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BioC 3.2: CHECK report for SigCheck on moscato1

This page was generated on 2016-04-23 10:20:56 -0700 (Sat, 23 Apr 2016).

Package 970/1103HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
SigCheck 2.2.1
Rory Stark
Snapshot Date: 2016-04-22 16:20:12 -0700 (Fri, 22 Apr 2016)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_2/madman/Rpacks/SigCheck
Last Changed Rev: 111376 / Revision: 116712
Last Changed Date: 2015-12-09 11:21:34 -0800 (Wed, 09 Dec 2015)
zin1 Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
moscato1 Windows Server 2008 R2 Standard (64-bit) / x64  NotNeeded  OK [ OK ] OK UNNEEDED, same version exists in internal repository
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository

Summary

Package: SigCheck
Version: 2.2.1
Command: rm -rf SigCheck.buildbin-libdir SigCheck.Rcheck && mkdir SigCheck.buildbin-libdir SigCheck.Rcheck && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=SigCheck.buildbin-libdir SigCheck_2.2.1.tar.gz >SigCheck.Rcheck\00install.out 2>&1 && cp SigCheck.Rcheck\00install.out SigCheck-install.out && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=SigCheck.buildbin-libdir --install="check:SigCheck-install.out" --force-multiarch --no-vignettes --timings SigCheck_2.2.1.tar.gz
StartedAt: 2016-04-23 07:30:06 -0700 (Sat, 23 Apr 2016)
EndedAt: 2016-04-23 07:47:42 -0700 (Sat, 23 Apr 2016)
EllapsedTime: 1055.0 seconds
RetCode: 0
Status:  OK  
CheckDir: SigCheck.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf SigCheck.buildbin-libdir SigCheck.Rcheck && mkdir SigCheck.buildbin-libdir SigCheck.Rcheck && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=SigCheck.buildbin-libdir SigCheck_2.2.1.tar.gz >SigCheck.Rcheck\00install.out 2>&1 && cp SigCheck.Rcheck\00install.out SigCheck-install.out  && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=SigCheck.buildbin-libdir --install="check:SigCheck-install.out" --force-multiarch --no-vignettes --timings SigCheck_2.2.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'D:/biocbld/bbs-3.2-bioc/meat/SigCheck.Rcheck'
* using R version 3.2.4 (2016-03-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'SigCheck/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'SigCheck' version '2.2.1'
* 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 'SigCheck' 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
** checking loading without being on the library search path ... 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 loading without being on the library search path ... 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 ... NOTE
sigCheckKnown: no visible binding for global variable 'knownSignatures'
* 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' ... [360s] OK
Examples with CPU or elapsed time > 5s
                   user system elapsed
sigCheckAll      169.76   4.91  174.67
sigCheckKnown     95.13   3.26   98.40
sigCheckPermuted  22.73   0.50   23.23
sigCheckPlot      18.43   0.97   19.39
sigCheck          17.41   0.39   22.43
sigCheckRandom    13.49   0.31   13.81
** running examples for arch 'x64' ... [387s] OK
Examples with CPU or elapsed time > 5s
                   user system elapsed
sigCheckAll      178.76   6.04  184.79
sigCheckKnown     99.18   2.95  102.14
sigCheckPermuted  26.85   0.86   27.70
sigCheckPlot      25.55   0.76   26.32
sigCheck          19.36   0.56   20.25
sigCheckRandom    16.06   0.69   16.74
* 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: 1 NOTE
See
  'D:/biocbld/bbs-3.2-bioc/meat/SigCheck.Rcheck/00check.log'
for details.


SigCheck.Rcheck/00install.out:


install for i386

* installing *source* package 'SigCheck' ...
** R
** data
** inst
** preparing package for lazy loading
Creating a new generic function for 'signature' in package 'SigCheck'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing *source* package 'SigCheck' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'SigCheck' as SigCheck_2.2.1.zip
* DONE (SigCheck)

SigCheck.Rcheck/examples_i386/SigCheck-Ex.timings:

nameusersystemelapsed
SigCheckObject-class000
classifyResults0.010.020.03
knownSignatures0.000.060.06
nkiResults0.040.000.04
sigCheck17.41 0.3922.43
sigCheckAll169.76 4.91174.67
sigCheckKnown95.13 3.2698.40
sigCheckPermuted22.73 0.5023.23
sigCheckPlot18.43 0.9719.39
sigCheckRandom13.49 0.3113.81

SigCheck.Rcheck/examples_x64/SigCheck-Ex.timings:

nameusersystemelapsed
SigCheckObject-class000
classifyResults0.050.000.36
knownSignatures0.080.000.07
nkiResults0.040.010.06
sigCheck19.36 0.5620.25
sigCheckAll178.76 6.04184.79
sigCheckKnown 99.18 2.95102.14
sigCheckPermuted26.85 0.8627.70
sigCheckPlot25.55 0.7626.32
sigCheckRandom16.06 0.6916.74