CRAN Package Check Results for Package MATTOOLS

Last updated on 2019-06-20 00:50:52 CEST.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.1 2.50 23.16 25.66 NOTE
r-devel-linux-x86_64-debian-gcc 1.1 2.36 18.28 20.64 NOTE
r-devel-linux-x86_64-fedora-clang 1.1 31.15 NOTE
r-devel-linux-x86_64-fedora-gcc 1.1 29.59 NOTE
r-devel-windows-ix86+x86_64 1.1 6.00 34.00 40.00 NOTE
r-patched-linux-x86_64 1.1 2.85 23.04 25.89 NOTE
r-patched-solaris-x86 1.1 46.70 NOTE
r-release-linux-x86_64 1.1 2.68 22.87 25.55 NOTE
r-release-windows-ix86+x86_64 1.1 5.00 60.00 65.00 NOTE
r-release-osx-x86_64 1.1 NOTE
r-oldrel-windows-ix86+x86_64 1.1 4.00 29.00 33.00 NOTE
r-oldrel-osx-x86_64 1.1 NOTE

Check Details

Version: 1.1
Check: R code for possible problems
Result: NOTE
    Found an obsolete/platform-specific call in the following functions:
     'mat.plot.mc' 'mat.plot.recon' 'mat.plotjump' 'mat.plotroc'
    Found the platform-specific device:
     'windows'
    dev.new() is the preferred way to open a new device, in the unlikely
    event one is needed.
    mat.ROCcalc: no visible global function definition for 'wilcox.test'
    mat.fossavg: no visible binding for global variable 'sd'
    mat.jump: no visible global function definition for 'cor'
    mat.mc: no visible global function definition for 'approx'
    mat.plot.mc: no visible global function definition for 'par'
    mat.plot.mc: no visible global function definition for 'hist'
    mat.plot.mc: no visible global function definition for 'text'
    mat.plot.mc: no visible global function definition for 'quantile'
    mat.plot.mc: no visible global function definition for 'median'
    mat.plot.mc: no visible global function definition for 'var'
    mat.plot.mc: no visible global function definition for 'plot'
    mat.plot.mc: no visible global function definition for 'lines'
    mat.plot.mc: no visible global function definition for 'segments'
    mat.plot.recon: no visible global function definition for 'par'
    mat.plot.recon: no visible global function definition for 'plot'
    mat.plot.recon: no visible global function definition for 'lines'
    mat.plot.recon: no visible global function definition for 'abline'
    mat.plot.recon: no visible global function definition for 'text'
    mat.plotjump: no visible global function definition for 'plot'
    mat.plotjump: no visible global function definition for 'par'
    mat.plotjump: no visible global function definition for 'text'
    mat.plotroc: no visible global function definition for 'dev.cur'
    mat.plotroc: no visible global function definition for 'layout'
    mat.plotroc: no visible global function definition for 'layout.show'
    mat.plotroc: no visible global function definition for 'dev.set'
    mat.plotroc: no visible global function definition for 'hist'
    mat.plotroc: no visible global function definition for 'plot'
    mat.plotroc: no visible global function definition for 'par'
    mat.plotroc: no visible global function definition for 'arrows'
    mat.plotroc: no visible global function definition for 'text'
    mat.plotroc: no visible global function definition for 'abline'
    mat.plotroc: no visible global function definition for 'points'
    mat.plotroc: no visible global function definition for 'barplot'
    mat.plotroc: no visible global function definition for 'polygon'
    Undefined global functions or variables:
     abline approx arrows barplot cor dev.cur dev.set hist layout
     layout.show lines median par plot points polygon quantile sd segments
     text var wilcox.test
    Consider adding
     importFrom("grDevices", "dev.cur", "dev.set")
     importFrom("graphics", "abline", "arrows", "barplot", "hist", "layout",
     "layout.show", "lines", "par", "plot", "points", "polygon",
     "segments", "text")
     importFrom("stats", "approx", "cor", "median", "quantile", "sd", "var",
     "wilcox.test")
    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-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64

Version: 1.1
Check: Rd line widths
Result: NOTE
    Rd file 'mat.dissim.Rd':
     \usage lines wider than 90 characters:
     mat.dissim(inFossil, inModern, llMod = c(), modTaxa = c(), llFoss = c(), fosTaxa = c(), numAnalogs = 1, counts = T, sitenames = 1:lengt ... [TRUNCATED]
    
    Rd file 'mat.fossavg.Rd':
     \usage lines wider than 90 characters:
     mat.fossavg(dObj, modEnvCol, fossEnvCol = 0, fossCols = 0, cutoff = 0, distance = -1, wmethod = "none", numanalogs = length(dObj$positi ... [TRUNCATED]
    
    Rd file 'mat.jumprecon.Rd':
     \usage lines wider than 90 characters:
     mat.jumprecon(dObj, modEnvCol, fossEnvCol, cutoff = 0, alpha = NULL, distance = -1, numanalogs = length(dObj$position[, 1]))
    
    Rd file 'mat.mc.Rd':
     \usage lines wider than 90 characters:
     mat.mc(inModern, modTaxa = c(NULL, NULL), probs = c(0.05, 0.025, 0.01, 0.001), freqint = seq(0, 2, 0.02), sampleSize = length(inModern[ ... [TRUNCATED]
    
    Rd file 'mat.roc.Rd':
     \usage lines wider than 90 characters:
     mat.roc(inModern, modTaxa = c(), colClasses = NULL, numAnalogs = 2, rocEvalSeq = seq(0, 2, 0.05), counts = F, aucmethod = "trap")
    
    Rd file 'mat.roc.allpair.Rd':
     \usage lines wider than 90 characters:
     mat.roc.allpair(inModern, modTaxa = c(), colClasses = NULL, numAnalogs = 2, rocEvalSeq = seq(0, 2, 0.05), counts = F, aucmethod = "trap ... [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: 1.1
Check: R code for possible problems
Result: NOTE
    mat.ROCcalc: no visible global function definition for 'wilcox.test'
    mat.fossavg: no visible binding for global variable 'sd'
    mat.jump: no visible global function definition for 'cor'
    mat.mc: no visible global function definition for 'approx'
    mat.plot.mc: no visible global function definition for 'windows'
    mat.plot.mc: no visible global function definition for 'par'
    mat.plot.mc: no visible global function definition for 'hist'
    mat.plot.mc: no visible global function definition for 'text'
    mat.plot.mc: no visible global function definition for 'quantile'
    mat.plot.mc: no visible global function definition for 'median'
    mat.plot.mc: no visible global function definition for 'var'
    mat.plot.mc: no visible global function definition for 'plot'
    mat.plot.mc: no visible global function definition for 'lines'
    mat.plot.mc: no visible global function definition for 'segments'
    mat.plot.recon: no visible global function definition for 'windows'
    mat.plot.recon: no visible global function definition for 'par'
    mat.plot.recon: no visible global function definition for 'plot'
    mat.plot.recon: no visible global function definition for 'lines'
    mat.plot.recon: no visible global function definition for 'abline'
    mat.plot.recon: no visible global function definition for 'text'
    mat.plotjump: no visible global function definition for 'windows'
    mat.plotjump: no visible global function definition for 'plot'
    mat.plotjump: no visible global function definition for 'par'
    mat.plotjump: no visible global function definition for 'text'
    mat.plotroc: no visible global function definition for 'windows'
    mat.plotroc: no visible global function definition for 'dev.cur'
    mat.plotroc: no visible global function definition for 'layout'
    mat.plotroc: no visible global function definition for 'layout.show'
    mat.plotroc: no visible global function definition for 'dev.set'
    mat.plotroc: no visible global function definition for 'hist'
    mat.plotroc: no visible global function definition for 'plot'
    mat.plotroc: no visible global function definition for 'par'
    mat.plotroc: no visible global function definition for 'arrows'
    mat.plotroc: no visible global function definition for 'text'
    mat.plotroc: no visible global function definition for 'abline'
    mat.plotroc: no visible global function definition for 'points'
    mat.plotroc: no visible global function definition for 'barplot'
    mat.plotroc: no visible global function definition for 'polygon'
    Undefined global functions or variables:
     abline approx arrows barplot cor dev.cur dev.set hist layout
     layout.show lines median par plot points polygon quantile sd segments
     text var wilcox.test windows
    Consider adding
     importFrom("grDevices", "dev.cur", "dev.set", "windows")
     importFrom("graphics", "abline", "arrows", "barplot", "hist", "layout",
     "layout.show", "lines", "par", "plot", "points", "polygon",
     "segments", "text")
     importFrom("stats", "approx", "cor", "median", "quantile", "sd", "var",
     "wilcox.test")
    to your NAMESPACE file.
Flavors: r-devel-windows-ix86+x86_64, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 1.1
Check: R code for possible problems
Result: NOTE
    mat.ROCcalc: no visible global function definition for ‘wilcox.test’
    mat.fossavg: no visible binding for global variable ‘sd’
    mat.jump: no visible global function definition for ‘cor’
    mat.mc: no visible global function definition for ‘approx’
    mat.plot.mc: no visible global function definition for ‘par’
    mat.plot.mc: no visible global function definition for ‘hist’
    mat.plot.mc: no visible global function definition for ‘text’
    mat.plot.mc: no visible global function definition for ‘quantile’
    mat.plot.mc: no visible global function definition for ‘median’
    mat.plot.mc: no visible global function definition for ‘var’
    mat.plot.mc: no visible global function definition for ‘plot’
    mat.plot.mc: no visible global function definition for ‘lines’
    mat.plot.mc: no visible global function definition for ‘segments’
    mat.plot.recon: no visible global function definition for ‘par’
    mat.plot.recon: no visible global function definition for ‘plot’
    mat.plot.recon: no visible global function definition for ‘lines’
    mat.plot.recon: no visible global function definition for ‘abline’
    mat.plot.recon: no visible global function definition for ‘text’
    mat.plotjump: no visible global function definition for ‘plot’
    mat.plotjump: no visible global function definition for ‘par’
    mat.plotjump: no visible global function definition for ‘text’
    mat.plotroc: no visible global function definition for ‘dev.cur’
    mat.plotroc: no visible global function definition for ‘layout’
    mat.plotroc: no visible global function definition for ‘layout.show’
    mat.plotroc: no visible global function definition for ‘dev.set’
    mat.plotroc: no visible global function definition for ‘hist’
    mat.plotroc: no visible global function definition for ‘plot’
    mat.plotroc: no visible global function definition for ‘par’
    mat.plotroc: no visible global function definition for ‘arrows’
    mat.plotroc: no visible global function definition for ‘text’
    mat.plotroc: no visible global function definition for ‘abline’
    mat.plotroc: no visible global function definition for ‘points’
    mat.plotroc: no visible global function definition for ‘barplot’
    mat.plotroc: no visible global function definition for ‘polygon’
    Undefined global functions or variables:
     abline approx arrows barplot cor dev.cur dev.set hist layout
     layout.show lines median par plot points polygon quantile sd segments
     text var wilcox.test
    Consider adding
     importFrom("grDevices", "dev.cur", "dev.set")
     importFrom("graphics", "abline", "arrows", "barplot", "hist", "layout",
     "layout.show", "lines", "par", "plot", "points", "polygon",
     "segments", "text")
     importFrom("stats", "approx", "cor", "median", "quantile", "sd", "var",
     "wilcox.test")
    to your NAMESPACE file.
Flavors: r-release-osx-x86_64, r-oldrel-osx-x86_64