Package: ffpe

Version: 1.3.0

Command: /home/biocbuild/bbs-2.12-bioc/R/bin/R CMD check --no-vignettes --timings ffpe_1.3.0.tar.gz

StartedAt: 2013-03-25 01:31:50 -0700 (Mon, 25 Mar 2013)

EndedAt: 2013-03-25 01:41:14 -0700 (Mon, 25 Mar 2013)

EllapsedTime: 564.1 seconds

RetCode: 0

Status:  WARNINGS

CheckDir: ffpe.Rcheck

Warnings: 1

* using log directory ‘/home/biocbuild/bbs-2.12-bioc/meat/ffpe.Rcheck’
* using R version 3.0.0 beta (2013-03-19 r62328)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘ffpe/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘ffpe’ version ‘1.3.0’
* 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 ‘ffpe’ can be installed ... [51s/53s] WARNING
Found the following significant warnings:
  Warning: no function found corresponding to methods exports from ‘minfi’ for: ‘pData’
  Warning: no function found corresponding to methods exports from ‘minfi’ for: ‘pData’
See ‘/home/biocbuild/bbs-2.12-bioc/meat/ffpe.Rcheck/00install.out’ for details.
* 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 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 installed files from ‘inst/doc’ ... OK
* checking examples ... [68s/69s] OK
Examples with CPU or elapsed time > 5s
               user system elapsed
CATplot      23.686  0.444  24.467
ffpe-package  6.288  0.144   6.894
sampleQC      6.156  0.100   6.275
* 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.
See
  ‘/home/biocbuild/bbs-2.12-bioc/meat/ffpe.Rcheck/00check.log’
for details.

* installing *source* package ‘ffpe’ ...
** R
** inst
** preparing package for lazy loading
Warning: replacing previous import ‘image’ when loading ‘graphics’
Warning: no function found corresponding to methods exports from ‘minfi’ for: ‘pData’
Warning: replacing previous import ‘nleqslv’ when loading ‘nleqslv’
** help
*** installing help indices
** building package indices
** installing vignettes
   ‘ffpe.Rnw’ 
** testing if installed package can be loaded
Warning: replacing previous import ‘image’ when loading ‘graphics’
Warning: no function found corresponding to methods exports from ‘minfi’ for: ‘pData’
Warning: replacing previous import ‘nleqslv’ when loading ‘nleqslv’
* DONE (ffpe)

name	user	system	elapsed
CATplot	23.686	0.444	24.467
ffpe-package	6.288	0.144	6.894
sampleQC	6.156	0.100	6.275
sortedIqrPlot	2.905	0.084	3.051