BioC 3.4: CHECK report for BiocParallel on morelia

Package: BiocParallel

Version: 1.7.8

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings BiocParallel_1.7.8.tar.gz

StartedAt: 2016-09-20 03:42:10 -0700 (Tue, 20 Sep 2016)

EndedAt: 2016-09-20 03:44:34 -0700 (Tue, 20 Sep 2016)

EllapsedTime: 144.2 seconds

RetCode: 0

Status:  OK

CheckDir: BiocParallel.Rcheck

Warnings: 0

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings BiocParallel_1.7.8.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.4-bioc/meat/BiocParallel.Rcheck’
* using R version 3.3.1 (2016-06-21)
* using platform: x86_64-apple-darwin13.4.0 (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 ‘1.7.8’
* 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 ... 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:
  ‘BatchJobs:::checkDir’ ‘parallel:::closeNode’ ‘parallel:::recvData’
  ‘parallel:::recvOneData’ ‘parallel:::sendData’
  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 sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                 user system elapsed
bpaggregate     4.549  0.169   6.222
SnowParam-class 0.220  0.031   5.561
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘test.R’
 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

Status: 1 NOTE
See
  ‘/Users/biocbuild/bbs-3.4-bioc/meat/BiocParallel.Rcheck/00check.log’
for details.

* 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)

name	user	system	elapsed
BatchJobsParam-class	1.720	0.045	1.838
BiocParallelParam-class	0.001	0.001	0.002
DoparParam-class	0.001	0.000	0.000
MulticoreParam-class	0.217	0.087	3.292
SerialParam-class	0.012	0.002	0.013
SnowParam-class	0.220	0.031	5.561
bpaggregate	4.549	0.169	6.222
bpiterate	0.003	0.001	0.002
bplapply	0.014	0.028	1.699
bploop	0.001	0.000	0.000
bpmapply	0.021	0.039	1.543
bpok	0.066	0.023	3.010
bpschedule	0.035	0.017	1.435
bptry	0.021	0.057	3.241
bpvalidate	0.238	0.056	0.295
bpvec	0.274	0.077	2.084
bpvectorize	0.023	0.019	1.840
register	0.033	0.064	3.364