CRAN Package Check Results for Package MCPerm

Last updated on 2017-07-31 01:47:04.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.1.4 2.69 49.14 51.83 NOTE
r-devel-linux-x86_64-debian-gcc 1.1.4 2.78 38.32 41.10 NOTE
r-devel-linux-x86_64-fedora-clang 1.1.4 83.11 NOTE
r-devel-linux-x86_64-fedora-gcc 1.1.4 80.76 NOTE
r-devel-windows-ix86+x86_64 1.1.4 11.00 85.00 96.00 NOTE
r-patched-linux-x86_64 1.1.4 3.11 48.63 51.73 NOTE
r-patched-solaris-x86 1.1.4 107.90 NOTE
r-release-linux-x86_64 1.1.4 2.89 49.92 52.82 NOTE
r-release-windows-ix86+x86_64 1.1.4 8.00 87.00 95.00 NOTE
r-release-osx-x86_64 1.1.4 NOTE
r-oldrel-windows-ix86+x86_64 1.1.4 11.00 63.00 74.00 NOTE
r-oldrel-osx-x86_64 1.1.4 NOTE

Check Details

Version: 1.1.4
Check: dependencies in R code
Result: NOTE
    Package in Depends field not imported from: ‘metafor’
     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-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, r-oldrel-osx-x86_64

Version: 1.1.4
Check: S3 generic/method consistency
Result: NOTE
    Found the following apparent S3 methods exported but not registered:
     print.PermMeta
    See section ‘Registering S3 methods’ 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-x86, r-release-linux-x86_64

Version: 1.1.4
Check: R code for possible problems
Result: NOTE
    Found an obsolete/platform-specific call in the following functions:
     ‘PermMeta.LnOR.CDC’ ‘PermMeta.LnOR.Hist’ ‘PermMeta.LnOR.qqnorm’
    Found the platform-specific device:
     ‘x11’
    dev.new() is the preferred way to open a new device, in the unlikely
    event one is needed.
    Armitage: no visible global function definition for ‘pchisq’
    Armitage.MCPerm: no visible global function definition for ‘pchisq’
    Armitage.MCPerm: no visible global function definition for ‘rhyper’
    Armitage.TradPerm: no visible global function definition for ‘pchisq’
    HW.test: no visible global function definition for ‘pchisq’
    I2.MCPerm: no visible global function definition for ‘rma’
    I2.MCPerm: no visible global function definition for ‘rma.mh’
    I2.MCPerm: no visible global function definition for ‘rma.peto’
    I2.MCPerm: no visible global function definition for ‘rhyper’
    I2.TradPerm: no visible global function definition for ‘rma’
    I2.TradPerm: no visible global function definition for ‘rma.mh’
    I2.TradPerm: no visible global function definition for ‘rma.peto’
    OR.MCPerm: no visible global function definition for ‘rhyper’
    PermMeta.Hist: no visible global function definition for ‘hist’
    PermMeta.Hist: no visible global function definition for ‘points’
    PermMeta.Hist: no visible global function definition for ‘arrows’
    PermMeta.Hist: no visible global function definition for ‘legend’
    PermMeta.LnOR.CDC: no visible binding for global variable ‘var’
    PermMeta.LnOR.CDC: no visible global function definition for ‘par’
    PermMeta.LnOR.CDC: no visible global function definition for ‘plot’
    PermMeta.LnOR.CDC: no visible global function definition for ‘ecdf’
    PermMeta.LnOR.CDC: no visible global function definition for ‘rnorm’
    PermMeta.LnOR.CDC: no visible global function definition for ‘legend’
    PermMeta.LnOR.CDC: no visible global function definition for ‘mtext’
    PermMeta.LnOR.CDC: no visible global function definition for ‘x11’
    PermMeta.LnOR.Hist: no visible binding for global variable ‘var’
    PermMeta.LnOR.Hist: no visible global function definition for ‘par’
    PermMeta.LnOR.Hist: no visible global function definition for ‘hist’
    PermMeta.LnOR.Hist: no visible global function definition for ‘points’
    PermMeta.LnOR.Hist: no visible global function definition for ‘arrows’
    PermMeta.LnOR.Hist: no visible global function definition for ‘legend’
    PermMeta.LnOR.Hist: no visible global function definition for ‘mtext’
    PermMeta.LnOR.Hist: no visible global function definition for ‘x11’
    PermMeta.LnOR.boxplot: no visible binding for global variable ‘var’
    PermMeta.LnOR.boxplot: no visible global function definition for
     ‘boxplot’
    PermMeta.LnOR.boxplot: no visible global function definition for
     ‘legend’
    PermMeta.LnOR.boxplot: no visible global function definition for
     ‘points’
    PermMeta.LnOR.boxplot: no visible global function definition for ‘text’
    PermMeta.LnOR.qqnorm: no visible global function definition for ‘par’
    PermMeta.LnOR.qqnorm: no visible global function definition for
     ‘qqnorm’
    PermMeta.LnOR.qqnorm: no visible global function definition for
     ‘qqline’
    PermMeta.LnOR.qqnorm: no visible binding for global variable ‘qnorm’
    PermMeta.LnOR.qqnorm: no visible global function definition for ‘mtext’
    PermMeta.LnOR.qqnorm: no visible global function definition for ‘x11’
    PermMeta.boxplot: no visible global function definition for ‘par’
    PermMeta.boxplot: no visible global function definition for ‘boxplot’
    PermMeta.boxplot: no visible global function definition for ‘points’
    PermMeta.boxplot: no visible global function definition for ‘mtext’
    PermMeta.boxplot: no visible global function definition for ‘legend’
    Q.MCPerm: no visible global function definition for ‘rma’
    Q.MCPerm: no visible global function definition for ‘rma.mh’
    Q.MCPerm: no visible global function definition for ‘rma.peto’
    Q.MCPerm: no visible global function definition for ‘rhyper’
    Q.TradPerm: no visible global function definition for ‘rma’
    Q.TradPerm: no visible global function definition for ‘rma.mh’
    Q.TradPerm: no visible global function definition for ‘rma.peto’
    VS.Allele.CDC: no visible global function definition for ‘par’
    VS.Allele.CDC: no visible global function definition for ‘plot’
    VS.Allele.CDC: no visible global function definition for ‘ecdf’
    VS.Allele.CDC: no visible global function definition for ‘legend’
    VS.Allele.CDC: no visible global function definition for ‘mtext’
    VS.Allele.Hist: no visible global function definition for ‘par’
    VS.Allele.Hist: no visible global function definition for ‘hist’
    VS.Allele.Hist: no visible global function definition for ‘legend’
    VS.Allele.Hist: no visible global function definition for ‘mtext’
    VS.Allele.QQ: no visible global function definition for ‘par’
    VS.Allele.QQ: no visible global function definition for ‘qqplot’
    VS.Allele.QQ: no visible global function definition for ‘abline’
    VS.Allele.QQ: no visible global function definition for ‘mtext’
    VS.CDC: no visible global function definition for ‘plot’
    VS.CDC: no visible global function definition for ‘ecdf’
    VS.CDC: no visible global function definition for ‘par’
    VS.CDC: no visible global function definition for ‘legend’
    VS.Genotype.CDC: no visible global function definition for ‘par’
    VS.Genotype.CDC: no visible global function definition for ‘plot’
    VS.Genotype.CDC: no visible global function definition for ‘ecdf’
    VS.Genotype.CDC: no visible global function definition for ‘legend’
    VS.Genotype.CDC: no visible global function definition for ‘mtext’
    VS.Genotype.Hist: no visible global function definition for ‘par’
    VS.Genotype.Hist: no visible global function definition for ‘hist’
    VS.Genotype.Hist: no visible global function definition for ‘legend’
    VS.Genotype.Hist: no visible global function definition for ‘mtext’
    VS.Genotype.QQ: no visible global function definition for ‘par’
    VS.Genotype.QQ: no visible global function definition for ‘qqplot’
    VS.Genotype.QQ: no visible global function definition for ‘abline’
    VS.Genotype.QQ: no visible global function definition for ‘mtext’
    VS.Hist: no visible global function definition for ‘hist’
    VS.Hist: no visible global function definition for ‘par’
    VS.Hist: no visible global function definition for ‘legend’
    VS.KS: no visible global function definition for ‘ks.test’
    VS.KS: no visible global function definition for ‘plot’
    VS.KS: no visible global function definition for ‘abline’
    VS.QQ: no visible global function definition for ‘qqplot’
    VS.QQ: no visible global function definition for ‘abline’
    chisq.MCPerm: no visible global function definition for ‘chisq.test’
    chisq.MCPerm: no visible global function definition for ‘rhyper’
    chisq.TradPerm: no visible global function definition for ‘chisq.test’
    fisher.MCPerm: no visible global function definition for ‘fisher.test’
    fisher.MCPerm: no visible global function definition for ‘rhyper’
    fisher.TradPerm: no visible global function definition for
     ‘fisher.test’
    meta: no visible global function definition for ‘rma’
    meta: no visible global function definition for ‘rma.mh’
    meta: no visible global function definition for ‘rma.peto’
    meta.MCPerm: no visible global function definition for ‘rma’
    meta.MCPerm: no visible global function definition for ‘rma.mh’
    meta.MCPerm: no visible global function definition for ‘rma.peto’
    meta.MCPerm: no visible global function definition for ‘rhyper’
    meta.TradPerm: no visible global function definition for ‘rma’
    meta.TradPerm: no visible global function definition for ‘rma.mh’
    meta.TradPerm: no visible global function definition for ‘rma.peto’
    pearson_scatter: no visible global function definition for ‘cor.test’
    pearson_scatter: no visible global function definition for ‘plot’
    pearson_scatter: no visible global function definition for ‘legend’
    pearson_scatter: no visible global function definition for ‘abline’
    permuteGenotypeCount: no visible global function definition for
     ‘rhyper’
    Undefined global functions or variables:
     abline arrows boxplot chisq.test cor.test ecdf fisher.test hist
     ks.test legend mtext par pchisq plot points qnorm qqline qqnorm
     qqplot rhyper rma rma.mh rma.peto rnorm text var x11
    Consider adding
     importFrom("grDevices", "x11")
     importFrom("graphics", "abline", "arrows", "boxplot", "hist", "legend",
     "mtext", "par", "plot", "points", "text")
     importFrom("stats", "chisq.test", "cor.test", "ecdf", "fisher.test",
     "ks.test", "pchisq", "qnorm", "qqline", "qqnorm", "qqplot",
     "rhyper", "rnorm", "var")
    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: 1.1.4
Check: R code for possible problems
Result: NOTE
    Armitage: no visible global function definition for 'pchisq'
    Armitage.MCPerm: no visible global function definition for 'pchisq'
    Armitage.MCPerm: no visible global function definition for 'rhyper'
    Armitage.TradPerm: no visible global function definition for 'pchisq'
    HW.test: no visible global function definition for 'pchisq'
    I2.MCPerm: no visible global function definition for 'rma'
    I2.MCPerm: no visible global function definition for 'rma.mh'
    I2.MCPerm: no visible global function definition for 'rma.peto'
    I2.MCPerm: no visible global function definition for 'rhyper'
    I2.TradPerm: no visible global function definition for 'rma'
    I2.TradPerm: no visible global function definition for 'rma.mh'
    I2.TradPerm: no visible global function definition for 'rma.peto'
    OR.MCPerm: no visible global function definition for 'rhyper'
    PermMeta.Hist: no visible global function definition for 'hist'
    PermMeta.Hist: no visible global function definition for 'points'
    PermMeta.Hist: no visible global function definition for 'arrows'
    PermMeta.Hist: no visible global function definition for 'legend'
    PermMeta.LnOR.CDC: no visible binding for global variable 'var'
    PermMeta.LnOR.CDC: no visible global function definition for 'par'
    PermMeta.LnOR.CDC: no visible global function definition for 'plot'
    PermMeta.LnOR.CDC: no visible global function definition for 'ecdf'
    PermMeta.LnOR.CDC: no visible global function definition for 'rnorm'
    PermMeta.LnOR.CDC: no visible global function definition for 'legend'
    PermMeta.LnOR.CDC: no visible global function definition for 'mtext'
    PermMeta.LnOR.CDC: no visible global function definition for 'x11'
    PermMeta.LnOR.Hist: no visible binding for global variable 'var'
    PermMeta.LnOR.Hist: no visible global function definition for 'par'
    PermMeta.LnOR.Hist: no visible global function definition for 'hist'
    PermMeta.LnOR.Hist: no visible global function definition for 'points'
    PermMeta.LnOR.Hist: no visible global function definition for 'arrows'
    PermMeta.LnOR.Hist: no visible global function definition for 'legend'
    PermMeta.LnOR.Hist: no visible global function definition for 'mtext'
    PermMeta.LnOR.Hist: no visible global function definition for 'x11'
    PermMeta.LnOR.boxplot: no visible binding for global variable 'var'
    PermMeta.LnOR.boxplot: no visible global function definition for
     'boxplot'
    PermMeta.LnOR.boxplot: no visible global function definition for
     'legend'
    PermMeta.LnOR.boxplot: no visible global function definition for
     'points'
    PermMeta.LnOR.boxplot: no visible global function definition for 'text'
    PermMeta.LnOR.qqnorm: no visible global function definition for 'par'
    PermMeta.LnOR.qqnorm: no visible global function definition for
     'qqnorm'
    PermMeta.LnOR.qqnorm: no visible global function definition for
     'qqline'
    PermMeta.LnOR.qqnorm: no visible binding for global variable 'qnorm'
    PermMeta.LnOR.qqnorm: no visible global function definition for 'mtext'
    PermMeta.LnOR.qqnorm: no visible global function definition for 'x11'
    PermMeta.boxplot: no visible global function definition for 'par'
    PermMeta.boxplot: no visible global function definition for 'boxplot'
    PermMeta.boxplot: no visible global function definition for 'points'
    PermMeta.boxplot: no visible global function definition for 'mtext'
    PermMeta.boxplot: no visible global function definition for 'legend'
    Q.MCPerm: no visible global function definition for 'rma'
    Q.MCPerm: no visible global function definition for 'rma.mh'
    Q.MCPerm: no visible global function definition for 'rma.peto'
    Q.MCPerm: no visible global function definition for 'rhyper'
    Q.TradPerm: no visible global function definition for 'rma'
    Q.TradPerm: no visible global function definition for 'rma.mh'
    Q.TradPerm: no visible global function definition for 'rma.peto'
    VS.Allele.CDC: no visible global function definition for 'par'
    VS.Allele.CDC: no visible global function definition for 'plot'
    VS.Allele.CDC: no visible global function definition for 'ecdf'
    VS.Allele.CDC: no visible global function definition for 'legend'
    VS.Allele.CDC: no visible global function definition for 'mtext'
    VS.Allele.Hist: no visible global function definition for 'par'
    VS.Allele.Hist: no visible global function definition for 'hist'
    VS.Allele.Hist: no visible global function definition for 'legend'
    VS.Allele.Hist: no visible global function definition for 'mtext'
    VS.Allele.QQ: no visible global function definition for 'par'
    VS.Allele.QQ: no visible global function definition for 'qqplot'
    VS.Allele.QQ: no visible global function definition for 'abline'
    VS.Allele.QQ: no visible global function definition for 'mtext'
    VS.CDC: no visible global function definition for 'plot'
    VS.CDC: no visible global function definition for 'ecdf'
    VS.CDC: no visible global function definition for 'par'
    VS.CDC: no visible global function definition for 'legend'
    VS.Genotype.CDC: no visible global function definition for 'par'
    VS.Genotype.CDC: no visible global function definition for 'plot'
    VS.Genotype.CDC: no visible global function definition for 'ecdf'
    VS.Genotype.CDC: no visible global function definition for 'legend'
    VS.Genotype.CDC: no visible global function definition for 'mtext'
    VS.Genotype.Hist: no visible global function definition for 'par'
    VS.Genotype.Hist: no visible global function definition for 'hist'
    VS.Genotype.Hist: no visible global function definition for 'legend'
    VS.Genotype.Hist: no visible global function definition for 'mtext'
    VS.Genotype.QQ: no visible global function definition for 'par'
    VS.Genotype.QQ: no visible global function definition for 'qqplot'
    VS.Genotype.QQ: no visible global function definition for 'abline'
    VS.Genotype.QQ: no visible global function definition for 'mtext'
    VS.Hist: no visible global function definition for 'hist'
    VS.Hist: no visible global function definition for 'par'
    VS.Hist: no visible global function definition for 'legend'
    VS.KS: no visible global function definition for 'ks.test'
    VS.KS: no visible global function definition for 'plot'
    VS.KS: no visible global function definition for 'abline'
    VS.QQ: no visible global function definition for 'qqplot'
    VS.QQ: no visible global function definition for 'abline'
    chisq.MCPerm: no visible global function definition for 'chisq.test'
    chisq.MCPerm: no visible global function definition for 'rhyper'
    chisq.TradPerm: no visible global function definition for 'chisq.test'
    fisher.MCPerm: no visible global function definition for 'fisher.test'
    fisher.MCPerm: no visible global function definition for 'rhyper'
    fisher.TradPerm: no visible global function definition for
     'fisher.test'
    meta: no visible global function definition for 'rma'
    meta: no visible global function definition for 'rma.mh'
    meta: no visible global function definition for 'rma.peto'
    meta.MCPerm: no visible global function definition for 'rma'
    meta.MCPerm: no visible global function definition for 'rma.mh'
    meta.MCPerm: no visible global function definition for 'rma.peto'
    meta.MCPerm: no visible global function definition for 'rhyper'
    meta.TradPerm: no visible global function definition for 'rma'
    meta.TradPerm: no visible global function definition for 'rma.mh'
    meta.TradPerm: no visible global function definition for 'rma.peto'
    pearson_scatter: no visible global function definition for 'cor.test'
    pearson_scatter: no visible global function definition for 'plot'
    pearson_scatter: no visible global function definition for 'legend'
    pearson_scatter: no visible global function definition for 'abline'
    permuteGenotypeCount: no visible global function definition for
     'rhyper'
    Undefined global functions or variables:
     abline arrows boxplot chisq.test cor.test ecdf fisher.test hist
     ks.test legend mtext par pchisq plot points qnorm qqline qqnorm
     qqplot rhyper rma rma.mh rma.peto rnorm text var x11
    Consider adding
     importFrom("grDevices", "x11")
     importFrom("graphics", "abline", "arrows", "boxplot", "hist", "legend",
     "mtext", "par", "plot", "points", "text")
     importFrom("stats", "chisq.test", "cor.test", "ecdf", "fisher.test",
     "ks.test", "pchisq", "qnorm", "qqline", "qqnorm", "qqplot",
     "rhyper", "rnorm", "var")
    to your NAMESPACE file.
Flavors: r-devel-windows-ix86+x86_64, r-release-windows-ix86+x86_64, r-release-osx-x86_64, r-oldrel-windows-ix86+x86_64, r-oldrel-osx-x86_64