CRAN Package Check Results for Package HyPhy

Last updated on 2015-08-01 03:48:56.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.0 0.92 15.18 16.10 NOTE
r-devel-linux-x86_64-debian-gcc 1.0 0.90 15.15 16.05 NOTE
r-devel-linux-x86_64-fedora-clang 1.0 31.93 NOTE
r-devel-linux-x86_64-fedora-gcc 1.0 30.93 NOTE
r-devel-osx-x86_64-clang 1.0 28.96 NOTE
r-devel-windows-ix86+x86_64 1.0 8.00 27.00 35.00 NOTE
r-patched-linux-x86_64 1.0 1.12 15.52 16.64 NOTE
r-patched-solaris-sparc 1.0 203.00 NOTE
r-patched-solaris-x86 1.0 43.60 NOTE
r-release-linux-x86_64 1.0 0.90 15.59 16.49 NOTE
r-release-osx-x86_64-mavericks 1.0 NOTE
r-release-windows-ix86+x86_64 1.0 5.00 47.00 52.00 NOTE
r-oldrel-windows-ix86+x86_64 1.0 6.00 53.00 59.00 NOTE

Check Details

Version: 1.0
Check: dependencies in R code
Result: NOTE
    Packages in Depends field not imported from:
     ‘R.utils’ ‘ape’
     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: 1.0
Check: R code for possible problems
Result: NOTE
    requiprobable: no visible global function definition for ‘extract’
    requiprobable : make.tree: no visible global function definition for
     ‘extract’
    requiprobable : make.tree: no visible global function definition for
     ‘runif’
    rgenetree: no visible global function definition for ‘dbinom’
    rgenetree: no visible global function definition for ‘dnbinom’
    rgenetree: no visible global function definition for ‘runif’
    rgenetree: no visible global function definition for ‘rbinom’
    rgenetree: no visible global function definition for ‘rnbinom’
    Undefined global functions or variables:
     dbinom dnbinom extract rbinom rnbinom runif
    Consider adding
     importFrom("stats", "dbinom", "dnbinom", "rbinom", "rnbinom", "runif")
    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: 1.0
Check: Rd line widths
Result: NOTE
    Rd file 'requiprobable.Rd':
     \examples lines wider than 100 characters:
     for (i in 1:10) unlabeled[[i]]$tip.label<-sample(c("A1","A2","B1","B2","B3","C1","C2","C3","C4","C5"))
    
    Rd file 'rgenetree.Rd':
     \examples lines wider than 100 characters:
     ##Now lets start with 3 genes, set the number of genes at each tip of spec and vary mu between the branches of spec
    
    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
Check: R code for possible problems
Result: NOTE
    requiprobable: no visible global function definition for ‘extract’
    requiprobable : make.tree: no visible global function definition for
     ‘extract’
    Undefined global functions or variables:
     extract
Flavor: r-devel-osx-x86_64-clang

Version: 1.0
Check: R code for possible problems
Result: NOTE
    requiprobable: no visible global function definition for ‘extract’
    requiprobable : make.tree: no visible global function definition for
     ‘extract’
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