BioC 3.2: CHECK report for flowPlots on moscato1

Package: flowPlots

Version: 1.17.0

Command: rm -rf flowPlots.buildbin-libdir flowPlots.Rcheck && mkdir flowPlots.buildbin-libdir flowPlots.Rcheck && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=flowPlots.buildbin-libdir flowPlots_1.17.0.tar.gz >flowPlots.Rcheck\00install.out 2>&1 && cp flowPlots.Rcheck\00install.out flowPlots-install.out && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=flowPlots.buildbin-libdir --install="check:flowPlots-install.out" --force-multiarch --no-vignettes --timings flowPlots_1.17.0.tar.gz

StartedAt: 2015-08-20 04:30:05 -0700 (Thu, 20 Aug 2015)

EndedAt: 2015-08-20 04:31:25 -0700 (Thu, 20 Aug 2015)

EllapsedTime: 80.9 seconds

RetCode: 0

Status:  OK

CheckDir: flowPlots.Rcheck

Warnings: 0

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### Running command:
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###   rm -rf flowPlots.buildbin-libdir flowPlots.Rcheck && mkdir flowPlots.buildbin-libdir flowPlots.Rcheck && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=flowPlots.buildbin-libdir flowPlots_1.17.0.tar.gz >flowPlots.Rcheck\00install.out 2>&1 && cp flowPlots.Rcheck\00install.out flowPlots-install.out  && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=flowPlots.buildbin-libdir --install="check:flowPlots-install.out" --force-multiarch --no-vignettes --timings flowPlots_1.17.0.tar.gz
###
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* using log directory 'D:/biocbld/bbs-3.2-bioc/meat/flowPlots.Rcheck'
* using R version 3.2.2 (2015-08-14)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'flowPlots/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'flowPlots' version '1.17.0'
* 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 'flowPlots' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' 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
** 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
Package in Depends field not imported from: 'methods'
  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 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 files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... [15s] OK
Examples with CPU or elapsed time > 5s
                  user system elapsed
StackedData-class 6.27      0    6.27
** running examples for arch 'x64' ... [17s] OK
Examples with CPU or elapsed time > 5s
                  user system elapsed
StackedData-class 7.26   0.02    7.27
* 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: 1 NOTE
See
  'D:/biocbld/bbs-3.2-bioc/meat/flowPlots.Rcheck/00check.log'
for details.

install for i386

* installing *source* package 'flowPlots' ...
** R
** data
*** moving datasets to lazyload DB
** 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 'flowPlots' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'flowPlots' as flowPlots_1.17.0.zip
* DONE (flowPlots)

name	user	system	elapsed
GroupListBoxplot	0.14	0.00	0.28
StackedData-class	6.27	0.00	6.27
adultsNeonates	0	0	0
computeMarginalData-methods	1.53	0.00	1.53
computeMarkers-methods	0	0	0
computePFDData-methods	1.61	0.00	1.61
computePFDGroupStatsList	0.45	0.00	0.45
computePFDPartsData-methods	1.64	0.02	1.65
computeProfileData-methods	1.75	0.00	1.75
legendPFDStatsGroupNames	0.07	0.00	0.08
makeBarplotData	0.02	0.00	0.02
makeDataList	0.03	0.00	0.03
makeTernaryData	0.08	0.00	0.07
marginalDF	0	0	0
marginalData-methods	0	0	0
markerMatrix	0	0	0
markers-methods	0	0	0
pfdDF	0	0	0
pfdData-methods	0	0	0
pfdPartsData-methods	0	0	0
pfdPartsList	0.02	0.00	0.02
profileDF	0	0	0
profileData-methods	0	0	0
readStackedData-methods	0.06	0.00	0.06
stackedData-methods	0.10	0.00	0.09

name	user	system	elapsed
GroupListBoxplot	0.14	0.03	0.17
StackedData-class	7.26	0.02	7.27
adultsNeonates	0	0	0
computeMarginalData-methods	1.81	0.00	1.80
computeMarkers-methods	0.02	0.00	0.02
computePFDData-methods	1.45	0.00	1.45
computePFDGroupStatsList	0.40	0.03	0.44
computePFDPartsData-methods	2.36	0.00	2.35
computeProfileData-methods	2.28	0.00	2.28
legendPFDStatsGroupNames	0.08	0.00	0.08
makeBarplotData	0	0	0
makeDataList	0.05	0.00	0.05
makeTernaryData	0.11	0.00	0.11
marginalDF	0	0	0
marginalData-methods	0.01	0.00	0.02
markerMatrix	0	0	0
markers-methods	0	0	0
pfdDF	0	0	0
pfdData-methods	0	0	0
pfdPartsData-methods	0	0	0
pfdPartsList	0.00	0.01	0.02
profileDF	0	0	0
profileData-methods	0	0	0
readStackedData-methods	0.11	0.00	0.11
stackedData-methods	0.18	0.02	0.20