Package: splicegear

Version: 1.20.0

Command: /Library/Frameworks/R.framework/Versions/2.11/Resources/bin/R CMD check --no-vignettes --timings splicegear_1.20.0.tar.gz

StartedAt: 2010-10-04 18:52:27 -0700 (Mon, 04 Oct 2010)

EndedAt: 2010-10-04 18:53:36 -0700 (Mon, 04 Oct 2010)

EllapsedTime: 68.7 seconds

RetCode: 0

Status:  OK

CheckDir: splicegear.Rcheck

Warnings: 0

* checking for working pdflatex ... OK
* using log directory '/Users/biocbuild/bbs-2.6-bioc/meat/splicegear.Rcheck'
* using R version 2.11.1 Patched (2010-05-31 r52167)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'splicegear/DESCRIPTION' ... OK
* this is package 'splicegear' version '1.20.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'splicegear' can be installed ... 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 ... NOTE
prepare_Rd: isProbeOnSpliceSite.Rd:18-19: Dropping empty section \details
prepare_Rd: isProbeOnSpliceSite.Rd:31-33: Dropping empty section \examples
prepare_Rd: sort.SpliceExprSet.Rd:18-20: Dropping empty section \details
prepare_Rd: spliceset.Rd:29-31: Dropping empty section \source
* 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 data for non-ASCII characters ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK

* install options are ' --no-html'

* installing *source* package ‘splicegear’ ...
** R
** data
** inst
** preparing package for lazy loading

Welcome to Bioconductor

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

** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (splicegear)

name	user	system	elapsed
Probes-class	0.037	0.003	0.039
SpliceExprSet-class	0.125	0.005	0.130
SpliceSites-class	0.094	0.006	0.100
SpliceSitesGenomic-class	0.009	0.000	0.009
as.data.frame.SpliceExprSet	0.107	0.012	0.119
barplot.SpliceSites	0.004	0.001	0.006
buildSpliceSites	1.273	0.017	1.315
getRelSignStrength	0.128	0.005	0.139
grid.plot.SpliceSites	0.455	0.003	0.460
plot.SpliceExprSet	0.092	0.003	0.095
plot.SpliceSites	0.009	0.001	0.010
plot.SpliceSitesGenomic	0.010	0.000	0.011
sort.SpliceExprSet	0.007	0.001	0.008
spliceset	0.052	0.002	0.054
split.SpliceSites	0.003	0.000	0.004