BioC 3.3: CHECK report for MultiAssayExperiment on moscato2

Package: MultiAssayExperiment

Version: 0.99.199

Command: rm -rf MultiAssayExperiment.buildbin-libdir MultiAssayExperiment.Rcheck && mkdir MultiAssayExperiment.buildbin-libdir MultiAssayExperiment.Rcheck && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=MultiAssayExperiment.buildbin-libdir MultiAssayExperiment_0.99.199.tar.gz >MultiAssayExperiment.Rcheck\00install.out 2>&1 && cp MultiAssayExperiment.Rcheck\00install.out MultiAssayExperiment-install.out && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD check --library=MultiAssayExperiment.buildbin-libdir --install="check:MultiAssayExperiment-install.out" --force-multiarch --no-vignettes --timings MultiAssayExperiment_0.99.199.tar.gz

StartedAt: 2016-05-02 07:30:02 -0700 (Mon, 02 May 2016)

EndedAt: 2016-05-02 07:33:49 -0700 (Mon, 02 May 2016)

EllapsedTime: 226.6 seconds

RetCode: 0

Status:  OK

CheckDir: MultiAssayExperiment.Rcheck

Warnings: 0

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf MultiAssayExperiment.buildbin-libdir MultiAssayExperiment.Rcheck && mkdir MultiAssayExperiment.buildbin-libdir MultiAssayExperiment.Rcheck && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=MultiAssayExperiment.buildbin-libdir MultiAssayExperiment_0.99.199.tar.gz >MultiAssayExperiment.Rcheck\00install.out 2>&1 && cp MultiAssayExperiment.Rcheck\00install.out MultiAssayExperiment-install.out  && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD check --library=MultiAssayExperiment.buildbin-libdir --install="check:MultiAssayExperiment-install.out" --force-multiarch --no-vignettes --timings MultiAssayExperiment_0.99.199.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'E:/biocbld/bbs-3.3-bioc/meat/MultiAssayExperiment.Rcheck'
* using R version 3.3.0 RC (2016-04-25 r70549)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'MultiAssayExperiment/DESCRIPTION' ... OK
* this is package 'MultiAssayExperiment' version '0.99.199'
* 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 'MultiAssayExperiment' 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 ... 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... [12s] OK
** running examples for arch 'x64' ... [13s] OK
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'testthat.R' [9s]
 [9s] OK
** running tests for arch 'x64' ...
  Running 'testthat.R' [9s]
 [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 vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: OK

install for i386

* installing *source* package 'MultiAssayExperiment' ...
** 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 'MultiAssayExperiment' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'MultiAssayExperiment' as MultiAssayExperiment_0.99.199.zip
* DONE (MultiAssayExperiment)

name	user	system	elapsed
API	0	0	0
Elist-class	0.02	0.00	0.02
Elist-set	0.84	0.03	1.11
Elist	0.06	0.00	0.07
MultiAssayExperiment-class	0.01	0.00	0.01
MultiAssayExperiment	0.32	0.02	0.33
PrepMultiAssay	0.56	0.05	0.61
RangedRaggedAssay	0.21	0.01	0.22
assayMatrix	0.59	0.00	0.59
getHits	1.00	0.02	1.58
hasAssay	0	0	0
mapToList	0.09	0.00	0.09
sampleMap-set	0.34	0.00	0.35
sampleMap	0.02	0.00	0.01
subsetByAssay	0.65	0.03	0.68
subsetByColumn	0.80	0.00	0.92
subsetByRow	0.75	0.00	0.75

name	user	system	elapsed
API	0	0	0
Elist-class	0.01	0.00	0.01
Elist-set	0.89	0.03	0.92
Elist	0.08	0.00	0.08
MultiAssayExperiment-class	0.01	0.00	0.01
MultiAssayExperiment	0.33	0.04	0.41
PrepMultiAssay	0.56	0.00	0.56
RangedRaggedAssay	0.14	0.01	0.15
assayMatrix	0.43	0.02	0.45
getHits	1.05	0.01	1.42
hasAssay	0	0	0
mapToList	0.11	0.00	0.11
sampleMap-set	0.42	0.03	0.45
sampleMap	0.03	0.00	0.03
subsetByAssay	0.70	0.00	0.71
subsetByColumn	1.17	0.02	1.18
subsetByRow	1.25	0.01	1.27