CRAN Package Check Results for Package RAPIDR

Last updated on 2017-09-25 14:47:27.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 0.1.1 10.56 129.87 140.43 NOTE
r-devel-linux-x86_64-debian-gcc 0.1.1 9.87 127.97 137.84 NOTE
r-devel-linux-x86_64-fedora-clang 0.1.1 291.60 NOTE
r-devel-linux-x86_64-fedora-gcc 0.1.1 290.53 NOTE
r-devel-windows-ix86+x86_64 0.1.1 34.00 203.00 237.00 NOTE
r-patched-linux-x86_64 0.1.1 10.67 127.12 137.79 NOTE
r-patched-solaris-x86 0.1.1 370.20 NOTE
r-release-linux-x86_64 0.1.1 10.04 133.14 143.18 NOTE
r-release-windows-ix86+x86_64 0.1.1 25.00 192.00 217.00 NOTE
r-release-osx-x86_64 0.1.1 ERROR
r-oldrel-windows-ix86+x86_64 0.1.1 33.00 194.00 227.00 NOTE
r-oldrel-osx-x86_64 0.1.1 NOTE

Check Details

Version: 0.1.1
Check: DESCRIPTION meta-information
Result: NOTE
    Malformed Description field: should contain one or more complete sentences.
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, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64, r-oldrel-osx-x86_64

Version: 0.1.1
Check: dependencies in R code
Result: NOTE
    'library' or 'require' call to ‘BSgenome.Hsapiens.UCSC.hg19’ in package code.
     Please use :: or requireNamespace() instead.
     See section 'Suggested packages' in 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-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64, r-oldrel-osx-x86_64

Version: 0.1.1
Check: R code for possible problems
Result: NOTE
    BinBam: no visible binding for global variable
     ‘BSgenome.Hsapiens.UCSC.hg19’
    BinBam: no visible global function definition for ‘seqlengths’
    BinBam: no visible global function definition for ‘assays’
    BinBam: no visible global function definition for ‘subsetByOverlaps’
    ReadBed: no visible global function definition for ‘read.table’
    aggregateCounts: no visible global function definition for ‘aggregate’
    callUnknowns: no visible global function definition for ‘dnorm’
    callUnknowns: no visible global function definition for ‘rnorm’
    createReferenceSetFromCounts: no visible binding for global variable
     ‘sd’
    createReferenceSetFromCounts: no visible global function definition for
     ‘cor’
    createReferenceSetFromCounts: no visible global function definition for
     ‘write.csv’
    createReferenceSetFromCounts: no visible global function definition for
     ‘write.table’
    doPCA: no visible global function definition for ‘prcomp’
    find.excl.bins: no visible binding for global variable ‘sd’
    find.excl.bins: no visible global function definition for ‘sd’
    find.excl.bins: no visible global function definition for ‘median’
    findBaseline: no visible binding for global variable ‘sd’
    findBaseline: no visible global function definition for ‘sd’
    findBaseline: no visible global function definition for ‘median’
    findBaseline: no visible global function definition for ‘mad’
    gcCorrectOneSample: no visible global function definition for ‘sd’
    gcCorrectOneSample: no visible global function definition for ‘pdf’
    gcCorrectOneSample: no visible global function definition for ‘boxplot’
    gcCorrectOneSample: no visible global function definition for ‘dev.off’
    gcCorrectOneSample: no visible global function definition for
     ‘aggregate’
    gcCorrectOneSampleLoess: no visible global function definition for
     ‘boxplot’
    gcCorrectOneSampleLoess: no visible global function definition for
     ‘lowess’
    makeBinnedCountsFile: no visible global function definition for
     ‘write.table’
    makeGCContentData: no visible binding for global variable
     ‘BSgenome.Hsapiens.UCSC.hg19’
    makeGCContentData: no visible global function definition for
     ‘seqlengths’
    makeGCContentPerPos: no visible binding for global variable
     ‘BSgenome.Hsapiens.UCSC.hg19’
    plotTestSample: no visible global function definition for ‘par’
    plotTestSample: no visible global function definition for ‘plot’
    plotTestSample: no visible global function definition for ‘points’
    plotTestSample: no visible global function definition for ‘axis’
    plotTestSample: no visible global function definition for ‘title’
    plotTestSample: no visible global function definition for ‘abline’
    testUnknowns: no visible global function definition for ‘write.csv’
    writeCleanedCountsFile: no visible global function definition for
     ‘write.table’
    writeResultsToFile: no visible global function definition for
     ‘write.table’
    Undefined global functions or variables:
     BSgenome.Hsapiens.UCSC.hg19 abline aggregate assays axis boxplot cor
     dev.off dnorm lowess mad median par pdf plot points prcomp read.table
     rnorm sd seqlengths subsetByOverlaps title write.csv write.table
    Consider adding
     importFrom("grDevices", "dev.off", "pdf")
     importFrom("graphics", "abline", "axis", "boxplot", "par", "plot",
     "points", "title")
     importFrom("stats", "aggregate", "cor", "dnorm", "lowess", "mad",
     "median", "prcomp", "rnorm", "sd")
     importFrom("utils", "read.table", "write.csv", "write.table")
    to your NAMESPACE file.
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, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64, r-oldrel-osx-x86_64

Version: 0.1.1
Check: package dependencies
Result: NOTE
    Package suggested but not available for checking: ‘BSgenome.Hsapiens.UCSC.hg19’
Flavor: r-patched-solaris-x86

Version: 0.1.1
Check: package dependencies
Result: ERROR
    Packages required but not available:
     ‘Biostrings’ ‘Rsamtools’ ‘GenomicRanges’ ‘GenomicAlignments’
    
    Package suggested but not available for checking: ‘BSgenome.Hsapiens.UCSC.hg19’
    
    See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
    manual.
Flavor: r-release-osx-x86_64