CRAN Package Check Results for Package SNPassoc

Last updated on 2015-08-01 10:47:12.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.9-2 1.40 34.67 36.06 NOTE
r-devel-linux-x86_64-debian-gcc 1.9-2 1.29 33.88 35.18 NOTE
r-devel-linux-x86_64-fedora-clang 1.9-2 75.90 NOTE
r-devel-linux-x86_64-fedora-gcc 1.9-2 72.80 NOTE
r-devel-osx-x86_64-clang 1.9-2 67.78 NOTE
r-devel-windows-ix86+x86_64 1.9-2 11.00 59.00 70.00 NOTE
r-patched-linux-x86_64 1.9-2 1.32 33.97 35.29 NOTE
r-patched-solaris-sparc 1.9-2 502.60 NOTE
r-patched-solaris-x86 1.9-2 97.90 NOTE
r-release-linux-x86_64 1.9-2 1.35 34.35 35.70 NOTE
r-release-osx-x86_64-mavericks 1.9-2 NOTE
r-release-windows-ix86+x86_64 1.9-2 7.00 87.00 94.00 NOTE
r-oldrel-windows-ix86+x86_64 1.9-2 9.00 71.00 80.00 NOTE

Check Details

Version: 1.9-2
Check: dependencies in R code
Result: NOTE
    Package in Depends field not imported from: ‘parallel’
     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-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: 1.9-2
Check: R code for possible problems
Result: NOTE
    GenomicControl : WGchisq: no visible global function definition for
     ‘qchisq’
    GenomicControl: no visible binding for global variable ‘median’
    GenomicControl: no visible global function definition for ‘pchisq’
    LD.snp: no visible global function definition for ‘optimize’
    LD.snp: no visible global function definition for ‘pchisq’
    LDplot: no visible global function definition for ‘matplot’
    LDplot: no visible global function definition for ‘axis’
    LDplot: no visible global function definition for ‘title’
    LDtable: no visible global function definition for ‘heat.colors’
    LDtable: no visible global function definition for ‘image’
    LDtable: no visible global function definition for ‘abline’
    LDtable: no visible global function definition for ‘axis’
    LDtable: no visible global function definition for ‘par’
    LDtable: no visible global function definition for ‘strwidth’
    LDtable: no visible global function definition for ‘strheight’
    LDtable: no visible global function definition for ‘text’
    LDtable: no visible global function definition for ‘title’
    Table.mean.se : <anonymous>: no visible global function definition for
     ‘sd’
    WGassociation: no visible global function definition for ‘as.formula’
    WGassociation: no visible global function definition for ‘terms’
    WGassociation : association.i: no visible global function definition
     for ‘as.formula’
    WGassociation: no visible global function definition for ‘mclapply’
    assoc : lrt: no visible global function definition for ‘pchisq’
    assoc : G: no visible global function definition for ‘pchisq’
    assoc: no visible global function definition for ‘glm’
    association: no visible global function definition for ‘terms’
    association.fit: no visible global function definition for ‘glm’
    association.fit: no visible binding for global variable ‘binomial’
    association.fit: no visible global function definition for ‘AIC’
    association.fit: no visible global function definition for
     ‘fisher.test’
    association.fit: no visible binding for global variable ‘gaussian’
    crea.lab: no visible global function definition for ‘text’
    haplo.inter.fit: no visible global function definition for ‘pchisq’
    haplo.interaction: no visible global function definition for ‘terms’
    interactionPval: no visible global function definition for ‘as.formula’
    interactionPval: no visible global function definition for ‘glm’
    interactionPval: no visible global function definition for ‘anova’
    interleave: no visible global function definition for ‘mclapply’
    intervals.dif: no visible global function definition for ‘qnorm’
    intervals.dif: no visible global function definition for ‘anova’
    intervals.haplo.glm: no visible global function definition for ‘qnorm’
    intervals.or: no visible global function definition for ‘qnorm’
    intervals.or: no visible global function definition for ‘anova’
    maxstat.default: no visible global function definition for
     ‘complete.cases’
    maxstat.matrix: no visible global function definition for ‘pchisq’
    maxstat.matrix: no visible global function definition for ‘runif’
    permTest : llhd2: no visible global function definition for ‘dbeta’
    permTest: no visible global function definition for ‘nlm’
    permTest: no visible global function definition for ‘qbeta’
    plot.SNPinteraction: no visible global function definition for ‘par’
    plot.SNPinteraction: no visible global function definition for ‘layout’
    plot.SNPinteraction: no visible global function definition for ‘image’
    plot.SNPinteraction: no visible global function definition for ‘axis’
    plot.SNPinteraction: no visible global function definition for ‘title’
    plot.SNPinteraction: no visible global function definition for
     ‘segments’
    plot.SNPinteraction: no visible global function definition for ‘abline’
    plot.SNPinteraction: no visible global function definition for ‘text’
    plot.WGassociation: no visible global function definition for ‘par’
    plot.WGassociation: no visible global function definition for ‘layout’
    plot.WGassociation: no visible global function definition for ‘plot’
    plot.WGassociation: no visible global function definition for ‘text’
    plot.WGassociation: no visible global function definition for ‘legend’
    plot.WGassociation: no visible global function definition for ‘axis’
    plot.WGassociation: no visible global function definition for
     ‘segments’
    plot.WGassociation: no visible global function definition for ‘runif’
    plot.permTest: no visible global function definition for ‘density’
    plot.permTest: no visible global function definition for ‘plot’
    plot.permTest: no visible global function definition for ‘dbeta’
    plot.permTest: no visible global function definition for ‘hist’
    plot.permTest: no visible global function definition for ‘lines’
    plot.permTest: no visible global function definition for ‘segments’
    plot.permTest: no visible global function definition for ‘legend’
    plot.setupSNP: no visible global function definition for ‘plot’
    plot.snp: no visible binding for global variable ‘barplot’
    plot.snp: no visible global function definition for ‘par’
    plot.snp: no visible global function definition for ‘layout’
    plot.snp: no visible global function definition for ‘plot’
    plot.snp: no visible global function definition for ‘text’
    plotMissing: no visible global function definition for ‘par’
    plotMissing: no visible global function definition for ‘image’
    plotMissing: no visible global function definition for ‘axis’
    plotMissing: no visible global function definition for ‘title’
    plotMissing: no visible global function definition for ‘segments’
    plotMissing: no visible global function definition for ‘abline’
    plotMissing: no visible global function definition for ‘text’
    print.maxstat: no visible global function definition for ‘printCoefmat’
    qqpval: no visible global function definition for ‘plot’
    qqpval: no visible global function definition for ‘abline’
    reorder.snp: no visible global function definition for ‘relevel’
    setupSNP: no visible global function definition for ‘mclapply’
    snp: no visible global function definition for ‘na.omit’
    summary.haplo.glm: no visible global function definition for ‘pnorm’
    summary.setupSNP: no visible global function definition for ‘mclapply’
    table.corner : glm2: no visible binding for global variable ‘gaussian’
    table.corner : glm2: no visible global function definition for
     ‘glm.control’
    table.corner : glm2: no visible global function definition for
     ‘model.response’
    table.corner : glm2: no visible global function definition for
     ‘is.empty.model’
    table.corner : glm2: no visible global function definition for
     ‘model.matrix’
    table.corner : glm2: no visible global function definition for
     ‘model.weights’
    table.corner : glm2: no visible global function definition for
     ‘model.offset’
    table.corner : glm2: no visible global function definition for
     ‘model.extract’
    table.corner : glm2: no visible global function definition for
     ‘glm.fit’
    table.corner : glm2: no visible global function definition for
     ‘.getXlevels’
    table.corner: no visible binding for global variable ‘binomial’
    table.corner: no visible binding for global variable ‘gaussian’
    table.interaction: no visible global function definition for ‘glm’
    table.interaction: no visible binding for global variable ‘binomial’
    table.interaction: no visible global function definition for ‘anova’
    table.interaction: no visible binding for global variable ‘gaussian’
    tableHWE: no visible global function definition for ‘mclapply’
    Undefined global functions or variables:
     .getXlevels AIC abline anova as.formula axis barplot binomial
     complete.cases dbeta density fisher.test gaussian glm glm.control
     glm.fit heat.colors hist image is.empty.model layout legend lines
     matplot mclapply median model.extract model.matrix model.offset
     model.response model.weights na.omit nlm optimize par pchisq plot
     pnorm printCoefmat qbeta qchisq qnorm relevel runif sd segments
     strheight strwidth terms text title
    Consider adding
     importFrom("grDevices", "heat.colors")
     importFrom("graphics", "abline", "axis", "barplot", "hist", "image",
     "layout", "legend", "lines", "matplot", "par", "plot",
     "segments", "strheight", "strwidth", "text", "title")
     importFrom("stats", ".getXlevels", "AIC", "anova", "as.formula",
     "binomial", "complete.cases", "dbeta", "density",
     "fisher.test", "gaussian", "glm", "glm.control", "glm.fit",
     "is.empty.model", "median", "model.extract", "model.matrix",
     "model.offset", "model.response", "model.weights",
     "na.omit", "nlm", "optimize", "pchisq", "pnorm",
     "printCoefmat", "qbeta", "qchisq", "qnorm", "relevel",
     "runif", "sd", "terms")
    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: 1.9-2
Check: R code for possible problems
Result: NOTE
    WGassociation: no visible global function definition for ‘mclapply’
    interleave: no visible global function definition for ‘mclapply’
    setupSNP: no visible global function definition for ‘mclapply’
    summary.setupSNP: no visible global function definition for ‘mclapply’
    tableHWE: no visible global function definition for ‘mclapply’
    Undefined global functions or variables:
     mclapply
Flavor: r-devel-osx-x86_64-clang

Version: 1.9-2
Check: R code for possible problems
Result: NOTE
    WGassociation: no visible global function definition for ‘mclapply’
    interleave: no visible global function definition for ‘mclapply’
    setupSNP: no visible global function definition for ‘mclapply’
    summary.setupSNP: no visible global function definition for ‘mclapply’
    tableHWE: no visible global function definition for ‘mclapply’
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