BioC 3.5: CHECK report for BadRegionFinder on tokay2

Package: BadRegionFinder

Version: 1.4.0

Command: rm -rf BadRegionFinder.buildbin-libdir BadRegionFinder.Rcheck && mkdir BadRegionFinder.buildbin-libdir BadRegionFinder.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=BadRegionFinder.buildbin-libdir BadRegionFinder_1.4.0.tar.gz >BadRegionFinder.Rcheck\00install.out 2>&1 && cp BadRegionFinder.Rcheck\00install.out BadRegionFinder-install.out && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=BadRegionFinder.buildbin-libdir --install="check:BadRegionFinder-install.out" --force-multiarch --no-vignettes --timings BadRegionFinder_1.4.0.tar.gz

StartedAt: 2017-10-17 22:08:10 -0400 (Tue, 17 Oct 2017)

EndedAt: 2017-10-17 22:14:01 -0400 (Tue, 17 Oct 2017)

EllapsedTime: 350.1 seconds

RetCode: 0

Status:  OK

CheckDir: BadRegionFinder.Rcheck

Warnings: 0

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### Running command:
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###   rm -rf BadRegionFinder.buildbin-libdir BadRegionFinder.Rcheck && mkdir BadRegionFinder.buildbin-libdir BadRegionFinder.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=BadRegionFinder.buildbin-libdir BadRegionFinder_1.4.0.tar.gz >BadRegionFinder.Rcheck\00install.out 2>&1 && cp BadRegionFinder.Rcheck\00install.out BadRegionFinder-install.out  &&  C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=BadRegionFinder.buildbin-libdir --install="check:BadRegionFinder-install.out" --force-multiarch --no-vignettes --timings BadRegionFinder_1.4.0.tar.gz
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* using log directory 'C:/Users/biocbuild/bbs-3.5-bioc/meat/BadRegionFinder.Rcheck'
* using R version 3.4.2 Patched (2017-10-07 r73498)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'BadRegionFinder/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'BadRegionFinder' version '1.4.0'
* 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 whether package 'BadRegionFinder' 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
* loading checks for arch 'i386'
** 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
* loading checks for arch 'x64'
** 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
                 user system elapsed
plotDetailed     6.25   0.33   10.97
plotSummaryGenes 3.05   0.03    6.17
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
                  user system elapsed
plotDetailed     10.10   0.17   13.37
plotSummaryGenes  4.47   0.05    8.74
* 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: OK

install for i386

* installing *source* package 'BadRegionFinder' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing *source* package 'BadRegionFinder' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'BadRegionFinder' as BadRegionFinder_1.4.0.zip
* DONE (BadRegionFinder)

name	user	system	elapsed
BadRegionFinder-package	0.21	0.03	0.24
determineCoverage	0	0	0
determineCoverageQuality	0	0	0
determineQuantiles	0.12	0.03	0.15
determineRegionsOfInterest	0	0	0
plotDetailed	6.25	0.33	10.97
plotSummary	0.12	0.02	0.14
plotSummaryGenes	3.05	0.03	6.17
reportBadRegionsDetailed	0.17	0.03	0.20
reportBadRegionsGenes	0.17	0.03	0.21
reportBadRegionsSummary	0.52	0.03	0.54

name	user	system	elapsed
BadRegionFinder-package	0.38	0.03	0.41
determineCoverage	0.01	0.00	0.01
determineCoverageQuality	0	0	0
determineQuantiles	0.17	0.05	0.22
determineRegionsOfInterest	0	0	0
plotDetailed	10.10	0.17	13.37
plotSummary	0.17	0.01	0.19
plotSummaryGenes	4.47	0.05	8.74
reportBadRegionsDetailed	0.34	0.03	0.38
reportBadRegionsGenes	0.34	0.03	0.37
reportBadRegionsSummary	0.26	0.03	0.29