Package: a4Core

Version: 1.1.3

Command: /Library/Frameworks/R.framework/Versions/2.13/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch a4Core_1.1.3.tar.gz

StartedAt: 2011-10-20 13:01:03 -0700 (Thu, 20 Oct 2011)

EndedAt: 2011-10-20 13:02:32 -0700 (Thu, 20 Oct 2011)

EllapsedTime: 89.0 seconds

RetCode: 0

Status:  WARNINGS

CheckDir: a4Core.Rcheck

Warnings: 2

* using log directory '/Users/biocbuild/bbs-2.8-bioc/meat/a4Core.Rcheck'
* using R version 2.13.2 (2011-09-30)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'a4Core/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'a4Core' version '1.1.3'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'a4Core' can be installed ... WARNING
Found the following significant warnings:
  Warning: replacing previous import 'head' when loading 'utils'
  Warning: replacing previous import 'tail' when loading 'utils'
See '/Users/biocbuild/bbs-2.8-bioc/meat/a4Core.Rcheck/00install.out' for details.
* checking installed package size ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level 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 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 ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... WARNING
Undocumented S4 methods:
  generic 'topTable' and siglist 'elnet'
  generic 'topTable' and siglist 'lognet'
All user-level objects in a package (including S4 classes and methods)
should have documentation entries.
See the chapter 'Writing R documentation files' in the 'Writing R
Extensions' manual.
* checking for code/documentation mismatches ... OK
* 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

WARNING: There were 2 warnings, see
  '/Users/biocbuild/bbs-2.8-bioc/meat/a4Core.Rcheck/00check.log'
for details

* installing *source* package 'a4Core' ...
** R
** inst
** preparing package for lazy loading
Warning: replacing previous import 'head' when loading 'utils'
Warning: replacing previous import 'tail' when loading 'utils'
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded
Warning messages:
1: replacing previous import 'head' when loading 'utils' 
2: replacing previous import 'tail' when loading 'utils' 

* DONE (a4Core)

name	user	system	elapsed
simulateData	0.276	0.007	0.284