CRAN Package Check Results for Package PBSmodelling

Last updated on 2017-12-20 00:47:07 CET.

Additional issues

rchk

Check Details

Version: 2.67.266
Check: R code for possible problems
Result: NOTE
    .dUpdateDesc: no visible global function definition for ‘demo’
    .getSimilarColour: no visible global function definition for ‘col2rgb’
    .getSimilarColour: no visible global function definition for ‘rgb’
    .showOptions: no visible global function definition for ‘str’
    .sortHelperFile: no visible global function definition for ‘fix’
    .updateSlide: no visible global function definition for
     ‘capture.output’
    addArrows: no visible global function definition for ‘par’
    addArrows: no visible global function definition for ‘arrows’
    addLabel: no visible global function definition for ‘par’
    addLabel: no visible global function definition for ‘text’
    addLegend: no visible global function definition for ‘par’
    addLegend: no visible global function definition for ‘legend’
    calcMin: no visible global function definition for ‘nlm’
    calcMin: no visible global function definition for ‘nlminb’
    calcMin: no visible global function definition for ‘optim’
    drawBars: no visible global function definition for ‘lines’
    evalCall: no visible global function definition for ‘par’
    expandGraph: no visible global function definition for ‘par’
    genMatrix: no visible global function definition for ‘rnorm’
    lucent: no visible global function definition for ‘col2rgb’
    lucent: no visible global function definition for ‘rgb’
    pickCol : .changeColour: no visible global function definition for
     ‘col2rgb’
    plotACF: no visible global function definition for ‘qnorm’
    plotACF: no visible global function definition for ‘acf’
    plotACF: no visible binding for global variable ‘plot’
    plotACF: no visible global function definition for ‘axis’
    plotACF: no visible global function definition for ‘abline’
    plotACF: no visible binding for global variable ‘lines’
    plotACF: no visible global function definition for ‘box’
    plotAsp: no visible global function definition for ‘par’
    plotAsp: no visible global function definition for ‘plot’
    plotBubbles: no visible binding for global variable ‘plot’
    plotBubbles: no visible global function definition for ‘extendrange’
    plotBubbles: no visible global function definition for ‘axis’
    plotBubbles: no visible global function definition for ‘par’
    plotBubbles: no visible binding for global variable ‘axis’
    plotBubbles: no visible binding for global variable ‘symbols’
    plotBubbles: no visible global function definition for ‘box’
    plotCsum: no visible global function definition for ‘median’
    plotCsum: no visible global function definition for ‘approx’
    plotCsum: no visible binding for global variable ‘plot’
    plotCsum: no visible binding for global variable ‘lines’
    plotCsum: no visible global function definition for ‘abline’
    plotCsum: no visible global function definition for ‘mtext’
    plotDens: no visible global function definition for ‘density’
    plotDens: no visible binding for global variable ‘plot’
    plotDens: no visible binding for global variable ‘lines’
    plotFriedEggs : panel.cor: no visible global function definition for
     ‘par’
    plotFriedEggs : panel.cor: no visible global function definition for
     ‘cor’
    plotFriedEggs : panel.cor: no visible global function definition for
     ‘strwidth’
    plotFriedEggs : panel.hist: no visible global function definition for
     ‘par’
    plotFriedEggs : panel.hist: no visible global function definition for
     ‘hist’
    plotFriedEggs : panel.hist: no visible global function definition for
     ‘rect’
    plotFriedEggs : panel.hist: no visible global function definition for
     ‘box’
    plotFriedEggs : fried.eggs: no visible global function definition for
     ‘contourLines’
    plotFriedEggs : fried.eggs: no visible global function definition for
     ‘colorRamp’
    plotFriedEggs : fried.eggs : <anonymous>: no visible global function
     definition for ‘rgb’
    plotFriedEggs : fried.eggs: no visible global function definition for
     ‘polygon’
    plotFriedEggs : fried.eggs: no visible global function definition for
     ‘box’
    plotFriedEggs : smoke.rings: no visible global function definition for
     ‘points’
    plotFriedEggs : smoke.rings: no visible global function definition for
     ‘colorRamp’
    plotFriedEggs : smoke.rings : <anonymous>: no visible global function
     definition for ‘rgb’
    plotFriedEggs : smoke.rings: no visible global function definition for
     ‘contour’
    plotFriedEggs : smoke.rings: no visible global function definition for
     ‘box’
    plotFriedEggs : pepper.mill: no visible global function definition for
     ‘points’
    plotFriedEggs : pepper.mill: no visible global function definition for
     ‘grey’
    plotFriedEggs : beer: no visible global function definition for ‘par’
    plotFriedEggs : beer: no visible global function definition for ‘runif’
    plotFriedEggs : beer: no visible global function definition for
     ‘polygon’
    plotFriedEggs : beer: no visible global function definition for ‘lines’
    plotFriedEggs : beer: no visible global function definition for
     ‘points’
    plotFriedEggs : beer: no visible global function definition for ‘text’
    plotFriedEggs: no visible global function definition for ‘pairs’
    plotSidebars : ciao: no visible global function definition for ‘par’
    plotSidebars: no visible global function definition for ‘par’
    plotSidebars: no visible global function definition for ‘plot.new’
    plotSidebars: no visible binding for global variable ‘par’
    plotSidebars: no visible global function definition for ‘extendrange’
    plotSidebars: no visible global function definition for ‘box’
    plotSidebars: no visible global function definition for ‘mtext’
    plotSidebars: no visible global function definition for ‘axis’
    plotSidebars: no visible binding for global variable ‘polygon’
    plotSidebars: no visible global function definition for ‘text’
    plotTrace: no visible binding for global variable ‘plot’
    plotTrace: no visible binding for global variable ‘lines’
    resetGraph: no visible global function definition for ‘dev.new’
    resetGraph: no visible global function definition for ‘dev.off’
    resetGraph: no visible global function definition for ‘dev.cur’
    resetGraph: no visible global function definition for ‘frame’
    resetGraph: no visible global function definition for ‘par’
    runDemos: no visible global function definition for ‘demo’
    showHelp: no visible binding for global variable ‘update’
    showHelp: no visible global function definition for
     ‘make.packages.html’
    showHelp : getURL: no visible global function definition for
     ‘browseURL’
    showVignettes: no visible global function definition for ‘vignette’
    testAlpha: no visible global function definition for ‘par’
    testAlpha: no visible global function definition for ‘col2rgb’
    testAlpha : <anonymous>: no visible binding for global variable ‘plot’
    testAlpha : <anonymous>: no visible binding for global variable
     ‘polygon’
    testAlpha : <anonymous>: no visible global function definition for
     ‘rgb’
    testAlpha : <anonymous>: no visible global function definition for
     ‘segments’
    testCol: no visible global function definition for ‘colors’
    testCol : getCol: no visible global function definition for ‘colors’
    testCol: no visible global function definition for ‘par’
    testCol: no visible global function definition for ‘plot’
    testCol: no visible global function definition for ‘points’
    testCol: no visible global function definition for ‘text’
    testLty: no visible global function definition for ‘frame’
    testLty: no visible global function definition for ‘par’
    testLty: no visible global function definition for ‘lines’
    testLty: no visible global function definition for ‘mtext’
    testLwd: no visible global function definition for ‘frame’
    testLwd: no visible global function definition for ‘par’
    testLwd: no visible global function definition for ‘lines’
    testLwd: no visible global function definition for ‘mtext’
    testPch: no visible global function definition for ‘frame’
    testPch: no visible global function definition for ‘par’
    testPch: no visible global function definition for ‘abline’
    testPch: no visible global function definition for ‘text’
    testPch: no visible global function definition for ‘points’
    testPch: no visible global function definition for ‘mtext’
    viewCode: no visible binding for global variable ‘update’
    viewCode: no visible global function definition for
     ‘make.packages.html’
    Undefined global functions or variables:
     abline acf approx arrows axis box browseURL capture.output col2rgb
     colorRamp colors contour contourLines cor demo density dev.cur
     dev.new dev.off extendrange fix frame grey hist legend lines
     make.packages.html median mtext nlm nlminb optim pairs par plot
     plot.new points polygon qnorm rect rgb rnorm runif segments str
     strwidth symbols text update vignette
    Consider adding
     importFrom("grDevices", "col2rgb", "colorRamp", "colors",
     "contourLines", "dev.cur", "dev.new", "dev.off",
     "extendrange", "grey", "rgb")
     importFrom("graphics", "abline", "arrows", "axis", "box", "contour",
     "frame", "hist", "legend", "lines", "mtext", "pairs", "par",
     "plot", "plot.new", "points", "polygon", "rect", "segments",
     "strwidth", "symbols", "text")
     importFrom("stats", "acf", "approx", "cor", "density", "median", "nlm",
     "nlminb", "optim", "qnorm", "rnorm", "runif", "update")
     importFrom("utils", "browseURL", "capture.output", "demo", "fix",
     "make.packages.html", "str", "vignette")
    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

Version: 2.67.266
Check: compiled code
Result: NOTE
    File ‘PBSmodelling/libs/PBSmodelling.so’:
     Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’
    
    It is good practice to register native routines and to disable symbol
    search.
    
    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-release-linux-x86_64

Version: 2.67.266
Check: examples
Result: WARN
    Found the following significant warnings:
     Warning: working directory was changed to ‘/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/PBSmodelling/examples’, resetting
Flavor: r-devel-linux-x86_64-debian-clang

Version: 2.67.266
Check: examples
Result: ERROR
    Running examples in ‘PBSmodelling-Ex.R’ failed
    The error most likely occurred in:
    
    > base::assign(".ptime", proc.time(), pos = "CheckExEnv")
    > ### Name: presentTalk
    > ### Title: Run a Presentation in R
    > ### Aliases: presentTalk
    >
    > ### ** Examples
    >
    > local(envir=.PBSmodEnv,expr={
    + cwd = getwd()
    + talk_dir <- system.file("examples", package = "PBSmodelling" )
    + setwd(talk_dir)
    + presentTalk( "swisstalk.xml" ) # closing the GUI should restore cwd
    + })
    This short talk examines the "summary" method
    and applies it to the "swiss" dataset.
    -----------------------------------< Press Go to continue >---------
    >
    >
    >
    > base::assign(".dptime", (proc.time() - get(".ptime", pos = "CheckExEnv")), pos = "CheckExEnv")
    > base::cat("presentTalk", base::get(".format_ptime", pos = 'CheckExEnv')(get(".dptime", pos = "CheckExEnv")), "\n", file=base::get(".ExTimings", pos = 'CheckExEnv'), append=TRUE, sep="\t")
    Warning in file(file, ifelse(append, "a", "w")) :
     cannot open file 'PBSmodelling-Ex.timings': Permission denied
    Error in file(file, ifelse(append, "a", "w")) :
     cannot open the connection
    Calls: <Anonymous> -> file
    Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc

Version: 2.67.266
Check: installed package size
Result: NOTE
     installed size is 5.1Mb
     sub-directories of 1Mb or more:
     doc 1.5Mb
     examples 1.7Mb
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-patched-solaris-x86, r-release-osx-x86_64

Version: 2.67.266
Check: examples
Result: WARN
    Found the following significant warnings:
     Warning: working directory was changed to ‘/data/gannet/ripley/R/packages/tests-clang/PBSmodelling.Rcheck/PBSmodelling/examples’, resetting
Flavor: r-devel-linux-x86_64-fedora-clang

Version: 2.67.266
Check: examples
Result: WARN
    Found the following significant warnings:
     Warning: working directory was changed to ‘/data/gannet/ripley/R/packages/tests-devel/PBSmodelling.Rcheck/PBSmodelling/examples’, resetting
Flavor: r-devel-linux-x86_64-fedora-gcc

Version: 2.67.266
Check: dependencies in R code
Result: NOTE
    Invalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 key
Flavor: r-oldrel-osx-x86_64

Version: 2.67.266
Check: S3 generic/method consistency
Result: WARN
    Invalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 key
    See section ‘Generic functions and methods’ in the ‘Writing R
    Extensions’ manual.
Flavor: r-oldrel-osx-x86_64

Version: 2.67.266
Check: replacement functions
Result: WARN
    Invalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 key
    The argument of a replacement function which corresponds to the right
    hand side must be named ‘value’.
Flavor: r-oldrel-osx-x86_64

Version: 2.67.266
Check: foreign function calls
Result: NOTE
    Invalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 key
    See chapter ‘System and foreign language interfaces’ in the ‘Writing R
    Extensions’ manual.
Flavor: r-oldrel-osx-x86_64

Version: 2.67.266
Check: R code for possible problems
Result: NOTE
    Invalid MIT-MAGIC-COOKIE-1 key.dUpdateDesc: no visible global function definition for ‘demo’
    .getSimilarColour: no visible global function definition for ‘col2rgb’
    .getSimilarColour: no visible global function definition for ‘rgb’
    .showOptions: no visible global function definition for ‘str’
    .sortHelperFile: no visible global function definition for ‘fix’
    .updateSlide: no visible global function definition for
     ‘capture.output’
    addArrows: no visible global function definition for ‘par’
    addArrows: no visible global function definition for ‘arrows’
    addLabel: no visible global function definition for ‘par’
    addLabel: no visible global function definition for ‘text’
    addLegend: no visible global function definition for ‘par’
    addLegend: no visible global function definition for ‘legend’
    calcMin: no visible global function definition for ‘nlm’
    calcMin: no visible global function definition for ‘nlminb’
    calcMin: no visible global function definition for ‘optim’
    drawBars: no visible global function definition for ‘lines’
    evalCall: no visible global function definition for ‘par’
    expandGraph: no visible global function definition for ‘par’
    genMatrix: no visible global function definition for ‘rnorm’
    lucent: no visible global function definition for ‘col2rgb’
    lucent: no visible global function definition for ‘rgb’
    pickCol : .changeColour: no visible global function definition for
     ‘col2rgb’
    plotACF: no visible global function definition for ‘qnorm’
    plotACF: no visible global function definition for ‘acf’
    plotACF: no visible binding for global variable ‘plot’
    plotACF: no visible global function definition for ‘axis’
    plotACF: no visible global function definition for ‘abline’
    plotACF: no visible binding for global variable ‘lines’
    plotACF: no visible global function definition for ‘box’
    plotAsp: no visible global function definition for ‘par’
    plotAsp: no visible global function definition for ‘plot’
    plotBubbles: no visible binding for global variable ‘plot’
    plotBubbles: no visible global function definition for ‘extendrange’
    plotBubbles: no visible global function definition for ‘axis’
    plotBubbles: no visible global function definition for ‘par’
    plotBubbles: no visible binding for global variable ‘axis’
    plotBubbles: no visible binding for global variable ‘symbols’
    plotBubbles: no visible global function definition for ‘box’
    plotCsum: no visible global function definition for ‘median’
    plotCsum: no visible global function definition for ‘approx’
    plotCsum: no visible binding for global variable ‘plot’
    plotCsum: no visible binding for global variable ‘lines’
    plotCsum: no visible global function definition for ‘abline’
    plotCsum: no visible global function definition for ‘mtext’
    plotDens: no visible global function definition for ‘density’
    plotDens: no visible binding for global variable ‘plot’
    plotDens: no visible binding for global variable ‘lines’
    plotFriedEggs : panel.cor: no visible global function definition for
     ‘par’
    plotFriedEggs : panel.cor: no visible global function definition for
     ‘cor’
    plotFriedEggs : panel.cor: no visible global function definition for
     ‘strwidth’
    plotFriedEggs : panel.hist: no visible global function definition for
     ‘par’
    plotFriedEggs : panel.hist: no visible global function definition for
     ‘hist’
    plotFriedEggs : panel.hist: no visible global function definition for
     ‘rect’
    plotFriedEggs : panel.hist: no visible global function definition for
     ‘box’
    plotFriedEggs : fried.eggs: no visible global function definition for
     ‘contourLines’
    plotFriedEggs : fried.eggs: no visible global function definition for
     ‘colorRamp’
    plotFriedEggs : fried.eggs : <anonymous>: no visible global function
     definition for ‘rgb’
    plotFriedEggs : fried.eggs: no visible global function definition for
     ‘polygon’
    plotFriedEggs : fried.eggs: no visible global function definition for
     ‘box’
    plotFriedEggs : smoke.rings: no visible global function definition for
     ‘points’
    plotFriedEggs : smoke.rings: no visible global function definition for
     ‘colorRamp’
    plotFriedEggs : smoke.rings : <anonymous>: no visible global function
     definition for ‘rgb’
    plotFriedEggs : smoke.rings: no visible global function definition for
     ‘contour’
    plotFriedEggs : smoke.rings: no visible global function definition for
     ‘box’
    plotFriedEggs : pepper.mill: no visible global function definition for
     ‘points’
    plotFriedEggs : pepper.mill: no visible global function definition for
     ‘grey’
    plotFriedEggs : beer: no visible global function definition for ‘par’
    plotFriedEggs : beer: no visible global function definition for ‘runif’
    plotFriedEggs : beer: no visible global function definition for
     ‘polygon’
    plotFriedEggs : beer: no visible global function definition for ‘lines’
    plotFriedEggs : beer: no visible global function definition for
     ‘points’
    plotFriedEggs : beer: no visible global function definition for ‘text’
    plotFriedEggs: no visible global function definition for ‘pairs’
    plotSidebars : ciao: no visible global function definition for ‘par’
    plotSidebars: no visible global function definition for ‘par’
    plotSidebars: no visible global function definition for ‘plot.new’
    plotSidebars: no visible binding for global variable ‘par’
    plotSidebars: no visible global function definition for ‘extendrange’
    plotSidebars: no visible global function definition for ‘box’
    plotSidebars: no visible global function definition for ‘mtext’
    plotSidebars: no visible global function definition for ‘axis’
    plotSidebars: no visible binding for global variable ‘polygon’
    plotSidebars: no visible global function definition for ‘text’
    plotTrace: no visible binding for global variable ‘plot’
    plotTrace: no visible binding for global variable ‘lines’
    resetGraph: no visible global function definition for ‘dev.new’
    resetGraph: no visible global function definition for ‘dev.off’
    resetGraph: no visible global function definition for ‘dev.cur’
    resetGraph: no visible global function definition for ‘frame’
    resetGraph: no visible global function definition for ‘par’
    runDemos: no visible global function definition for ‘demo’
    showHelp: no visible binding for global variable ‘update’
    showHelp: no visible global function definition for
     ‘make.packages.html’
    showHelp : getURL: no visible global function definition for
     ‘browseURL’
    showVignettes: no visible global function definition for ‘vignette’
    testAlpha: no visible global function definition for ‘par’
    testAlpha: no visible global function definition for ‘col2rgb’
    testAlpha : <anonymous>: no visible binding for global variable ‘plot’
    testAlpha : <anonymous>: no visible binding for global variable
     ‘polygon’
    testAlpha : <anonymous>: no visible global function definition for
     ‘rgb’
    testAlpha : <anonymous>: no visible global function definition for
     ‘segments’
    testCol: no visible global function definition for ‘colors’
    testCol : getCol: no visible global function definition for ‘colors’
    testCol: no visible global function definition for ‘par’
    testCol: no visible global function definition for ‘plot’
    testCol: no visible global function definition for ‘points’
    testCol: no visible global function definition for ‘text’
    testLty: no visible global function definition for ‘frame’
    testLty: no visible global function definition for ‘par’
    testLty: no visible global function definition for ‘lines’
    testLty: no visible global function definition for ‘mtext’
    testLwd: no visible global function definition for ‘frame’
    testLwd: no visible global function definition for ‘par’
    testLwd: no visible global function definition for ‘lines’
    testLwd: no visible global function definition for ‘mtext’
    testPch: no visible global function definition for ‘frame’
    testPch: no visible global function definition for ‘par’
    testPch: no visible global function definition for ‘abline’
    testPch: no visible global function definition for ‘text’
    testPch: no visible global function definition for ‘points’
    testPch: no visible global function definition for ‘mtext’
    viewCode: no visible binding for global variable ‘update’
    viewCode: no visible global function definition for
     ‘make.packages.html’
    Undefined global functions or variables:
     abline acf approx arrows axis box browseURL capture.output col2rgb
     colorRamp colors contour contourLines cor demo density dev.cur
     dev.new dev.off extendrange fix frame grey hist legend lines
     make.packages.html median mtext nlm nlminb optim pairs par plot
     plot.new points polygon qnorm rect rgb rnorm runif segments str
     strwidth symbols text update vignette
    Consider adding
     importFrom("grDevices", "col2rgb", "colorRamp", "colors",
     "contourLines", "dev.cur", "dev.new", "dev.off",
     "extendrange", "grey", "rgb")
     importFrom("graphics", "abline", "arrows", "axis", "box", "contour",
     "frame", "hist", "legend", "lines", "mtext", "pairs", "par",
     "plot", "plot.new", "points", "polygon", "rect", "segments",
     "strwidth", "symbols", "text")
     importFrom("stats", "acf", "approx", "cor", "density", "median", "nlm",
     "nlminb", "optim", "qnorm", "rnorm", "runif", "update")
     importFrom("utils", "browseURL", "capture.output", "demo", "fix",
     "make.packages.html", "str", "vignette")
    to your NAMESPACE file.
Flavor: r-oldrel-osx-x86_64

Version: 2.67.266
Check: for missing documentation entries
Result: WARN
    Invalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 key
    All user-level objects in a package should have documentation entries.
    See chapter ‘Writing R documentation files’ in the ‘Writing R
    Extensions’ manual.
Flavor: r-oldrel-osx-x86_64

Version: 2.67.266
Check: for code/documentation mismatches
Result: WARN
    Invalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 key
    Invalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 key
    Invalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 key
Flavor: r-oldrel-osx-x86_64

Version: 2.67.266
Check: Rd \usage sections
Result: NOTE
    Invalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 keyInvalid MIT-MAGIC-COOKIE-1 key
    The \usage entries for S3 methods should use the \method markup and not
    their full name.
    See chapter ‘Writing R documentation files’ in the ‘Writing R
    Extensions’ manual.
Flavor: r-oldrel-osx-x86_64

Version: 2.67.266
Check: examples
Result: ERROR
    Running examples in ‘PBSmodelling-Ex.R’ failed
    The error most likely occurred in:
    
    > ### Name: PBSoptions-class
    > ### Title: S4: Project Options Class
    > ### Aliases: PBSoptions-class print,PBSoptions-method
    > ### show,PBSoptions-method
    > ### Keywords: classes methods
    >
    > ### ** Examples
    >
    > local(envir=.PBSmodEnv,expr={
    + #initialize an option manager with a single logical option
    + .mypkg <- new( "PBSoptions", filename="my_pkg.txt",
    + initial.options=list( sillyhatday=FALSE ) )
    +
    + #retrieving an option
    + silly <- getOptions( .mypkg, "sillyhatday" )
    + cat( "today is", ifelse( silly, "silly hat day!", "monday" ), "\n" )
    +
    + #set an option
    + setOptions( .mypkg, sillyhatday = TRUE, photos = "/shares/silly_hat_photos" )
    +
    + #create a GUI which works with options
    + createWin( c(
    + "check name=optionsillyhatday text=\"silly hat day\"",
    + "entry name=optionphotos width=22 mode=character label=\"photos directory\"",
    + "button func=doAction text=save action=saveOptionsGUI(.mypkg)" ), astext = TRUE )
    +
    + #update GUI values based on values stored in .mypkg's options
    + loadOptionsGUI( .mypkg )
    + print(getOptions( .mypkg ))
    + })
    today is monday
    Error in structure(.External(.C_dotTclObjv, objv), class = "tclObj") :
     [tcl] invalid command name "tk_setPalette".
    Calls: local ... eval -> eval -> createWin -> tcl -> .Tcl.objv -> structure
    Execution halted
Flavor: r-oldrel-osx-x86_64