CRAN Package Check Results for Package MetaQC

Last updated on 2015-07-05 21:46:36.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 0.1.13 0.78 11.46 12.24 NOTE
r-devel-linux-x86_64-debian-gcc 0.1.13 0.71 11.52 12.22 NOTE
r-devel-linux-x86_64-fedora-clang 0.1.13 22.62 NOTE
r-devel-linux-x86_64-fedora-gcc 0.1.13 21.77 NOTE
r-devel-osx-x86_64-clang 0.1.13 25.21 NOTE
r-devel-windows-ix86+x86_64 0.1.13 3.00 22.00 25.00 NOTE
r-patched-linux-x86_64 0.1.13 0.76 11.81 12.57 NOTE
r-patched-solaris-sparc 0.1.13 170.00 NOTE
r-patched-solaris-x86 0.1.13 34.10 NOTE
r-release-linux-x86_64 0.1.13 0.74 12.68 13.43 NOTE
r-release-osx-x86_64-mavericks 0.1.13 NOTE
r-release-windows-ix86+x86_64 0.1.13 5.00 27.00 32.00 NOTE
r-oldrel-windows-ix86+x86_64 0.1.13 6.00 31.00 37.00 NOTE

Check Details

Version: 0.1.13
Check: dependencies in R code
Result: NOTE
    'library' or 'require' call to ‘survival’ in package code.
     Please use :: or requireNamespace() instead.
     See section 'Suggested packages' in the 'Writing R Extensions' manual.
    Packages in Depends field not imported from:
     ‘foreach’ ‘iterators’ ‘proto’
     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: 0.1.13
Check: S3 generic/method consistency
Result: NOTE
    Found the following apparent S3 methods exported but not registered:
     plot.proto print.proto
    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-devel-osx-x86_64-clang, r-patched-linux-x86_64, r-patched-solaris-sparc, r-patched-solaris-x86, r-release-linux-x86_64

Version: 0.1.13
Check: R code for possible problems
Result: NOTE
    Download: no visible global function definition for ‘download.file’
    GMT2List: no visible global function definition for ‘%dopar%’
    GMT2List: no visible global function definition for ‘foreach’
    GMT2List: no visible global function definition for ‘iter’
    GMT2List: no visible binding for global variable ‘x’
    GetEWPval: no visible global function definition for ‘pchisq’
    GetPVal : t.test2: no visible global function definition for ‘pt’
    GetPVal : <anonymous>: no visible global function definition for
     ‘t.test’
    GetPVal : <anonymous>: no visible global function definition for ‘lm’
    GetPVal : <anonymous>: no visible global function definition for
     ‘coxph’
    MetaQC: no visible global function definition for ‘proto’
    MetaQC: no visible global function definition for ‘registerDoMC’
    MetaQC: no visible global function definition for ‘registerDoSNOW’
    MetaQC: no visible global function definition for ‘makeCluster’
    MetaQC : .Initialize: no visible global function definition for ‘%do%’
    MetaQC : .Initialize: no visible global function definition for
     ‘foreach’
    MetaQC : .Initialize: no visible global function definition for ‘iter’
    MetaQC : .FilterGenes: no visible global function definition for
     ‘%dopar%’
    MetaQC : .FilterGenes: no visible global function definition for
     ‘foreach’
    MetaQC : .FilterGenes: no visible global function definition for ‘iter’
    MetaQC : .FilterGenes: no visible binding for global variable ‘d’
    MetaQC : .ConvertToGeneSetIdx: no visible global function definition
     for ‘%dopar%’
    MetaQC : .ConvertToGeneSetIdx: no visible global function definition
     for ‘foreach’
    MetaQC : .ConvertToGeneSetIdx: no visible global function definition
     for ‘iter’
    MetaQC : .ConvertToGeneSetIdx: no visible global function definition
     for ‘%do%’
    MetaQC : .ConvertToGeneSetIdx: no visible global function definition
     for ‘na.omit’
    MetaQC : .ConvertToGeneSetIdx: no visible binding for global variable
     ‘g’
    MetaQC : .ConvertToGeneSetIdx: no visible binding for global variable
     ‘d’
    MetaQC : .CalcPval: no visible global function definition for ‘%do%’
    MetaQC : .CalcPval: no visible global function definition for ‘foreach’
    MetaQC : .CalcPval: no visible binding for global variable ‘i’
    MetaQC : .CalcPval: no visible global function definition for ‘%dopar%’
    MetaQC : .CalcPval: no visible binding for global variable ‘w’
    MetaQC : .CalcPval: no visible global function definition for ‘as.dist’
    MetaQC : .CalcPval: no visible global function definition for ‘cor’
    MetaQC : .CalcPval: no visible global function definition for ‘iter’
    MetaQC : .CalcPval: no visible binding for global variable ‘j’
    MetaQC : .CalcPval : <anonymous>: no visible global function definition
     for ‘as.dist’
    MetaQC : .CalcPval : <anonymous>: no visible global function definition
     for ‘cor’
    MetaQC : .CalcPval: no visible binding for global variable ‘b’
    MetaQC : EQC: no visible global function definition for ‘%do%’
    MetaQC : EQC: no visible global function definition for ‘foreach’
    MetaQC : EQC: no visible global function definition for ‘%dopar%’
    MetaQC : EQC: no visible global function definition for ‘iter’
    MetaQC : EQC: no visible global function definition for ‘as.dist’
    MetaQC : EQC: no visible global function definition for ‘cor’
    MetaQC : EQC: no visible binding for global variable ‘g’
    MetaQC : EQC: no visible global function definition for ‘na.omit’
    MetaQC : EQC: no visible binding for global variable ‘w’
    MetaQC : AQCg: no visible global function definition for ‘%dopar%’
    MetaQC : AQCg: no visible global function definition for ‘foreach’
    MetaQC : AQCg: no visible binding for global variable ‘i’
    MetaQC : AQCg: no visible global function definition for ‘p.adjust’
    MetaQC : AQCg: no visible global function definition for ‘fisher.test’
    MetaQC : AQCp: no visible global function definition for ‘%dopar%’
    MetaQC : AQCp: no visible global function definition for ‘foreach’
    MetaQC : AQCp: no visible binding for global variable ‘i’
    MetaQC : AQCp: no visible global function definition for ‘p.adjust’
    MetaQC : AQCp: no visible global function definition for ‘fisher.test’
    MetaQC : CQCg: no visible global function definition for ‘%dopar%’
    MetaQC : CQCg: no visible global function definition for ‘foreach’
    MetaQC : CQCg: no visible global function definition for ‘iter’
    MetaQC : CQCg: no visible binding for global variable ‘dat’
    MetaQC : CQCg: no visible binding for global variable ‘pv’
    MetaQC : CQCg: no visible binding for global variable ‘i’
    MetaQC : CQCg: no visible global function definition for ‘cor.test’
    MetaQC : CQCp: no visible global function definition for ‘%dopar%’
    MetaQC : CQCp: no visible global function definition for ‘foreach’
    MetaQC : CQCp: no visible global function definition for ‘iter’
    MetaQC : CQCp: no visible binding for global variable ‘dat’
    MetaQC : CQCp: no visible binding for global variable ‘pv’
    MetaQC : CQCp: no visible global function definition for ‘%do%’
    MetaQC : CQCp: no visible binding for global variable ‘ii’
    MetaQC : CQCp: no visible binding for global variable ‘jj’
    MetaQC : CQCp: no visible global function definition for ‘na.omit’
    MetaQC : CQCp: no visible global function definition for ‘ks.test’
    MetaQC : CQCp: no visible binding for global variable ‘i’
    MetaQC : CQCp: no visible global function definition for ‘cor.test’
    MetaQC : IQC: no visible global function definition for ‘%dopar%’
    MetaQC : IQC: no visible global function definition for ‘foreach’
    MetaQC : IQC: no visible binding for global variable ‘i’
    MetaQC : IQC: no visible global function definition for ‘wilcox.test’
    MetaQC : IQC: no visible global function definition for ‘pnorm’
    MetaQC : IQC: no visible global function definition for ‘qnorm’
    MetaQC : .CalcDistOfStudies: no visible global function definition for
     ‘%dopar%’
    MetaQC : .CalcDistOfStudies: no visible global function definition for
     ‘foreach’
    MetaQC : .CalcDistOfStudies: no visible global function definition for
     ‘iter’
    MetaQC : .CalcDistOfStudies: no visible binding for global variable
     ‘ii’
    MetaQC : .CalcDistOfStudies: no visible global function definition for
     ‘%do%’
    MetaQC : .CalcDistOfStudies: no visible global function definition for
     ‘as.dist’
    MetaQC : .CalcDistOfStudies: no visible global function definition for
     ‘cor’
    MetaQC : .CalcDistOfStudies: no visible binding for global variable
     ‘jj’
    MetaQC : .CalcDistOfStudies: no visible global function definition for
     ‘na.omit’
    MetaQC : .CalcDistOfStudies: no visible global function definition for
     ‘median’
    MetaQC : .CalcScores: no visible global function definition for ‘%do%’
    MetaQC : .CalcScores: no visible global function definition for
     ‘foreach’
    MetaQC : .CalcScores: no visible global function definition for ‘iter’
    MetaQC : .CalcScores: no visible binding for global variable ‘d’
    MetaQC : Plot : <anonymous>: no visible global function definition for
     ‘sd’
    MetaQC : Plot: no visible global function definition for ‘prcomp’
    MetaQC : Plot: no visible global function definition for ‘plot’
    MetaQC : Plot: no visible global function definition for ‘axis’
    MetaQC : Plot: no visible global function definition for ‘box’
    MetaQC : Plot: no visible global function definition for ‘abline’
    MetaQC : Plot: no visible global function definition for ‘arrows’
    MetaQC : Plot: no visible global function definition for ‘gray’
    MetaQC : Plot: no visible global function definition for ‘text’
    MetaQC : Plot: no visible global function definition for ‘points’
    MetaQC : GetDistOfStudies: no visible global function definition for
     ‘as.dist’
    requireAll: no visible global function definition for
     ‘installed.packages’
    requireAll: no visible binding for global variable ‘biocLite’
    requireAll: no visible global function definition for ‘biocLite’
    Undefined global functions or variables:
     %do% %dopar% abline arrows as.dist axis b biocLite box cor cor.test
     coxph d dat download.file fisher.test foreach g gray i ii
     installed.packages iter j jj ks.test lm makeCluster median na.omit
     p.adjust pchisq plot pnorm points prcomp proto pt pv qnorm
     registerDoMC registerDoSNOW sd t.test text w wilcox.test x
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: 0.1.13
Check: R code for possible problems
Result: NOTE
    GMT2List: no visible global function definition for ‘%dopar%’
    GMT2List: no visible global function definition for ‘foreach’
    GMT2List: no visible global function definition for ‘iter’
    GMT2List: no visible binding for global variable ‘x’
    GetPVal : <anonymous>: no visible global function definition for
     ‘coxph’
    MetaQC: no visible global function definition for ‘proto’
    MetaQC: no visible global function definition for ‘registerDoMC’
    MetaQC: no visible global function definition for ‘registerDoSNOW’
    MetaQC: no visible global function definition for ‘makeCluster’
    MetaQC : .Initialize: no visible global function definition for ‘%do%’
    MetaQC : .Initialize: no visible global function definition for
     ‘foreach’
    MetaQC : .Initialize: no visible global function definition for ‘iter’
    MetaQC : .FilterGenes: no visible global function definition for
     ‘%dopar%’
    MetaQC : .FilterGenes: no visible global function definition for
     ‘foreach’
    MetaQC : .FilterGenes: no visible global function definition for ‘iter’
    MetaQC : .FilterGenes: no visible binding for global variable ‘d’
    MetaQC : .ConvertToGeneSetIdx: no visible global function definition
     for ‘%dopar%’
    MetaQC : .ConvertToGeneSetIdx: no visible global function definition
     for ‘foreach’
    MetaQC : .ConvertToGeneSetIdx: no visible global function definition
     for ‘iter’
    MetaQC : .ConvertToGeneSetIdx: no visible global function definition
     for ‘%do%’
    MetaQC : .ConvertToGeneSetIdx: no visible binding for global variable
     ‘g’
    MetaQC : .ConvertToGeneSetIdx: no visible binding for global variable
     ‘d’
    MetaQC : .CalcPval: no visible global function definition for ‘%do%’
    MetaQC : .CalcPval: no visible global function definition for ‘foreach’
    MetaQC : .CalcPval: no visible binding for global variable ‘i’
    MetaQC : .CalcPval: no visible global function definition for ‘%dopar%’
    MetaQC : .CalcPval: no visible binding for global variable ‘w’
    MetaQC : .CalcPval: no visible global function definition for ‘iter’
    MetaQC : .CalcPval: no visible binding for global variable ‘j’
    MetaQC : .CalcPval: no visible binding for global variable ‘b’
    MetaQC : EQC: no visible global function definition for ‘%do%’
    MetaQC : EQC: no visible global function definition for ‘foreach’
    MetaQC : EQC: no visible global function definition for ‘%dopar%’
    MetaQC : EQC: no visible global function definition for ‘iter’
    MetaQC : EQC: no visible binding for global variable ‘g’
    MetaQC : EQC: no visible binding for global variable ‘w’
    MetaQC : AQCg: no visible global function definition for ‘%dopar%’
    MetaQC : AQCg: no visible global function definition for ‘foreach’
    MetaQC : AQCg: no visible binding for global variable ‘i’
    MetaQC : AQCp: no visible global function definition for ‘%dopar%’
    MetaQC : AQCp: no visible global function definition for ‘foreach’
    MetaQC : AQCp: no visible binding for global variable ‘i’
    MetaQC : CQCg: no visible global function definition for ‘%dopar%’
    MetaQC : CQCg: no visible global function definition for ‘foreach’
    MetaQC : CQCg: no visible global function definition for ‘iter’
    MetaQC : CQCg: no visible binding for global variable ‘dat’
    MetaQC : CQCg: no visible binding for global variable ‘pv’
    MetaQC : CQCg: no visible binding for global variable ‘i’
    MetaQC : CQCp: no visible global function definition for ‘%dopar%’
    MetaQC : CQCp: no visible global function definition for ‘foreach’
    MetaQC : CQCp: no visible global function definition for ‘iter’
    MetaQC : CQCp: no visible binding for global variable ‘dat’
    MetaQC : CQCp: no visible binding for global variable ‘pv’
    MetaQC : CQCp: no visible global function definition for ‘%do%’
    MetaQC : CQCp: no visible binding for global variable ‘ii’
    MetaQC : CQCp: no visible binding for global variable ‘jj’
    MetaQC : CQCp: no visible binding for global variable ‘i’
    MetaQC : IQC: no visible global function definition for ‘%dopar%’
    MetaQC : IQC: no visible global function definition for ‘foreach’
    MetaQC : IQC: no visible binding for global variable ‘i’
    MetaQC : .CalcDistOfStudies: no visible global function definition for
     ‘%dopar%’
    MetaQC : .CalcDistOfStudies: no visible global function definition for
     ‘foreach’
    MetaQC : .CalcDistOfStudies: no visible global function definition for
     ‘iter’
    MetaQC : .CalcDistOfStudies: no visible binding for global variable
     ‘ii’
    MetaQC : .CalcDistOfStudies: no visible global function definition for
     ‘%do%’
    MetaQC : .CalcDistOfStudies: no visible binding for global variable
     ‘jj’
    MetaQC : .CalcScores: no visible global function definition for ‘%do%’
    MetaQC : .CalcScores: no visible global function definition for
     ‘foreach’
    MetaQC : .CalcScores: no visible global function definition for ‘iter’
    MetaQC : .CalcScores: no visible binding for global variable ‘d’
    requireAll: no visible binding for global variable ‘biocLite’
    requireAll: no visible global function definition for ‘biocLite’
    Undefined global functions or variables:
     %do% %dopar% b biocLite coxph d dat foreach g i ii iter j jj
     makeCluster proto pv registerDoMC registerDoSNOW w x
Flavor: r-devel-osx-x86_64-clang

Version: 0.1.13
Check: package dependencies
Result: NOTE
    Package suggested but not available for checking: 'doMC'
Flavors: r-devel-windows-ix86+x86_64, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 0.1.13
Check: R code for possible problems
Result: NOTE
    GMT2List: no visible global function definition for ‘%dopar%’
    GMT2List: no visible global function definition for ‘foreach’
    GMT2List: no visible global function definition for ‘iter’
    GMT2List: no visible binding for global variable ‘x’
    GetPVal : <anonymous>: no visible global function definition for
     ‘coxph’
    MetaQC: no visible global function definition for ‘proto’
    MetaQC: no visible global function definition for ‘registerDoMC’
    MetaQC: no visible global function definition for ‘registerDoSNOW’
    MetaQC: no visible global function definition for ‘makeCluster’
    MetaQC : .Initialize: no visible global function definition for ‘%do%’
    MetaQC : .Initialize: no visible global function definition for
     ‘foreach’
    MetaQC : .Initialize: no visible global function definition for ‘iter’
    MetaQC : .FilterGenes: no visible global function definition for
     ‘%dopar%’
    MetaQC : .FilterGenes: no visible global function definition for
     ‘foreach’
    MetaQC : .FilterGenes: no visible global function definition for ‘iter’
    MetaQC : .FilterGenes: no visible binding for global variable ‘d’
    MetaQC : .ConvertToGeneSetIdx: no visible global function definition
     for ‘%dopar%’
    MetaQC : .ConvertToGeneSetIdx: no visible global function definition
     for ‘foreach’
    MetaQC : .ConvertToGeneSetIdx: no visible global function definition
     for ‘iter’
    MetaQC : .ConvertToGeneSetIdx: no visible global function definition
     for ‘%do%’
    MetaQC : .ConvertToGeneSetIdx: no visible binding for global variable
     ‘g’
    MetaQC : .ConvertToGeneSetIdx: no visible binding for global variable
     ‘d’
    MetaQC : .CalcPval: no visible global function definition for ‘%do%’
    MetaQC : .CalcPval: no visible global function definition for ‘foreach’
    MetaQC : .CalcPval: no visible binding for global variable ‘i’
    MetaQC : .CalcPval: no visible global function definition for ‘%dopar%’
    MetaQC : .CalcPval: no visible binding for global variable ‘w’
    MetaQC : .CalcPval: no visible global function definition for ‘iter’
    MetaQC : .CalcPval: no visible binding for global variable ‘j’
    MetaQC : .CalcPval: no visible binding for global variable ‘b’
    MetaQC : EQC: no visible global function definition for ‘%do%’
    MetaQC : EQC: no visible global function definition for ‘foreach’
    MetaQC : EQC: no visible global function definition for ‘%dopar%’
    MetaQC : EQC: no visible global function definition for ‘iter’
    MetaQC : EQC: no visible binding for global variable ‘g’
    MetaQC : EQC: no visible binding for global variable ‘w’
    MetaQC : AQCg: no visible global function definition for ‘%dopar%’
    MetaQC : AQCg: no visible global function definition for ‘foreach’
    MetaQC : AQCg: no visible binding for global variable ‘i’
    MetaQC : AQCp: no visible global function definition for ‘%dopar%’
    MetaQC : AQCp: no visible global function definition for ‘foreach’
    MetaQC : AQCp: no visible binding for global variable ‘i’
    MetaQC : CQCg: no visible global function definition for ‘%dopar%’
    MetaQC : CQCg: no visible global function definition for ‘foreach’
    MetaQC : CQCg: no visible global function definition for ‘iter’
    MetaQC : CQCg: no visible binding for global variable ‘dat’
    MetaQC : CQCg: no visible binding for global variable ‘pv’
    MetaQC : CQCg: no visible binding for global variable ‘i’
    MetaQC : CQCp: no visible global function definition for ‘%dopar%’
    MetaQC : CQCp: no visible global function definition for ‘foreach’
    MetaQC : CQCp: no visible global function definition for ‘iter’
    MetaQC : CQCp: no visible binding for global variable ‘dat’
    MetaQC : CQCp: no visible binding for global variable ‘pv’
    MetaQC : CQCp: no visible global function definition for ‘%do%’
    MetaQC : CQCp: no visible binding for global variable ‘ii’
    MetaQC : CQCp: no visible binding for global variable ‘jj’
    MetaQC : CQCp: no visible binding for global variable ‘i’
    MetaQC : IQC: no visible global function definition for ‘%dopar%’
    MetaQC : IQC: no visible global function definition for ‘foreach’
    MetaQC : IQC: no visible binding for global variable ‘i’
    MetaQC : .CalcDistOfStudies: no visible global function definition for
     ‘%dopar%’
    MetaQC : .CalcDistOfStudies: no visible global function definition for
     ‘foreach’
    MetaQC : .CalcDistOfStudies: no visible global function definition for
     ‘iter’
    MetaQC : .CalcDistOfStudies: no visible binding for global variable
     ‘ii’
    MetaQC : .CalcDistOfStudies: no visible global function definition for
     ‘%do%’
    MetaQC : .CalcDistOfStudies: no visible binding for global variable
     ‘jj’
    MetaQC : .CalcScores: no visible global function definition for ‘%do%’
    MetaQC : .CalcScores: no visible global function definition for
     ‘foreach’
    MetaQC : .CalcScores: no visible global function definition for ‘iter’
    MetaQC : .CalcScores: no visible binding for global variable ‘d’
    requireAll: no visible binding for global variable ‘biocLite’
    requireAll: no visible global function definition for ‘biocLite’
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