Package: IntEREst

Version: 1.2.2

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings IntEREst_1.2.2.tar.gz

StartedAt: 2018-04-12 05:18:01 -0400 (Thu, 12 Apr 2018)

EndedAt: 2018-04-12 05:23:11 -0400 (Thu, 12 Apr 2018)

EllapsedTime: 310.0 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 --no-vignettes --timings IntEREst_1.2.2.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.6-bioc/meat/IntEREst.Rcheck’
* using R version 3.4.4 (2018-03-15)
* 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 ‘1.2.2’
* 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 loading without being on the library search path ... 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 installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                 user system elapsed
DEXSeqIntEREst 33.196  0.207  33.799
* 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

* installing *source* package ‘IntEREst’ ...
** R
** data
*** moving datasets to lazyload DB
** inst
** preparing 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	33.196	0.207	33.799
addAnnotation	0.057	0.000	0.057
annotateU12	2.878	0.061	2.973
attributes	0.063	0.002	0.066
boxplot-method	0.046	0.001	0.047
buildSsTypePwms	0.001	0.000	0.002
counts-method	0.070	0.001	0.071
deseqInterest	2.312	0.009	2.350
exactTestInterest	1.083	0.004	1.100
getRepeatTable	0.001	0.000	0.000
glmInterest	0.370	0.015	0.386
interest	2.484	0.017	2.544
interest.sequential	2.113	0.015	2.166
interestResult	0.018	0.001	0.019
interestResultIntEx	0.105	0.001	0.106
intexIndex	0.004	0.000	0.004
lfc	0.710	0.003	0.732
mergeInterestResult	0.219	0.001	0.225
plot-method	0.295	0.003	0.300
psi	0.967	0.005	0.983
qlfInterest	0.391	0.008	0.408
readInterestResults	0.038	0.002	0.040
referencePrepare	2.115	0.007	2.139
subInterestResult	0.030	0.001	0.031
treatInterest	0.141	0.003	0.150
u12Boxplot	0.057	0.001	0.060
u12BoxplotNb	0.071	0.001	0.072
u12DensityPlot	0.350	0.004	0.365
u12Index	0.005	0.001	0.004
u12NbIndex	0.066	0.000	0.067
unionRefTr	0.092	0.000	0.092
updateRowDataCol	0.029	0.001	0.030