CRAN Package Check Results for Package bams

Last updated on 2014-07-31 19:48:06.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.6 0.70 12.13 12.84 NOTE
r-devel-linux-x86_64-debian-gcc 1.6 0.70 12.29 12.99 NOTE
r-devel-linux-x86_64-fedora-clang 1.6 28.12 NOTE
r-devel-linux-x86_64-fedora-gcc 1.6 25.23 NOTE
r-devel-osx-x86_64-clang 1.6 29.26 NOTE
r-devel-windows-ix86+x86_64 1.6 2.00 22.00 24.00 NOTE
r-patched-linux-x86_64 1.6 0.73 12.28 13.02 NOTE
r-patched-solaris-sparc 1.6 176.60 NOTE
r-patched-solaris-x86 1.6 39.20 NOTE
r-release-linux-ix86 1.6 1.07 19.78 20.85 NOTE
r-release-linux-x86_64 1.6 1.08 12.74 13.82 NOTE
r-release-osx-x86_64-mavericks 1.6 NOTE
r-release-windows-ix86+x86_64 1.6 2.00 31.00 33.00 NOTE
r-oldrel-windows-ix86+x86_64 1.6 6.00 33.00 39.00 NOTE

Check Details

Version: 1.6
Check: package dependencies
Result: NOTE
    Package suggested but not available for checking: gada
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-release-linux-ix86, r-release-linux-x86_64, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 1.6
Check: dependencies in R code
Result: NOTE
    Missing or unexported object: ggplot2::coord_transform
    Unexported objects imported by ':::' calls:
     cghseg:::segmeanCO ggplot2:::GeomRect
     See the note in ?`:::` about the use of this operator.
    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-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 1.6
Check: R code for possible problems
Result: NOTE
    gada.results : <anonymous> : <anonymous>: no visible global function
     definition for WextIextToSegments
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-release-linux-ix86, r-release-linux-x86_64, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 1.6
Check: package dependencies
Result: NOTE
    Packages suggested but not available for checking: GLAD gada
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-osx-x86_64-clang, r-patched-solaris-sparc, r-patched-solaris-x86

Version: 1.6
Check: R code for possible problems
Result: NOTE
    gada.results : <anonymous> : <anonymous>: no visible global function
     definition for WextIextToSegments
    runglad: no visible global function definition for as.profileCGH
    runglad : <anonymous>: no visible binding for global variable daglad
    runglad : <anonymous> : <anonymous>: no visible binding for global
     variable glad
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-osx-x86_64-clang, r-patched-solaris-sparc, r-patched-solaris-x86

Version: 1.6
Check: package dependencies
Result: NOTE
    Packages suggested but not available for checking: GLAD DNAcopy gada
Flavor: r-release-osx-x86_64-mavericks

Version: 1.6
Check: R code for possible problems
Result: NOTE
    dnacopy.smoothvec : <anonymous>: no visible global function definition
     for smooth.CNA
    dnacopy.smoothvec : <anonymous>: no visible global function definition
     for segment
    dnacopy.smoothvec : <anonymous>: no visible binding for global variable
     segment
    gada.results : <anonymous> : <anonymous>: no visible global function
     definition for WextIextToSegments
    runglad: no visible global function definition for as.profileCGH
    runglad : <anonymous>: no visible binding for global variable daglad
    runglad : <anonymous> : <anonymous>: no visible binding for global
     variable glad
Flavor: r-release-osx-x86_64-mavericks

Version: 1.6
Check: re-building of vignette outputs
Result: NOTE
    Error in re-building vignettes:
     ...
    Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet, :
     Running 'texi2dvi' on 'redoing-the-article.tex' failed.
    LaTeX errors:
    ! LaTeX Error: File `fullpage.sty' not found.
    
    Type X to quit or <RETURN> to proceed,
    or enter new name. (Default extension: sty)
    
    st/bams/vignettes/redoing-the-article.tex:5: ==> Fatal error occurred, no outp
    ut PDF file produced!
    Calls: buildVignettes -> texi2pdf -> texi2dvi
    Execution halted
Flavor: r-release-osx-x86_64-mavericks