BioC experimental data: CHECK report for FANTOM3and4CAGE on petty

Package: FANTOM3and4CAGE

Version: 0.99.1

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch FANTOM3and4CAGE_0.99.1.tar.gz

StartedAt: 2013-10-08 13:56:00 -0700 (Tue, 08 Oct 2013)

EndedAt: 2013-10-08 13:57:18 -0700 (Tue, 08 Oct 2013)

EllapsedTime: 78.6 seconds

RetCode: 0

Status:  OK

CheckDir: FANTOM3and4CAGE.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.12-data-experiment/meat/FANTOM3and4CAGE.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 'FANTOM3and4CAGE/DESCRIPTION' ... OK
* this is package 'FANTOM3and4CAGE' version '0.99.1'
* 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 'FANTOM3and4CAGE' can be installed ... [1s/2s] OK
* checking installed package size ... NOTE
  installed size is 34.8Mb
  sub-directories of 1Mb or more:
    data  34.3Mb
* 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 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 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 ... OK
* checking sizes of PDF files under 'inst/doc' ... OK
* checking installed files from 'inst/doc' ... NOTE
The following directories should probably not be installed:
  'images'

Consider the use of a .Rinstignore file: see 'Writing R Extensions',
or move the vignette sources from 'inst/doc' to 'vignettes'.
* checking examples ... [23s/23s] OK
Examples with CPU or elapsed time > 5s
                            user system elapsed
FANTOMtissueCAGEhuman     11.410  0.538  11.948
FANTOMtimecourseCAGEhuman  5.323  0.306   5.629
* 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

NOTE: There were 2 notes.
See
  '/Users/biocbuild/bbs-2.12-data-experiment/meat/FANTOM3and4CAGE.Rcheck/00check.log'
for details.

* installing *source* package 'FANTOM3and4CAGE' ...
** data
** inst
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (FANTOM3and4CAGE)

name	user	system	elapsed
FANTOMhumanSamples	0.030	0.004	0.034
FANTOMmouseSamples	0.007	0.003	0.010
FANTOMtimecourseCAGEhuman	5.323	0.306	5.629
FANTOMtimecourseCAGEmouse	0.406	0.161	0.567
FANTOMtissueCAGEhuman	11.410	0.538	11.948
FANTOMtissueCAGEmouse	4.313	0.396	4.710