BioC 2.12: CHECK report for PAnnBuilder on petty

Package: PAnnBuilder

Version: 1.24.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch PAnnBuilder_1.24.0.tar.gz

StartedAt: 2013-10-08 23:21:18 -0700 (Tue, 08 Oct 2013)

EndedAt: 2013-10-08 23:24:07 -0700 (Tue, 08 Oct 2013)

EllapsedTime: 169.1 seconds

RetCode: 0

Status:  OK

CheckDir: PAnnBuilder.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/PAnnBuilder.Rcheck'
* using R version 3.0.1 (2013-05-16)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'PAnnBuilder/DESCRIPTION' ... OK
* this is package 'PAnnBuilder' version '1.24.0'
* 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 for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package 'PAnnBuilder' can be installed ... [15s/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 ... NOTE
File 'PAnnBuilder/R/zzz.R':
  .onLoad calls:
    require(Biobase)

Package startup functions should not change the search path.
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 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 installed files from 'inst/doc' ... OK
* checking examples ... [8s/8s] 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/PAnnBuilder.Rcheck/00check.log'
for details.

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

name	user	system	elapsed
GOABuilder_DB	0.201	0.001	0.218
HomoloGeneBuilder_DB	0.016	0.002	0.020
InParanoidBuilder_DB	0.014	0.001	0.018
PeptideAtlasBuilder_DB	0.013	0.002	0.016
bfBuilder_DB	0.015	0.001	0.017
crossBuilder_DB	0.019	0.003	0.025
dNameBuilder_DB	0.012	0.001	0.015
getSrcUrl	0.012	0.002	0.015
intBuilder_DB	0.023	0.003	0.027
loadFromUrl	0.008	0.001	0.008
pBaseBuilder_DB	0.019	0.003	0.024
pSeqBuilder_DB	0.040	0.005	0.048
ptmBuilder_DB	0.012	0.002	0.013
scopBuilder_DB	0.013	0.001	0.015
subcellBuilder_DB	0.016	0.001	0.016