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Package 357/553HostnameOS / ArchBUILDCHECKBUILD BIN
MSnbase 1.4.1
Laurent Gatto
Snapshot Date: 2012-09-23 17:01:39 -0700 (Sun, 23 Sep 2012)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_10/madman/Rpacks/MSnbase
Last Changed Rev: 68842 / Revision: 69725
Last Changed Date: 2012-08-27 08:04:39 -0700 (Mon, 27 Aug 2012)
lamb2 Linux (openSUSE 11.4) / x86_64  OK  WARNINGS 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK [ WARNINGS ] OK 
petty Mac OS X Leopard (10.5.8) / i386  OK  WARNINGS  OK 

Summary

Package: MSnbase
Version: 1.4.1
Command: rm -rf MSnbase.buildbin-libdir && mkdir MSnbase.buildbin-libdir && E:\biocbld\bbs-2.10-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=MSnbase.buildbin-libdir MSnbase_1.4.1.tar.gz >MSnbase-install.out 2>&1 && E:\biocbld\bbs-2.10-bioc\R\bin\R.exe CMD check --library=MSnbase.buildbin-libdir --install="check:MSnbase-install.out" --force-multiarch --no-vignettes --timings MSnbase_1.4.1.tar.gz && mv MSnbase.buildbin-libdir/* MSnbase.Rcheck/ && rmdir MSnbase.buildbin-libdir
StartedAt: 2012-09-24 01:38:11 -0700 (Mon, 24 Sep 2012)
EndedAt: 2012-09-24 01:43:16 -0700 (Mon, 24 Sep 2012)
EllapsedTime: 305.3 seconds
RetCode: 0
Status:  WARNINGS  
CheckDir: MSnbase.Rcheck
Warnings: 2

Command output

* using log directory 'E:/biocbld/bbs-2.10-bioc/meat/MSnbase.Rcheck'
* using R version 2.15.1 (2012-06-22)
* using platform: i386-pc-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'MSnbase/DESCRIPTION' ... OK
* this is package 'MSnbase' version '1.4.1'
* checking package namespace information ... OK
* checking package dependencies ... NOTE
Package which this enhances but not available for checking: 'doMC'
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking whether package 'MSnbase' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level 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
quantify.MSnExp: no visible global function definition for
  'registerDoMC'
* 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 examples ...
** running examples for arch 'i386' ... WARNING
Found the following significant warnings:

  Warning: 'opts' is deprecated.
  Warning: 'opts' is deprecated.
  Warning: 'opts' is deprecated.
  Warning: 'opts' is deprecated.
  Warning: 'opts' is deprecated.
  Warning: 'opts' is deprecated.
  Warning: 'opts' is deprecated.
  Warning: 'opts' is deprecated.
  Warning: 'opts' is deprecated.
  Warning: 'theme_blank' is deprecated.
  Warning: 'theme_rect' is deprecated.
  Warning: 'opts' is deprecated.
  Warning: 'opts' is deprecated.
  Warning: 'opts' is deprecated.
  Warning: 'opts' is deprecated.
  Warning: 'opts' is deprecated.
  Warning: 'opts' is deprecated.
  Warning: 'opts' is deprecated.
  Warning: 'opts' is deprecated.
Deprecated functions may be defunct as soon as of the next release of
R.
See ?Deprecated.
** running examples for arch 'x64' ... WARNING
Found the following significant warnings:

  Warning: 'opts' is deprecated.
  Warning: 'opts' is deprecated.
  Warning: 'opts' is deprecated.
  Warning: 'opts' is deprecated.
  Warning: 'opts' is deprecated.
  Warning: 'opts' is deprecated.
  Warning: 'opts' is deprecated.
  Warning: 'opts' is deprecated.
  Warning: 'opts' is deprecated.
  Warning: 'theme_blank' is deprecated.
  Warning: 'theme_rect' is deprecated.
  Warning: 'opts' is deprecated.
  Warning: 'opts' is deprecated.
  Warning: 'opts' is deprecated.
  Warning: 'opts' is deprecated.
  Warning: 'opts' is deprecated.
  Warning: 'opts' is deprecated.
  Warning: 'opts' is deprecated.
  Warning: 'opts' is deprecated.
Deprecated functions may be defunct as soon as of the next release of
R.
See ?Deprecated.
* checking for unstated dependencies in tests ... OK
* checking tests ...
** running tests for arch 'i386'
  Running 'test-all.R'
 OK
** running tests for arch 'x64'
  Running 'test-all.R'
 OK
* 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 were 2 warnings.
NOTE: There were 2 notes.
See
  'E:/biocbld/bbs-2.10-bioc/meat/MSnbase.Rcheck/00check.log'
for details.

MSnbase.Rcheck/00install.out:


install for i386

* installing *source* package 'MSnbase' ...
** R
** data
**  moving datasets to lazyload DB
** inst
** preparing package for lazy loading
Creating a generic function for 'plot' from package 'graphics' in package 'MSnbase'
** help
*** installing help indices
** building package indices
** installing vignettes
   'MSnbase-demo.Rnw' 
   'MSnbase-development.Rnw' 
   'MSnbase-io.Rnw' 
** testing if installed package can be loaded

install for x64

* installing *source* package 'MSnbase' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'MSnbase' as MSnbase_1.4.1.zip

* DONE (MSnbase)