Package: AgiMicroRna

Version: 2.2.0

Command: /Library/Frameworks/R.framework/Versions/2.13/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch AgiMicroRna_2.2.0.tar.gz

StartedAt: 2011-10-20 13:18:39 -0700 (Thu, 20 Oct 2011)

EndedAt: 2011-10-20 13:27:04 -0700 (Thu, 20 Oct 2011)

EllapsedTime: 505.2 seconds

RetCode: 0

Status:  OK

CheckDir: AgiMicroRna.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.8-bioc/meat/AgiMicroRna.Rcheck'
* using R version 2.13.2 (2011-09-30)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'AgiMicroRna/DESCRIPTION' ... OK
* this is package 'AgiMicroRna' version '2.2.0'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'AgiMicroRna' can be installed ... OK
* checking installed package size ... NOTE
  installed size is  6.2Mb
  sub-directories of 1Mb or more:
    data   1.8Mb
    doc    4.2Mb
* 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 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 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 'AgiMicroRna.pdf' from 4215Kb to 372Kb
  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 'AgiMicroRna' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (AgiMicroRna)

name	user	system	elapsed
HeatMapMicroRna	1.374	0.152	1.654
PCAplotMicroRna	0.286	0.009	0.297
RleMicroRna	3.613	0.109	3.742
basicLimma	0.001	0.000	0.001
boxplotMicroRna	0.662	0.060	0.724
cvArray	0	0	0
filterMicroRna	2.540	0.310	2.854
getDecideTests	0	0	0
hierclusMicroRna	0.015	0.002	0.016
mvaBASIC	2.709	0.065	2.827
mvaMicroRna	22.655	0.257	22.992
plotDensityMicroRna	0.355	0.030	0.384
pvalHistogram	0	0	0
qcPlots	0.001	0.000	0.000
readMicroRnaAFE	0	0	0
rmaMicroRna	103.461	80.312	187.695
significantMicroRna	1.227	0.107	1.363
tgsMicroRna	0.868	0.170	1.056
tgsNormalization	0	0	0
uRNAList	0.001	0.000	0.000
writeEset	0.001	0.000	0.000