CRAN Package Check Results for Package beadarrayFilter

Last updated on 2015-09-02 23:46:44.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.1.0 6.74 67.24 73.98 NOTE
r-devel-linux-x86_64-debian-gcc 1.1.0 6.32 66.45 72.76 NOTE
r-devel-linux-x86_64-fedora-clang 1.1.0 153.43 NOTE
r-devel-linux-x86_64-fedora-gcc 1.1.0 145.26 NOTE
r-devel-osx-x86_64-clang 1.1.0 116.96 NOTE
r-devel-windows-ix86+x86_64 1.1.0 17.00 112.00 129.00 NOTE
r-patched-linux-x86_64 1.1.0 6.79 69.89 76.68 NOTE
r-patched-solaris-sparc 1.1.0 977.00 NOTE
r-patched-solaris-x86 1.1.0 214.40 NOTE
r-release-linux-x86_64 1.1.0 6.79 69.92 76.72 NOTE
r-release-osx-x86_64-mavericks 1.1.0 ERROR
r-release-windows-ix86+x86_64 1.1.0 19.00 157.00 176.00 NOTE
r-oldrel-windows-ix86+x86_64 1.1.0 39.00 160.00 199.00 NOTE

Check Details

Version: 1.1.0
Check: dependencies in R code
Result: NOTE
    Packages in Depends field not imported from:
     ‘RColorBrewer’ ‘beadarray’
     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: 1.1.0
Check: R code for possible problems
Result: NOTE
    beadtypeFilter: no visible global function definition for ‘na.omit’
    beadtypeFilter: no visible global function definition for ‘exprs’
    beadtypeFilter: no visible global function definition for ‘se.exprs’
    beadtypeFilter: no visible global function definition for ‘beadNum’
    beadtypeFilter: no visible global function definition for ‘fData’
    emCDF: no visible global function definition for ‘brewer.pal’
    emCDF: no visible global function definition for ‘plot’
    emCDF: no visible global function definition for ‘ecdf’
    emCDF: no visible global function definition for ‘legend’
    emCDF: no visible global function definition for ‘lines’
    emCDF: no visible global function definition for ‘text’
    emCDF: no visible global function definition for ‘reshape’
    iccFun : <anonymous>: no visible global function definition for
     ‘quantile’
    varianceplot: no visible global function definition for ‘reshape’
    varianceplot: no visible global function definition for ‘plot’
    varianceplot: no visible global function definition for ‘points’
    varianceplot: no visible global function definition for ‘legend’
    Undefined global functions or variables:
     beadNum brewer.pal ecdf exprs fData legend lines na.omit plot points
     quantile reshape se.exprs text
    Consider adding
     importFrom("graphics", "legend", "lines", "plot", "points", "text")
     importFrom("stats", "ecdf", "na.omit", "quantile", "reshape")
    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

Version: 1.1.0
Check: Rd line widths
Result: NOTE
    Rd file 'iccFun.Rd':
     \examples lines wider than 100 characters:
     aaa<-na.omit(data.frame(I(rownames(exprs(exampleSummaryDataNorm))),exprs(exampleSummaryDataNorm)))[1:40,]
    
    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: 1.1.0
Check: R code for possible problems
Result: NOTE
    beadtypeFilter: no visible global function definition for ‘exprs’
    beadtypeFilter: no visible global function definition for ‘se.exprs’
    beadtypeFilter: no visible global function definition for ‘beadNum’
    beadtypeFilter: no visible global function definition for ‘fData’
    emCDF: no visible global function definition for ‘brewer.pal’
    Undefined global functions or variables:
     beadNum brewer.pal exprs fData se.exprs
Flavor: r-devel-osx-x86_64-clang

Version: 1.1.0
Check: R code for possible problems
Result: NOTE
    beadtypeFilter: no visible global function definition for ‘exprs’
    beadtypeFilter: no visible global function definition for ‘se.exprs’
    beadtypeFilter: no visible global function definition for ‘beadNum’
    beadtypeFilter: no visible global function definition for ‘fData’
    emCDF: no visible global function definition for ‘brewer.pal’
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

Version: 1.1.0
Check: package dependencies
Result: NOTE
    Packages suggested but not available for checking:
     ‘beadarrayExampleData’ ‘lumi’
Flavor: r-release-osx-x86_64-mavericks

Version: 1.1.0
Check: examples
Result: ERROR
    Running examples in ‘beadarrayFilter-Ex.R’ failed
    The error most likely occurred in:
    
    > ### Name: MLM.beadarray
    > ### Title: Multi-level Mixed model
    > ### Aliases: MLM.beadarray
    > ### Keywords: differential expression
    >
    > ### ** Examples
    >
    > require(beadarrayExampleData)
    Loading required package: beadarrayExampleData
    Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE, :
     there is no package called ‘beadarrayExampleData’
    > data(exampleSummaryData)
    Warning in data(exampleSummaryData) :
     data set ‘exampleSummaryData’ not found
    > exampleSummaryDatalog2 <- channel(exampleSummaryData, "G")[1:40,]
    Error in channel(exampleSummaryData, "G") :
     error in evaluating the argument 'object' in selecting a method for function 'channel': Error: object 'exampleSummaryData' not found
    Execution halted
Flavor: r-release-osx-x86_64-mavericks