CRAN Package Check Results for Package rsgcc

Last updated on 2015-09-02 19:47:50.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.0.6 4.94 44.98 49.92 NOTE
r-devel-linux-x86_64-debian-gcc 1.0.6 6.13 43.88 50.00 NOTE
r-devel-linux-x86_64-fedora-clang 1.0.6 100.73 NOTE
r-devel-linux-x86_64-fedora-gcc 1.0.6 98.42 NOTE
r-devel-osx-x86_64-clang 1.0.6 79.53 NOTE
r-devel-windows-ix86+x86_64 1.0.6 29.00 161.00 190.00 NOTE
r-patched-linux-x86_64 1.0.6 5.80 48.82 54.62 NOTE
r-patched-solaris-sparc 1.0.6 685.50 NOTE
r-patched-solaris-x86 1.0.6 171.40 NOTE
r-release-linux-x86_64 1.0.6 5.66 50.16 55.83 NOTE
r-release-osx-x86_64-mavericks 1.0.6 NOTE
r-release-windows-ix86+x86_64 1.0.6 28.00 177.00 205.00 NOTE
r-oldrel-windows-ix86+x86_64 1.0.6 46.00 194.00 240.00 NOTE

Check Details

Version: 1.0.6
Check: package dependencies
Result: NOTE
    Depends: includes the non-default packages:
     ‘biwt’ ‘cairoDevice’ ‘fBasics’ ‘gplots’ ‘gWidgets’ ‘gWidgetsRGtk2’
     ‘minerva’ ‘parmigene’ ‘stringr’ ‘snowfall’
    Adding so many packages to the search path is excessive and importing
    selectively is preferable.
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-windows-ix86+x86_64

Version: 1.0.6
Check: dependencies in R code
Result: NOTE
    'library' or 'require' calls to packages already attached by Depends:
     ‘grDevices’ ‘snowfall’
     Please remove these calls from your code.
    'library' or 'require' call to ‘ctc’ in package code.
     Please use :: or requireNamespace() instead.
     See section 'Suggested packages' in the 'Writing R Extensions' manual.
    Packages in Depends field not imported from:
     ‘biwt’ ‘cairoDevice’ ‘fBasics’ ‘gWidgets’ ‘gWidgetsRGtk2’ ‘gplots’
     ‘minerva’ ‘parmigene’ ‘snowfall’ ‘stringr’
     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: 1.0.6
Check: R code for possible problems
Result: NOTE
    .cor_all: no visible global function definition for ‘as.big.matrix’
    adjacencymatrix: no visible global function definition for
     ‘as.big.matrix’
    adjacencymatrix: no visible global function definition for ‘mine’
    adjacencymatrix: no visible global function definition for
     ‘knnmi.cross’
    adjacencymatrix: no visible global function definition for ‘knnmi.all’
    cor.matrix: no visible global function definition for ‘sfInit’
    cor.matrix: no visible global function definition for ‘sfCpus’
    cor.matrix: no visible global function definition for ‘sfApply’
    cor.matrix: no visible global function definition for ‘sfStop’
    cor.pair : getcor: no visible global function definition for ‘cor.test’
    cor.pair : getcor: no visible global function definition for ‘biwt.cor’
    cor.pair: no visible global function definition for ‘runif’
    gcc.dist: no visible global function definition for ‘as.dist’
    gcc.hclust: no visible global function definition for ‘hclust’
    gcc.heatmap: no visible global function definition for ‘par’
    gcc.heatmap: no visible global function definition for ‘median’
    gcc.heatmap: no visible global function definition for
     ‘order.dendrogram’
    gcc.heatmap: no visible global function definition for ‘as.dendrogram’
    gcc.heatmap: no visible global function definition for ‘reorder’
    gcc.heatmap: no visible binding for global variable ‘sd’
    gcc.heatmap: no visible global function definition for ‘quantile’
    gcc.heatmap: no visible global function definition for
     ‘colorRampPalette’
    gcc.heatmap: no visible global function definition for ‘layout’
    gcc.heatmap: no visible global function definition for ‘image’
    gcc.heatmap: no visible global function definition for ‘invalid’
    gcc.heatmap: no visible global function definition for ‘axis’
    gcc.heatmap: no visible global function definition for ‘mtext’
    gcc.heatmap: no visible global function definition for ‘rect’
    gcc.heatmap: no visible global function definition for ‘abline’
    gcc.heatmap: no visible global function definition for ‘lines’
    gcc.heatmap: no visible global function definition for ‘text’
    gcc.heatmap: no visible global function definition for ‘plot’
    gcc.heatmap: no visible global function definition for ‘plot.new’
    gcc.heatmap: no visible global function definition for ‘title’
    gcc.heatmap: no visible global function definition for ‘density’
    gcc.heatmap: no visible global function definition for ‘hist’
    gcc.tsheatmap: no visible global function definition for ‘median’
    gcc.tsheatmap: no visible global function definition for
     ‘as.dendrogram’
    gcc.tsheatmap: no visible global function definition for ‘reorder’
    gcc.tsheatmap: no visible global function definition for
     ‘order.dendrogram’
    gcc.tsheatmap: no visible global function definition for ‘rainbow’
    gcc.tsheatmap: no visible binding for global variable ‘sd’
    gcc.tsheatmap: no visible global function definition for ‘quantile’
    gcc.tsheatmap: no visible global function definition for
     ‘install.packages’
    gcc.tsheatmap: no visible global function definition for
     ‘colorRampPalette’
    gcc.tsheatmap: no visible global function definition for ‘par’
    gcc.tsheatmap: no visible global function definition for ‘layout’
    gcc.tsheatmap: no visible global function definition for ‘image’
    gcc.tsheatmap: no visible global function definition for ‘axis’
    gcc.tsheatmap: no visible global function definition for ‘mtext’
    rsgcc.gui : coverDecToHex: no visible global function definition for
     ‘.dec.to.hex’
    rsgcc.gui : coverDecToHex: no visible global function definition for
     ‘str_length’
    rsgcc.gui : coverDecToHex: no visible global function definition for
     ‘str_sub’
    rsgcc.gui : fileChoose: no visible global function definition for
     ‘gfile’
    rsgcc.gui : fileChoose: no visible binding for global variable ‘tail’
    rsgcc.gui : fileChoose: no visible global function definition for
     ‘read.table’
    rsgcc.gui : fileChoose: no visible global function definition for
     ‘str_sub’
    rsgcc.gui : fileChoose: no visible global function definition for
     ‘str_length’
    rsgcc.gui : fileChoose: no visible global function definition for
     ‘read.csv’
    rsgcc.gui : visData: no visible global function definition for ‘svalue’
    rsgcc.gui : visData: no visible global function definition for
     ‘gwindow’
    rsgcc.gui : visData: no visible global function definition for ‘ggroup’
    rsgcc.gui : visData: no visible global function definition for ‘gtable’
    rsgcc.gui : updateHeatmapMax: no visible global function definition for
     ‘svalue’
    rsgcc.gui : updateHeatmapMean: no visible global function definition
     for ‘svalue’
    rsgcc.gui : updateHeatmapMin: no visible global function definition for
     ‘svalue’
    rsgcc.gui : saveData: no visible global function definition for ‘pdf’
    rsgcc.gui : saveData: no visible global function definition for
     ‘dev.off’
    rsgcc.gui : saveData: no visible global function definition for
     ‘write.table’
    rsgcc.gui : saveData: no visible global function definition for ‘r2atr’
    rsgcc.gui : saveData: no visible global function definition for ‘r2gtr’
    rsgcc.gui : saveData: no visible global function definition for ‘r2cdt’
    rsgcc.gui: no visible global function definition for ‘gwindow’
    rsgcc.gui: no visible global function definition for ‘ggroup’
    rsgcc.gui: no visible global function definition for ‘gframe’
    rsgcc.gui: no visible global function definition for ‘gbutton’
    rsgcc.gui: no visible global function definition for ‘gcheckbox’
    rsgcc.gui : <anonymous>: no visible global function definition for
     ‘svalue’
    rsgcc.gui: no visible global function definition for ‘gedit’
    rsgcc.gui: no visible global function definition for ‘add’
    rsgcc.gui: no visible global function definition for ‘gradio’
    rsgcc.gui: no visible global function definition for ‘gcombobox’
    rsgcc.gui: no visible global function definition for ‘gslider’
    rsgcc.gui: no visible global function definition for ‘ggraphics’
    uniqueTissues: no visible binding for global variable ‘tail’
    uniqueTissues: no visible global function definition for ‘str_sub’
    Undefined global functions or variables:
     .dec.to.hex abline add as.big.matrix as.dendrogram as.dist axis
     biwt.cor colorRampPalette cor.test density dev.off gbutton gcheckbox
     gcombobox gedit gfile gframe ggraphics ggroup gradio gslider gtable
     gwindow hclust hist image install.packages invalid knnmi.all
     knnmi.cross layout lines median mine mtext order.dendrogram par pdf
     plot plot.new quantile r2atr r2cdt r2gtr rainbow read.csv read.table
     rect reorder runif sd sfApply sfCpus sfInit sfStop str_length str_sub
     svalue tail text title write.table
    Consider adding
     importFrom("grDevices", "colorRampPalette", "dev.off", "pdf",
     "rainbow")
     importFrom("graphics", "abline", "axis", "hist", "image", "layout",
     "lines", "mtext", "par", "plot", "plot.new", "rect", "text",
     "title")
     importFrom("stats", "as.dendrogram", "as.dist", "cor.test", "density",
     "hclust", "median", "order.dendrogram", "quantile",
     "reorder", "runif", "sd")
     importFrom("utils", "install.packages", "read.csv", "read.table",
     "tail", "write.table")
    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: 1.0.6
Check: compiled code
Result: NOTE
    File ‘rsgcc/libs/rsgcc.so’:
     Found ‘rand_r’, possibly from ‘rand_r’ (C)
     Object: ‘points.o’
    
    Compiled code should not call entry points which might terminate R nor
    write to stdout/stderr instead of to the console, nor the system RNG.
    
    See ‘Writing portable packages’ 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-patched-linux-x86_64, r-patched-solaris-sparc, r-patched-solaris-x86, r-release-linux-x86_64

Version: 1.0.6
Check: R code for possible problems
Result: NOTE
    .cor_all: no visible global function definition for ‘as.big.matrix’
    adjacencymatrix: no visible global function definition for
     ‘as.big.matrix’
    adjacencymatrix: no visible global function definition for ‘mine’
    adjacencymatrix: no visible global function definition for
     ‘knnmi.cross’
    adjacencymatrix: no visible global function definition for ‘knnmi.all’
    cor.matrix: no visible global function definition for ‘sfInit’
    cor.matrix: no visible global function definition for ‘sfCpus’
    cor.matrix: no visible global function definition for ‘sfApply’
    cor.matrix: no visible global function definition for ‘sfStop’
    cor.pair : getcor: no visible global function definition for ‘biwt.cor’
    gcc.heatmap: no visible global function definition for ‘invalid’
    rsgcc.gui : coverDecToHex: no visible global function definition for
     ‘.dec.to.hex’
    rsgcc.gui : coverDecToHex: no visible global function definition for
     ‘str_length’
    rsgcc.gui : coverDecToHex: no visible global function definition for
     ‘str_sub’
    rsgcc.gui : fileChoose: no visible global function definition for
     ‘gfile’
    rsgcc.gui : fileChoose: no visible global function definition for
     ‘str_sub’
    rsgcc.gui : fileChoose: no visible global function definition for
     ‘str_length’
    rsgcc.gui : visData: no visible global function definition for ‘svalue’
    rsgcc.gui : visData: no visible global function definition for
     ‘gwindow’
    rsgcc.gui : visData: no visible global function definition for ‘ggroup’
    rsgcc.gui : visData: no visible global function definition for ‘gtable’
    rsgcc.gui : updateHeatmapMax: no visible global function definition for
     ‘svalue’
    rsgcc.gui : updateHeatmapMean: no visible global function definition
     for ‘svalue’
    rsgcc.gui : updateHeatmapMin: no visible global function definition for
     ‘svalue’
    rsgcc.gui : saveData: no visible global function definition for ‘r2atr’
    rsgcc.gui : saveData: no visible global function definition for ‘r2gtr’
    rsgcc.gui : saveData: no visible global function definition for ‘r2cdt’
    rsgcc.gui: no visible global function definition for ‘gwindow’
    rsgcc.gui: no visible global function definition for ‘ggroup’
    rsgcc.gui: no visible global function definition for ‘gframe’
    rsgcc.gui: no visible global function definition for ‘gbutton’
    rsgcc.gui: no visible global function definition for ‘gcheckbox’
    rsgcc.gui : <anonymous>: no visible global function definition for
     ‘svalue’
    rsgcc.gui: no visible global function definition for ‘gedit’
    rsgcc.gui: no visible global function definition for ‘add’
    rsgcc.gui: no visible global function definition for ‘gradio’
    rsgcc.gui: no visible global function definition for ‘gcombobox’
    rsgcc.gui: no visible global function definition for ‘gslider’
    rsgcc.gui: no visible global function definition for ‘ggraphics’
    uniqueTissues: no visible global function definition for ‘str_sub’
    Undefined global functions or variables:
     .dec.to.hex add as.big.matrix biwt.cor gbutton gcheckbox gcombobox
     gedit gfile gframe ggraphics ggroup gradio gslider gtable gwindow
     invalid knnmi.all knnmi.cross mine r2atr r2cdt r2gtr sfApply sfCpus
     sfInit sfStop str_length str_sub svalue
Flavor: r-devel-osx-x86_64-clang

Version: 1.0.6
Check: compiled code
Result: NOTE
    File ‘rsgcc/libs/rsgcc.so’:
     Found ‘_rand_r’, possibly from ‘rand_r’ (C)
     Object: ‘points.o’
    
    Compiled code should not call entry points which might terminate R nor
    write to stdout/stderr instead of to the console, nor the system RNG.
    
    See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Flavors: r-devel-osx-x86_64-clang, r-release-osx-x86_64-mavericks

Version: 1.0.6
Check: R code for possible problems
Result: NOTE
    .cor_all: no visible global function definition for ‘as.big.matrix’
    adjacencymatrix: no visible global function definition for
     ‘as.big.matrix’
    adjacencymatrix: no visible global function definition for ‘mine’
    adjacencymatrix: no visible global function definition for
     ‘knnmi.cross’
    adjacencymatrix: no visible global function definition for ‘knnmi.all’
    cor.matrix: no visible global function definition for ‘sfInit’
    cor.matrix: no visible global function definition for ‘sfCpus’
    cor.matrix: no visible global function definition for ‘sfApply’
    cor.matrix: no visible global function definition for ‘sfStop’
    cor.pair : getcor: no visible global function definition for ‘biwt.cor’
    gcc.heatmap: no visible global function definition for ‘invalid’
    rsgcc.gui : coverDecToHex: no visible global function definition for
     ‘.dec.to.hex’
    rsgcc.gui : coverDecToHex: no visible global function definition for
     ‘str_length’
    rsgcc.gui : coverDecToHex: no visible global function definition for
     ‘str_sub’
    rsgcc.gui : fileChoose: no visible global function definition for
     ‘gfile’
    rsgcc.gui : fileChoose: no visible global function definition for
     ‘str_sub’
    rsgcc.gui : fileChoose: no visible global function definition for
     ‘str_length’
    rsgcc.gui : visData: no visible global function definition for ‘svalue’
    rsgcc.gui : visData: no visible global function definition for
     ‘gwindow’
    rsgcc.gui : visData: no visible global function definition for ‘ggroup’
    rsgcc.gui : visData: no visible global function definition for ‘gtable’
    rsgcc.gui : updateHeatmapMax: no visible global function definition for
     ‘svalue’
    rsgcc.gui : updateHeatmapMean: no visible global function definition
     for ‘svalue’
    rsgcc.gui : updateHeatmapMin: no visible global function definition for
     ‘svalue’
    rsgcc.gui : saveData: no visible global function definition for ‘r2atr’
    rsgcc.gui : saveData: no visible global function definition for ‘r2gtr’
    rsgcc.gui : saveData: no visible global function definition for ‘r2cdt’
    rsgcc.gui: no visible global function definition for ‘gwindow’
    rsgcc.gui: no visible global function definition for ‘ggroup’
    rsgcc.gui: no visible global function definition for ‘gframe’
    rsgcc.gui: no visible global function definition for ‘gbutton’
    rsgcc.gui: no visible global function definition for ‘gcheckbox’
    rsgcc.gui : <anonymous>: no visible global function definition for
     ‘svalue’
    rsgcc.gui: no visible global function definition for ‘gedit’
    rsgcc.gui: no visible global function definition for ‘add’
    rsgcc.gui: no visible global function definition for ‘gradio’
    rsgcc.gui: no visible global function definition for ‘gcombobox’
    rsgcc.gui: no visible global function definition for ‘gslider’
    rsgcc.gui: no visible global function definition for ‘ggraphics’
    uniqueTissues: no visible global function definition for ‘str_sub’
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: 1.0.6
Check: package dependencies
Result: NOTE
    Package suggested but not available for checking: ‘ctc’
    
    Depends: includes the non-default packages:
     ‘biwt’ ‘cairoDevice’ ‘fBasics’ ‘gplots’ ‘gWidgets’ ‘gWidgetsRGtk2’
     ‘minerva’ ‘parmigene’ ‘stringr’ ‘snowfall’
    Adding so many packages to the search path is excessive and importing
    selectively is preferable.
Flavor: r-release-osx-x86_64-mavericks

Version: 1.0.6
Check: package dependencies
Result: NOTE
    Package suggested but not available for checking: 'bigmemory'
    
    Depends: includes the non-default packages:
     'biwt' 'cairoDevice' 'fBasics' 'gplots' 'gWidgets' 'gWidgetsRGtk2'
     'minerva' 'parmigene' 'stringr' 'snowfall'
    Adding so many packages to the search path is excessive and importing
    selectively is preferable.
Flavor: r-oldrel-windows-ix86+x86_64