Package: KEGGREST

Version: 0.99.6

Command: /home/biocbuild/bbs-2.12-bioc/R/bin/R CMD check --no-vignettes --timings KEGGREST_0.99.6.tar.gz

StartedAt: 2013-03-25 02:41:00 -0700 (Mon, 25 Mar 2013)

EndedAt: 2013-03-25 02:46:40 -0700 (Mon, 25 Mar 2013)

EllapsedTime: 339.9 seconds

RetCode: 0

Status:  OK

CheckDir: KEGGREST.Rcheck

Warnings: 0

* using log directory ‘/home/biocbuild/bbs-2.12-bioc/meat/KEGGREST.Rcheck’
* using R version 3.0.0 beta (2013-03-19 r62328)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘KEGGREST/DESCRIPTION’ ... OK
* this is package ‘KEGGREST’ version ‘0.99.6’
* 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 ‘KEGGREST’ can be installed ... [16s/17s] 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 ... [21s/92s] OK
Examples with CPU or elapsed time > 5s
               user system elapsed
keggList      2.932  0.580  12.657
listDatabases 2.829  0.552  10.468
keggLink      0.944  0.204  13.452
keggConv      0.416  0.060  20.868
keggFind      0.220  0.008  16.053
* checking for unstated dependencies in tests ... OK
* checking tests ...
  Running ‘KEGGREST_unit_tests.R’ [25s/96s]
 [26s/97s] 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 ‘KEGGREST’ ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   ‘KEGGREST-vignette.Rmd’ 
processing file: KEGGREST-vignette.Rmd
output file: /home/biocbuild/bbs-2.12-bioc/meat/KEGGREST.Rcheck/KEGGREST/doc/KEGGREST-vignette.R
** testing if installed package can be loaded
* DONE (KEGGREST)

name	user	system	elapsed
keggConv	0.416	0.060	20.868
keggFind	0.220	0.008	16.053
keggGet	2.552	0.104	4.776
keggInfo	0.104	0.004	1.026
keggLink	0.944	0.204	13.452
keggList	2.932	0.580	12.657
listDatabases	2.829	0.552	10.468
mark.pathway.by.objects	0.064	0.004	3.338