BioC 3.6: CHECK report for IMPCdata on veracruz1

Package: IMPCdata

Version: 1.11.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings IMPCdata_1.11.0.tar.gz

StartedAt: 2017-08-16 04:29:55 -0400 (Wed, 16 Aug 2017)

EndedAt: 2017-08-16 04:43:02 -0400 (Wed, 16 Aug 2017)

EllapsedTime: 787.1 seconds

RetCode: 0

Status:  OK

CheckDir: IMPCdata.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 IMPCdata_1.11.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.6-bioc/meat/IMPCdata.Rcheck’
* using R version 3.4.1 (2017-06-30)
* 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 ‘1.11.0’
* 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 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 sizes of PDF files under ‘inst/doc’ ... 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
getAlleles       0.757  0.317 179.441
printAlleles     0.727  0.306 177.052
getGenes         0.709  0.303 175.462
printGenes       0.697  0.298 171.691
printPhenCenters 0.045  0.014  10.724
getProcedures    0.042  0.016  10.279
printProcedures  0.038  0.016  10.342
getParameters    0.036  0.015   8.019
printParameters  0.031  0.013   7.915
getPhenCenters   0.027  0.008   5.720
* 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 ‘IMPCdata’ ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (IMPCdata)

name	user	system	elapsed
getAlleles	0.757	0.317	179.441
getGenes	0.709	0.303	175.462
getIMPCDataset	0.512	0.012	3.509
getIMPCTable	0.009	0.003	1.388
getName	0.001	0.001	0.432
getParameters	0.036	0.015	8.019
getPhenCenters	0.027	0.008	5.720
getPipelines	0.012	0.003	1.709
getProcedures	0.042	0.016	10.279
getStrains	0.014	0.003	2.283
getZygosities	0.006	0.000	0.295
printAlleles	0.727	0.306	177.052
printGenes	0.697	0.298	171.691
printParameters	0.031	0.013	7.915
printPhenCenters	0.045	0.014	10.724
printPipelines	0.006	0.003	1.789
printProcedures	0.038	0.016	10.342
printStrains	0.008	0.003	2.315