Package: Genominator

Version: 1.6.0

Command: E:\biocbld\bbs-2.8-bioc\R\bin\R.exe CMD check --no-vignettes --timings --no-multiarch Genominator_1.6.0.tar.gz

StartedAt: 2011-10-20 15:17:35 -0700 (Thu, 20 Oct 2011)

EndedAt: 2011-10-20 15:20:03 -0700 (Thu, 20 Oct 2011)

EllapsedTime: 147.3 seconds

RetCode: 0

Status:  OK

CheckDir: Genominator.Rcheck

Warnings: 0

* using log directory 'E:/biocbld/bbs-2.8-bioc/meat/Genominator.Rcheck'
* using R version 2.13.2 (2011-09-30)
* using platform: i386-pc-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'Genominator/DESCRIPTION' ... OK
* this is package 'Genominator' version '1.6.0'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'Genominator' can be installed ... OK
* checking installed package size ... NOTE
  installed size is 166.1Mb
  sub-directories of 1Mb or more:
    data    1.3Mb
    doc   161.8Mb
* checking package directory ... OK
* checking for portable file names ... 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 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 'Genominator' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (Genominator)

name	user	system	elapsed
ExpData	0	0	0
addPrimingWeights	4.73	0.46	5.46
aggregateExpData	1.42	0.00	2.38
applyMapped	1.64	0.00	1.64
collapseExpData	2.75	0.09	2.84
computeCoverage	0.92	0.00	0.96
computePrimingWeights	0.63	0.26	1.14
getRegion	0.20	0.02	0.22
importFromAlignedReads	0	0	0
importToExpData	0.45	0.00	0.45
joinExpData	3.60	0.03	3.69
makeGeneRepresentation	0.29	0.00	0.30
mergeWithAnnotation	0.39	0.02	0.40
plot.genominator.coverage	2.71	0.02	2.77
plot.genominator.goodness.of.fit	0.73	0.03	0.78
regionGoodnessOfFit-methods	0.67	0.00	0.67
splitByAnnotation	0.78	0.00	0.80
summarizeByAnnotation	0.41	0.00	0.40
summarizeExpData	0.52	0.00	0.52
validAnnotation	0.02	0.00	0.02
yeastAnno	0.26	0.02	0.28