Package: IntEREst

Version: 1.4.1

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_1.4.1.tar.gz

StartedAt: 2018-10-16 22:06:55 -0400 (Tue, 16 Oct 2018)

EndedAt: 2018-10-16 22:12:30 -0400 (Tue, 16 Oct 2018)

EllapsedTime: 334.7 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_1.4.1.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.7-bioc/meat/IntEREst.Rcheck’
* using R version 3.5.1 Patched (2018-07-12 r74967)
* 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 ‘1.4.1’
* 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 ‘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 39.694  0.366  40.226
* 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	39.694	0.366	40.226
addAnnotation	0.037	0.002	0.038
annotateU12	2.903	0.051	2.966
attributes	0.054	0.001	0.055
boxplot-method	0.081	0.001	0.082
buildSsTypePwms	0.003	0.001	0.004
counts-method	0.098	0.002	0.100
deseqInterest	2.706	0.012	2.730
exactTestInterest	0.123	0.001	0.125
getRepeatTable	0.001	0.000	0.002
glmInterest	0.196	0.008	0.205
interest	2.204	0.051	2.262
interest.sequential	2.094	0.015	2.119
interestResult	0.028	0.001	0.029
interestResultIntEx	0.163	0.001	0.164
intexIndex	0.005	0.000	0.005
lfc	0.157	0.001	0.158
mergeInterestResult	0.307	0.001	0.311
plot-method	0.373	0.003	0.386
psi	1.151	0.007	1.170
qlfInterest	0.191	0.006	0.200
readInterestResults	0.049	0.002	0.052
referencePrepare	1.195	0.005	1.209
subInterestResult	0.090	0.002	0.092
treatInterest	0.208	0.010	0.218
u12Boxplot	0.119	0.001	0.121
u12BoxplotNb	0.136	0.001	0.138
u12DensityPlot	1.060	0.020	1.085
u12Index	0.012	0.000	0.012
u12NbIndex	0.113	0.001	0.117
unionRefTr	0.021	0.000	0.022
updateRowDataCol	0.028	0.001	0.030