CRAN Package Check Results for Package msarc

Last updated on 2015-08-03 14:47:32.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.4.5 1.80 42.55 44.35 NOTE
r-devel-linux-x86_64-debian-gcc 1.4.5 1.80 41.58 43.38 NOTE
r-devel-linux-x86_64-fedora-clang 1.4.5 88.55 NOTE
r-devel-linux-x86_64-fedora-gcc 1.4.5 84.61 NOTE
r-devel-osx-x86_64-clang 1.4.5 85.95 OK
r-devel-windows-ix86+x86_64 1.4.5 5.00 66.00 71.00 NOTE
r-patched-linux-x86_64 1.4.5 1.79 41.74 43.53 OK
r-patched-solaris-sparc 1.4.5 569.10 OK
r-patched-solaris-x86 1.4.5 133.90 OK
r-release-linux-x86_64 1.4.5 1.84 39.25 41.10 OK
r-release-osx-x86_64-mavericks 1.4.5 WARN
r-release-windows-ix86+x86_64 1.4.5 12.00 100.00 112.00 OK
r-oldrel-windows-ix86+x86_64 1.4.5 16.00 93.00 109.00 OK

Check Details

Version: 1.4.5
Check: R code for possible problems
Result: NOTE
    draw.missing: no visible global function definition for ‘hcl’
    draw.missing: no visible global function definition for ‘col2rgb’
    draw.scores: no visible global function definition for ‘col2rgb’
    msarc.loadTerms: no visible global function definition for ‘read.table’
    msarc.plotHeatmap: no visible global function definition for ‘dist’
    msarc.saveTerms: no visible global function definition for
     ‘write.table’
    summary.msarc: no visible global function definition for ‘head’
    write.arc: no visible global function definition for ‘hcl’
    write.arc: no visible global function definition for ‘col2rgb’
    write.background: no visible global function definition for ‘hcl’
    write.background: no visible global function definition for ‘col2rgb’
    write.separator: no visible global function definition for ‘hcl’
    write.separator: no visible global function definition for ‘col2rgb’
    Undefined global functions or variables:
     col2rgb dist hcl head read.table write.table
    Consider adding
     importFrom("grDevices", "col2rgb", "hcl")
     importFrom("stats", "dist")
     importFrom("utils", "head", "read.table", "write.table")
    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: 1.4.5
Check: package dependencies
Result: NOTE
    Packages suggested but not available for checking:
     ‘org.Hs.eg.db’ ‘org.Mm.eg.db’
Flavor: r-release-osx-x86_64-mavericks

Version: 1.4.5
Check: running R code from vignettes
Result: WARN
    Errors in running code in vignettes:
    when running code in ‘msarc.Rnw’
     ...
    > sample <- msarc.subtract(sample, control)
    
    > sample <- msarc.findGOterms(sample, minCount = 5)
    Loading required package: DBI
    
    
     When sourcing ‘msarc.R’:
    Error: error in evaluating the argument 'x' in selecting a method for function 'revmap': Error in loadNamespace(name) : there is no package called ‘org.Hs.eg.db’
    Calls: :: ... tryCatch -> tryCatchList -> tryCatchOne -> <Anonymous>
    Execution halted
Flavor: r-release-osx-x86_64-mavericks

Version: 1.4.5
Check: re-building of vignette outputs
Result: NOTE
    Error in re-building vignettes:
     ...
    Loading required package: DBI
    
    
    Error: processing vignette 'msarc.Rnw' failed with diagnostics:
     chunk 1
    Error in AnnotationDbi::revmap(eg2uniprot) :
     error in evaluating the argument 'x' in selecting a method for function 'revmap': Error in loadNamespace(name) : there is no package called ‘org.Hs.eg.db’
    Calls: :: ... tryCatch -> tryCatchList -> tryCatchOne -> <Anonymous>
    
    Execution halted
Flavor: r-release-osx-x86_64-mavericks