Package: anota2seq

Version: 1.8.0

Command: /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:anota2seq.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings anota2seq_1.8.0.tar.gz

StartedAt: 2020-04-15 05:12:28 -0400 (Wed, 15 Apr 2020)

EndedAt: 2020-04-15 05:17:57 -0400 (Wed, 15 Apr 2020)

EllapsedTime: 329.0 seconds

RetCode: 0

Status:  OK

CheckDir: anota2seq.Rcheck

Warnings: 0

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### Running command:
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###   /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:anota2seq.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings anota2seq_1.8.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.10-bioc/meat/anota2seq.Rcheck’
* using R version 3.6.3 (2020-02-29)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘anota2seq/DESCRIPTION’ ... OK
* this is package ‘anota2seq’ version ‘1.8.0’
* 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 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 files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                               user system elapsed
anota2seqGetQualityControl   47.504  0.020  47.865
anota2seqGetResidOutlierTest 43.452  0.016  43.558
* 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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###   /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD INSTALL anota2seq
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* installing to library ‘/home/biocbuild/bbs-3.10-bioc/R/library’
* installing *source* package ‘anota2seq’ ...
** using staged installation
** 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 from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (anota2seq)

name	user	system	elapsed
anota2seq-plots	0.004	0.000	0.000
anota2seqAnalyze	1.336	0.016	1.360
anota2seqDataSetFromMatrix	0.724	0.000	0.722
anota2seqGetContrasts	0.856	0.000	0.862
anota2seqGetCovariates	0.868	0.008	0.876
anota2seqGetDeltaData	0.548	0.004	0.553
anota2seqGetNormalizedData	0.032	0.000	0.032
anota2seqGetOutput	0.480	0.000	0.478
anota2seqGetQualityControl	47.504	0.020	47.865
anota2seqGetResidOutlierTest	43.452	0.016	43.558
anota2seqGetThresholds	0.796	0.004	0.801
anota2seqPerformQC	0	0	0
anota2seqRegModes	1.908	0.008	1.918
anota2seqResidOutlierTest	0	0	0
anota2seqRun	1.580	0.008	1.590
anota2seqSelSigGenes	0.704	0.004	0.706
anota2seq_data	0.012	0.000	0.012
show-Anota2seqDataSet-method	0.084	0.000	0.084