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Package 391/631HostnameOS / ArchBUILDCHECKBUILD BIN
minfi 1.5.3
Kasper Daniel Hansen
Snapshot Date: 2013-01-15 17:01:14 -0800 (Tue, 15 Jan 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/minfi
Last Changed Rev: 71880 / Revision: 72575
Last Changed Date: 2012-12-12 17:08:52 -0800 (Wed, 12 Dec 2012)
george2 Linux (Ubuntu 12.04.1 LTS) / x86_64  OK  OK 
lamb2 Linux (openSUSE 11.4) / x86_64  OK [ OK ]
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
petty Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: minfi
Version: 1.5.3
Command: /home/biocbuild/bbs-2.12-bioc/R/bin/R CMD check --no-vignettes --timings minfi_1.5.3.tar.gz
StartedAt: 2013-01-16 04:22:53 -0800 (Wed, 16 Jan 2013)
EndedAt: 2013-01-16 04:36:05 -0800 (Wed, 16 Jan 2013)
EllapsedTime: 792.4 seconds
RetCode: 0
Status:  OK 
CheckDir: minfi.Rcheck
Warnings: 0

Command output

* using log directory ‘/loc/home/biocbuild/bbs-2.12-bioc/meat/minfi.Rcheck’
* using R Under development (unstable) (2012-12-17 r61365)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘minfi/DESCRIPTION’ ... OK
* this is package ‘minfi’ version ‘1.5.3’
* 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 ‘minfi’ can be installed ... OK
* 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 ... OK
Examples with CPU or elapsed time > 5s
                                    user system elapsed
preprocessSwan                    90.050  1.796 385.719
plotBetasByType                   51.651  0.268  53.114
densityBeanPlot                   21.177  0.556  25.792
preprocessIllumina                13.649  0.124  13.791
densityPlot                       11.369  0.252  12.640
detectionP                        10.480  0.024  11.208
read.450k.exp                      9.989  0.272  15.727
read.450k                          8.404  0.360  25.728
IlluminaMethylationManifest-class  6.776  0.292   7.400
preprocessRaw                      6.948  0.040   7.020
controlStripPlot                   4.901  0.232   9.727
* checking for unstated dependencies in tests ... OK
* checking tests ...
  Running ‘runTests.R’
 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 vignettes ... SKIPPED
* checking PDF version of manual ... OK

minfi.Rcheck/00install.out:

* installing *source* package ‘minfi’ ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   ‘minfi.Rnw’ 
** testing if installed package can be loaded

* DONE (minfi)

minfi.Rcheck/minfi-Ex.timings:

nameusersystemelapsed
GenomicMethylSet-class0.0080.0040.012
GenomicRatioSet-class0.0120.0000.011
IlluminaMethylationManifest-class6.7760.2927.400
MethylSet-class0.0040.0040.007
RGChannelSet-class0.0000.0080.007
controlStripPlot4.9010.2329.727
densityBeanPlot21.177 0.55625.792
densityPlot11.369 0.25212.640
detectionP10.480 0.02411.208
dmpFinder1.4210.1563.587
logit20.0040.0000.002
mdsPlot2.1960.0884.458
plotBetasByType51.651 0.26853.114
plotCpg0.2560.0040.291
preprocessIllumina13.649 0.12413.791
preprocessRaw6.9480.0407.020
preprocessSwan 90.050 1.796385.719
qcReport0.0520.0001.590
read.450k 8.404 0.36025.728
read.450k.exp 9.989 0.27215.727
read.450k.sheet0.6480.0081.096