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BioC experimental data: CHECK report for GWASdata on moscato2

This page was generated on 2015-10-07 16:21:15 -0700 (Wed, 07 Oct 2015).

Package 106/241HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
GWASdata 1.6.0
Stephanie Gogarten , Adrienne Stilp
Snapshot Date: 2015-10-07 07:15:35 -0700 (Wed, 07 Oct 2015)
URL: https://hedgehog.fhcrc.org/bioc-data/branches/RELEASE_3_1/experiment/pkgs/GWASdata
Last Changed Rev: 3279 / Revision: 3442
Last Changed Date: 2015-04-16 13:16:53 -0700 (Thu, 16 Apr 2015)
zin2 Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
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 

Summary

Package: GWASdata
Version: 1.6.0
Command: rm -rf GWASdata.buildbin-libdir GWASdata.Rcheck && mkdir GWASdata.buildbin-libdir GWASdata.Rcheck && E:\biocbld\bbs-3.1-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=GWASdata.buildbin-libdir GWASdata_1.6.0.tar.gz >GWASdata.Rcheck\00install.out 2>&1 && cp GWASdata.Rcheck\00install.out GWASdata-install.out && E:\biocbld\bbs-3.1-bioc\R\bin\R.exe CMD check --library=GWASdata.buildbin-libdir --install="check:GWASdata-install.out" --force-multiarch --no-vignettes --timings GWASdata_1.6.0.tar.gz
StartedAt: 2015-10-07 10:49:46 -0700 (Wed, 07 Oct 2015)
EndedAt: 2015-10-07 10:51:01 -0700 (Wed, 07 Oct 2015)
EllapsedTime: 75.1 seconds
RetCode: 0
Status:  OK  
CheckDir: GWASdata.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf GWASdata.buildbin-libdir GWASdata.Rcheck && mkdir GWASdata.buildbin-libdir GWASdata.Rcheck && E:\biocbld\bbs-3.1-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=GWASdata.buildbin-libdir GWASdata_1.6.0.tar.gz >GWASdata.Rcheck\00install.out 2>&1 && cp GWASdata.Rcheck\00install.out GWASdata-install.out  && E:\biocbld\bbs-3.1-bioc\R\bin\R.exe CMD check --library=GWASdata.buildbin-libdir --install="check:GWASdata-install.out" --force-multiarch --no-vignettes --timings GWASdata_1.6.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'E:/biocbld/bbs-3.1-data-experiment/meat/GWASdata.Rcheck'
* using R version 3.2.2 (2015-08-14)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'GWASdata/DESCRIPTION' ... OK
* this is package 'GWASdata' version '1.6.0'
* 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 ... NOTE
Found the following non-portable file paths:
  GWASdata/inst/extdata/affy_raw_data/GIGAS_g_GAINmixHapMapAffy2_GenomeWideEx_6_A03_31250.BIRDSEED.ALLELE_SUMMARY.TXT
  GWASdata/inst/extdata/affy_raw_data/GIGAS_g_GAINmixHapMapAffy2_GenomeWideEx_6_A03_31250.BIRDSEED.CHP.TXT
  GWASdata/inst/extdata/affy_raw_data/GIGAS_g_GAINmixHapMapAffy2_GenomeWideEx_6_A05_31282.BIRDSEED.ALLELE_SUMMARY.TXT
  GWASdata/inst/extdata/affy_raw_data/GIGAS_g_GAINmixHapMapAffy2_GenomeWideEx_6_A05_31282.BIRDSEED.CHP.TXT
  GWASdata/inst/extdata/affy_raw_data/GIGAS_g_GAINmixHapMapAffy2_GenomeWideEx_6_B02_31236.BIRDSEED.ALLELE_SUMMARY.TXT
  GWASdata/inst/extdata/affy_raw_data/GIGAS_g_GAINmixHapMapAffy2_GenomeWideEx_6_B02_31236.BIRDSEED.CHP.TXT

Tarballs are only required to store paths of up to 100 bytes and cannot
store those of more than 256 bytes, with restrictions including to 100
bytes for the final component.
See section 'Package structure' in the 'Writing R Extensions' manual.
* checking whether package 'GWASdata' can be installed ... OK
* checking installed package size ... NOTE
  installed size is 14.8Mb
  sub-directories of 1Mb or more:
    extdata  14.2Mb
* 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
* 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 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' ... [3s] OK
** running examples for arch 'x64' ... [5s] OK
* checking PDF version of manual ... OK
* DONE

Status: 2 NOTEs
See
  'E:/biocbld/bbs-3.1-data-experiment/meat/GWASdata.Rcheck/00check.log'
for details.


GWASdata.Rcheck/00install.out:


install for i386

* installing *source* package 'GWASdata' ...
** data
** inst
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded

install for x64

* installing *source* package 'GWASdata' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'GWASdata' as GWASdata_1.6.0.zip
* DONE (GWASdata)

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

nameusersystemelapsed
GWASdata-package0.180.000.53

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

nameusersystemelapsed
GWASdata-package0.310.050.89