CRAN Package Check Results for Package MCMCglmm

Last updated on 2015-08-03 11:49:17.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 2.21 13.58 65.14 78.72 NOTE
r-devel-linux-x86_64-debian-gcc 2.21 14.23 64.53 78.76 NOTE
r-devel-linux-x86_64-fedora-clang 2.21 163.38 NOTE
r-devel-linux-x86_64-fedora-gcc 2.21 155.48 NOTE
r-devel-osx-x86_64-clang 2.21 127.49 NOTE
r-devel-windows-ix86+x86_64 2.21 105.00 132.00 237.00 NOTE
r-patched-linux-x86_64 2.21 14.50 64.66 79.17 NOTE
r-patched-solaris-sparc 2.21 955.50 NOTE
r-patched-solaris-x86 2.21 210.50 NOTE
r-release-linux-x86_64 2.21 14.07 65.14 79.20 NOTE
r-release-osx-x86_64-mavericks 2.21 NOTE
r-release-windows-ix86+x86_64 2.21 124.00 128.00 252.00 NOTE
r-oldrel-windows-ix86+x86_64 2.21 99.00 201.00 300.00 NOTE

Check Details

Version: 2.21
Check: DESCRIPTION meta-information
Result: NOTE
    Malformed Description field: should contain one or more complete sentences.
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

Version: 2.21
Check: dependencies in R code
Result: NOTE
    'library' or 'require' calls in package code:
     ‘combinat’ ‘mvtnorm’ ‘orthopolynom’ ‘rgl’
     Please use :: or requireNamespace() instead.
     See section 'Suggested 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-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: 2.21
Check: R code for possible problems
Result: NOTE
    DD: no visible global function definition for ‘D’
    Ddivergence: no visible global function definition for ‘rmvnorm’
    Ddivergence: no visible global function definition for ‘dmvnorm’
    KPPM: no visible global function definition for ‘permn’
    MCMCglmm: no visible global function definition for ‘get_all_vars’
    MCMCglmm: no visible global function definition for ‘as.formula’
    MCMCglmm: no visible global function definition for ‘model.frame’
    MCMCglmm: no visible global function definition for ‘na.omit’
    MCMCglmm: no visible global function definition for ‘model.matrix’
    MCMCglmm: no visible global function definition for ‘reshape’
    MCMCglmm: no visible global function definition for ‘as’
    MCMCglmm: no visible global function definition for ‘terms’
    MCMCglmm: no visible global function definition for ‘lm’
    MCMCglmm: no visible global function definition for ‘rnorm’
    MCMCglmm: no visible global function definition for ‘var’
    MCMCglmm: no visible global function definition for ‘glm’
    MCMCglmm: no visible global function definition for ‘qnorm’
    MCMCglmm : <anonymous>: no visible global function definition for
     ‘runif’
    buildZ: no visible global function definition for ‘na.omit’
    buildZ: no visible global function definition for ‘as.formula’
    buildZ: no visible global function definition for ‘model.matrix’
    buildZ: no visible global function definition for ‘as’
    buildZ: no visible global function definition for ‘var’
    ellipsoid3d: no visible global function definition for ‘par3d’
    ellipsoid3d: no visible global function definition for ‘rgl.cur’
    ellipsoid3d: no visible global function definition for ‘quads3d’
    ellipsoid3d: no visible global function definition for ‘rotate3d’
    ellipsoid3d: no visible global function definition for ‘qmesh3d’
    find.components: no visible global function definition for ‘as.formula’
    find.components: no visible global function definition for
     ‘model.matrix’
    gelman.prior: no visible global function definition for ‘model.matrix’
    gelman.prior: no visible global function definition for ‘lm’
    gelman.prior: no visible global function definition for ‘get_all_vars’
    gelman.prior : <anonymous>: no visible global function definition for
     ‘sd’
    inverseA: no visible global function definition for ‘na.omit’
    inverseA: no visible global function definition for ‘as’
    leg: no visible global function definition for ‘legendre.polynomials’
    mult.memb: no visible global function definition for ‘terms’
    mult.memb: no visible global function definition for ‘model.matrix’
    mult.memb: no visible global function definition for ‘as.formula’
    plot.MCMCglmm: no visible global function definition for
     ‘devAskNewPage’
    plot.MCMCglmm: no visible global function definition for ‘plot’
    plotsubspace: no visible global function definition for ‘clear3d’
    plotsubspace: no visible global function definition for ‘rotate3d’
    plotsubspace: no visible global function definition for ‘shade3d’
    plotsubspace: no visible global function definition for ‘wire3d’
    plotsubspace: no visible global function definition for ‘axes3d’
    plotsubspace: no visible global function definition for ‘title3d’
    posterior.mode : find.mode: no visible global function definition for
     ‘density’
    predict.MCMCglmm : <anonymous>: no visible global function definition
     for ‘model.matrix’
    predict.MCMCglmm: no visible global function definition for ‘rnorm’
    predict.MCMCglmm: no visible global function definition for ‘plogis’
    predict.MCMCglmm: no visible global function definition for ‘pnorm’
    print.summary.MCMCglmm: no visible global function definition for
     ‘printCoefmat’
    prunePed: no visible global function definition for ‘na.omit’
    rbv: no visible global function definition for ‘na.omit’
    sir: no visible global function definition for ‘update.formula’
    sir: no visible global function definition for ‘model.matrix’
    spl: no visible global function definition for ‘quantile’
    Undefined global functions or variables:
     D as as.formula axes3d clear3d density devAskNewPage dmvnorm
     get_all_vars glm legendre.polynomials lm model.frame model.matrix
     na.omit par3d permn plogis plot pnorm printCoefmat qmesh3d qnorm
     quads3d quantile reshape rgl.cur rmvnorm rnorm rotate3d runif sd
     shade3d terms title3d update.formula var wire3d
    Consider adding
     importFrom("grDevices", "devAskNewPage")
     importFrom("graphics", "plot")
     importFrom("methods", "as")
     importFrom("stats", "D", "as.formula", "density", "get_all_vars",
     "glm", "lm", "model.frame", "model.matrix", "na.omit",
     "plogis", "pnorm", "printCoefmat", "qnorm", "quantile",
     "reshape", "rnorm", "runif", "sd", "terms",
     "update.formula", "var")
    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: 2.21
Check: compiled code
Result: NOTE
    File ‘MCMCglmm/libs/MCMCglmm.so’:
     Found ‘rand’, possibly from ‘rand’ (C)
     Object: ‘cs_randperm.o’
     Found ‘srand’, possibly from ‘srand’ (C)
     Object: ‘cs_randperm.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: 2.21
Check: R code for possible problems
Result: NOTE
    Ddivergence: no visible global function definition for ‘rmvnorm’
    Ddivergence: no visible global function definition for ‘dmvnorm’
    KPPM: no visible global function definition for ‘permn’
    ellipsoid3d: no visible global function definition for ‘par3d’
    ellipsoid3d: no visible global function definition for ‘rgl.cur’
    ellipsoid3d: no visible global function definition for ‘quads3d’
    ellipsoid3d: no visible global function definition for ‘rotate3d’
    ellipsoid3d: no visible global function definition for ‘qmesh3d’
    leg: no visible global function definition for ‘legendre.polynomials’
    plotsubspace: no visible global function definition for ‘clear3d’
    plotsubspace: no visible global function definition for ‘rotate3d’
    plotsubspace: no visible global function definition for ‘shade3d’
    plotsubspace: no visible global function definition for ‘wire3d’
    plotsubspace: no visible global function definition for ‘axes3d’
    plotsubspace: no visible global function definition for ‘title3d’
    Undefined global functions or variables:
     axes3d clear3d dmvnorm legendre.polynomials par3d permn qmesh3d
     quads3d rgl.cur rmvnorm rotate3d shade3d title3d wire3d
Flavor: r-devel-osx-x86_64-clang

Version: 2.21
Check: compiled code
Result: NOTE
    File ‘MCMCglmm/libs/MCMCglmm.so’:
     Found ‘_rand’, possibly from ‘rand’ (C)
     Object: ‘cs_randperm.o’
     Found ‘_srand’, possibly from ‘srand’ (C)
     Object: ‘cs_randperm.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: 2.21
Check: compiled code
Result: NOTE
    File 'MCMCglmm/libs/i386/MCMCglmm.dll':
     Found 'rand', possibly from 'rand' (C)
     Object: 'cs_randperm.o'
     Found 'srand', possibly from 'srand' (C)
     Object: 'cs_randperm.o'
    File 'MCMCglmm/libs/x64/MCMCglmm.dll':
     Found 'rand', possibly from 'rand' (C)
     Object: 'cs_randperm.o'
     Found 'srand', possibly from 'srand' (C)
     Object: 'cs_randperm.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-windows-ix86+x86_64, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 2.21
Check: R code for possible problems
Result: NOTE
    Ddivergence: no visible global function definition for ‘rmvnorm’
    Ddivergence: no visible global function definition for ‘dmvnorm’
    KPPM: no visible global function definition for ‘permn’
    ellipsoid3d: no visible global function definition for ‘par3d’
    ellipsoid3d: no visible global function definition for ‘rgl.cur’
    ellipsoid3d: no visible global function definition for ‘quads3d’
    ellipsoid3d: no visible global function definition for ‘rotate3d’
    ellipsoid3d: no visible global function definition for ‘qmesh3d’
    leg: no visible global function definition for ‘legendre.polynomials’
    plotsubspace: no visible global function definition for ‘clear3d’
    plotsubspace: no visible global function definition for ‘rotate3d’
    plotsubspace: no visible global function definition for ‘shade3d’
    plotsubspace: no visible global function definition for ‘wire3d’
    plotsubspace: no visible global function definition for ‘axes3d’
    plotsubspace: no visible global function definition for ‘title3d’
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