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metrumrg log file (check_x86_64_windows)

* using log directory 'R:/run/building/build_2015-10-08-20-04/RF_PKG_CHECK/PKGS/metrumrg.Rcheck'
* using R version 3.2.2 Patched (2015-10-06 r69484)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--as-cran'
* checking for file 'metrumrg/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'metrumrg' version '5.57'
* checking CRAN incoming feasibility ... NOTE
Maintainer: 'Bill Knebel '
New submission

Package was archived on CRAN

CRAN repository db overrides:
  X-CRAN-Comment: Archived on 2014-11-25 as requests to remove the
    dependence on the non-portable package 'fork' were not acted on for
    months.  And the maintainer email address bounced.

Suggests or Enhances not in mainstream repositories:
  fork, SASxport
* checking package namespace information ... OK
* checking package dependencies ... NOTE
  No repository set, so cyclic dependency check skipped

Package suggested but not available for checking: 'fork'
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'metrumrg' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking use of S3 registration ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... NOTE
Found the following apparent S3 methods exported but not registered:
  !.keyed %&%.default %+%.default %-%.default &.keyed *.keyed +.keyed
  -.keyed /.keyed Summary.timepoint ^.keyed addl.data.frame
  addl.default as.best.data.frame as.best.default as.character.init
  as.character.initList as.data.frame.keyed as.day.day as.day.duration
  as.day.hour as.day.month as.day.numeric as.day.week as.day.year
  as.document.character as.document.define as.hour.day as.hour.duration
  as.hour.hour as.hour.minute as.hour.numeric as.hour.second
  as.init.init as.init.numeric as.initList.character
  as.initList.initList as.initList.list as.initList.numeric
  as.mDate.sasdate as.minute.duration as.minute.hour as.minute.minute
  as.minute.numeric as.minute.second as.month.day as.month.duration
  as.month.month as.month.numeric as.nm.default as.roles.keyed
  as.second.day as.second.duration as.second.hour as.second.minute
  as.second.numeric as.second.second as.week.day as.week.duration
  as.week.numeric as.week.week as.year.day as.year.duration
  as.year.numeric as.year.year dupKeys.default dynamic.data.frame
  dynamic.keyed fixed.init fixed.initList fixed<-.init fixed<-.initList
  format.init format.initList format.legacy getdname.default
  getdname.nmctl head.digest lyse.data.frame lyse.keyed melt.keyed
  metaMerge.NULL metaMerge.data.frame naKeys.default print.init
  print.initList random.data.frame respecify.character respecify.spec
  splom.conditioned splom.digest splom.keyed tweak.init tweak.initList
  tweak.nmctl unsorted.keyed xmlValue.XMLAttributeValue |.keyed
See section 'Registering S3 methods' in the 'Writing R Extensions'
manual.
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd line widths ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... WARNING
Undocumented code objects:
  'menu.define' 'nmtrantab.define'
All user-level objects in a package should have documentation entries.
See chapter 'Writing R documentation files' in the 'Writing R
Extensions' manual.
* checking for code/documentation mismatches ... WARNING
Codoc mismatches from documentation object 'tabular.data.frame':
tabular.data.frame
  Code: function(x, rules = c(2, 1, 1), walls = 0, grid = FALSE,
                 rowgroups = rownames(x), colgroups = names(x),
                 rowbreaks = if (grid) breaks(rowgroups, ...) else 0,
                 colbreaks = if (grid) breaks(colgroups, ...) else 0,
                 rowcolors = NULL, charjust = "left", numjust =
                 "right", justify = ifelse(sapply(x, is.numeric),
                 numjust, charjust), colwidth = NA, paralign = "top",
                 na = "", verbatim = ifelse(sapply(x, is.numeric),
                 TRUE, FALSE), escape = "#", trim = TRUE, source =
                 NULL, file = NULL, source.label = "source: ",
                 file.label = "file: ", basefile = FALSE,
                 tabularEnvironment = "tabular", endhead = FALSE, ...)
  Docs: function(x, rules = c(2, 1, 1), walls = 0, grid = FALSE,
                 rowgroups = factor(rownames(x)), colgroups =
                 factor(names(x)), rowbreaks = if (grid)
                 breaks(rowgroups, ...) else 0, colbreaks = if (grid)
                 breaks(colgroups, ...) else 0, rowgrouprule = 0,
                 colgrouprule = 0, rowcolors = NULL, rowgrouplabel = "
                 ", charjust = "left", numjust = "right", justify =
                 ifelse(sapply(x, is.numeric), numjust, charjust),
                 colwidth = NA, paralign = "top", na = "", verbatim =
                 ifelse(sapply(x, is.numeric), TRUE, FALSE), escape =
                 "#", trim = TRUE, source = NULL, file = NULL,
                 source.label = "source: ", file.label = "file: ",
                 basefile = FALSE, tabularEnvironment = "tabular",
                 footnote.size = "tiny", ...)
  Argument names in code not in docs:
    endhead
  Argument names in docs not in code:
    rowgrouprule colgrouprule rowgrouplabel footnote.size
  Mismatches in argument names (first 3):
    Position: 9 Code: rowcolors Docs: rowgrouprule
    Position: 10 Code: charjust Docs: colgrouprule
    Position: 11 Code: numjust Docs: rowcolors
  Mismatches in argument default values:
    Name: 'rowgroups' Code: rownames(x) Docs: factor(rownames(x))
    Name: 'colgroups' Code: names(x) Docs: factor(names(x))

* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking examples ... OK
* checking PDF version of manual ... OK
* DONE

Status: 2 WARNINGs, 3 NOTEs
See
  'R:/run/building/build_2015-10-08-20-04/RF_PKG_CHECK/PKGS/metrumrg.Rcheck/00check.log'
for details.


Run time: 164.69 seconds.