Package: flowMerge

Version: 2.8.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch flowMerge_2.8.0.tar.gz

StartedAt: 2013-05-01 05:18:22 -0700 (Wed, 01 May 2013)

EndedAt: 2013-05-01 05:21:19 -0700 (Wed, 01 May 2013)

EllapsedTime: 176.5 seconds

RetCode: 0

Status:  OK

CheckDir: flowMerge.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/flowMerge.Rcheck'
* using R version 3.0.0 Patched (2013-04-08 r62531)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: ASCII
* 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 for sufficient/correct file permissions ... OK
* checking whether package 'flowMerge' can be installed ... [15s/17s] OK
* 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
* 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 ... [8s/9s] 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

NOTE: There were 2 notes.
See
  '/Users/biocbuild/bbs-2.12-bioc/meat/flowMerge.Rcheck/00check.log'
for details.

* installing *source* package 'flowMerge' ...
** R
** data
** inst
** preparing package for lazy loading
Warning: replacing previous import 'plot' when loading 'graphics'
Warning in rgl.init(initValue) : RGL: GLX extension missing on server
Warning in fun(libname, pkgname) : error in rgl_init
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 in rgl.init(initValue) : RGL: GLX extension missing on server
Warning in fun(libname, pkgname) : error in rgl_init
Warning: replacing previous import 'Map' when loading 'flowClust'
Warning: replacing previous import 'sort' when loading 'flowCore'
* DONE (flowMerge)

name	user	system	elapsed
NENT	0.015	0.001	0.017
fitPiecewiseLinreg	0.017	0.001	0.017
flowClust.res	0.010	0.001	0.012
flowMerge-package	0.019	0.001	0.021
flowObj	0.010	0.001	0.011
map	0.022	0.002	0.024
merge-methods	0.013	0.001	0.014
merge	0.017	0.000	0.019
pFlowMerge	0.026	0.004	0.039
plot-methods	0.018	0.001	0.019
updateU	0.014	0.001	0.015