BioC 2.12: CHECK report for BaseSpaceR on petty

Package: BaseSpaceR

Version: 1.0.1

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch BaseSpaceR_1.0.1.tar.gz

StartedAt: 2013-10-08 21:38:05 -0700 (Tue, 08 Oct 2013)

EndedAt: 2013-10-08 21:39:14 -0700 (Tue, 08 Oct 2013)

EllapsedTime: 69.3 seconds

RetCode: 0

Status:  OK

CheckDir: BaseSpaceR.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/BaseSpaceR.Rcheck'
* using R version 3.0.1 (2013-05-16)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'BaseSpaceR/DESCRIPTION' ... OK
* this is package 'BaseSpaceR' 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 'BaseSpaceR' can be installed ... [6s/6s] 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 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' ... OK
* checking installed files from 'inst/doc' ... OK
* checking examples ... [3s/20s] OK
Examples with CPU or elapsed time > 5s
            user system elapsed
Runs-class 0.247  0.009   8.993
* 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 'BaseSpaceR' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (BaseSpaceR)

name	user	system	elapsed
AppAuth-class	0.171	0.012	1.068
AppResults-class	0.011	0.001	0.012
AppSessions-class	0.008	0.001	0.009
Coverage	0.097	0.002	0.099
Files-class	0.201	0.006	1.025
Genomes-class	0.164	0.005	1.283
Projects-class	0.150	0.005	2.201
Response-class	0.026	0.002	0.030
Runs-class	0.247	0.009	8.993
Samples-class	0.204	0.006	1.990
ServiceURI-class	0.008	0.001	0.009
Users-class	0.128	0.004	0.800
Variants	0.099	0.003	0.785
data-aAuth	0.035	0.002	0.351