Package: HTqPCR

Version: 1.6.0

Command: /Library/Frameworks/R.framework/Versions/2.13/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch HTqPCR_1.6.0.tar.gz

StartedAt: 2011-08-01 15:13:06 -0700 (Mon, 01 Aug 2011)

EndedAt: 2011-08-01 15:15:10 -0700 (Mon, 01 Aug 2011)

EllapsedTime: 124.4 seconds

RetCode: 0

Status:  OK

CheckDir: HTqPCR.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.8-bioc/meat/HTqPCR.Rcheck'
* using R version 2.13.0 (2011-04-13)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'HTqPCR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'HTqPCR' version '1.6.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'HTqPCR' 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 ... NOTE
  'qpdf' made some significant size reductions:
     compacted 'HTqPCR.pdf' from 3.2Mb to 1.1Mb
  consider running tools::compactPDF() on these files
* 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 'HTqPCR' ...
** R
** data
** inst
** preparing package for lazy loading

Welcome to Bioconductor

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

Creating a new generic function for "summary" in "HTqPCR"
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (HTqPCR)

name	user	system	elapsed
HTqPCR-package	4.846	0.214	5.182
cbind	0.042	0.003	0.046
changeCtLayout	0.047	0.005	0.056
clusterCt	0.781	0.051	0.849
filterCategory	0.120	0.004	0.125
filterCtData	0.360	0.010	0.372
heatmapSig	2.154	0.021	2.494
limmaCtData	1.272	0.017	1.348
mannwhitneyCtData	1.983	0.012	2.101
normalizeCtData	0.525	0.022	0.619
plotCVBoxes	0.254	0.004	0.305
plotCtArray	0.188	0.010	0.248
plotCtBoxes	0.087	0.004	0.101
plotCtCard	0.070	0.003	0.083
plotCtCategory	3.286	0.051	3.593
plotCtCor	0.065	0.002	0.091
plotCtDensity	0.051	0.008	0.060
plotCtHeatmap	4.119	0.051	4.416
plotCtHistogram	0.014	0.001	0.015
plotCtOverview	0.147	0.005	0.171
plotCtPCA	0.059	0.006	0.066
plotCtPairs	0.939	0.010	0.957
plotCtRQ	0.511	0.004	0.522
plotCtReps	0.189	0.003	0.192
plotCtScatter	0.034	0.002	0.035
plotCtSignificance	0.610	0.020	0.636
plotCtVariation	1.043	0.009	1.077
plotGenes	0.035	0.002	0.038
qPCRpros	0.007	0.001	0.009
qPCRraw	0.008	0.001	0.008
qPCRset-class	0.034	0.003	0.037
readCtData	0.074	0.005	0.079
setCategory	7.420	0.247	7.826
ttestCtData	1.497	0.007	1.554