BioC 3.2: CHECK report for nucleR on moscato1

Package: nucleR

Version: 2.2.0

Command: rm -rf nucleR.buildbin-libdir nucleR.Rcheck && mkdir nucleR.buildbin-libdir nucleR.Rcheck && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=nucleR.buildbin-libdir nucleR_2.2.0.tar.gz >nucleR.Rcheck\00install.out 2>&1 && cp nucleR.Rcheck\00install.out nucleR-install.out && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=nucleR.buildbin-libdir --install="check:nucleR-install.out" --force-multiarch --no-vignettes --timings nucleR_2.2.0.tar.gz

StartedAt: 2016-04-23 05:30:19 -0700 (Sat, 23 Apr 2016)

EndedAt: 2016-04-23 05:36:01 -0700 (Sat, 23 Apr 2016)

EllapsedTime: 342.1 seconds

RetCode: 0

Status:  OK

CheckDir: nucleR.Rcheck

Warnings: 0

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### Running command:
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###   rm -rf nucleR.buildbin-libdir nucleR.Rcheck && mkdir nucleR.buildbin-libdir nucleR.Rcheck && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=nucleR.buildbin-libdir nucleR_2.2.0.tar.gz >nucleR.Rcheck\00install.out 2>&1 && cp nucleR.Rcheck\00install.out nucleR-install.out  && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=nucleR.buildbin-libdir --install="check:nucleR-install.out" --force-multiarch --no-vignettes --timings nucleR_2.2.0.tar.gz
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* using log directory 'D:/biocbld/bbs-3.2-bioc/meat/nucleR.Rcheck'
* using R version 3.2.4 (2016-03-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'nucleR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'nucleR' version '2.2.0'
* 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 'nucleR' 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 ... NOTE
export.bed,GRanges : .local: no visible global function definition for
  'seqnames'
* 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... [13s] OK
** running examples for arch 'x64' ... [13s] 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
  'D:/biocbld/bbs-3.2-bioc/meat/nucleR.Rcheck/00check.log'
for details.

install for i386

* installing *source* package 'nucleR' ...
** R
** data
** 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 'nucleR' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'nucleR' as nucleR_2.2.0.zip
* DONE (nucleR)

name	user	system	elapsed
controlCorrection	0.03	0.00	0.33
coverage.rpm	0.19	0.00	0.18
export.bed	0	0	0
export.wig	0	0	0
filterFFT	0.23	0.03	0.27
fragmentLenDetect	1.60	0.00	1.61
mergeCalls	0.47	0.00	0.47
nucleR-package	0.60	0.02	0.61
pcKeepCompDetect	0.24	0.01	0.39
peakDetection	0.61	0.00	0.61
peakScoring	0.44	0.00	0.44
plotPeaks	0.34	0.00	0.34
processReads	0.12	0.00	0.13
processTilingArray	0	0	0
syntheticNucMap	0.49	0.00	0.48

name	user	system	elapsed
controlCorrection	0.03	0.00	0.03
coverage.rpm	0.12	0.00	0.12
export.bed	0	0	0
export.wig	0	0	0
filterFFT	0.20	0.00	0.25
fragmentLenDetect	1.30	0.00	1.29
mergeCalls	0.39	0.00	0.39
nucleR-package	0.42	0.00	0.42
pcKeepCompDetect	0.18	0.00	0.19
peakDetection	0.55	0.00	0.86
peakScoring	0.16	0.00	0.16
plotPeaks	0.34	0.00	0.34
processReads	0.11	0.00	0.11
processTilingArray	0	0	0
syntheticNucMap	0.32	0.00	0.32