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CHECK report for spkTools on veracruz1

This page was generated on 2018-04-12 13:33:05 -0400 (Thu, 12 Apr 2018).

Package 1332/1472HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
spkTools 1.34.0
Matthew N McCall
Snapshot Date: 2018-04-11 16:45:18 -0400 (Wed, 11 Apr 2018)
URL: https://git.bioconductor.org/packages/spkTools
Branch: RELEASE_3_6
Last Commit: 7a5e55f
Last Changed Date: 2017-10-30 12:39:25 -0400 (Mon, 30 Oct 2017)
malbec1 Linux (Ubuntu 16.04.1 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
tokay1 Windows Server 2012 R2 Standard / x64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository
veracruz1 OS X 10.11.6 El Capitan / x86_64  NotNeeded  OK [ OK ] OK UNNEEDED, same version exists in internal repository

Summary

Package: spkTools
Version: 1.34.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings spkTools_1.34.0.tar.gz
StartedAt: 2018-04-12 09:52:51 -0400 (Thu, 12 Apr 2018)
EndedAt: 2018-04-12 09:54:07 -0400 (Thu, 12 Apr 2018)
EllapsedTime: 76.0 seconds
RetCode: 0
Status:  OK 
CheckDir: spkTools.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings spkTools_1.34.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.6-bioc/meat/spkTools.Rcheck’
* using R version 3.4.4 (2018-03-15)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘spkTools/DESCRIPTION’ ... OK
* this is package ‘spkTools’ version ‘1.34.0’
* 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 ‘spkTools’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Package listed in more than one of Depends, Imports, Suggests, Enhances:
  ‘Biobase’
A package should be listed in only one of these fields.
* 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 loading without being on the library search path ... OK
* checking 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 ... 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 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 files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
           user system elapsed
spkTools 12.676  1.083  14.084
spkAll   12.295  0.807  13.388
* 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-3.6-bioc/meat/spkTools.Rcheck/00check.log’
for details.



Installation output

spkTools.Rcheck/00install.out

* installing *source* package ‘spkTools’ ...
** 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 (spkTools)

Tests output


Example timings

spkTools.Rcheck/spkTools-Ex.timings

nameusersystemelapsed
SpikeInExpressSet-class0.4920.0040.506
plotSpkBox0.7840.0360.847
spkAccSD1.1010.0161.155
spkAll12.295 0.80713.388
spkAnova0.1230.0020.131
spkBal0.1040.0030.107
spkBox0.8040.1711.001
spkDensity0.1440.0050.155
spkGNN3.7850.2924.170
spkMA1.3470.0291.418
spkPair0.0950.0060.100
spkPairNS0.1410.0080.152
spkPot0.7370.0140.771
spkQuantile0.0700.0020.077
spkSlope0.0690.0030.074
spkTools12.676 1.08314.084
spkVar0.0510.0010.054
summarySpkBox0.6280.0220.660