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BioC experimental data: CHECK report for cheung2010 on petty

This page was generated on 2013-10-08 16:07:34 -0700 (Tue, 08 Oct 2013).

Package 28/156HostnameOS / ArchBUILDCHECKBUILD BIN
cheung2010 0.0.27
Vince Carey
Snapshot Date: 2013-10-08 10:15:19 -0700 (Tue, 08 Oct 2013)
URL: https://hedgehog.fhcrc.org/bioc-data/trunk/experiment/pkgs/cheung2010
Last Changed Rev: 2317 / Revision: 2510
Last Changed Date: 2013-04-03 15:11:40 -0700 (Wed, 03 Apr 2013)
george2 Linux (Ubuntu 12.04.1 LTS) / x86_64  OK  OK 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
petty Mac OS X Snow Leopard (10.6.8) / x86_64  OK [ OK ] OK 

Summary

Package: cheung2010
Version: 0.0.27
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch cheung2010_0.0.27.tar.gz
StartedAt: 2013-10-08 13:10:23 -0700 (Tue, 08 Oct 2013)
EndedAt: 2013-10-08 13:24:26 -0700 (Tue, 08 Oct 2013)
EllapsedTime: 843.4 seconds
RetCode: 0
Status:  OK 
CheckDir: cheung2010.Rcheck
Warnings: 0

Command output

* using log directory '/Users/biocbuild/bbs-2.12-data-experiment/meat/cheung2010.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 'cheung2010/DESCRIPTION' ... OK
* this is package 'cheung2010' version '0.0.27'
* 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 'cheung2010' can be installed ... [37s/38s] OK
* checking installed package size ... NOTE
  installed size is 51.6Mb
  sub-directories of 1Mb or more:
    data      11.2Mb
    parts     30.9Mb
    rmaexprs   9.2Mb
* checking package directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Non-standard license specification:
  Artistic 2.0
Standardizable: TRUE
Standardized license specification:
  Artistic-2.0
* 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 'cheung2010/R/zzz.R':
  .onLoad calls:
    packageStartupMessage(paste("To get a tailored smlSet, use getSS(\"",     pkgname, "\", [chrvec])", sep = ""), "\n", "available chromosomes are named ",     selectSome(cn), "\n")

See section 'Good practice' in '?.onAttach'.
* checking Rd files ... NOTE
prepare_Rd: cheung2010-package.Rd:53-55: Dropping empty section \references
prepare_Rd: cheung2010-package.Rd:59-62: Dropping empty section \seealso
prepare_Rd: cheung2010-package.Rd:63-65: Dropping empty section \examples
* 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 ... [30s/30s] OK
Examples with CPU or elapsed time > 5s
                 user system elapsed
cheung2010locs 11.873  0.292  12.291
* 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 4 notes.
See
  '/Users/biocbuild/bbs-2.12-data-experiment/meat/cheung2010.Rcheck/00check.log'
for details.

cheung2010.Rcheck/00install.out:

* installing *source* package 'cheung2010' ...
** 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 (cheung2010)

cheung2010.Rcheck/cheung2010-Ex.timings:

nameusersystemelapsed
cheung2010locs11.873 0.29212.291