BioC 3.5: CHECK report for consensusSeekeR on veracruz2

Package: consensusSeekeR

Version: 1.4.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings consensusSeekeR_1.4.0.tar.gz

StartedAt: 2017-10-18 02:06:52 -0400 (Wed, 18 Oct 2017)

EndedAt: 2017-10-18 02:10:50 -0400 (Wed, 18 Oct 2017)

EllapsedTime: 237.6 seconds

RetCode: 0

Status:  OK

CheckDir: consensusSeekeR.Rcheck

Warnings: 0

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings consensusSeekeR_1.4.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.5-bioc/meat/consensusSeekeR.Rcheck’
* using R version 3.4.2 (2017-09-28)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* 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 for sufficient/correct file permissions ... 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
* 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 ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  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

* 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
* DONE (consensusSeekeR)

name	user	system	elapsed
A549_CTCF_MYJ_NarrowPeaks_partial	1.821	0.049	1.920
A549_CTCF_MYJ_Peaks_partial	0.849	0.011	0.880
A549_CTCF_MYN_NarrowPeaks_partial	0.362	0.007	0.388
A549_CTCF_MYN_Peaks_partial	0.507	0.010	0.529
A549_FOSL2_01_NarrowPeaks_partial	0.291	0.008	0.304
A549_FOSL2_01_Peaks_partial	0.466	0.011	0.494
A549_FOXA1_01_NarrowPeaks_partial	0.429	0.009	0.456
A549_FOXA1_01_Peaks_partial	0.638	0.009	0.680
A549_NR3C1_CFQ_NarrowPeaks_partial	0.345	0.009	0.366
A549_NR3C1_CFQ_Peaks_partial	0.505	0.014	0.530
A549_NR3C1_CFR_NarrowPeaks_partial	0.329	0.009	0.347
A549_NR3C1_CFR_Peaks_partial	0.310	0.008	0.325
A549_NR3C1_CFS_NarrowPeaks_partial	1.002	0.014	1.042
A549_NR3C1_CFS_Peaks_partial	0.963	0.014	1.019
NOrMAL_nucleosome_positions	0.683	0.013	0.721
NOrMAL_nucleosome_ranges	0.607	0.013	0.646
NucPosSimulator_nucleosome_positions	0.622	0.012	0.650
NucPosSimulator_nucleosome_ranges	0.727	0.013	0.763
PING_nucleosome_positions	0.404	0.011	0.422
PING_nucleosome_ranges	0.325	0.011	0.343
findConsensusPeakRegions	0.889	0.013	0.935
findConsensusPeakRegionsValidation	0.048	0.006	0.055
readNarrowPeakFile	0.190	0.002	0.195