BioC 3.5: CHECK report for IMPCdata on veracruz2

Package: IMPCdata

Version: 1.10.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings IMPCdata_1.10.0.tar.gz

StartedAt: 2017-08-16 04:14:40 -0400 (Wed, 16 Aug 2017)

EndedAt: 2017-08-16 04:27:41 -0400 (Wed, 16 Aug 2017)

EllapsedTime: 780.3 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_1.10.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.5-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 ‘1.10.0’
* 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       0.778  0.321 175.527
printAlleles     0.752  0.317 177.237
getGenes         0.726  0.309 170.076
printGenes       0.720  0.300 173.902
getProcedures    0.044  0.018  10.138
printPhenCenters 0.046  0.013  10.772
printProcedures  0.040  0.016  10.294
getParameters    0.038  0.015   8.482
printParameters  0.032  0.014   8.406
getPhenCenters   0.024  0.009   5.689
* 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	0.778	0.321	175.527
getGenes	0.726	0.309	170.076
getIMPCDataset	0.508	0.015	2.448
getIMPCTable	0.008	0.003	1.497
getName	0.002	0.000	0.422
getParameters	0.038	0.015	8.482
getPhenCenters	0.024	0.009	5.689
getPipelines	0.013	0.004	1.709
getProcedures	0.044	0.018	10.138
getStrains	0.013	0.003	2.304
getZygosities	0.006	0.000	0.300
printAlleles	0.752	0.317	177.237
printGenes	0.720	0.300	173.902
printParameters	0.032	0.014	8.406
printPhenCenters	0.046	0.013	10.772
printPipelines	0.006	0.002	1.786
printProcedures	0.040	0.016	10.294
printStrains	0.007	0.003	2.444