Package: RNAinteract

Version: 1.1.1

Command: /Library/Frameworks/R.framework/Versions/2.14/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch RNAinteract_1.1.1.tar.gz

StartedAt: 2011-06-22 05:04:21 -0700 (Wed, 22 Jun 2011)

EndedAt: 2011-06-22 05:08:03 -0700 (Wed, 22 Jun 2011)

EllapsedTime: 222.2 seconds

RetCode: 0

Status:  OK

CheckDir: RNAinteract.Rcheck

Warnings: 0

* using log directory ‘/Users/biocbuild/bbs-2.9-bioc/meat/RNAinteract.Rcheck’
* using R version 2.14.0 Under development (unstable) (2011-06-03 r56037)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘RNAinteract/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘RNAinteract’ version ‘1.1.1’
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘RNAinteract’ 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 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 name space can be loaded with stated dependencies ... OK
* checking whether the name space 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 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 examples ... 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

* installing *source* package ‘RNAinteract’ ...
** R
** data
** inst
** preparing package for lazy loading
Loading required package: akima
Loading required package: lattice
locfit 1.5-6 	 2010-01-20 

Welcome to Bioconductor

  Vignettes contain introductory material. To view, type
  'browseVignettes()'. To cite Bioconductor, see
  'citation("Biobase")' and for packages 'citation("pkgname")'.

Loading Tcl/Tk interface ... done
Scalable Robust Estimators with High Breakdown Point (version 1.3-00)
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   ‘RNAinteract.Rnw’ 
** testing if installed package can be loaded
locfit 1.5-6 	 2010-01-20 
Scalable Robust Estimators with High Breakdown Point (version 1.3-00)

* DONE (RNAinteract)

name	user	system	elapsed
RNAinteract-class	0.006	0.001	0.006
bindsamples	0.729	0.023	0.754
computePI	0.063	0.004	0.067
computePValues	0.403	0.017	0.421
embedPCA	0.028	0.001	0.030
estimateMainEffect	2.606	0.098	2.709
getData	0.302	0.008	0.312
getMain	0.025	0.005	0.030
getReplicateData	0.019	0.002	0.021
getSampleNames	0.014	0.001	0.016
getScale	0.014	0.002	0.015
grid.sgiHeatmap	0.168	0.004	0.173
normalizeMainEffectQuery	0.170	0.006	0.177
normalizeMainEffectTemplate	0.472	0.092	0.564
normalizePlateEffect	3.581	0.092	3.681
plotDoublePerturbation	0.138	0.003	0.141
plotHeatmap	0.148	0.006	0.154
reportAnnotation	0.059	0.006	0.066
sgi	0.017	0.002	0.020
sgisubset	0.051	0.007	0.058
startReport	0.057	0.005	0.062
summarizeSamples	0.419	0.010	0.431