CRAN Package Check Results for Package ExomeDepth

Last updated on 2014-10-24 11:47:14.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.0.7 10.97 123.16 134.13 NOTE
r-devel-linux-x86_64-debian-gcc 1.0.7 11.96 121.35 133.32 NOTE
r-devel-linux-x86_64-fedora-clang 1.0.7 329.32 NOTE
r-devel-linux-x86_64-fedora-gcc 1.0.7 307.80 NOTE
r-devel-osx-x86_64-clang 1.0.7 248.38 NOTE
r-devel-windows-ix86+x86_64 1.0.7 47.00 210.00 257.00 NOTE
r-patched-linux-x86_64 1.0.7 12.34 125.95 138.29 NOTE
r-patched-solaris-sparc 1.0.7 1733.50 NOTE
r-patched-solaris-x86 1.0.7 403.20 NOTE
r-release-linux-ix86 1.0.7 13.56 133.23 146.78 OK
r-release-linux-x86_64 1.0.7 10.66 109.35 120.01 OK
r-release-osx-x86_64-mavericks 1.0.7 OK
r-release-osx-x86_64-snowleopard 1.0.7 OK
r-release-windows-ix86+x86_64 1.0.7 42.00 192.00 234.00 OK
r-oldrel-windows-ix86+x86_64 1.0.7 43.00 188.00 231.00 OK

Check Details

Version: 1.0.7
Check: package namespace information
Result: NOTE
     Namespaces with empty importFrom:
     ‘GenomicRanges’ ‘Rsamtools’ ‘VGAM’ ‘aod’ ‘methods’
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

Version: 1.0.7
Check: R code for possible problems
Result: NOTE
    count.everted.reads: no visible global function definition for
     ‘GRanges’
    count.everted.reads: no visible global function definition for
     ‘IRanges’
    count.everted.reads: no visible global function definition for
     ‘RangedData’
    count.everted.reads: no visible global function definition for
     ‘seqnames’
    count.everted.reads: no visible global function definition for ‘ranges’
    countBam.everted: no visible global function definition for ‘seqlevels’
    countBam.everted: no visible global function definition for
     ‘scanBamHeader’
    countBam.everted: no visible global function definition for ‘scanBam’
    countBam.everted: no visible global function definition for
     ‘ScanBamParam’
    countBam.everted: no visible global function definition for
     ‘scanBamFlag’
    countBam.everted: no visible global function definition for ‘GRanges’
    countBam.everted: no visible global function definition for ‘IRanges’
    countBam.everted: no visible global function definition for
     ‘countOverlaps’
    countBamInGRanges.exomeDepth: no visible global function definition for
     ‘seqlevels’
    countBamInGRanges.exomeDepth: no visible global function definition for
     ‘scanBamHeader’
    countBamInGRanges.exomeDepth: no visible global function definition for
     ‘seqnames’
    countBamInGRanges.exomeDepth: no visible global function definition for
     ‘strand<-’
    countBamInGRanges.exomeDepth: no visible global function definition for
     ‘scanBam’
    countBamInGRanges.exomeDepth: no visible global function definition for
     ‘ScanBamParam’
    countBamInGRanges.exomeDepth: no visible global function definition for
     ‘scanBamFlag’
    countBamInGRanges.exomeDepth: no visible global function definition for
     ‘GRanges’
    countBamInGRanges.exomeDepth: no visible global function definition for
     ‘IRanges’
    countBamInGRanges.exomeDepth: no visible global function definition for
     ‘countOverlaps’
    get.power.betabinom: no visible global function definition for
     ‘rbetabinom.ab’
    get.power.betabinom: no visible global function definition for
     ‘dbetabinom.ab’
    getBamCounts: no visible global function definition for ‘GRanges’
    getBamCounts: no visible global function definition for ‘IRanges’
    getBamCounts: no visible global function definition for ‘RangedData’
    getBamCounts: no visible global function definition for ‘seqnames’
    getBamCounts: no visible global function definition for ‘ranges’
    getBamCounts: no visible global function definition for ‘scanFa’
    getBamCounts : getGCcontent: no visible global function definition for
     ‘letterFrequency’
    qbetabinom.ab: no visible global function definition for
     ‘dbetabinom.ab’
    AnnotateExtra,ExomeDepth: no visible global function definition for
     ‘GRanges’
    AnnotateExtra,ExomeDepth: no visible global function definition for
     ‘IRanges’
    AnnotateExtra,ExomeDepth: no visible global function definition for
     ‘findOverlaps’
    AnnotateExtra,ExomeDepth: no visible global function definition for
     ‘elementMetadata’
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