R Development Page

nwfscNLTS log file (check_x86_64_linux)

Wed Jun 19 04:35:27 2013: Checking package nwfscNLTS (SVN revision 101) ...
* using log directory ‘/mnt/building/build_2013-06-19-04-18/RF_PKG_CHECK/PKGS/nwfscNLTS.Rcheck’
* using R version 3.0.1 Patched (2013-06-04 r62868)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* checking for file ‘nwfscNLTS/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘nwfscNLTS’ version ‘1.0’
* checking CRAN incoming feasibility ... NOTE
Maintainer: ‘James Thorson ’
New submission
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for executable files ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘nwfscNLTS’ can be installed ... [1s/1s] 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 for unstated dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... NOTE
prepare_Rd: EmbedFn.Rd:24-25: Dropping empty section \details
prepare_Rd: EmbedFn.Rd:35-36: Dropping empty section \note
prepare_Rd: EmbedFn.Rd:38-39: Dropping empty section \seealso
prepare_Rd: NLTS-package.Rd:28-29: Dropping empty section \seealso
prepare_Rd: NltsFn.Rd:30-31: Dropping empty section \details
prepare_Rd: NltsFn.Rd:42-43: Dropping empty section \note
prepare_Rd: NltsFn.Rd:44-45: Dropping empty section \seealso
prepare_Rd: NltsFn.Rd:46-47: Dropping empty section \examples
prepare_Rd: NltsPred.Rd:33-34: Dropping empty section \details
prepare_Rd: NltsPred.Rd:45-46: Dropping empty section \note
prepare_Rd: NltsPred.Rd:48-49: Dropping empty section \seealso
prepare_Rd: NltsPred.Rd:50-51: Dropping empty section \examples
prepare_Rd: SimPredPreyFn.Rd:32-33: Dropping empty section \details
prepare_Rd: SimPredPreyFn.Rd:42-43: Dropping empty section \note
prepare_Rd: SimPredPreyFn.Rd:37-38: Dropping empty section \references
prepare_Rd: SimPredPreyFn.Rd:45-46: Dropping empty section \seealso
prepare_Rd: SimTentFn.Rd:20-21: Dropping empty section \details
prepare_Rd: SimTentFn.Rd:30-31: Dropping empty section \note
prepare_Rd: SimTentFn.Rd:25-26: Dropping empty section \references
prepare_Rd: SimTentFn.Rd:33-34: Dropping empty section \seealso
prepare_Rd: TentFn.Rd:20-21: Dropping empty section \details
prepare_Rd: TentFn.Rd:30-31: Dropping empty section \note
prepare_Rd: TentFn.Rd:25-26: Dropping empty section \references
prepare_Rd: TentFn.Rd:33-34: Dropping empty section \seealso
prepare_Rd: TentFn.Rd:35-36: Dropping empty section \examples
prepare_Rd: ThetaFn.Rd:26-27: Dropping empty section \details
prepare_Rd: ThetaFn.Rd:38-39: Dropping empty section \note
prepare_Rd: ThetaFn.Rd:40-41: Dropping empty section \seealso
prepare_Rd: ThetaFn.Rd:42-43: Dropping empty section \examples
* checking Rd metadata ... OK
* checking Rd line widths ... NOTE
Rd file ‘/mnt/building/build_2013-06-19-04-18/RF_PKG_CHECK/PKGS/nwfscNLTS.Rcheck/00_pkg_src/nwfscNLTS/man/NLTS-package.Rd’:
  \examples lines wider than 105 characters:
     NltsPred(c(Y,NA,NA), PredInterval=2, Nembed=2, PredNum=length(Y)+2, Method="Simplex")  # PredInterval is the number of years in the fut ... [TRUNCATED]

These lines will be truncated in the PDF manual.
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... WARNING
Codoc mismatches from documentation object 'TentFn':
TentFn
  Code: function(X, S = 2)
  Docs: function(Nobs, S)
  Argument names in code not in docs:
    X
  Argument names in docs not in code:
    Nobs
  Mismatches in argument names:
    Position: 1 Code: X Docs: Nobs
  Mismatches in argument default values:
    Name: 'S' Code: 2 Docs: 

* checking Rd \usage sections ... WARNING
Undocumented arguments in documentation object 'TentFn'
  ‘Nobs’
Documented arguments not in \usage in documentation object 'TentFn':
  ‘X’

Functions with \usage entries need to have the appropriate \alias
entries, and all their arguments documented.
The \usage entries must correspond to syntactically valid R code.
See the chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking examples ... [5s/7s] OK
* checking PDF version of manual ... OK

WARNING: There were 2 warnings.
NOTE: There were 3 notes.
See
  ‘/mnt/building/build_2013-06-19-04-18/RF_PKG_CHECK/PKGS/nwfscNLTS.Rcheck/00check.log’
for details.

Run time: 48.94 seconds.