Package: genomes

Version: 1.9.1

Command: /Library/Frameworks/R.framework/Versions/2.14/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch genomes_1.9.1.tar.gz

StartedAt: 2011-06-22 03:14:39 -0700 (Wed, 22 Jun 2011)

EndedAt: 2011-06-22 03:15:52 -0700 (Wed, 22 Jun 2011)

EllapsedTime: 73.4 seconds

RetCode: 0

Status:  OK

CheckDir: genomes.Rcheck

Warnings: 0

* using log directory ‘/Users/biocbuild/bbs-2.9-bioc/meat/genomes.Rcheck’
* using R version 2.14.0 Under development (unstable) (2011-06-03 r56037)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘genomes/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘genomes’ version ‘1.9.1’
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘genomes’ can be installed ... OK
* checking installed package size ... 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 ... 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 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 ‘genomes’ ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   ‘genome-tables.Rnw’ 
** testing if installed package can be loaded

* DONE (genomes)

name	user	system	elapsed
acc2date	0.226	0.015	8.826
doublingTime	0.336	0.014	0.350
genomes-lines	0.334	0.014	0.348
genomes-plot	0.251	0.012	0.263
genomes-print	0.161	0.010	0.170
genomes-subset	0.153	0.007	0.160
genomes-summary	0.036	0.001	0.037
genomes-update	0.003	0.001	0.004
genomes	0.313	0.021	0.336
genus	0.382	0.008	0.389
image2	0.103	0.002	0.105
lenvs	0.038	0.001	0.039
leuks	0.206	0.004	0.211
like	0.195	0.012	0.209
lproks	0.610	0.032	0.649
plotby	1.159	0.027	1.205
pub2date	0.207	0.010	1.929
pubmed	0.161	0.008	0.599
revhist	0.223	0.012	11.850
species	0.496	0.014	0.551
table2	0.027	0.003	0.030
taxid2names	0.011	0.001	0.443
term2neighbor	0.069	0.005	1.243
term2summary	1.516	0.039	4.019
top	0.473	0.007	0.482
virus	0.207	0.011	0.884
year	0.132	0.005	0.138