Package: gCMAPWeb

Version: 0.99.2

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch gCMAPWeb_0.99.2.tar.gz

StartedAt: 2013-03-24 05:21:40 -0700 (Sun, 24 Mar 2013)

EndedAt: 2013-03-24 05:29:07 -0700 (Sun, 24 Mar 2013)

EllapsedTime: 447.0 seconds

RetCode: 0

Status:  OK

CheckDir: gCMAPWeb.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/gCMAPWeb.Rcheck'
* using R version 3.0.0 beta (2013-03-21 r62346)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'gCMAPWeb/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'gCMAPWeb' version '0.99.2'
* 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 ... NOTE
Found the following hidden files and directories:
  .BBSoptions
These were most likely included in error. See section 'Package
structure' in the 'Writing R Extensions' manual.
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package 'gCMAPWeb' can be installed ... [33s/34s] 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 installed files from 'inst/doc' ... OK
* checking examples ... [20s/23s] OK
* checking for unstated dependencies in tests ... OK
* checking tests ...
  Running 'runTests.R' [85s/83s]
 [85s/83s] 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

NOTE: There was 1 note.
See
  '/Users/biocbuild/bbs-2.12-bioc/meat/gCMAPWeb.Rcheck/00check.log'
for details.

* installing *source* package 'gCMAPWeb' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   'gCMAPWeb.Rnw' 
   'referenceDatasets.Rnw' 
** testing if installed package can be loaded
* DONE (gCMAPWeb)

name	user	system	elapsed
exampleCMAP	2.089	0.095	2.199
examplePost	0.202	0.017	0.220
gCMAPWeb-package	0.060	0.008	0.068
gCMAPWeb	0.024	0.004	0.029
load_cmaps	0.147	0.014	0.160
validate_config_file	0.697	0.219	3.954