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BioC 2.14: CHECK report for flowViz on moscato2

This page was generated on 2014-10-08 08:51:51 -0700 (Wed, 08 Oct 2014).

Package 297/824HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
flowViz 1.28.22
Mike Jiang
Snapshot Date: 2014-10-07 17:20:37 -0700 (Tue, 07 Oct 2014)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_14/madman/Rpacks/flowViz
Last Changed Rev: 91183 / Revision: 95116
Last Changed Date: 2014-06-10 14:15:35 -0700 (Tue, 10 Jun 2014)
zin2 Linux (Ubuntu 12.04.4 LTS) / x86_64  OK  OK  OK 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK [ OK ] OK 
petty Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  OK  OK 
morelia Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  OK  OK 

Summary

Package: flowViz
Version: 1.28.22
Command: rm -rf flowViz.buildbin-libdir && mkdir flowViz.buildbin-libdir && E:\biocbld\bbs-2.14-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=flowViz.buildbin-libdir flowViz_1.28.22.tar.gz >flowViz-install.out 2>&1 && E:\biocbld\bbs-2.14-bioc\R\bin\R.exe CMD check --library=flowViz.buildbin-libdir --install="check:flowViz-install.out" --force-multiarch --no-vignettes --timings flowViz_1.28.22.tar.gz
StartedAt: 2014-10-08 01:09:54 -0700 (Wed, 08 Oct 2014)
EndedAt: 2014-10-08 01:14:37 -0700 (Wed, 08 Oct 2014)
EllapsedTime: 282.8 seconds
RetCode: 0
Status:  OK  
CheckDir: flowViz.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf flowViz.buildbin-libdir && mkdir flowViz.buildbin-libdir && E:\biocbld\bbs-2.14-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=flowViz.buildbin-libdir flowViz_1.28.22.tar.gz >flowViz-install.out 2>&1 && E:\biocbld\bbs-2.14-bioc\R\bin\R.exe CMD check --library=flowViz.buildbin-libdir --install="check:flowViz-install.out" --force-multiarch --no-vignettes --timings flowViz_1.28.22.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'E:/biocbld/bbs-2.14-bioc/meat/flowViz.Rcheck'
* using R version 3.1.1 (2014-07-10)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'flowViz/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'flowViz' version '1.28.22'
* 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 'flowViz' 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:
  'flowCore' 'lattice'
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
* 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 dependencies in R code ... NOTE
Unexported objects imported by ':::' calls:
  'flowCore:::findTimeChannel' 'flowCore:::prepareSet'
  'lattice:::updateList'
  See the note in ?`:::` about the use of this operator.
There are ::: calls to the package's namespace in its code. A package
  almost never needs to use ::: for its own objects:
  'evalInFlowFrame'
See the information on DESCRIPTION files in the chapter 'Creating R
packages' of the 'Writing R Extensions' manual.
* 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 ...
** running examples for arch 'i386' ... [95s] OK
Examples with CPU or elapsed time > 5s
                        user system elapsed
xyplot                 21.56   0.17   21.98
densityplot            21.01   0.36   21.47
splom                  12.61   0.17   12.78
latticeMethods-flowSet 12.53   0.14   12.67
timeLinePlot-methods    8.84   0.05    8.89
ecdfplot                8.69   0.07    8.75
** running examples for arch 'x64' ... [97s] OK
Examples with CPU or elapsed time > 5s
                        user system elapsed
xyplot                 24.91   0.10   25.03
densityplot            19.43   0.47   19.89
latticeMethods-flowSet 13.61   0.30   13.90
splom                  12.85   0.14   13.01
ecdfplot                8.50   0.12    8.63
timeLinePlot-methods    7.65   0.05    7.69
* checking for unstated dependencies in vignettes ... NOTE
'::' or ':::' import not declared from: 'data.table'
* 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

NOTE: There were 3 notes.
See
  'E:/biocbld/bbs-2.14-bioc/meat/flowViz.Rcheck/00check.log'
for details.

flowViz.Rcheck/00install.out:


install for i386

* installing *source* package 'flowViz' ...
** 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 'flowViz' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'flowViz' as flowViz_1.28.22.zip
* DONE (flowViz)

flowViz.Rcheck/examples_i386/flowViz-Ex.timings:

nameusersystemelapsed
contour-methods2.230.012.40
densityplot21.01 0.3621.47
ecdfplot8.690.078.75
flowPlot1.780.001.83
flowViz-package000
flowViz.par.get1.870.031.90
latticeMethods-flowSet12.53 0.1412.67
splom12.61 0.1712.78
timeLinePlot-methods8.840.058.89
xyplot21.56 0.1721.98

flowViz.Rcheck/examples_x64/flowViz-Ex.timings:

nameusersystemelapsed
contour-methods2.400.062.46
densityplot19.43 0.4719.89
ecdfplot8.500.128.63
flowPlot1.590.001.60
flowViz-package000
flowViz.par.get1.810.081.89
latticeMethods-flowSet13.61 0.3013.90
splom12.85 0.1413.01
timeLinePlot-methods7.650.057.69
xyplot24.91 0.1025.03