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BioC 2.14: CHECK report for gaia on moscato2

This page was generated on 2014-10-08 08:53:41 -0700 (Wed, 08 Oct 2014).

Package 307/824HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
gaia 2.8.0
S. Morganella
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/gaia
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: gaia
Version: 2.8.0
Command: rm -rf gaia.buildbin-libdir && mkdir gaia.buildbin-libdir && E:\biocbld\bbs-2.14-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=gaia.buildbin-libdir gaia_2.8.0.tar.gz >gaia-install.out 2>&1 && E:\biocbld\bbs-2.14-bioc\R\bin\R.exe CMD check --library=gaia.buildbin-libdir --install="check:gaia-install.out" --force-multiarch --no-vignettes --timings gaia_2.8.0.tar.gz
StartedAt: 2014-10-08 01:15:18 -0700 (Wed, 08 Oct 2014)
EndedAt: 2014-10-08 01:16:04 -0700 (Wed, 08 Oct 2014)
EllapsedTime: 46.2 seconds
RetCode: 0
Status:  OK  
CheckDir: gaia.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf gaia.buildbin-libdir && mkdir gaia.buildbin-libdir && E:\biocbld\bbs-2.14-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=gaia.buildbin-libdir gaia_2.8.0.tar.gz >gaia-install.out 2>&1 && E:\biocbld\bbs-2.14-bioc\R\bin\R.exe CMD check --library=gaia.buildbin-libdir --install="check:gaia-install.out" --force-multiarch --no-vignettes --timings gaia_2.8.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'E:/biocbld/bbs-2.14-bioc/meat/gaia.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 'gaia/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'gaia' version '2.8.0'
* 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 'gaia' 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 ... 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 ...
** running examples for arch 'i386' ... [12s] OK
Examples with CPU or elapsed time > 5s
        user system elapsed
runGAIA 6.72      0    6.72
** running examples for arch 'x64' ... [14s] OK
Examples with CPU or elapsed time > 5s
             user system elapsed
runGAIA      7.77   0.01    7.79
gaia-package 5.09   0.00    5.08
* 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

gaia.Rcheck/00install.out:


install for i386

* installing *source* package 'gaia' ...
** 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 'gaia' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'gaia' as gaia_2.8.0.zip
* DONE (gaia)

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

nameusersystemelapsed
crc0.030.000.03
crc_markers0.10.00.1
gaia-package4.490.004.49
load_cnv0.230.010.25
load_markers0.020.000.02
runGAIA6.720.006.72
synthCNV_Matrix000
synthMarkers_Matrix000

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

nameusersystemelapsed
crc0.010.000.01
crc_markers0.080.000.08
gaia-package5.090.005.08
load_cnv0.290.000.30
load_markers0.020.000.01
runGAIA7.770.017.79
synthCNV_Matrix0.010.000.01
synthMarkers_Matrix000