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BioC 2.14: CHECK report for SigFuge on moscato2

This page was generated on 2014-10-08 08:55:47 -0700 (Wed, 08 Oct 2014).

Package 723/824HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
SigFuge 1.2.0
Patrick Kimes
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/SigFuge
Last Changed Rev: 88838 / Revision: 95116
Last Changed Date: 2014-04-11 14:07:21 -0700 (Fri, 11 Apr 2014)
zin2 Linux (Ubuntu 12.04.4 LTS) / x86_64  NotNeeded  OK  OK 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK [ OK ] OK 
petty Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  OK  OK  OK 
morelia Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK  OK 

Summary

Package: SigFuge
Version: 1.2.0
Command: rm -rf SigFuge.buildbin-libdir && mkdir SigFuge.buildbin-libdir && E:\biocbld\bbs-2.14-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=SigFuge.buildbin-libdir SigFuge_1.2.0.tar.gz >SigFuge-install.out 2>&1 && E:\biocbld\bbs-2.14-bioc\R\bin\R.exe CMD check --library=SigFuge.buildbin-libdir --install="check:SigFuge-install.out" --force-multiarch --no-vignettes --timings SigFuge_1.2.0.tar.gz
StartedAt: 2014-10-08 05:06:37 -0700 (Wed, 08 Oct 2014)
EndedAt: 2014-10-08 05:10:43 -0700 (Wed, 08 Oct 2014)
EllapsedTime: 246.5 seconds
RetCode: 0
Status:  OK  
CheckDir: SigFuge.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf SigFuge.buildbin-libdir && mkdir SigFuge.buildbin-libdir && E:\biocbld\bbs-2.14-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=SigFuge.buildbin-libdir SigFuge_1.2.0.tar.gz >SigFuge-install.out 2>&1 && E:\biocbld\bbs-2.14-bioc\R\bin\R.exe CMD check --library=SigFuge.buildbin-libdir --install="check:SigFuge-install.out" --force-multiarch --no-vignettes --timings SigFuge_1.2.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'E:/biocbld/bbs-2.14-bioc/meat/SigFuge.Rcheck'
* using R version 3.1.1 (2014-07-10)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'SigFuge/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'SigFuge' version '1.2.0'
* 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 whether package 'SigFuge' 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
SFfigure: no visible binding for global variable 'base'
SFfigure: no visible binding for global variable 's'
SFfigure: no visible binding for global variable 'e'
SFfigure: no visible binding for global variable 'cluster'
SFfigure: no visible binding for global variable 'x'
SFfigure: no visible binding for global variable 'y1'
SFfigure: no visible binding for global variable 'label'
SFfigure: no visible binding for global variable 'value'
SFfigure: no visible binding for global variable 'Clusters'
SFfigure: no visible binding for global variable 'y2'
* 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' ... [55s] OK
Examples with CPU or elapsed time > 5s
          user system elapsed
SFfigure 31.31   0.24   31.61
SFpval   15.66   0.31   15.98
** running examples for arch 'x64' ... [49s] OK
Examples with CPU or elapsed time > 5s
          user system elapsed
SFfigure 26.63   0.22   26.85
SFpval   14.54   0.43   14.98
* 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

NOTE: There was 1 note.
See
  'E:/biocbld/bbs-2.14-bioc/meat/SigFuge.Rcheck/00check.log'
for details.

SigFuge.Rcheck/00install.out:


install for i386

* installing *source* package 'SigFuge' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing *source* package 'SigFuge' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'SigFuge' as SigFuge_1.2.0.zip
* DONE (SigFuge)

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

nameusersystemelapsed
SFfigure31.31 0.2431.61
SFlabels1.980.052.03
SFnormalize0.190.000.19
SFpval15.66 0.3115.98

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

nameusersystemelapsed
SFfigure26.63 0.2226.85
SFlabels2.080.022.09
SFnormalize0.180.000.18
SFpval14.54 0.4314.98