BioC 2.12: CHECK report for flowMerge on moscato2

Package: flowMerge

Version: 2.8.0

Command: rm -rf flowMerge.buildbin-libdir && mkdir flowMerge.buildbin-libdir && E:\biocbld\bbs-2.12-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=flowMerge.buildbin-libdir flowMerge_2.8.0.tar.gz >flowMerge-install.out 2>&1 && E:\biocbld\bbs-2.12-bioc\R\bin\R.exe CMD check --library=flowMerge.buildbin-libdir --install="check:flowMerge-install.out" --force-multiarch --no-vignettes --timings flowMerge_2.8.0.tar.gz && mv flowMerge.buildbin-libdir/* flowMerge.Rcheck/ && rmdir flowMerge.buildbin-libdir

StartedAt: 2013-10-09 02:07:01 -0700 (Wed, 09 Oct 2013)

EndedAt: 2013-10-09 02:10:05 -0700 (Wed, 09 Oct 2013)

EllapsedTime: 184.0 seconds

RetCode: 0

Status: WARNINGS

CheckDir: flowMerge.Rcheck

Warnings: 1

Command output

* using log directory 'E:/biocbld/bbs-2.12-bioc/meat/flowMerge.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 'flowMerge/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'flowMerge' version '2.8.0'
* checking package namespace information ... OK
* checking package dependencies ... NOTE
Packages which this enhances but not available for checking:
  'doMC' 'multicore'
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... NOTE
Found the following hidden files and directories:
  .BBSoptions
These were most likely included in error. See section 'Package
structure' in the 'Writing R Extensions' manual.
* checking for portable file names ... OK
* checking whether package 'flowMerge' can be installed ... WARNING
Found the following significant warnings:
  Warning: package 'rgl' was built under R version 3.0.2
  Warning: package 'rgl' was built under R version 3.0.2
  Warning: package 'rgl' was built under R version 3.0.2
See 'E:/biocbld/bbs-2.12-bioc/meat/flowMerge.Rcheck/00install.out' for details.
* checking installed package size ... OK
* 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 ... 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 installed files from 'inst/doc' ... OK
* checking examples ...
** running examples for arch 'i386' ... [6s] OK
** running examples for arch 'x64' ... [6s] 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 was 1 warning.
NOTE: There were 2 notes.
See
  'E:/biocbld/bbs-2.12-bioc/meat/flowMerge.Rcheck/00check.log'
for details.


install for i386

* installing *source* package 'flowMerge' ...
** R
** data
** inst
** preparing package for lazy loading
Warning: replacing previous import 'plot' when loading 'graphics'
Warning: package 'rgl' was built under R version 3.0.2
Warning: replacing previous import 'Map' when loading 'flowClust'
Warning: replacing previous import 'sort' when loading 'flowCore'
Creating a generic function for 'merge' from package 'base' in package 'flowMerge'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
Warning: replacing previous import 'plot' when loading 'graphics'
Warning: package 'rgl' was built under R version 3.0.2
Warning: replacing previous import 'Map' when loading 'flowClust'
Warning: replacing previous import 'sort' when loading 'flowCore'

install for x64

* installing *source* package 'flowMerge' ...
** testing if installed package can be loaded
Warning: replacing previous import 'plot' when loading 'graphics'
Warning: package 'rgl' was built under R version 3.0.2
Warning: replacing previous import 'Map' when loading 'flowClust'
Warning: replacing previous import 'sort' when loading 'flowCore'
* MD5 sums
packaged installation of 'flowMerge' as flowMerge_2.8.0.zip
* DONE (flowMerge)

BioC 2.12: CHECK report for flowMerge on moscato2

Summary

Command output