CRAN Package Check Results for Package PKtools

Last updated on 2014-09-24 03:49:02.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.5-0 1.06 27.12 28.18 NOTE
r-devel-linux-x86_64-debian-gcc 1.5-0 1.03 26.32 27.36 NOTE
r-devel-linux-x86_64-fedora-clang 1.5-0 61.11 NOTE
r-devel-linux-x86_64-fedora-gcc 1.5-0 56.93 NOTE
r-devel-osx-x86_64-clang 1.5-0 48.63 NOTE
r-devel-windows-ix86+x86_64 1.5-0 4.00 43.00 47.00 NOTE
r-patched-linux-x86_64 1.5-0 1.05 27.94 28.99 NOTE
r-patched-solaris-sparc 1.5-0 325.40 NOTE
r-patched-solaris-x86 1.5-0 74.80 NOTE
r-release-linux-ix86 1.5-0 1.49 36.36 37.85 NOTE
r-release-linux-x86_64 1.5-0 1.10 28.69 29.80 NOTE
r-release-osx-x86_64-mavericks 1.5-0 NOTE
r-release-osx-x86_64-snowleopard 1.5-0 NOTE
r-release-windows-ix86+x86_64 1.5-0 4.00 48.00 52.00 NOTE
r-oldrel-windows-ix86+x86_64 1.5-0 4.00 46.00 50.00 NOTE

Check Details

Version: 1.5-0
Check: dependencies in R code
Result: NOTE
    'library' or 'require' calls to packages already attached by Depends:
     ‘R2HTML’ ‘lattice’ ‘xtable’
     Please remove these calls from your code.
    Packages in Depends field not imported from:
     ‘R2HTML’ ‘lattice’ ‘methods’ ‘nlme’ ‘xtable’
     These packages need to be imported from (in the NAMESPACE file)
     for when this namespace is loaded but not attached.
    See the information on DESCRIPTION files in the chapter ‘Creating R
    packages’ of 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-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-sparc, r-patched-solaris-x86, r-release-linux-ix86, r-release-linux-x86_64, r-release-osx-x86_64-mavericks, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 1.5-0
Check: R code for possible problems
Result: NOTE
    AICcomp: warning in matrix(NA, nr = n1, nc = 7): partial argument match
     of ‘nr’ to ‘nrow’
    AICcomp: warning in matrix(NA, nr = n1, nc = 7): partial argument match
     of ‘nc’ to ‘ncol’
    RunNM: warning in pk(pkvar = data$pkvar, cov = data$cov, covnames =
     nameData$covnames): partial argument match of ‘cov’ to ‘covdata’
    coVar.id: warning in matrix(NA, nr = nid, nc = ncov): partial argument
     match of ‘nr’ to ‘nrow’
    coVar.id: warning in matrix(NA, nr = nid, nc = ncov): partial argument
     match of ‘nc’ to ‘ncol’
    pk: warning in matrix(NA, nr = nid, nc = ncov): partial argument match
     of ‘nr’ to ‘nrow’
    pk: warning in matrix(NA, nr = nid, nc = ncov): partial argument match
     of ‘nc’ to ‘ncol’
    HTMLtools.NONMEM : plot.TrPre : <anonymous>: no visible global function
     definition for ‘xyplot’
    HTMLtools.NONMEM : plot.TrPre : <anonymous> : <anonymous>: no visible
     global function definition for ‘panel.xyplot’
    HTMLtools.NONMEM : diagtrplotp.Pre : <anonymous>: no visible global
     function definition for ‘trellis.par.get’
    HTMLtools.NONMEM : diagtrplotp.Pre : <anonymous>: no visible global
     function definition for ‘trellis.par.set’
    HTMLtools.NONMEM : diagtrplotp.Pre : <anonymous>: no visible global
     function definition for ‘xyplot’
    HTMLtools.NONMEM : diagtrplotp.Pre : <anonymous>: no visible global
     function definition for ‘Rows’
    HTMLtools.NONMEM : diagtrploti.Pre : <anonymous>: no visible global
     function definition for ‘trellis.par.get’
    HTMLtools.NONMEM : diagtrploti.Pre : <anonymous>: no visible global
     function definition for ‘trellis.par.set’
    HTMLtools.NONMEM : diagtrploti.Pre : <anonymous>: no visible global
     function definition for ‘xyplot’
    HTMLtools.NONMEM : diagtrploti.Pre : <anonymous>: no visible global
     function definition for ‘Rows’
    HTMLtools.NONMEM: no visible global function definition for
     ‘HTMLInitFile’
    HTMLtools.NONMEM: no visible global function definition for
     ‘HTML.title’
    HTMLtools.NONMEM: no visible global function definition for ‘HTML’
    HTMLtools.NONMEM: no visible global function definition for ‘HTMLplot’
    HTMLtools.NONMEM: no visible global function definition for
     ‘HTMLEndFile’
    HTMLtools.PKNLME : plot.TrPre : <anonymous>: no visible global function
     definition for ‘xyplot’
    HTMLtools.PKNLME : plot.TrPre : <anonymous> : <anonymous>: no visible
     global function definition for ‘panel.xyplot’
    HTMLtools.PKNLME : diagtrploti.Pre : <anonymous>: no visible global
     function definition for ‘trellis.par.get’
    HTMLtools.PKNLME : diagtrploti.Pre : <anonymous>: no visible global
     function definition for ‘trellis.par.set’
    HTMLtools.PKNLME : diagtrploti.Pre : <anonymous>: no visible global
     function definition for ‘xyplot’
    HTMLtools.PKNLME : diagtrploti.Pre : <anonymous>: no visible global
     function definition for ‘Rows’
    HTMLtools.PKNLME : diagtrplotp.Pre : <anonymous>: no visible global
     function definition for ‘trellis.par.get’
    HTMLtools.PKNLME : diagtrplotp.Pre : <anonymous>: no visible global
     function definition for ‘trellis.par.set’
    HTMLtools.PKNLME : diagtrplotp.Pre : <anonymous>: no visible global
     function definition for ‘xyplot’
    HTMLtools.PKNLME : diagtrplotp.Pre : <anonymous>: no visible global
     function definition for ‘Rows’
    HTMLtools.PKNLME: no visible global function definition for
     ‘HTMLInitFile’
    HTMLtools.PKNLME: no visible global function definition for
     ‘HTML.title’
    HTMLtools.PKNLME: no visible global function definition for ‘HTML’
    HTMLtools.PKNLME: no visible global function definition for ‘HTMLplot’
    HTMLtools.PKNLME: no visible global function definition for
     ‘HTMLEndFile’
    HTMLtools.WinBUGS : plot.TrPre : <anonymous>: no visible global
     function definition for ‘xyplot’
    HTMLtools.WinBUGS : plot.TrPre : <anonymous> : <anonymous>: no visible
     global function definition for ‘panel.xyplot’
    HTMLtools.WinBUGS : diagtrploti.Pre : <anonymous>: no visible global
     function definition for ‘trellis.par.get’
    HTMLtools.WinBUGS : diagtrploti.Pre : <anonymous>: no visible global
     function definition for ‘trellis.par.set’
    HTMLtools.WinBUGS : diagtrploti.Pre : <anonymous>: no visible global
     function definition for ‘xyplot’
    HTMLtools.WinBUGS : diagtrploti.Pre : <anonymous>: no visible global
     function definition for ‘Rows’
    HTMLtools.WinBUGS : diagtrplotp.Pre : <anonymous>: no visible global
     function definition for ‘trellis.par.get’
    HTMLtools.WinBUGS : diagtrplotp.Pre : <anonymous>: no visible global
     function definition for ‘trellis.par.set’
    HTMLtools.WinBUGS : diagtrplotp.Pre : <anonymous>: no visible global
     function definition for ‘xyplot’
    HTMLtools.WinBUGS : diagtrplotp.Pre : <anonymous>: no visible global
     function definition for ‘Rows’
    HTMLtools.WinBUGS: no visible global function definition for
     ‘HTMLInitFile’
    HTMLtools.WinBUGS: no visible global function definition for
     ‘HTML.title’
    HTMLtools.WinBUGS: no visible global function definition for ‘HTML’
    HTMLtools.WinBUGS: no visible global function definition for ‘HTMLplot’
    HTMLtools.WinBUGS: no visible global function definition for
     ‘HTMLEndFile’
    RunNLME: no visible global function definition for ‘nlme’
    bugs.plot: no visible binding for global variable ‘n.sims’
    bugs.run: no visible binding for '<<-' assignment to ‘options.save’
    bugs.run: no visible binding for global variable ‘options.save’
    bugs.run.error: no visible binding for global variable ‘options.save’
    diagtrplot.NONMEM: no visible global function definition for
     ‘trellis.par.get’
    diagtrplot.NONMEM: no visible global function definition for
     ‘trellis.par.set’
    diagtrplot.NONMEM: no visible global function definition for ‘xyplot’
    diagtrplot.NONMEM: no visible global function definition for ‘Rows’
    diagtrplot.PKNLME: no visible global function definition for
     ‘trellis.par.get’
    diagtrplot.PKNLME: no visible global function definition for
     ‘trellis.par.set’
    diagtrplot.PKNLME: no visible global function definition for ‘xyplot’
    diagtrplot.PKNLME: no visible global function definition for ‘Rows’
    diagtrplot.WinBUGS: no visible global function definition for
     ‘trellis.par.get’
    diagtrplot.WinBUGS: no visible global function definition for
     ‘trellis.par.set’
    diagtrplot.WinBUGS: no visible global function definition for ‘xyplot’
    diagtrplot.WinBUGS: no visible global function definition for ‘Rows’
    indEst: no visible global function definition for ‘xtable’
    tex.NONMEM : format.NONMEM: no visible global function definition for
     ‘xtable’
    tex.PKNLME : format.NLME: no visible global function definition for
     ‘xtable’
    tex.WinBUGS : format.WB: no visible global function definition for
     ‘xtable’
    trplot.NONMEM: no visible global function definition for ‘xyplot’
    trplot.NONMEM : <anonymous>: no visible global function definition for
     ‘panel.xyplot’
    trplot.PKNLME: no visible global function definition for ‘xyplot’
    trplot.PKNLME : <anonymous>: no visible global function definition for
     ‘panel.xyplot’
    trplot.WinBUGS: no visible global function definition for ‘xyplot’
    trplot.WinBUGS : <anonymous>: no visible global function definition for
     ‘panel.xyplot’
    
    Found the following calls to attach():
    File ‘PKtools/R/PKtools.R’:
     attach(a, name = name)
    See section ‘Good practice’ in ‘?attach’.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc

Version: 1.5-0
Check: Rd line widths
Result: NOTE
    Rd file 'indEst.Rd':
     \examples lines wider than 100 characters:
     if (out==0) print(try(indEst(PKNLMEobject=results.nlme5, NMobject=results5, WBobject=WB2, outputType="R")))
    
    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: 1.5-0
Check: R code for possible problems
Result: NOTE
    AICcomp: warning in matrix(NA, nr = n1, nc = 7): partial argument match
     of 'nr' to 'nrow'
    AICcomp: warning in matrix(NA, nr = n1, nc = 7): partial argument match
     of 'nc' to 'ncol'
    RunNM: warning in pk(pkvar = data$pkvar, cov = data$cov, covnames =
     nameData$covnames): partial argument match of 'cov' to 'covdata'
    coVar.id: warning in matrix(NA, nr = nid, nc = ncov): partial argument
     match of 'nr' to 'nrow'
    coVar.id: warning in matrix(NA, nr = nid, nc = ncov): partial argument
     match of 'nc' to 'ncol'
    pk: warning in matrix(NA, nr = nid, nc = ncov): partial argument match
     of 'nr' to 'nrow'
    pk: warning in matrix(NA, nr = nid, nc = ncov): partial argument match
     of 'nc' to 'ncol'
    HTMLtools.NONMEM : plot.TrPre : <anonymous>: no visible global function
     definition for ‘xyplot’
    HTMLtools.NONMEM : plot.TrPre : <anonymous> : <anonymous>: no visible
     global function definition for ‘panel.xyplot’
    HTMLtools.NONMEM : diagtrplotp.Pre : <anonymous>: no visible global
     function definition for ‘trellis.par.get’
    HTMLtools.NONMEM : diagtrplotp.Pre : <anonymous>: no visible global
     function definition for ‘trellis.par.set’
    HTMLtools.NONMEM : diagtrplotp.Pre : <anonymous>: no visible global
     function definition for ‘xyplot’
    HTMLtools.NONMEM : diagtrplotp.Pre : <anonymous>: no visible global
     function definition for ‘Rows’
    HTMLtools.NONMEM : diagtrploti.Pre : <anonymous>: no visible global
     function definition for ‘trellis.par.get’
    HTMLtools.NONMEM : diagtrploti.Pre : <anonymous>: no visible global
     function definition for ‘trellis.par.set’
    HTMLtools.NONMEM : diagtrploti.Pre : <anonymous>: no visible global
     function definition for ‘xyplot’
    HTMLtools.NONMEM : diagtrploti.Pre : <anonymous>: no visible global
     function definition for ‘Rows’
    HTMLtools.NONMEM: no visible global function definition for
     ‘HTMLInitFile’
    HTMLtools.NONMEM: no visible global function definition for
     ‘HTML.title’
    HTMLtools.NONMEM: no visible global function definition for ‘HTML’
    HTMLtools.NONMEM: no visible global function definition for ‘HTMLplot’
    HTMLtools.NONMEM: no visible global function definition for
     ‘HTMLEndFile’
    HTMLtools.PKNLME : plot.TrPre : <anonymous>: no visible global function
     definition for ‘xyplot’
    HTMLtools.PKNLME : plot.TrPre : <anonymous> : <anonymous>: no visible
     global function definition for ‘panel.xyplot’
    HTMLtools.PKNLME : diagtrploti.Pre : <anonymous>: no visible global
     function definition for ‘trellis.par.get’
    HTMLtools.PKNLME : diagtrploti.Pre : <anonymous>: no visible global
     function definition for ‘trellis.par.set’
    HTMLtools.PKNLME : diagtrploti.Pre : <anonymous>: no visible global
     function definition for ‘xyplot’
    HTMLtools.PKNLME : diagtrploti.Pre : <anonymous>: no visible global
     function definition for ‘Rows’
    HTMLtools.PKNLME : diagtrplotp.Pre : <anonymous>: no visible global
     function definition for ‘trellis.par.get’
    HTMLtools.PKNLME : diagtrplotp.Pre : <anonymous>: no visible global
     function definition for ‘trellis.par.set’
    HTMLtools.PKNLME : diagtrplotp.Pre : <anonymous>: no visible global
     function definition for ‘xyplot’
    HTMLtools.PKNLME : diagtrplotp.Pre : <anonymous>: no visible global
     function definition for ‘Rows’
    HTMLtools.PKNLME: no visible global function definition for
     ‘HTMLInitFile’
    HTMLtools.PKNLME: no visible global function definition for
     ‘HTML.title’
    HTMLtools.PKNLME: no visible global function definition for ‘HTML’
    HTMLtools.PKNLME: no visible global function definition for ‘HTMLplot’
    HTMLtools.PKNLME: no visible global function definition for
     ‘HTMLEndFile’
    HTMLtools.WinBUGS : plot.TrPre : <anonymous>: no visible global
     function definition for ‘xyplot’
    HTMLtools.WinBUGS : plot.TrPre : <anonymous> : <anonymous>: no visible
     global function definition for ‘panel.xyplot’
    HTMLtools.WinBUGS : diagtrploti.Pre : <anonymous>: no visible global
     function definition for ‘trellis.par.get’
    HTMLtools.WinBUGS : diagtrploti.Pre : <anonymous>: no visible global
     function definition for ‘trellis.par.set’
    HTMLtools.WinBUGS : diagtrploti.Pre : <anonymous>: no visible global
     function definition for ‘xyplot’
    HTMLtools.WinBUGS : diagtrploti.Pre : <anonymous>: no visible global
     function definition for ‘Rows’
    HTMLtools.WinBUGS : diagtrplotp.Pre : <anonymous>: no visible global
     function definition for ‘trellis.par.get’
    HTMLtools.WinBUGS : diagtrplotp.Pre : <anonymous>: no visible global
     function definition for ‘trellis.par.set’
    HTMLtools.WinBUGS : diagtrplotp.Pre : <anonymous>: no visible global
     function definition for ‘xyplot’
    HTMLtools.WinBUGS : diagtrplotp.Pre : <anonymous>: no visible global
     function definition for ‘Rows’
    HTMLtools.WinBUGS: no visible global function definition for
     ‘HTMLInitFile’
    HTMLtools.WinBUGS: no visible global function definition for
     ‘HTML.title’
    HTMLtools.WinBUGS: no visible global function definition for ‘HTML’
    HTMLtools.WinBUGS: no visible global function definition for ‘HTMLplot’
    HTMLtools.WinBUGS: no visible global function definition for
     ‘HTMLEndFile’
    RunNLME: no visible global function definition for ‘nlme’
    bugs.plot: no visible binding for global variable ‘n.sims’
    bugs.run: no visible binding for '<<-' assignment to ‘options.save’
    bugs.run: no visible binding for global variable ‘options.save’
    bugs.run.error: no visible binding for global variable ‘options.save’
    diagtrplot.NONMEM: no visible global function definition for
     ‘trellis.par.get’
    diagtrplot.NONMEM: no visible global function definition for
     ‘trellis.par.set’
    diagtrplot.NONMEM: no visible global function definition for ‘xyplot’
    diagtrplot.NONMEM: no visible global function definition for ‘Rows’
    diagtrplot.PKNLME: no visible global function definition for
     ‘trellis.par.get’
    diagtrplot.PKNLME: no visible global function definition for
     ‘trellis.par.set’
    diagtrplot.PKNLME: no visible global function definition for ‘xyplot’
    diagtrplot.PKNLME: no visible global function definition for ‘Rows’
    diagtrplot.WinBUGS: no visible global function definition for
     ‘trellis.par.get’
    diagtrplot.WinBUGS: no visible global function definition for
     ‘trellis.par.set’
    diagtrplot.WinBUGS: no visible global function definition for ‘xyplot’
    diagtrplot.WinBUGS: no visible global function definition for ‘Rows’
    indEst: no visible global function definition for ‘xtable’
    tex.NONMEM : format.NONMEM: no visible global function definition for
     ‘xtable’
    tex.PKNLME : format.NLME: no visible global function definition for
     ‘xtable’
    tex.WinBUGS : format.WB: no visible global function definition for
     ‘xtable’
    trplot.NONMEM: no visible global function definition for ‘xyplot’
    trplot.NONMEM : <anonymous>: no visible global function definition for
     ‘panel.xyplot’
    trplot.PKNLME: no visible global function definition for ‘xyplot’
    trplot.PKNLME : <anonymous>: no visible global function definition for
     ‘panel.xyplot’
    trplot.WinBUGS: no visible global function definition for ‘xyplot’
    trplot.WinBUGS : <anonymous>: no visible global function definition for
     ‘panel.xyplot’
Flavors: 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

Version: 1.5-0
Check: R code for possible problems
Result: NOTE
    AICcomp: warning in matrix(NA, nr = n1, nc = 7): partial argument match
     of ‘nr’ to ‘nrow’
    AICcomp: warning in matrix(NA, nr = n1, nc = 7): partial argument match
     of ‘nc’ to ‘ncol’
    HTMLtools.NONMEM: warning in HTMLInitFile(outdir = nameDir, file =
     nameFile$file, extension = "html", BackGroundColor = "#E9967A"):
     partial argument match of ‘file’ to ‘filename’
    HTMLtools.PKNLME: warning in HTMLInitFile(outdir = nameDir, file =
     nameFile$file, extension = "html", BackGroundColor = "#E9967A"):
     partial argument match of ‘file’ to ‘filename’
    HTMLtools.WinBUGS: warning in HTMLInitFile(outdir = nameDir, file =
     nameFile & file, extension = "html", BackGroundColor = "#E9967A"):
     partial argument match of ‘file’ to ‘filename’
    RunNM: warning in pk(pkvar = data$pkvar, cov = data$cov, covnames =
     nameData$covnames): partial argument match of ‘cov’ to ‘covdata’
    coVar.id: warning in matrix(NA, nr = nid, nc = ncov): partial argument
     match of ‘nr’ to ‘nrow’
    coVar.id: warning in matrix(NA, nr = nid, nc = ncov): partial argument
     match of ‘nc’ to ‘ncol’
    pk: warning in matrix(NA, nr = nid, nc = ncov): partial argument match
     of ‘nr’ to ‘nrow’
    pk: warning in matrix(NA, nr = nid, nc = ncov): partial argument match
     of ‘nc’ to ‘ncol’
    bugs.plot: no visible binding for global variable ‘n.sims’
    bugs.run: no visible binding for '<<-' assignment to ‘options.save’
    bugs.run: no visible binding for global variable ‘options.save’
    bugs.run.error: no visible binding for global variable ‘options.save’
    
    Found the following calls to attach():
    File ‘PKtools/R/PKtools.R’:
     attach(a, name = name)
    See section ‘Good practice’ in ‘?attach’.
Flavors: r-patched-linux-x86_64, r-release-linux-x86_64

Version: 1.5-0
Check: R code for possible problems
Result: NOTE
    AICcomp: warning in matrix(NA, nr = n1, nc = 7): partial argument match
     of 'nr' to 'nrow'
    AICcomp: warning in matrix(NA, nr = n1, nc = 7): partial argument match
     of 'nc' to 'ncol'
    HTMLtools.NONMEM: warning in HTMLInitFile(outdir = nameDir, file =
     nameFile$file, extension = "html", BackGroundColor = "#E9967A"):
     partial argument match of 'file' to 'filename'
    HTMLtools.PKNLME: warning in HTMLInitFile(outdir = nameDir, file =
     nameFile$file, extension = "html", BackGroundColor = "#E9967A"):
     partial argument match of 'file' to 'filename'
    HTMLtools.WinBUGS: warning in HTMLInitFile(outdir = nameDir, file =
     nameFile & file, extension = "html", BackGroundColor = "#E9967A"):
     partial argument match of 'file' to 'filename'
    RunNM: warning in pk(pkvar = data$pkvar, cov = data$cov, covnames =
     nameData$covnames): partial argument match of 'cov' to 'covdata'
    coVar.id: warning in matrix(NA, nr = nid, nc = ncov): partial argument
     match of 'nr' to 'nrow'
    coVar.id: warning in matrix(NA, nr = nid, nc = ncov): partial argument
     match of 'nc' to 'ncol'
    pk: warning in matrix(NA, nr = nid, nc = ncov): partial argument match
     of 'nr' to 'nrow'
    pk: warning in matrix(NA, nr = nid, nc = ncov): partial argument match
     of 'nc' to 'ncol'
    bugs.plot: no visible binding for global variable ‘n.sims’
    bugs.run: no visible binding for '<<-' assignment to ‘options.save’
    bugs.run: no visible binding for global variable ‘options.save’
    bugs.run.error: no visible binding for global variable ‘options.save’
Flavors: r-patched-solaris-sparc, r-patched-solaris-x86, r-release-linux-ix86, r-release-osx-x86_64-mavericks, r-release-osx-x86_64-snowleopard, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 1.5-0
Check: dependencies in R code
Result: NOTE
    'library' or 'require' calls to packages already attached by Depends:
     'R2HTML' 'lattice' 'xtable'
     Please remove these calls from your code.
    See the information on DESCRIPTION files in the chapter 'Creating R
    packages' of the 'Writing R Extensions' manual.
Flavor: r-release-osx-x86_64-snowleopard