Package: spkTools

Version: 1.39.0

Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:spkTools.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings spkTools_1.39.0.tar.gz

StartedAt: 2019-04-09 03:49:42 -0400 (Tue, 09 Apr 2019)

EndedAt: 2019-04-09 03:51:36 -0400 (Tue, 09 Apr 2019)

EllapsedTime: 114.4 seconds

RetCode: 0

Status:  OK

CheckDir: spkTools.Rcheck

Warnings: 0

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### Running command:
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###   /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:spkTools.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings spkTools_1.39.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.9-bioc/meat/spkTools.Rcheck’
* using R Under development (unstable) (2019-03-18 r76245)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘spkTools/DESCRIPTION’ ... OK
* this is package ‘spkTools’ version ‘1.39.0’
* 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 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 files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
           user system elapsed
spkAll   33.083  0.032  33.532
spkTools 29.150  0.080  29.232
spkGNN    9.957  0.004   9.967
* 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
  ‘/home/biocbuild/bbs-3.9-bioc/meat/spkTools.Rcheck/00check.log’
for details.

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### Running command:
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###   /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL spkTools
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* installing to library ‘/home/biocbuild/bbs-3.9-bioc/R/library’
* installing *source* package ‘spkTools’ ...
** using staged installation
** R
** data
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (spkTools)

name	user	system	elapsed
SpikeInExpressSet-class	0.204	0.004	0.207
plotSpkBox	0.653	0.020	0.674
spkAccSD	0.124	0.000	0.124
spkAll	33.083	0.032	33.532
spkAnova	0.064	0.000	0.063
spkBal	0.15	0.00	0.15
spkBox	0.773	0.068	0.841
spkDensity	0.106	0.004	0.109
spkGNN	9.957	0.004	9.967
spkMA	1.148	0.000	1.148
spkPair	0.102	0.000	0.102
spkPairNS	0.084	0.000	0.085
spkPot	0.683	0.004	0.686
spkQuantile	0.053	0.000	0.054
spkSlope	0.059	0.000	0.059
spkTools	29.150	0.080	29.232
spkVar	0.075	0.000	0.075
summarySpkBox	0.846	0.000	0.846