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BioC 3.5: CHECK report for webbioc on tokay2

This page was generated on 2017-10-18 14:18:49 -0400 (Wed, 18 Oct 2017).

Package 1368/1381HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
webbioc 1.48.0
Colin A. Smith
Snapshot Date: 2017-10-17 17:00:52 -0400 (Tue, 17 Oct 2017)
URL: https://git.bioconductor.org/packages/webbioc
Branch: RELEASE_3_5
Last Commit: ecb5cda
Last Changed Date: 2017-04-24 15:45:44 -0400 (Mon, 24 Apr 2017)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  NotNeeded  OK [ OK ] OK UNNEEDED, same version exists in internal repository
veracruz2 OS X 10.11.6 El Capitan / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: webbioc
Version: 1.48.0
Command: rm -rf webbioc.buildbin-libdir webbioc.Rcheck && mkdir webbioc.buildbin-libdir webbioc.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=webbioc.buildbin-libdir webbioc_1.48.0.tar.gz >webbioc.Rcheck\00install.out 2>&1 && cp webbioc.Rcheck\00install.out webbioc-install.out && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=webbioc.buildbin-libdir --install="check:webbioc-install.out" --force-multiarch --no-vignettes --timings webbioc_1.48.0.tar.gz
StartedAt: 2017-10-18 03:38:22 -0400 (Wed, 18 Oct 2017)
EndedAt: 2017-10-18 03:41:33 -0400 (Wed, 18 Oct 2017)
EllapsedTime: 190.4 seconds
RetCode: 0
Status:  OK  
CheckDir: webbioc.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### Running command:
###
###   rm -rf webbioc.buildbin-libdir webbioc.Rcheck && mkdir webbioc.buildbin-libdir webbioc.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=webbioc.buildbin-libdir webbioc_1.48.0.tar.gz >webbioc.Rcheck\00install.out 2>&1 && cp webbioc.Rcheck\00install.out webbioc-install.out  &&  C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=webbioc.buildbin-libdir --install="check:webbioc-install.out" --force-multiarch --no-vignettes --timings webbioc_1.48.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.5-bioc/meat/webbioc.Rcheck'
* using R version 3.4.2 Patched (2017-10-07 r73498)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'webbioc/DESCRIPTION' ... OK
* this is package 'webbioc' version '1.48.0'
* checking package namespace information ... OK
* checking package dependencies ... NOTE
Depends: includes the non-default packages:
  'Biobase' 'affy' 'multtest' 'annaffy' 'vsn' 'gcrma' 'qvalue'
Adding so many packages to the search path is excessive and importing
selectively is preferable.
* 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 'webbioc' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Packages listed in more than one of Depends, Imports, Suggests, Enhances:
  'multtest' 'qvalue'
A package should be listed in only one of these fields.
* 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 ... NOTE
Packages in Depends field not imported from:
  'Biobase' 'affy' 'annaffy' 'gcrma' 'vsn'
  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 ... 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ... NONE
* 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
* DONE

Status: 3 NOTEs
See
  'C:/Users/biocbuild/bbs-3.5-bioc/meat/webbioc.Rcheck/00check.log'
for details.


webbioc.Rcheck/00install.out:


install for i386

* installing *source* package 'webbioc' ...
** R
** 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 'webbioc' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'webbioc' as webbioc_1.48.0.zip
* DONE (webbioc)