Package: ASpli

Version: 1.8.1

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:ASpli.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings ASpli_1.8.1.tar.gz

StartedAt: 2019-04-15 22:25:38 -0400 (Mon, 15 Apr 2019)

EndedAt: 2019-04-15 22:32:28 -0400 (Mon, 15 Apr 2019)

EllapsedTime: 410.7 seconds

RetCode: 0

Status:  OK

CheckDir: ASpli.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:ASpli.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings ASpli_1.8.1.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.8-bioc/meat/ASpli.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 ‘ASpli/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘ASpli’ version ‘1.8.1’
* 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 ‘ASpli’ 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 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
plotGenomicRegions         17.892  0.141  18.201
plotBins                   11.751  0.064  11.939
mergeBinDUAS-method         9.338  0.030   9.471
ASpli-package               8.665  0.243   8.977
subset-methods              6.851  0.064   6.998
AsDiscover-methods          6.830  0.067   6.959
junctionDUreport            5.765  0.019   5.842
containsJunctions-function  5.549  0.020   5.642
filterDU-method             5.420  0.019   5.514
rds                         5.353  0.022   5.430
DUreport                    5.349  0.022   5.413
readCounts                  5.314  0.022   5.396
DUreportBinSplice-method    5.233  0.020   5.308
* 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 ASpli
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* installing to library ‘/Library/Frameworks/R.framework/Versions/3.5/Resources/library’
* installing *source* package ‘ASpli’ ...
** R
** 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 (ASpli)

name	user	system	elapsed
ASpli-package	8.665	0.243	8.977
AsDiscover-methods	6.830	0.067	6.959
DUreport	5.349	0.022	5.413
DUreportBinSplice-method	5.233	0.020	5.308
acc_AS	0.024	0.002	0.026
acc_DU	0.008	0.001	0.009
acc_counts	0.017	0.002	0.019
acc_features	0.179	0.000	0.180
binGenome	2.948	0.011	2.988
containsJunctions-function	5.549	0.020	5.642
example_data	0.611	0.011	0.630
filterDU-method	5.420	0.019	5.514
getConditions-function	0.007	0.000	0.007
junctionDUreport	5.765	0.019	5.842
loadBAM	0.212	0.003	0.218
mergeBinDUAS-method	9.338	0.030	9.471
plotBins	11.751	0.064	11.939
plotGenomicRegions	17.892	0.141	18.201
rds	5.353	0.022	5.430
readCounts	5.314	0.022	5.396
subset-methods	6.851	0.064	6.998