BioC 3.5: CHECK report for consensusSeekeR on tokay2

Package: consensusSeekeR

Version: 1.4.0

Command: rm -rf consensusSeekeR.buildbin-libdir consensusSeekeR.Rcheck && mkdir consensusSeekeR.buildbin-libdir consensusSeekeR.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=consensusSeekeR.buildbin-libdir consensusSeekeR_1.4.0.tar.gz >consensusSeekeR.Rcheck\00install.out 2>&1 && cp consensusSeekeR.Rcheck\00install.out consensusSeekeR-install.out && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=consensusSeekeR.buildbin-libdir --install="check:consensusSeekeR-install.out" --force-multiarch --no-vignettes --timings consensusSeekeR_1.4.0.tar.gz

StartedAt: 2017-08-15 22:55:38 -0400 (Tue, 15 Aug 2017)

EndedAt: 2017-08-15 23:01:40 -0400 (Tue, 15 Aug 2017)

EllapsedTime: 362.2 seconds

RetCode: 0

Status:  OK

CheckDir: consensusSeekeR.Rcheck

Warnings: 0

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf consensusSeekeR.buildbin-libdir consensusSeekeR.Rcheck && mkdir consensusSeekeR.buildbin-libdir consensusSeekeR.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=consensusSeekeR.buildbin-libdir consensusSeekeR_1.4.0.tar.gz >consensusSeekeR.Rcheck\00install.out 2>&1 && cp consensusSeekeR.Rcheck\00install.out consensusSeekeR-install.out  &&  C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=consensusSeekeR.buildbin-libdir --install="check:consensusSeekeR-install.out" --force-multiarch --no-vignettes --timings consensusSeekeR_1.4.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.5-bioc/meat/consensusSeekeR.Rcheck'
* using R version 3.4.1 (2017-06-30)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'consensusSeekeR/DESCRIPTION' ... OK
* this is package 'consensusSeekeR' 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 'consensusSeekeR' 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
* 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 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... OK
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'runTests.R'
 OK
** running tests for arch 'x64' ...
  Running 'runTests.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: OK

install for i386

* installing *source* package 'consensusSeekeR' ...
** 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 'consensusSeekeR' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'consensusSeekeR' as consensusSeekeR_1.4.0.zip
* DONE (consensusSeekeR)

name	user	system	elapsed
A549_CTCF_MYJ_NarrowPeaks_partial	1.11	0.06	1.17
A549_CTCF_MYJ_Peaks_partial	0.53	0.00	0.54
A549_CTCF_MYN_NarrowPeaks_partial	0.25	0.00	0.25
A549_CTCF_MYN_Peaks_partial	0.30	0.02	0.31
A549_FOSL2_01_NarrowPeaks_partial	0.19	0.01	0.20
A549_FOSL2_01_Peaks_partial	0.33	0.02	0.35
A549_FOXA1_01_NarrowPeaks_partial	0.31	0.01	0.33
A549_FOXA1_01_Peaks_partial	0.45	0.00	0.45
A549_NR3C1_CFQ_NarrowPeaks_partial	0.20	0.01	0.22
A549_NR3C1_CFQ_Peaks_partial	0.32	0.02	0.32
A549_NR3C1_CFR_NarrowPeaks_partial	0.20	0.01	0.22
A549_NR3C1_CFR_Peaks_partial	0.22	0.04	0.25
A549_NR3C1_CFS_NarrowPeaks_partial	0.67	0.00	0.68
A549_NR3C1_CFS_Peaks_partial	0.66	0.01	0.67
NOrMAL_nucleosome_positions	0.48	0.03	0.51
NOrMAL_nucleosome_ranges	0.49	0.00	0.49
NucPosSimulator_nucleosome_positions	0.50	0.02	0.51
NucPosSimulator_nucleosome_ranges	0.45	0.03	0.49
PING_nucleosome_positions	0.26	0.01	0.28
PING_nucleosome_ranges	0.25	0.00	0.25
findConsensusPeakRegions	0.65	0.00	0.64
findConsensusPeakRegionsValidation	0.01	0.02	0.04
readNarrowPeakFile	0.13	0.00	0.12

name	user	system	elapsed
A549_CTCF_MYJ_NarrowPeaks_partial	1.26	0.04	1.31
A549_CTCF_MYJ_Peaks_partial	0.61	0.02	0.63
A549_CTCF_MYN_NarrowPeaks_partial	0.30	0.02	0.32
A549_CTCF_MYN_Peaks_partial	0.40	0.03	0.43
A549_FOSL2_01_NarrowPeaks_partial	0.29	0.02	0.30
A549_FOSL2_01_Peaks_partial	0.39	0.03	0.42
A549_FOXA1_01_NarrowPeaks_partial	0.32	0.00	0.33
A549_FOXA1_01_Peaks_partial	0.52	0.01	0.53
A549_NR3C1_CFQ_NarrowPeaks_partial	0.44	0.02	0.46
A549_NR3C1_CFQ_Peaks_partial	0.56	0.03	0.59
A549_NR3C1_CFR_NarrowPeaks_partial	0.33	0.00	0.33
A549_NR3C1_CFR_Peaks_partial	0.29	0.02	0.31
A549_NR3C1_CFS_NarrowPeaks_partial	1.41	0.01	1.42
A549_NR3C1_CFS_Peaks_partial	0.80	0.02	0.82
NOrMAL_nucleosome_positions	0.56	0.01	0.57
NOrMAL_nucleosome_ranges	0.59	0.00	0.60
NucPosSimulator_nucleosome_positions	0.52	0.03	0.54
NucPosSimulator_nucleosome_ranges	0.62	0.00	0.63
PING_nucleosome_positions	0.57	0.04	0.61
PING_nucleosome_ranges	0.34	0.04	0.39
findConsensusPeakRegions	0.81	0.00	0.81
findConsensusPeakRegionsValidation	0.05	0.00	0.05
readNarrowPeakFile	0.12	0.00	0.13