BioC 3.6: CHECK report for consensusSeekeR on tokay1

Package: consensusSeekeR

Version: 1.5.0

Command: rm -rf consensusSeekeR.buildbin-libdir consensusSeekeR.Rcheck && mkdir consensusSeekeR.buildbin-libdir consensusSeekeR.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=consensusSeekeR.buildbin-libdir consensusSeekeR_1.5.0.tar.gz >consensusSeekeR.Rcheck\00install.out 2>&1 && cp consensusSeekeR.Rcheck\00install.out consensusSeekeR-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=consensusSeekeR.buildbin-libdir --install="check:consensusSeekeR-install.out" --force-multiarch --no-vignettes --timings consensusSeekeR_1.5.0.tar.gz

StartedAt: 2017-08-15 22:39:10 -0400 (Tue, 15 Aug 2017)

EndedAt: 2017-08-15 22:45:17 -0400 (Tue, 15 Aug 2017)

EllapsedTime: 367.2 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-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=consensusSeekeR.buildbin-libdir consensusSeekeR_1.5.0.tar.gz >consensusSeekeR.Rcheck\00install.out 2>&1 && cp consensusSeekeR.Rcheck\00install.out consensusSeekeR-install.out  &&  C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=consensusSeekeR.buildbin-libdir --install="check:consensusSeekeR-install.out" --force-multiarch --no-vignettes --timings consensusSeekeR_1.5.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.6-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 '1.5.0'
* 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_1.5.0.zip
* DONE (consensusSeekeR)

name	user	system	elapsed
A549_CTCF_MYJ_NarrowPeaks_partial	1.30	0.07	1.37
A549_CTCF_MYJ_Peaks_partial	0.55	0.04	0.58
A549_CTCF_MYN_NarrowPeaks_partial	0.25	0.01	0.26
A549_CTCF_MYN_Peaks_partial	0.36	0.02	0.38
A549_FOSL2_01_NarrowPeaks_partial	0.25	0.01	0.26
A549_FOSL2_01_Peaks_partial	0.31	0.01	0.33
A549_FOXA1_01_NarrowPeaks_partial	0.46	0.04	0.48
A549_FOXA1_01_Peaks_partial	0.62	0.03	0.66
A549_NR3C1_CFQ_NarrowPeaks_partial	0.39	0.01	0.41
A549_NR3C1_CFQ_Peaks_partial	0.54	0.02	0.56
A549_NR3C1_CFR_NarrowPeaks_partial	0.36	0.01	0.38
A549_NR3C1_CFR_Peaks_partial	0.31	0.02	0.33
A549_NR3C1_CFS_NarrowPeaks_partial	1.13	0.03	1.16
A549_NR3C1_CFS_Peaks_partial	1.15	0.02	1.17
NOrMAL_nucleosome_positions	0.80	0.03	0.83
NOrMAL_nucleosome_ranges	0.81	0.03	0.84
NucPosSimulator_nucleosome_positions	0.78	0.05	0.83
NucPosSimulator_nucleosome_ranges	0.75	0.06	0.81
PING_nucleosome_positions	0.49	0.04	0.53
PING_nucleosome_ranges	0.45	0.04	0.49
findConsensusPeakRegions	0.92	0.00	0.92
findConsensusPeakRegionsValidation	0.07	0.00	0.06
readNarrowPeakFile	0.12	0.00	0.13

name	user	system	elapsed
A549_CTCF_MYJ_NarrowPeaks_partial	2.11	0.08	2.19
A549_CTCF_MYJ_Peaks_partial	0.69	0.01	0.71
A549_CTCF_MYN_NarrowPeaks_partial	0.31	0.02	0.33
A549_CTCF_MYN_Peaks_partial	0.41	0.02	0.42
A549_FOSL2_01_NarrowPeaks_partial	0.28	0.01	0.30
A549_FOSL2_01_Peaks_partial	0.41	0.00	0.41
A549_FOXA1_01_NarrowPeaks_partial	0.38	0.00	0.37
A549_FOXA1_01_Peaks_partial	0.50	0.01	0.52
A549_NR3C1_CFQ_NarrowPeaks_partial	0.33	0.00	0.32
A549_NR3C1_CFQ_Peaks_partial	0.37	0.03	0.41
A549_NR3C1_CFR_NarrowPeaks_partial	0.28	0.02	0.30
A549_NR3C1_CFR_Peaks_partial	0.33	0.00	0.33
A549_NR3C1_CFS_NarrowPeaks_partial	0.89	0.03	0.92
A549_NR3C1_CFS_Peaks_partial	1.39	0.00	1.39
NOrMAL_nucleosome_positions	0.61	0.03	0.64
NOrMAL_nucleosome_ranges	0.65	0.00	0.66
NucPosSimulator_nucleosome_positions	0.71	0.02	0.72
NucPosSimulator_nucleosome_ranges	0.61	0.03	0.64
PING_nucleosome_positions	0.36	0.01	0.37
PING_nucleosome_ranges	0.32	0.04	0.36
findConsensusPeakRegions	0.82	0.03	0.85
findConsensusPeakRegionsValidation	0.04	0.00	0.04
readNarrowPeakFile	0.14	0.00	0.15