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BioC 3.0: CHECK report for BiocParallel on zin1

This page was generated on 2015-04-10 09:40:24 -0700 (Fri, 10 Apr 2015).

Package 92/933HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
BiocParallel 1.0.3
Bioconductor Package Maintainer
Snapshot Date: 2015-04-09 16:20:12 -0700 (Thu, 09 Apr 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_0/madman/Rpacks/BiocParallel
Last Changed Rev: 99195 / Revision: 102249
Last Changed Date: 2015-02-07 12:52:56 -0800 (Sat, 07 Feb 2015)
zin1 Linux (Ubuntu 12.04.4 LTS) / x86_64  OK  OK [ OK ]
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK  OK 
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  OK  OK 
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  OK  OK 

Summary

Package: BiocParallel
Version: 1.0.3
Command: /home/biocbuild/bbs-3.0-bioc/R/bin/R CMD check --no-vignettes --timings BiocParallel_1.0.3.tar.gz
StartedAt: 2015-04-09 21:58:21 -0700 (Thu, 09 Apr 2015)
EndedAt: 2015-04-09 22:00:38 -0700 (Thu, 09 Apr 2015)
EllapsedTime: 136.9 seconds
RetCode: 0
Status:  OK 
CheckDir: BiocParallel.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.0-bioc/R/bin/R CMD check --no-vignettes --timings BiocParallel_1.0.3.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.0-bioc/meat/BiocParallel.Rcheck’
* using R version 3.1.3 (2015-03-09)
* using platform: x86_64-unknown-linux-gnu (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 ‘1.0.3’
* 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.
* 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 files in ‘vignettes’ ... OK
* checking examples ... [40s/32s] OK
Examples with CPU or elapsed time > 5s
              user system elapsed
bpiterate   22.961    2.1  13.879
bpaggregate  6.104    0.1   6.224
* checking for unstated dependencies in tests ... OK
* checking tests ...
  Running ‘test.R’ [43s/73s]
 [43s/74s] 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
* DONE

NOTE: There was 1 note.
See
  ‘/home/biocbuild/bbs-3.0-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
AllClasses0.0000.0000.001
BatchJobsParam-class1.7680.0201.849
DoparParam-class0.1040.0161.651
MulticoreParam-class0.0120.0280.077
SerialParam-class0.0080.0000.009
SnowParam-class0.0280.0082.459
bpaggregate6.1040.1006.224
bpcontrols0.0040.0000.004
bpiterate22.961 2.10013.879
bplapply4.0010.6200.317
bpmapply0.0000.0360.023
bpresume0.0080.0000.008
bpschedule0.0080.0400.051
bpvec0.2480.0920.316
bpvectorize0.0040.0720.056
register0.0440.0843.819