CRAN Package Check Results for Package plmDE

Last updated on 2015-07-05 22:47:39.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.0 1.24 20.94 22.18 NOTE
r-devel-linux-x86_64-debian-gcc 1.0 1.17 21.34 22.50 NOTE
r-devel-linux-x86_64-fedora-clang 1.0 44.07 NOTE
r-devel-linux-x86_64-fedora-gcc 1.0 41.08 NOTE
r-devel-osx-x86_64-clang 1.0 44.83 NOTE
r-devel-windows-ix86+x86_64 1.0 7.00 56.00 63.00 NOTE
r-patched-linux-x86_64 1.0 1.20 21.24 22.44 NOTE
r-patched-solaris-sparc 1.0 286.10 NOTE
r-patched-solaris-x86 1.0 64.30 NOTE
r-release-linux-x86_64 1.0 1.27 21.52 22.80 NOTE
r-release-osx-x86_64-mavericks 1.0 NOTE
r-release-windows-ix86+x86_64 1.0 6.00 56.00 62.00 NOTE
r-oldrel-windows-ix86+x86_64 1.0 9.00 42.00 51.00 NOTE

Check Details

Version: 1.0
Check: dependencies in R code
Result: NOTE
    Packages in Depends field not imported from:
     ‘R.oo’ ‘limma’ ‘splines’
     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-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, r-oldrel-windows-ix86+x86_64

Version: 1.0
Check: S3 generic/method consistency
Result: NOTE
    Found the following apparent S3 methods exported but not registered:
     head.DEresults head.plmDE hist.DEresults info.plmDE
     plmDEmodel.default plot.DEresults
    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, r-patched-linux-x86_64, r-patched-solaris-sparc, r-patched-solaris-x86, r-release-linux-x86_64

Version: 1.0
Check: R code for possible problems
Result: NOTE
    fitBspline: no visible global function definition for ‘median’
    fitBspline: no visible global function definition for ‘quantile’
    fitGAPLM: Error while checking: invalid ‘envir’ argument
    head.DEresults: no visible global function definition for ‘head’
    head.plmDE: no visible global function definition for ‘head’
    hist.DEresults: no visible global function definition for ‘hist’
    hist.DEresults: no visible global function definition for ‘colors’
    hist.DEresults: no visible global function definition for ‘box’
    limmaPLM: no visible global function definition for ‘quantile’
    plot.DEresults: no visible global function definition for ‘as.formula’
    plot.DEresults: no visible global function definition for ‘lm’
    plot.DEresults: no visible global function definition for ‘glm’
    plot.DEresults: no visible global function definition for ‘plot’
    plot.DEresults: no visible global function definition for ‘lines’
    plot.DEresults: no visible global function definition for ‘points’
    plot.DEresults: no visible global function definition for ‘predict’
    Undefined global functions or variables:
     as.formula box colors glm head hist lines lm median plot points
     predict quantile
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

Version: 1.0
Check: Rd line widths
Result: NOTE
    Rd file 'info.plmDE.Rd':
     \examples lines wider than 100 characters:
     DataInfo = data.frame(sample = names(ExpressionData), group = c(rep("Control", 50), rep("Diseased", 50)), weight = abs(rnorm(100, 50, 2 ... [TRUNCATED]
    
    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: 1.0
Check: R code for possible problems
Result: NOTE
    fitBspline: no visible global function definition for 'median'
    fitBspline: no visible global function definition for 'quantile'
    fitGAPLM: no visible global function definition for 'poisson'
    fitGAPLM: no visible global function definition for 'quantile'
    fitGAPLM: no visible global function definition for 'anova'
    fitGAPLM: no visible global function definition for 'as.formula'
    fitGAPLM: no visible global function definition for 'glm'
    fitGAPLM: no visible global function definition for 'pf'
    fitGAPLM: no visible global function definition for 'lm'
    fitGAPLM: no visible global function definition for 'p.adjust'
    head.DEresults: no visible global function definition for 'head'
    head.plmDE: no visible global function definition for 'head'
    hist.DEresults: no visible global function definition for 'hist'
    hist.DEresults: no visible global function definition for 'colors'
    hist.DEresults: no visible global function definition for 'box'
    limmaPLM: no visible global function definition for 'quantile'
    plot.DEresults: no visible global function definition for 'as.formula'
    plot.DEresults: no visible global function definition for 'lm'
    plot.DEresults: no visible global function definition for 'glm'
    plot.DEresults: no visible global function definition for 'plot'
    plot.DEresults: no visible global function definition for 'lines'
    plot.DEresults: no visible global function definition for 'points'
    plot.DEresults: no visible global function definition for 'predict'
    Undefined global functions or variables:
     anova as.formula box colors glm head hist lines lm median p.adjust pf
     plot points poisson predict quantile
Flavor: r-devel-windows-ix86+x86_64