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BioC 2.14: CHECK report for ChIPseeker on zin2

This page was generated on 2014-10-08 08:50:35 -0700 (Wed, 08 Oct 2014).

Package 143/824HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
ChIPseeker 1.0.11
Guangchuang Yu
Snapshot Date: 2014-10-07 17:20:37 -0700 (Tue, 07 Oct 2014)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_14/madman/Rpacks/ChIPseeker
Last Changed Rev: 93370 / Revision: 95116
Last Changed Date: 2014-08-13 21:22:54 -0700 (Wed, 13 Aug 2014)
zin2 Linux (Ubuntu 12.04.4 LTS) / x86_64  OK  OK [ OK ]
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK  OK 
petty Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  OK  OK 
morelia Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  OK  OK 

Summary

Package: ChIPseeker
Version: 1.0.11
Command: /home/biocbuild/bbs-2.14-bioc/R/bin/R CMD check --no-vignettes --timings ChIPseeker_1.0.11.tar.gz
StartedAt: 2014-10-07 22:32:35 -0700 (Tue, 07 Oct 2014)
EndedAt: 2014-10-07 22:39:33 -0700 (Tue, 07 Oct 2014)
EllapsedTime: 418.9 seconds
RetCode: 0
Status:  OK 
CheckDir: ChIPseeker.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### Running command:
###
###   /home/biocbuild/bbs-2.14-bioc/R/bin/R CMD check --no-vignettes --timings ChIPseeker_1.0.11.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-2.14-bioc/meat/ChIPseeker.Rcheck’
* using R version 3.1.1 (2014-07-10)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘ChIPseeker/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘ChIPseeker’ version ‘1.0.11’
* 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 ‘ChIPseeker’ can be installed ... [24s/24s] 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 ... [188s/188s] OK
Examples with CPU or elapsed time > 5s
                user system elapsed
annotatePeak  51.127  0.372  51.709
plotAnnoBar   42.719  0.296  43.134
vennplot      40.826  0.220  41.193
plotDistToTSS 39.507  0.244  39.894
* 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

ChIPseeker.Rcheck/00install.out:

* installing *source* package ‘ChIPseeker’ ...
** 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 (ChIPseeker)

ChIPseeker.Rcheck/ChIPseeker-Ex.timings:

nameusersystemelapsed
annotatePeak51.127 0.37251.709
plotAnnoBar42.719 0.29643.134
plotAnnoPie0.0000.0000.001
plotDistToTSS39.507 0.24439.894
readPeakFile0.0720.0000.072
vennplot40.826 0.22041.193