CRAN Package Check Results for Package PMA

Last updated on 2014-07-31 09:49:25.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.0.9 5.98 51.65 57.63 NOTE
r-devel-linux-x86_64-debian-gcc 1.0.9 7.94 52.38 60.32 NOTE
r-devel-linux-x86_64-fedora-clang 1.0.9 122.96 NOTE
r-devel-linux-x86_64-fedora-gcc 1.0.9 114.79 NOTE
r-devel-osx-x86_64-clang 1.0.9 98.32 NOTE
r-devel-windows-ix86+x86_64 1.0.9 30.00 125.00 155.00 NOTE
r-patched-linux-x86_64 1.0.9 7.46 51.58 59.04 NOTE
r-patched-solaris-sparc 1.0.9 815.80 NOTE
r-patched-solaris-x86 1.0.9 142.00 NOTE
r-release-linux-ix86 1.0.9 10.32 67.94 78.26 NOTE
r-release-linux-x86_64 1.0.9 7.48 53.15 60.63 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 48.00 153.00 201.00 NOTE
r-oldrel-windows-ix86+x86_64 1.0.9 46.00 159.00 205.00 NOTE

Check Details

Version: 1.0.9
Check: installed package size
Result: NOTE
     installed size is 7.8Mb
     sub-directories of 1Mb or more:
     data 6.3Mb
     libs 1.3Mb
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
    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-fedora-clang, r-devel-linux-x86_64-fedora-gcc