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BioC 2.12: CHECK report for affycoretools on moscato2

This page was generated on 2013-10-09 09:38:14 -0700 (Wed, 09 Oct 2013).

Package 17/671HostnameOS / ArchBUILDCHECKBUILD BIN
affycoretools 1.32.1
James W. MacDonald
Snapshot Date: 2013-10-08 17:00:48 -0700 (Tue, 08 Oct 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_12/madman/Rpacks/affycoretools
Last Changed Rev: 76122 / Revision: 81334
Last Changed Date: 2013-04-29 08:43:33 -0700 (Mon, 29 Apr 2013)
george2 Linux (Ubuntu 12.04.1 LTS) / x86_64  OK  OK 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK [ WARNINGS ] OK 
petty Mac OS X Snow Leopard (10.6.8) / x86_64  OK  WARNINGS  OK 

Summary

Package: affycoretools
Version: 1.32.1
Command: rm -rf affycoretools.buildbin-libdir && mkdir affycoretools.buildbin-libdir && E:\biocbld\bbs-2.12-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=affycoretools.buildbin-libdir affycoretools_1.32.1.tar.gz >affycoretools-install.out 2>&1 && E:\biocbld\bbs-2.12-bioc\R\bin\R.exe CMD check --library=affycoretools.buildbin-libdir --install="check:affycoretools-install.out" --force-multiarch --no-vignettes --timings affycoretools_1.32.1.tar.gz && mv affycoretools.buildbin-libdir/* affycoretools.Rcheck/ && rmdir affycoretools.buildbin-libdir
StartedAt: 2013-10-09 00:51:21 -0700 (Wed, 09 Oct 2013)
EndedAt: 2013-10-09 01:01:08 -0700 (Wed, 09 Oct 2013)
EllapsedTime: 587.6 seconds
RetCode: 0
Status:  WARNINGS  
CheckDir: affycoretools.Rcheck
Warnings: 1

Command output

* using log directory 'E:/biocbld/bbs-2.12-bioc/meat/affycoretools.Rcheck'
* using R version 3.0.1 (2013-05-16)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'affycoretools/DESCRIPTION' ... OK
* this is package 'affycoretools' version '1.32.1'
* 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 'affycoretools' can be installed ... WARNING
Found the following significant warnings:
  Warning: package 'KEGG.db' was built under R version 3.1.0
  Warning: package 'KEGG.db' was built under R version 3.1.0
  Warning: package 'KEGG.db' was built under R version 3.1.0
See 'E:/biocbld/bbs-2.12-bioc/meat/affycoretools.Rcheck/00install.out' for details.
* checking installed package size ... NOTE
  installed size is  7.4Mb
  sub-directories of 1Mb or more:
    doc   7.2Mb
* 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
* 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 for unstated 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
getMainProbes: no visible binding for global variable 'eset'
* 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 installed files from 'inst/doc' ... OK
* checking examples ...
** running examples for arch 'i386' ... [35s] OK
Examples with CPU or elapsed time > 5s
         user system elapsed
plotDeg 12.75   0.04   12.79
** running examples for arch 'x64' ... [35s] OK
Examples with CPU or elapsed time > 5s
         user system elapsed
plotDeg 16.04   0.08   16.11
* 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 vignettes ... SKIPPED
* checking PDF version of manual ... OK

WARNING: There was 1 warning.
NOTE: There were 2 notes.
See
  'E:/biocbld/bbs-2.12-bioc/meat/affycoretools.Rcheck/00check.log'
for details.

affycoretools.Rcheck/00install.out:


install for i386

* installing *source* package 'affycoretools' ...
** R
** inst
** preparing package for lazy loading
Warning: package 'KEGG.db' was built under R version 3.1.0
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
Warning: package 'KEGG.db' was built under R version 3.1.0

install for x64

* installing *source* package 'affycoretools' ...
** testing if installed package can be loaded
Warning: package 'KEGG.db' was built under R version 3.1.0
* MD5 sums
packaged installation of 'affycoretools' as affycoretools_1.32.1.zip
* DONE (affycoretools)