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BioC 2.12: CHECK report for DriverNet on petty

This page was generated on 2013-10-09 09:40:17 -0700 (Wed, 09 Oct 2013).

Package 188/671HostnameOS / ArchBUILDCHECKBUILD BIN
DriverNet 1.0.0
Jiarui Ding
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/DriverNet
Last Changed Rev: 75263 / Revision: 81334
Last Changed Date: 2013-04-03 14:32:27 -0700 (Wed, 03 Apr 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: DriverNet
Version: 1.0.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch DriverNet_1.0.0.tar.gz
StartedAt: 2013-10-08 22:12:36 -0700 (Tue, 08 Oct 2013)
EndedAt: 2013-10-08 22:14:56 -0700 (Tue, 08 Oct 2013)
EllapsedTime: 140.7 seconds
RetCode: 0
Status:  OK 
CheckDir: DriverNet.Rcheck
Warnings: 0

Command output

* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/DriverNet.Rcheck'
* using R version 3.0.1 (2013-05-16)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'DriverNet/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'DriverNet' version '1.0.0'
* 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 'DriverNet' can be installed ... [2s/2s] 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 sizes of PDF files under 'inst/doc' ... OK
* checking installed files from 'inst/doc' ... OK
* checking examples ... [107s/108s] OK
Examples with CPU or elapsed time > 5s
                          user system elapsed
DriverNet-package       50.387  2.708  53.752
computeDrivers          32.957  2.242  35.646
computeRandomizedResult 15.517  0.147  15.817
* 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

DriverNet.Rcheck/00install.out:

* installing *source* package 'DriverNet' ...
** 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 (DriverNet)

DriverNet.Rcheck/DriverNet-Ex.timings:

nameusersystemelapsed
DriverNet-package50.387 2.70853.752
DriverNetResult-class0.0270.0050.032
actualEvents0.0560.0590.117
computeDrivers32.957 2.24235.646
computeRandomizedResult15.517 0.14715.817
drivers0.0520.0520.104
getPatientOutlierMatrix0.3520.0450.396
preprocessMatrices0.2980.0420.342
resultSummary0.3920.0490.447
sampleDriversList0.0300.0050.036
sampleGeneNames0.0510.0150.066
sampleInfluenceGraph0.2340.0210.257
samplePatientExpressionMatrix0.1330.0170.151
samplePatientMutationMatrix0.0190.0050.023
samplePatientOutlierMatrix0.0210.0050.026
sampleRandomDriversResult0.0040.0030.008
totalEvents0.0310.0050.037