BioC experimental data: CHECK report for HD2013SGI on petty

Package: HD2013SGI

Version: 1.00.1

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch HD2013SGI_1.00.1.tar.gz

StartedAt: 2013-07-14 14:00:05 -0700 (Sun, 14 Jul 2013)

EndedAt: 2013-07-14 14:06:44 -0700 (Sun, 14 Jul 2013)

EllapsedTime: 399.7 seconds

RetCode: 0

Status:  WARNINGS

CheckDir: HD2013SGI.Rcheck

Warnings: 1

* using log directory '/Users/biocbuild/bbs-2.12-data-experiment/meat/HD2013SGI.Rcheck'
* using R version 3.0.1 (2013-05-16)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'HD2013SGI/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'HD2013SGI' version '1.00.1'
* 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 hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package 'HD2013SGI' can be installed ... [17s/24s] OK
* checking installed package size ... NOTE
  installed size is 527.0Mb
  sub-directories of 1Mb or more:
    data  524.1Mb
    doc     1.8Mb
* 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 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 ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... WARNING
  Warning: package needs dependence on R (>= 2.10)
* checking sizes of PDF files under 'inst/doc' ... OK
* checking installed files from 'inst/doc' ... NOTE
The following files should probably not be installed:
  'Makefile', 'whbiocvignette.sty'
The following directories should probably not be installed:
  'src'

Consider the use of a .Rinstignore file: see 'Writing R Extensions',
or move the vignette sources from 'inst/doc' to 'vignettes'.
* checking examples ... [72s/73s] OK
Examples with CPU or elapsed time > 5s
                  user system elapsed
featuresPerWell 51.031  1.078  52.128
datamatrixfull  11.238  0.261  11.499
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignettes ... SKIPPED
* checking PDF version of manual ... OK

WARNING: There was 1 warning.
NOTE: There were 2 notes.
See
  '/Users/biocbuild/bbs-2.12-data-experiment/meat/HD2013SGI.Rcheck/00check.log'
for details.

* installing *source* package 'HD2013SGI' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (HD2013SGI)

name	user	system	elapsed
HD2013SGI-package	0.241	0.010	0.252
Interactions	0.223	0.011	0.233
QueryAnnotation	0.005	0.001	0.007
TargetAnnotation	0.008	0.003	0.010
datamatrix	0.203	0.006	0.211
datamatrixfull	11.238	0.261	11.499
featuresPerWell	51.031	1.078	52.128
mainEffects	0.432	0.020	0.532
nrOfInteractionsPerTarget	0.008	0.005	0.030
stabilitySelection	0.017	0.010	0.028