CRAN Package Check Results for Package PMA

Last updated on 2014-12-22 13:48:02.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.0.9 6.39 53.10 59.50 NOTE
r-devel-linux-x86_64-debian-gcc 1.0.9 7.36 51.02 58.38 NOTE
r-devel-linux-x86_64-fedora-clang 1.0.9 121.98 NOTE
r-devel-linux-x86_64-fedora-gcc 1.0.9 115.59 NOTE
r-devel-osx-x86_64-clang 1.0.9 99.14 NOTE
r-devel-windows-ix86+x86_64 1.0.9 30.00 116.00 146.00 NOTE
r-patched-linux-x86_64 1.0.9 7.43 52.72 60.15 NOTE
r-patched-solaris-sparc 1.0.9 833.70 NOTE
r-patched-solaris-x86 1.0.9 145.80 NOTE
r-release-linux-ix86 1.0.9 9.90 65.18 75.08 NOTE
r-release-linux-x86_64 1.0.9 7.81 52.09 59.90 NOTE
r-release-osx-x86_64-mavericks 1.0.9 NOTE
r-release-osx-x86_64-snowleopard 1.0.9 NOTE
r-release-windows-ix86+x86_64 1.0.9 31.00 115.00 146.00 NOTE
r-oldrel-windows-ix86+x86_64 1.0.9 30.00 120.00 150.00 NOTE

Check Details

Version: 1.0.9
Check: installed package size
Result: NOTE
     installed size is 7.9Mb
     sub-directories of 1Mb or more:
     data 6.3Mb
     libs 1.4Mb
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-osx-x86_64-snowleopard, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 1.0.9
Check: dependencies in R code
Result: NOTE
    Packages in Depends field not imported from:
     ‘impute’ ‘plyr’
     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-osx-x86_64-snowleopard, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 1.0.9
Check: R code for possible problems
Result: NOTE
    cor.xl.ImputeData: no visible global function definition for
     ‘impute.knn’
    
    Found the following assignments to the global environment:
    File ‘PMA/R/CCA.xlfuns.R’:
     assign(paste("cor.", x, sep = ""), val, pos = .GlobalEnv)
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-osx-x86_64-clang, r-patched-linux-x86_64, r-release-linux-ix86, r-release-linux-x86_64

Version: 1.0.9
Check: Rd line widths
Result: NOTE
    Rd file 'CCA.Rd':
     \usage lines wider than 90 characters:
     CCA(x, z, typex=c("standard", "ordered"),typez=c("standard","ordered"), penaltyx=NULL, penaltyz=NULL, K=1,
     \examples lines wider than 100 characters:
     out <- CCA(x,z,typex="standard",typez="standard",K=1,penaltyx=perm.out$bestpenaltyx,penaltyz=perm.out$bestpenaltyz, v=perm.out$v.init)
     #out <- CCA(x,z,typex="standard",typez="standard",K=1,penaltyx=perm.out$bestpenaltyx,penaltyz=perm.out$bestpenaltyz,
     #out<-CCA(x,z,typex="standard",typez="standard",outcome="quantitative",y=y,penaltyx=perm.out$bestpenaltyx,penaltyz=perm.out$bestpenalty ... [TRUNCATED]
     #perm.out <- CCA.permute(x=rna,z=dna[,chrom==1],typex="standard", typez="ordered",nperms=5,penaltyxs=seq(.02,.7,len=10))
     #out <- CCA(x=rna,z=dna[,chrom==1], typex="standard", typez="ordered",penaltyx=perm.out$bestpenaltyx,
    
    Rd file 'CCA.permute.Rd':
     \usage lines wider than 90 characters:
     CCA.permute(x,z,typex=c("standard", "ordered"),typez=c("standard","ordered"), penaltyxs=NULL, penaltyzs=NULL,
    
    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: 1.0.9
Check: R code for possible problems
Result: NOTE
    cor.xl.ImputeData: no visible global function definition for
     ‘impute.knn’
Flavors: r-devel-linux-x86_64-fedora-gcc, r-devel-windows-ix86+x86_64, r-patched-solaris-sparc, r-patched-solaris-x86, r-release-windows-ix86+x86_64