Package: anota2seq

Version: 1.4.2

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_1.4.2.tar.gz

StartedAt: 2019-04-15 22:22:31 -0400 (Mon, 15 Apr 2019)

EndedAt: 2019-04-15 22:27:45 -0400 (Mon, 15 Apr 2019)

EllapsedTime: 314.2 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_1.4.2.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.8-bioc/meat/anota2seq.Rcheck’
* using R version 3.5.3 (2019-03-11)
* 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 ‘1.4.2’
* 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   54.434  0.278  55.360
anota2seqGetResidOutlierTest 52.131  0.346  52.981
* 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/3.5/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	1.980	0.068	2.077
anota2seqDataSetFromMatrix	0.202	0.005	0.207
anota2seqGetContrasts	0.900	0.017	0.930
anota2seqGetCovariates	0.893	0.015	0.922
anota2seqGetDeltaData	0.855	0.016	0.889
anota2seqGetNormalizedData	0.071	0.002	0.073
anota2seqGetOutput	0.800	0.012	0.825
anota2seqGetQualityControl	54.434	0.278	55.360
anota2seqGetResidOutlierTest	52.131	0.346	52.981
anota2seqGetThresholds	0.884	0.013	0.914
anota2seqPerformQC	0.000	0.000	0.001
anota2seqRegModes	2.242	0.048	2.339
anota2seqResidOutlierTest	0.001	0.001	0.001
anota2seqRun	2.223	0.035	2.307
anota2seqSelSigGenes	0.796	0.015	0.823
anota2seq_data	0.016	0.002	0.019
show-Anota2seqDataSet-method	0.289	0.005	0.295