Package: IntEREst

Version: 1.6.2

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:IntEREst.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings IntEREst_1.6.2.tar.gz

StartedAt: 2019-04-16 00:43:42 -0400 (Tue, 16 Apr 2019)

EndedAt: 2019-04-16 00:49:13 -0400 (Tue, 16 Apr 2019)

EllapsedTime: 331.4 seconds

RetCode: 0

Status:  OK

CheckDir: IntEREst.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:IntEREst.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings IntEREst_1.6.2.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.8-bioc/meat/IntEREst.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 ‘IntEREst/DESCRIPTION’ ... OK
* this is package ‘IntEREst’ version ‘1.6.2’
* 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 ‘IntEREst’ 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
DEXSeqIntEREst 41.674  0.442  42.288
* 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 IntEREst
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* installing to library ‘/Library/Frameworks/R.framework/Versions/3.5/Resources/library’
* installing *source* package ‘IntEREst’ ...
** 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 (IntEREst)

name	user	system	elapsed
DEXSeqIntEREst	41.674	0.442	42.288
addAnnotation	0.042	0.003	0.045
annotateU12	2.747	0.077	2.836
attributes	0.036	0.001	0.038
boxplot-method	0.065	0.001	0.066
buildSsTypePwms	0.001	0.000	0.001
counts-method	0.101	0.001	0.102
deseqInterest	2.873	0.032	2.920
exactTestInterest	0.107	0.001	0.109
getRepeatTable	0	0	0
glmInterest	0.205	0.005	0.212
interest	2.535	0.023	2.568
interest.sequential	1.626	0.022	1.653
interestResult	0.024	0.001	0.025
interestResultIntEx	0.174	0.002	0.182
intexIndex	0.005	0.000	0.005
lfc	0.139	0.001	0.139
mergeInterestResult	0.297	0.001	0.300
plot-method	0.395	0.004	0.401
psi	1.072	0.006	1.088
qlfInterest	0.189	0.010	0.201
readInterestResults	0.037	0.002	0.039
referencePrepare	1.205	0.008	1.217
subInterestResult	0.050	0.001	0.050
treatInterest	0.165	0.007	0.172
u12Boxplot	0.085	0.002	0.088
u12BoxplotNb	0.133	0.001	0.134
u12DensityPlot	0.343	0.012	0.356
u12Index	0.008	0.001	0.008
u12NbIndex	0.122	0.002	0.125
unionRefTr	0.02	0.00	0.02
updateRowDataCol	0.038	0.001	0.041