Package: ENVISIONQuery

Version: 1.6.0

Command: /home/biocbuild/bbs-2.11-bioc/R/bin/R CMD check --no-vignettes --timings ENVISIONQuery_1.6.0.tar.gz

StartedAt: 2013-03-25 00:53:48 -0700 (Mon, 25 Mar 2013)

EndedAt: 2013-03-25 00:54:50 -0700 (Mon, 25 Mar 2013)

EllapsedTime: 62.1 seconds

RetCode: 0

Status:  OK

CheckDir: ENVISIONQuery.Rcheck

Warnings: 0

* using log directory ‘/loc/home/biocbuild/bbs-2.11-bioc/meat/ENVISIONQuery.Rcheck’
* using R version 2.15.3 (2013-03-01)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘ENVISIONQuery/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘ENVISIONQuery’ version ‘1.6.0’
* 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 whether package ‘ENVISIONQuery’ 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 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 ... NOTE
File ‘ENVISIONQuery/R/zzz.R’:
  .onAttach calls:
    cat("This is ", pkgname, " ", desc$Version, " ", desc$Date, "\n")

Package startup functions should use ‘packageStartupMessage’ to
  generate messages.
See section ‘Good practice’ in ?.onAttach.

* 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’ ... NOTE
The following files should probably not be installed:
  ‘ENVISIONQuery.lyx’

Consider the use of a .Rinstignore file: see ‘Writing R Extensions’,
or move the vignette sources from ‘inst/doc’ to ‘vignettes’.
* checking examples ... OK
Examples with CPU or elapsed time > 5s
              user system elapsed
ENVISIONQuery 3.46  0.252  14.714
* 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 were 2 notes.
See
  ‘/loc/home/biocbuild/bbs-2.11-bioc/meat/ENVISIONQuery.Rcheck/00check.log’
for details.

* installing *source* package ‘ENVISIONQuery’ ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   ‘ENVISIONQuery.Rnw’ using ‘latin-9’ 
** testing if installed package can be loaded
This is  ENVISIONQuery   1.6.0   2011-07-17 

* DONE (ENVISIONQuery)

name	user	system	elapsed
ENVISIONQuery	3.460	0.252	14.714
getInputTypes	0	0	0
getService	0.004	0.000	0.000
getServiceClient	0	0	0
getServiceNames	0	0	0
getServiceOptions	0.008	0.000	0.009
getServices	0	0	0
getTool	0	0	0
getToolNames	0	0	0