Package: IMPCdata

Version: 1.23.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:IMPCdata.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings IMPCdata_1.23.0.tar.gz

StartedAt: 2020-01-16 05:34:31 -0500 (Thu, 16 Jan 2020)

EndedAt: 2020-01-16 05:36:52 -0500 (Thu, 16 Jan 2020)

EllapsedTime: 141.0 seconds

RetCode: 0

Status:  OK

CheckDir: IMPCdata.Rcheck

Warnings: 0

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:IMPCdata.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings IMPCdata_1.23.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.11-bioc/meat/IMPCdata.Rcheck’
* using R Under development (unstable) (2019-12-14 r77572)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘IMPCdata/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘IMPCdata’ version ‘1.23.0’
* 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 ‘IMPCdata’ 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 (user + system) or elapsed time > 5s
                 user system elapsed
getIMPCDataset  1.065  0.063   5.333
getPhenCenters  0.321  0.030  14.892
getAlleles      0.271  0.037   5.297
printStrains    0.251  0.024  10.861
getStrains      0.250  0.023  11.882
getGenes        0.224  0.025   5.181
getProcedures   0.169  0.014   6.086
getParameters   0.158  0.014   6.369
printProcedures 0.152  0.015   7.160
printAlleles    0.153  0.013   5.446
printGenes      0.149  0.013   5.023
printPipelines  0.131  0.012   5.233
* 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

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL IMPCdata
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.0/Resources/library’
* installing *source* package ‘IMPCdata’ ...
** using staged installation
** 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 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 (IMPCdata)

name	user	system	elapsed
getAlleles	0.271	0.037	5.297
getGenes	0.224	0.025	5.181
getIMPCDataset	1.065	0.063	5.333
getIMPCTable	0.116	0.020	4.037
getName	0.024	0.002	1.015
getParameters	0.158	0.014	6.369
getPhenCenters	0.321	0.030	14.892
getPipelines	0.123	0.011	4.320
getProcedures	0.169	0.014	6.086
getStrains	0.250	0.023	11.882
getZygosities	0.032	0.002	0.879
printAlleles	0.153	0.013	5.446
printGenes	0.149	0.013	5.023
printParameters	0.152	0.013	4.936
printPhenCenters	0.044	0.005	4.140
printPipelines	0.131	0.012	5.233
printProcedures	0.152	0.015	7.160
printStrains	0.251	0.024	10.861