BioC 3.4: CHECK report for MultiAssayExperiment on morelia

Package: MultiAssayExperiment

Version: 0.101.49

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings MultiAssayExperiment_0.101.49.tar.gz

StartedAt: 2016-09-20 09:43:06 -0700 (Tue, 20 Sep 2016)

EndedAt: 2016-09-20 09:45:06 -0700 (Tue, 20 Sep 2016)

EllapsedTime: 120.0 seconds

RetCode: 0

Status:  OK

CheckDir: MultiAssayExperiment.Rcheck

Warnings: 0

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings MultiAssayExperiment_0.101.49.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.4-bioc/meat/MultiAssayExperiment.Rcheck’
* using R version 3.3.1 (2016-06-21)
* using platform: x86_64-apple-darwin13.4.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘MultiAssayExperiment/DESCRIPTION’ ... OK
* this is package ‘MultiAssayExperiment’ version ‘0.101.49’
* 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 for sufficient/correct file permissions ... 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
* 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 ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 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

* 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
* DONE (MultiAssayExperiment)

name	user	system	elapsed
API	0	0	0
ExperimentList-class	0.009	0.001	0.009
ExperimentList	0.077	0.001	0.077
MultiAssayExperiment-class	0.112	0.001	0.112
MultiAssayExperiment	0.581	0.013	1.090
PrepMultiAssay	0.697	0.025	0.885
RangedRaggedAssay	0.144	0.003	0.153
assay-RangedRaggedAssay-ANY-method	0.272	0.005	0.369
experiments-set	0.294	0.005	0.311
experiments	0.364	0.006	0.887
getHits	0.759	0.010	1.223
hasAssay	0.003	0.000	0.003
mapToList	0.043	0.001	0.047
sampleMap-set	0.313	0.006	0.647
sampleMap	0.019	0.000	0.019
subsetByAssay	0.478	0.007	0.503
subsetByColumn	0.661	0.009	0.788
subsetByRow	0.598	0.007	0.760