Package: SplicingGraphs

Version: 1.0.1

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch SplicingGraphs_1.0.1.tar.gz

StartedAt: 2013-04-16 11:01:04 -0700 (Tue, 16 Apr 2013)

EndedAt: 2013-04-16 11:08:37 -0700 (Tue, 16 Apr 2013)

EllapsedTime: 453.0 seconds

RetCode: 0

Status:  OK

CheckDir: SplicingGraphs.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/SplicingGraphs.Rcheck'
* using R version 3.0.0 Patched (2013-04-08 r62531)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'SplicingGraphs/DESCRIPTION' ... OK
* this is package 'SplicingGraphs' version '1.0.1'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package 'SplicingGraphs' can be installed ... [32s/33s] OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over 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 installed files from 'inst/doc' ... OK
* checking examples ... [128s/137s] OK
Examples with CPU or elapsed time > 5s
                          user system elapsed
plotTranscripts-methods 42.086  0.255  42.589
toy_data                23.826  0.109  24.073
sgedges-methods          9.082  0.046   9.183
sgedgesByGene-methods    6.627  0.053   6.719
bubbles-methods          6.081  0.038   6.163
txpath-methods           5.943  0.070   6.083
SplicingGraphs-class     4.675  0.362  13.747
* 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 'SplicingGraphs' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (SplicingGraphs)

name	user	system	elapsed
SplicingGraphs-class	4.675	0.362	13.747
TSPCsgraphs	2.987	0.052	3.068
bubbles-methods	6.081	0.038	6.163
countReads	4.786	0.049	4.893
plotTranscripts-methods	42.086	0.255	42.589
sgedges-methods	9.082	0.046	9.183
sgedgesByGene-methods	6.627	0.053	6.719
sgraph-methods	4.256	0.037	4.306
toy_data	23.826	0.109	24.073
txpath-methods	5.943	0.070	6.083