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Package 608/609HostnameOS / ArchBUILDCHECKBUILD BIN
yaqcaffy 1.18.0
Laurent Gatto
Snapshot Date: 2013-03-24 16:21:20 -0700 (Sun, 24 Mar 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_11/madman/Rpacks/yaqcaffy
Last Changed Rev: 70050 / Revision: 74773
Last Changed Date: 2012-10-01 15:16:24 -0700 (Mon, 01 Oct 2012)
lamb1 Linux (openSUSE 12.1) / x86_64  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
perceval Mac OS X Leopard (10.5.8) / i386  OK [ OK ] OK 

Summary

Package: yaqcaffy
Version: 1.18.0
Command: /Library/Frameworks/R.framework/Versions/2.15/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch yaqcaffy_1.18.0.tar.gz
StartedAt: 2013-03-25 01:38:18 -0700 (Mon, 25 Mar 2013)
EndedAt: 2013-03-25 01:42:25 -0700 (Mon, 25 Mar 2013)
EllapsedTime: 247.3 seconds
RetCode: 0
Status:  OK 
CheckDir: yaqcaffy.Rcheck
Warnings: 0

Command output

* using log directory '/Users/biocbuild/bbs-2.11-bioc/meat/yaqcaffy.Rcheck'
* using R version 2.15.3 (2013-03-01)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'yaqcaffy/DESCRIPTION' ... OK
* this is package 'yaqcaffy' version '1.18.0'
* 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 whether package 'yaqcaffy' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... 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 sizes of PDF files under 'inst/doc' ... OK
* checking installed files from 'inst/doc' ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
              user system elapsed
getOutliers 44.616  2.033  46.864
getAllInt   17.206  1.017  18.315
getQCRatios  9.105  0.713   9.848
yaqc.plot    9.011  0.651   9.667
yaqc.affy    8.982  0.661   9.654
* 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

yaqcaffy.Rcheck/00install.out:

* installing *source* package 'yaqcaffy' ...
** R
** inst
** preparing package for lazy loading
No methods found in "Biobase" for requests: geneNames
Creating a generic function for 'summary' from package 'base' in package 'yaqcaffy'
Creating a generic function for 'merge' from package 'base' in package 'yaqcaffy'
Creating a generic function for 'identical' from package 'base' in package 'yaqcaffy'
** help
*** installing help indices
** building package indices
** installing vignettes
   'yaqcaffy.Rnw' 
** testing if installed package can be loaded
No methods found in "Biobase" for requests: geneNames

* DONE (yaqcaffy)

yaqcaffy.Rcheck/yaqcaffy-Ex.timings:

nameusersystemelapsed
YaqcControlProbes-class0.0020.0000.003
getAllInt17.206 1.01718.315
getBioProbes1.1010.0781.183
getOutliers44.616 2.03346.864
getQCRatios9.1050.7139.848
getRatioProbes0.9680.0531.021
getSpikeProbes1.1920.0641.258
probeSelectionInterface0.0000.0010.001
reprodPlot0.0000.0000.001
yaqc.affy8.9820.6619.654
yaqc.plot9.0110.6519.667