CRAN Package Check Results for Package bio.infer

Last updated on 2016-08-30 10:49:03.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.3-3 0.98 23.33 24.31 NOTE
r-devel-linux-x86_64-debian-gcc 1.3-3 1.14 24.33 25.47 NOTE
r-devel-linux-x86_64-fedora-clang 1.3-3 40.65 NOTE
r-devel-linux-x86_64-fedora-gcc 1.3-3 38.49 NOTE
r-devel-osx-x86_64-clang 1.3-3 35.97 NOTE
r-devel-windows-ix86+x86_64 1.3-3 10.00 73.00 83.00 NOTE
r-patched-linux-x86_64 1.3-3 1.00 23.84 24.83 NOTE
r-patched-solaris-sparc 1.3-3 280.40 NOTE
r-patched-solaris-x86 1.3-3 58.30 NOTE
r-release-linux-x86_64 1.3-3 1.08 24.13 25.22 NOTE
r-release-osx-x86_64-mavericks 1.3-3 WARN
r-release-windows-ix86+x86_64 1.3-3 6.00 57.00 63.00 NOTE
r-oldrel-windows-ix86+x86_64 1.3-3 6.00 38.00 44.00 OK

Check Details

Version: 1.3-3
Check: R code for possible problems
Result: NOTE
    correct.taxanames: no visible global function definition for ‘fix’
    correct.taxanames: no visible global function definition for
     ‘flush.console’
    flist.data: no visible global function definition for ‘data’
    formtomat: no visible global function definition for ‘D’
    get.dupe.sel: no visible global function definition for ‘select.list’
    get.dupe.sel: no visible global function definition for ‘flush.console’
    get.otu: no visible global function definition for ‘select.list’
    get.otu: no visible global function definition for ‘write.table’
    infergui : getfile: no visible global function definition for
     ‘read.delim’
    infergui : select.te: no visible global function definition for ‘data’
    infergui : compute.inf: no visible global function definition for
     ‘flush.console’
    infergui : export.res: no visible global function definition for
     ‘write.table’
    load.itis: no visible global function definition for ‘data’
    load.itis: no visible binding for global variable ‘itis.ttable’
    load.revised.otu: no visible global function definition for
     ‘read.delim’
    load.revised.species: no visible global function definition for
     ‘read.delim’
    makess: no visible global function definition for ‘flush.console’
    makess: no visible global function definition for ‘dev.new’
    makess: no visible global function definition for ‘hist’
    mlsolve: no visible global function definition for ‘par’
    mlsolve: no visible global function definition for ‘contour’
    mlsolve: no visible global function definition for ‘box’
    mlsolve: no visible global function definition for ‘axis’
    mlsolve: no visible global function definition for ‘mtext’
    mlsolve: no visible global function definition for ‘plot’
    mlsolve: no visible global function definition for ‘optim’
    mlsolve: no visible global function definition for ‘points’
    output.tax.table: no visible global function definition for
     ‘write.table’
    sel.coeffile: no visible global function definition for ‘data’
    taxon.env: no visible global function definition for ‘na.omit’
    taxon.env: no visible global function definition for ‘glm’
    taxon.env: no visible global function definition for ‘as.formula’
    taxon.env: no visible global function definition for ‘predict’
    taxon.env: no visible global function definition for ‘coef’
    view.te: no visible global function definition for ‘pdf’
    view.te: no visible global function definition for ‘par’
    view.te: no visible global function definition for ‘dev.new’
    view.te: no visible global function definition for ‘contour’
    view.te: no visible global function definition for ‘box’
    view.te: no visible global function definition for ‘axis’
    view.te: no visible global function definition for ‘mtext’
    view.te: no visible global function definition for ‘quantile’
    view.te: no visible global function definition for ‘plot’
    view.te: no visible global function definition for ‘points’
    view.te: no visible global function definition for ‘dev.off’
    Undefined global functions or variables:
     D as.formula axis box coef contour data dev.new dev.off fix
     flush.console glm hist itis.ttable mtext na.omit optim par pdf plot
     points predict quantile read.delim select.list write.table
    Consider adding
     importFrom("grDevices", "dev.new", "dev.off", "pdf")
     importFrom("graphics", "axis", "box", "contour", "hist", "mtext",
     "par", "plot", "points")
     importFrom("stats", "D", "as.formula", "coef", "glm", "na.omit",
     "optim", "predict", "quantile")
     importFrom("utils", "data", "fix", "flush.console", "read.delim",
     "select.list", "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-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-windows-ix86+x86_64

Version: 1.3-3
Check: dependencies in R code
Result: NOTE
    Invalid MIT-MAGIC-COOKIE-1 key
Flavor: r-release-osx-x86_64-mavericks

Version: 1.3-3
Check: S3 generic/method consistency
Result: WARN
    Invalid MIT-MAGIC-COOKIE-1 key
    See section ‘Generic functions and methods’ in the ‘Writing R
    Extensions’ manual.
Flavor: r-release-osx-x86_64-mavericks

Version: 1.3-3
Check: replacement functions
Result: WARN
    Invalid MIT-MAGIC-COOKIE-1 key
    The argument of a replacement function which corresponds to the right
    hand side must be named ‘value’.
Flavor: r-release-osx-x86_64-mavericks

Version: 1.3-3
Check: foreign function calls
Result: NOTE
    Invalid MIT-MAGIC-COOKIE-1 key
    See chapter ‘System and foreign language interfaces’ in the ‘Writing R
    Extensions’ manual.
Flavor: r-release-osx-x86_64-mavericks

Version: 1.3-3
Check: R code for possible problems
Result: NOTE
    Invalid MIT-MAGIC-COOKIE-1 keycorrect.taxanames: no visible global function definition for ‘fix’
    correct.taxanames: no visible global function definition for
     ‘flush.console’
    flist.data: no visible global function definition for ‘data’
    formtomat: no visible global function definition for ‘D’
    get.dupe.sel: no visible global function definition for ‘select.list’
    get.dupe.sel: no visible global function definition for ‘flush.console’
    get.otu: no visible global function definition for ‘select.list’
    get.otu: no visible global function definition for ‘write.table’
    infergui : getfile: no visible global function definition for
     ‘read.delim’
    infergui : select.te: no visible global function definition for ‘data’
    infergui : compute.inf: no visible global function definition for
     ‘flush.console’
    infergui : export.res: no visible global function definition for
     ‘write.table’
    load.itis: no visible global function definition for ‘data’
    load.itis: no visible binding for global variable ‘itis.ttable’
    load.revised.otu: no visible global function definition for
     ‘read.delim’
    load.revised.species: no visible global function definition for
     ‘read.delim’
    makess: no visible global function definition for ‘flush.console’
    makess: no visible global function definition for ‘dev.new’
    makess: no visible global function definition for ‘hist’
    mlsolve: no visible global function definition for ‘par’
    mlsolve: no visible global function definition for ‘contour’
    mlsolve: no visible global function definition for ‘box’
    mlsolve: no visible global function definition for ‘axis’
    mlsolve: no visible global function definition for ‘mtext’
    mlsolve: no visible global function definition for ‘plot’
    mlsolve: no visible global function definition for ‘optim’
    mlsolve: no visible global function definition for ‘points’
    output.tax.table: no visible global function definition for
     ‘write.table’
    sel.coeffile: no visible global function definition for ‘data’
    taxon.env: no visible global function definition for ‘na.omit’
    taxon.env: no visible global function definition for ‘glm’
    taxon.env: no visible global function definition for ‘as.formula’
    taxon.env: no visible global function definition for ‘predict’
    taxon.env: no visible global function definition for ‘coef’
    view.te: no visible global function definition for ‘pdf’
    view.te: no visible global function definition for ‘par’
    view.te: no visible global function definition for ‘dev.new’
    view.te: no visible global function definition for ‘contour’
    view.te: no visible global function definition for ‘box’
    view.te: no visible global function definition for ‘axis’
    view.te: no visible global function definition for ‘mtext’
    view.te: no visible global function definition for ‘quantile’
    view.te: no visible global function definition for ‘plot’
    view.te: no visible global function definition for ‘points’
    view.te: no visible global function definition for ‘dev.off’
    Undefined global functions or variables:
     D as.formula axis box coef contour data dev.new dev.off fix
     flush.console glm hist itis.ttable mtext na.omit optim par pdf plot
     points predict quantile read.delim select.list write.table
    Consider adding
     importFrom("grDevices", "dev.new", "dev.off", "pdf")
     importFrom("graphics", "axis", "box", "contour", "hist", "mtext",
     "par", "plot", "points")
     importFrom("stats", "D", "as.formula", "coef", "glm", "na.omit",
     "optim", "predict", "quantile")
     importFrom("utils", "data", "fix", "flush.console", "read.delim",
     "select.list", "write.table")
    to your NAMESPACE file.
Flavor: r-release-osx-x86_64-mavericks

Version: 1.3-3
Check: for missing documentation entries
Result: WARN
    Invalid MIT-MAGIC-COOKIE-1 key
    All user-level objects in a package should have documentation entries.
    See chapter ‘Writing R documentation files’ in the ‘Writing R
    Extensions’ manual.
Flavor: r-release-osx-x86_64-mavericks

Version: 1.3-3
Check: for code/documentation mismatches
Result: WARN
    Invalid MIT-MAGIC-COOKIE-1 key
    Invalid MIT-MAGIC-COOKIE-1 key
    Invalid MIT-MAGIC-COOKIE-1 key
Flavor: r-release-osx-x86_64-mavericks

Version: 1.3-3
Check: Rd \usage sections
Result: NOTE
    Invalid MIT-MAGIC-COOKIE-1 key
    The \usage entries for S3 methods should use the \method markup and not
    their full name.
    See chapter ‘Writing R documentation files’ in the ‘Writing R
    Extensions’ manual.
Flavor: r-release-osx-x86_64-mavericks