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BioC experimental data: CHECK report for GGdata on moscato1

This page was generated on 2015-04-08 17:40:55 -0700 (Wed, 08 Apr 2015).

Package 91/219HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
GGdata 1.3.1
VJ Carey
Snapshot Date: 2015-04-08 06:15:26 -0700 (Wed, 08 Apr 2015)
URL: https://hedgehog.fhcrc.org/bioc-data/branches/RELEASE_3_0/experiment/pkgs/GGdata
Last Changed Rev: 3075 / Revision: 3266
Last Changed Date: 2014-10-13 14:52:40 -0700 (Mon, 13 Oct 2014)
zin1 Linux (Ubuntu 12.04.4 LTS) / x86_64  OK  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK [ OK ] OK 
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  OK  OK 

Summary

Package: GGdata
Version: 1.3.1
Command: rm -rf GGdata.buildbin-libdir GGdata.Rcheck && mkdir GGdata.buildbin-libdir GGdata.Rcheck && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=GGdata.buildbin-libdir GGdata_1.3.1.tar.gz >GGdata.Rcheck\00install.out 2>&1 && cp GGdata.Rcheck\00install.out GGdata-install.out && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD check --library=GGdata.buildbin-libdir --install="check:GGdata-install.out" --force-multiarch --no-vignettes --timings GGdata_1.3.1.tar.gz
StartedAt: 2015-04-08 10:23:23 -0700 (Wed, 08 Apr 2015)
EndedAt: 2015-04-08 10:31:43 -0700 (Wed, 08 Apr 2015)
EllapsedTime: 500.5 seconds
RetCode: 0
Status:  OK  
CheckDir: GGdata.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### Running command:
###
###   rm -rf GGdata.buildbin-libdir GGdata.Rcheck && mkdir GGdata.buildbin-libdir GGdata.Rcheck && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=GGdata.buildbin-libdir GGdata_1.3.1.tar.gz >GGdata.Rcheck\00install.out 2>&1 && cp GGdata.Rcheck\00install.out GGdata-install.out  && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD check --library=GGdata.buildbin-libdir --install="check:GGdata-install.out" --force-multiarch --no-vignettes --timings GGdata_1.3.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'D:/biocbld/bbs-3.0-data-experiment/meat/GGdata.Rcheck'
* using R version 3.1.3 (2015-03-09)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'GGdata/DESCRIPTION' ... OK
* this is package 'GGdata' version '1.3.1'
* 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 'GGdata' can be installed ... OK
* checking installed package size ... NOTE
  installed size is 71.9Mb
  sub-directories of 1Mb or more:
    data   21.1Mb
    parts  50.8Mb
* 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
* 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
* 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 dependencies in R code ... NOTE
Packages in Depends field not imported from:
  'AnnotationDbi' 'GGBase' 'illuminaHumanv1.db' 'methods' 'snpStats'
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
File 'GGdata/R/zzz.R':
  .onLoad calls:
    packageStartupMessage(paste("To get a tailored smlSet, use getSS(\"",     pkgname, "\", [chrvec])", sep = ""), "\n")
    packageStartupMessage("available chromosomes are named ", paste(selectSome(cn),     collapse = ", "), "\n")

See section 'Good practice' in '?.onAttach'.
* 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 examples ...
** running examples for arch 'i386' ... [122s] OK
Examples with CPU or elapsed time > 5s
              user system elapsed
hmceuB36-pkg 17.33   0.85  110.52
** running examples for arch 'x64' ... [32s] OK
Examples with CPU or elapsed time > 5s
              user system elapsed
hmceuB36-pkg 19.22   0.58   20.06
* checking PDF version of manual ... OK
* DONE

NOTE: There were 3 notes.
See
  'D:/biocbld/bbs-3.0-data-experiment/meat/GGdata.Rcheck/00check.log'
for details.

GGdata.Rcheck/00install.out:


install for i386

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

install for x64

* installing *source* package 'GGdata' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'GGdata' as GGdata_1.3.1.zip
* DONE (GGdata)

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

nameusersystemelapsed
hmceuB36-pkg 17.33 0.85110.52

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

nameusersystemelapsed
hmceuB36-pkg19.22 0.5820.06