BioC experimental data: CHECK report for Fletcher2013a on perceval

Package: Fletcher2013a

Version: 0.99.3

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch Fletcher2013a_0.99.3.tar.gz

StartedAt: 2014-04-04 10:57:51 -0700 (Fri, 04 Apr 2014)

EndedAt: 2014-04-04 10:59:12 -0700 (Fri, 04 Apr 2014)

EllapsedTime: 80.6 seconds

RetCode: 0

Status:  OK

CheckDir: Fletcher2013a.Rcheck

Warnings: 0

* using log directory ‘/Users/biocbuild/bbs-2.13-data-experiment/meat/Fletcher2013a.Rcheck’
* using R version 3.0.3 (2014-03-06)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘Fletcher2013a/DESCRIPTION’ ... OK
* this is package ‘Fletcher2013a’ version ‘0.99.3’
* 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 ‘Fletcher2013a’ can be installed ... [5s/6s] OK
* checking installed package size ... NOTE
  installed size is 65.2Mb
  sub-directories of 1Mb or more:
    data  64.7Mb
* checking package directory ... OK
* checking ‘build’ 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 dependencies in R code ... NOTE
Package in Depends field not imported from: ‘limma’
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
See the information on DESCRIPTION files in the chapter ‘Creating R
packages’ of the ‘Writing R Extensions’ manual.
* 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 ... OK
* checking sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [7s/7s] OK
* 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 vignette outputs ... SKIPPED
* checking PDF version of manual ... OK

NOTE: There were 2 notes.
See
  ‘/Users/biocbuild/bbs-2.13-data-experiment/meat/Fletcher2013a.Rcheck/00check.log’
for details.

* installing *source* package ‘Fletcher2013a’ ...
** 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 (Fletcher2013a)

name	user	system	elapsed
Exp1	0.872	0.072	0.944
Exp2	1.024	0.094	1.118
Exp3	1.497	0.148	1.645
Fletcher2013a.pipelines	0.094	0.025	0.119
siESR1	0.261	0.022	0.282
siOTHERS	0.578	0.060	0.640