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BioC 2.14: CHECK report for BiocParallel on morelia

This page was generated on 2014-10-08 09:05:58 -0700 (Wed, 08 Oct 2014).

Package 89/824HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
BiocParallel 0.6.1
Bioconductor Package Maintainer
Snapshot Date: 2014-10-07 17:20:37 -0700 (Tue, 07 Oct 2014)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_14/madman/Rpacks/BiocParallel
Last Changed Rev: 90584 / Revision: 95116
Last Changed Date: 2014-05-21 05:37:46 -0700 (Wed, 21 May 2014)
zin2 Linux (Ubuntu 12.04.4 LTS) / x86_64  OK  OK  OK 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK  OK 
petty Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  OK  OK 
morelia Mac OS X Mavericks (10.9.5) / x86_64  OK  OK [ OK ] OK 

Summary

Package: BiocParallel
Version: 0.6.1
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch BiocParallel_0.6.1.tar.gz
StartedAt: 2014-10-07 21:28:47 -0700 (Tue, 07 Oct 2014)
EndedAt: 2014-10-07 21:30:58 -0700 (Tue, 07 Oct 2014)
EllapsedTime: 130.8 seconds
RetCode: 0
Status:  OK 
CheckDir: BiocParallel.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch BiocParallel_0.6.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-2.14-bioc/meat/BiocParallel.Rcheck’
* using R version 3.1.1 (2014-07-10)
* using platform: x86_64-apple-darwin13.1.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘BiocParallel/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘BiocParallel’ version ‘0.6.1’
* 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 ‘BiocParallel’ can be installed ... [3s/3s] OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ 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 dependencies in R code ... NOTE
Unexported objects imported by ':::' calls:
  ‘parallel:::children’ ‘parallel:::closeStdout’
  ‘parallel:::getClusterOption’ ‘parallel:::isChild’
  ‘parallel:::mc.advance.stream’ ‘parallel:::mc.set.stream’
  ‘parallel:::mcexit’ ‘parallel:::mcfork’ ‘parallel:::mckill’
  ‘parallel:::processID’ ‘parallel:::readChild’
  ‘parallel:::selectChildren’ ‘parallel:::sendMaster’
  See the note in ?`:::` about the use of this operator.
See the information on DESCRIPTION files in the chapter ‘Creating R
packages’ of the ‘Writing R Extensions’ manual.
* 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 sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [4s/8s] OK
* checking for unstated dependencies in tests ... OK
* checking tests ...
  Running ‘test.R’ [40s/77s]
 [40s/77s] 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 vignette outputs ... SKIPPED
* checking PDF version of manual ... OK

NOTE: There was 1 note.
See
  ‘/Users/biocbuild/bbs-2.14-bioc/meat/BiocParallel.Rcheck/00check.log’
for details.

BiocParallel.Rcheck/00install.out:

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

BiocParallel.Rcheck/BiocParallel-Ex.timings:

nameusersystemelapsed
AllClasses0.0020.0000.002
BatchJobsParam-class1.8750.0532.011
DoparParam-class0.1300.0161.697
MulticoreParam-class0.0570.0960.070
SerialParam-class0.0070.0010.008
SnowParam-class0.0310.0112.902
bpcontrols0.0030.0010.003
bplapply0.0960.0640.114
bpmapply0.0100.0160.023
bpschedule0.0240.0270.034
bpvec0.1000.0650.119
bpvectorize0.0270.0430.033
register0.0110.0020.013