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BioC 2.12: CHECK report for RSVSim on george2

This page was generated on 2013-10-09 09:37:59 -0700 (Wed, 09 Oct 2013).

Package 572/671HostnameOS / ArchBUILDCHECKBUILD BIN
RSVSim 1.0.2
Christoph Bartenhagen
Snapshot Date: 2013-10-08 17:00:48 -0700 (Tue, 08 Oct 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_12/madman/Rpacks/RSVSim
Last Changed Rev: 80029 / Revision: 81334
Last Changed Date: 2013-09-04 05:21:54 -0700 (Wed, 04 Sep 2013)
george2 Linux (Ubuntu 12.04.1 LTS) / x86_64  OK [ OK ]
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
petty Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  OK 

Summary

Package: RSVSim
Version: 1.0.2
Command: /home/biocbuild/bbs-2.12-bioc/R/bin/R CMD check --no-vignettes --timings RSVSim_1.0.2.tar.gz
StartedAt: 2013-10-09 04:47:14 -0700 (Wed, 09 Oct 2013)
EndedAt: 2013-10-09 04:52:33 -0700 (Wed, 09 Oct 2013)
EllapsedTime: 319.0 seconds
RetCode: 0
Status:  OK 
CheckDir: RSVSim.Rcheck
Warnings: 0

Command output

* using log directory ‘/home/biocbuild/bbs-2.12-bioc/meat/RSVSim.Rcheck’
* using R version 3.0.1 (2013-05-16)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘RSVSim/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘RSVSim’ version ‘1.0.2’
* 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 ‘RSVSim’ can be installed ... [27s/28s] OK
* checking installed package size ... OK
* checking package 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 for unstated 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 examples ... [42s/44s] OK
Examples with CPU or elapsed time > 5s
             user system elapsed
simulateSV 19.353  0.040  20.520
compareSVs  8.001  0.048   8.433
* 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 vignettes ... SKIPPED
* checking PDF version of manual ... OK

RSVSim.Rcheck/00install.out:

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

RSVSim.Rcheck/RSVSim-Ex.timings:

nameusersystemelapsed
compareSVs8.0010.0488.433
estimateSVSizes0.1000.0040.102
segmentalDuplications0.2320.0000.237
simulateSV19.353 0.04020.520
weightsMechanisms0.0240.0040.027
weightsRepeats0.0080.0120.020