qnorm’
    gof.test.numeric: no visible global function definition for ‘var’
    gof.test.numeric: no visible global function definition for ‘sd’
    gof.test.numeric: no visible global function definition for ‘t.test’
    gof.test.numeric: no visible global function definition for
     ‘wilcox.test’
    gof.test.numeric: no visible global function definition for ‘ks.test’
    gof.test.numeric: no visible global function definition for
     ‘shapiro.test’
    gof.test.numeric: no visible global function definition for ‘pchisq’
    npde: no visible global function definition for ‘new’
    npde.binning: no visible global function definition for ‘quantile’
    npde.binning: no visible global function definition for ‘Mclust’
    npde.plot.data: no visible global function definition for ‘par’
    npde.plot.data: no visible global function definition for ‘points’
    npde.plot.data: no visible global function definition for ‘lines’
    npde.plot.data: no visible global function definition for ‘abline’
    npde.plot.dist: no visible global function definition for ‘par’
    npde.plot.dist: no visible global function definition for ‘qnorm’
    npde.plot.dist: no visible global function definition for ‘quantile’
    npde.plot.loq: no visible global function definition for ‘par’
    npde.plot.loq: no visible binding for global variable ‘quantile’
    npde.plot.loq: no visible global function definition for ‘polygon’
    npde.plot.loq: no visible global function definition for ‘lines’
    npde.plot.scatter: no visible global function definition for ‘par’
    npde.plot.scatter: no visible global function definition for ‘qnorm’
    npde.plot.scatter: no visible global function definition for ‘quantile’
    npde.plot.vpc: no visible global function definition for ‘par’
    npde.plot.vpc: no visible binding for global variable ‘quantile’
    npde.plot.vpc: no visible global function definition for ‘polygon’
    npde.plot.vpc: no visible global function definition for ‘lines’
    npde.plot.vpc: no visible global function definition for ‘points’
    npde.plot.vpc: no visible global function definition for ‘abline’
    npdeData: no visible global function definition for ‘new’
    npdeSimData: no visible global function definition for ‘new’
    pdemenu: no visible global function definition for ‘read.table’
    plot.NpdeData: no visible global function definition for ‘par’
    plot.NpdeData: no visible global function definition for ‘points’
    plot.NpdeData: no visible global function definition for ‘lines’
    plot.NpdeData: no visible global function definition for ‘abline’
    plot.NpdeObject: no visible global function definition for ‘par’
    plot.NpdeRes: no visible global function definition for ‘par’
    plot.NpdeRes: no visible global function definition for ‘qqnorm’
    plot.NpdeRes: no visible global function definition for ‘qqline’
    plot.NpdeRes: no visible global function definition for ‘hist’
    plot.NpdeRes: no visible global function definition for ‘dnorm’
    plot.NpdeRes: no visible global function definition for ‘lines’
    plot.NpdeRes: no visible global function definition for ‘abline’
    plot.NpdeRes: no visible global function definition for ‘qnorm’
    plot.NpdeRes: no visible global function definition for ‘qqplot’
    plot.NpdeRes: no visible global function definition for ‘segments’
    [<-,NpdeData: no visible global function definition for ‘validObject’
    [<-,NpdeObject: no visible global function definition for ‘validObject’
    [<-,NpdeRes: no visible global function definition for ‘validObject’
    [<-,NpdeSimData: no visible global function definition for
     ‘validObject’
    initialize,NpdeData: no visible global function definition for
     ‘validObject’
    initialize,NpdeObject: no visible global function definition for ‘new’
    initialize,NpdeObject: no visible global function definition for
     ‘validObject’
    npde.graphs,NpdeObject: no visible global function definition for
     ‘postscript’
    npde.graphs,NpdeObject: no visible global function definition for
     ‘jpeg’
    npde.graphs,NpdeObject: no visible global function definition for ‘png’
    npde.graphs,NpdeObject: no visible global function definition for ‘pdf’
    npde.graphs,NpdeObject: no visible global function definition for
     ‘dev.off’
    npde.save,NpdeObject: no visible global function definition for
     ‘write.table’
    read.npdeData,NpdeData: no visible global function definition for
     ‘read.table’
    read.npdeData,NpdeData: no visible global function definition for
     ‘head’
    read.npdeData,NpdeData: no visible global function definition for
     ‘validObject’
    read.npdeSimData,NpdeSimData: no visible global function definition for
     ‘read.table’
    read.npdeSimData,NpdeSimData: no visible global function definition for
     ‘head’
    read.npdeSimData,NpdeSimData: no visible global function definition for
     ‘validObject’
    show,NpdeObject: no visible global function definition for ‘show’
    Undefined global functions or variables:
     Mclust abline anova boxplot cor.test cov dev.off dnorm head hist jpeg
     kruskal.test ks.test lines lm new par pchisq pdf png points polygon
     postscript qnorm qqline qqnorm qqplot quantile read.table rect rnorm
     runif sd segments shapiro.test show t.test validObject var
     wilcox.test write.table
    Consider adding
     importFrom("grDevices", "dev.off", "jpeg", "pdf", "png", "postscript")
     importFrom("graphics", "abline", "boxplot", "hist", "lines", "par",
     "points", "polygon", "rect", "segments")
     importFrom("methods", "new", "show", "validObject")
     importFrom("stats", "anova", "cor.test", "cov", "dnorm",
     "kruskal.test", "ks.test", "lm", "pchisq", "qnorm",
     "qqline", "qqnorm", "qqplot", "quantile", "rnorm", "runif",
     "sd", "shapiro.test", "t.test", "var", "wilcox.test")
     importFrom("utils", "head", "read.table", "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

Version: 2.0
Check: Rd line widths
Result: NOTE
    Rd file 'dist.pred.sim.Rd':
     \examples lines wider than 100 characters:
     # defaults to computing the pd and npde for 100 simulated datasets (in the theophylline example, this uses all the simulated datasets)
    
    Rd file 'virload.Rd':
     \examples lines wider than 100 characters:
     plot(Log_VL~Time,data=virload,xlab="Time (d)",ylab="Viral loads, base 10 logarithmic scale (cp/mL)")
     plot(Log_VL~Time,data=virload50,xlab="Time (d)",ylab="Viral loads, base 10 logarithmic scale (cp/mL)")
    
    These lines will be truncated in the PDF 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-patched-linux-x86_64, r-release-linux-x86_64

Version: 2.0
Check: dependencies in R code
Result: NOTE
    Namespace in Imports field not imported from: ‘stats’
     All declared Imports should be used.
    Packages in Depends field not imported from:
     ‘mclust’ ‘methods’
     These packages need to be imported from (in the NAMESPACE file)
     for when this namespace is loaded but not attached.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-osx-x86_64-clang, r-patched-linux-x86_64, r-patched-solaris-sparc, r-patched-solaris-x86, r-release-linux-x86_64, r-release-osx-x86_64-mavericks, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 2.0
Check: R code for possible problems
Result: NOTE
    File ‘npde/R/zzz.R’:
     .onLoad calls:
     packageStartupMessage(" Loading library npde, version 2.0, August 2012\n please direct bugs, questions and feedback to emmanuelle.comets@inserm.fr\n")
    
    See section ‘Good practice’ in '?.onAttach'.
    
    npde.binning: no visible global function definition for ‘Mclust’
    Undefined global functions or variables:
     Mclust
Flavor: r-devel-osx-x86_64-clang

Version: 2.0
Check: R code for possible problems
Result: NOTE
    File ‘npde/R/zzz.R’:
     .onLoad calls:
     packageStartupMessage(" Loading library npde, version 2.0, August 2012\n please direct bugs, questions and feedback to emmanuelle.comets@inserm.fr\n")
    
    See section ‘Good practice’ in '?.onAttach'.
    
    npde.binning: no visible global function definition for ‘Mclust’
Flavors: r-patched-linux-x86_64, r-patched-solaris-sparc, r-patched-solaris-x86, r-release-linux-x86_64, r-release-osx-x86_64-mavericks, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64