Package: genomes

Version: 1.4.0

Command: /Library/Frameworks/R.framework/Versions/2.11/Resources/bin/R CMD check --no-vignettes --timings genomes_1.4.0.tar.gz

StartedAt: 2010-10-04 17:12:47 -0700 (Mon, 04 Oct 2010)

EndedAt: 2010-10-04 17:13:48 -0700 (Mon, 04 Oct 2010)

EllapsedTime: 60.7 seconds

RetCode: 0

Status:  OK

CheckDir: genomes.Rcheck

Warnings: 0

* checking for working pdflatex ... OK
* using log directory '/Users/biocbuild/bbs-2.6-bioc/meat/genomes.Rcheck'
* using R version 2.11.1 Patched (2010-05-31 r52167)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'genomes/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'genomes' version '1.4.0'
* 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 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 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 ‘genomes’ ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (genomes)

name	user	system	elapsed
doublingTime	0.252	0.014	0.276
genomes-lines	0.350	0.011	0.363
genomes-plot	0.249	0.009	0.260
genomes-print	0.122	0.007	0.129
genomes-subset	0.115	0.005	0.128
genomes-summary	0.037	0.003	0.040
genomes-update	0.003	0.001	0.004
genomes	0.262	0.014	0.276
genus	0.372	0.008	0.382
gold	1.615	0.072	1.704
hmp	0.231	0.004	0.235
lenvs	0.041	0.001	0.042
leuks	0.276	0.012	0.291
like	0.128	0.009	0.155
lproks	0.569	0.029	0.653
plotby	1.031	0.020	1.079
species	0.439	0.007	0.538
table2	0.021	0.001	0.023
taxid2names	0.012	0.001	0.652
term2neighbor	0.073	0.004	0.995
term2summary	1.806	0.038	6.303
top	0.383	0.006	0.390
virus	0.281	0.008	1.131
wgs	0.408	0.010	0.429