Package: anota2seq

Version: 1.5.3

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:anota2seq.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings anota2seq_1.5.3.tar.gz

StartedAt: 2019-04-08 23:14:57 -0400 (Mon, 08 Apr 2019)

EndedAt: 2019-04-08 23:20:07 -0400 (Mon, 08 Apr 2019)

EllapsedTime: 310.3 seconds

RetCode: 0

Status:  OK

CheckDir: anota2seq.Rcheck

Warnings: 0

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:anota2seq.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings anota2seq_1.5.3.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.9-bioc/meat/anota2seq.Rcheck’
* using R Under development (unstable) (2018-11-27 r75683)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘anota2seq/DESCRIPTION’ ... OK
* this is package ‘anota2seq’ version ‘1.5.3’
* 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 ‘anota2seq’ 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 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 sizes of PDF files under ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                               user system elapsed
anota2seqGetQualityControl   49.257  0.381  49.981
anota2seqGetResidOutlierTest 48.942  0.264  49.643
* 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

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL anota2seq
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* installing to library ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library’
* installing *source* package ‘anota2seq’ ...
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (anota2seq)

name	user	system	elapsed
anota2seq-plots	0.000	0.000	0.001
anota2seqAnalyze	1.346	0.035	1.409
anota2seqDataSetFromMatrix	0.204	0.004	0.210
anota2seqGetContrasts	0.677	0.013	0.699
anota2seqGetCovariates	0.836	0.017	0.866
anota2seqGetDeltaData	0.738	0.022	0.771
anota2seqGetNormalizedData	0.056	0.002	0.058
anota2seqGetOutput	0.716	0.011	0.743
anota2seqGetQualityControl	49.257	0.381	49.981
anota2seqGetResidOutlierTest	48.942	0.264	49.643
anota2seqGetThresholds	0.766	0.013	0.793
anota2seqPerformQC	0	0	0
anota2seqRegModes	2.228	0.048	2.339
anota2seqResidOutlierTest	0.001	0.000	0.000
anota2seqRun	2.150	0.035	2.234
anota2seqSelSigGenes	0.768	0.014	0.793
anota2seq_data	0.017	0.003	0.020
show-Anota2seqDataSet-method	0.366	0.007	0.375