BioC 3.4: CHECK report for IMPCdata on morelia

Package: IMPCdata

Version: 1.8.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings IMPCdata_1.8.0.tar.gz

StartedAt: 2017-04-15 03:48:47 -0700 (Sat, 15 Apr 2017)

EndedAt: 2017-04-15 04:01:15 -0700 (Sat, 15 Apr 2017)

EllapsedTime: 748.9 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_1.8.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.4-bioc/meat/IMPCdata.Rcheck’
* using R version 3.3.3 (2017-03-06)
* using platform: x86_64-apple-darwin13.4.0 (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 ‘1.8.0’
* 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       0.545  0.173 168.621
getGenes         0.535  0.174 163.809
printGenes       0.515  0.165 161.387
printAlleles     0.512  0.165 167.207
getProcedures    0.026  0.009  15.851
printProcedures  0.026  0.009   9.559
printParameters  0.024  0.009   7.610
getParameters    0.021  0.007   7.644
printPhenCenters 0.021  0.007   9.695
getPhenCenters   0.009  0.003   5.441
* 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	0.545	0.173	168.621
getGenes	0.535	0.174	163.809
getIMPCDataset	0.553	0.014	4.092
getIMPCTable	0.007	0.002	1.537
getName	0.001	0.000	0.388
getParameters	0.021	0.007	7.644
getPhenCenters	0.009	0.003	5.441
getPipelines	0.005	0.002	1.642
getProcedures	0.026	0.009	15.851
getStrains	0.006	0.002	2.404
getZygosities	0.002	0.000	0.280
printAlleles	0.512	0.165	167.207
printGenes	0.515	0.165	161.387
printParameters	0.024	0.009	7.610
printPhenCenters	0.021	0.007	9.695
printPipelines	0.005	0.002	1.791
printProcedures	0.026	0.009	9.559
printStrains	0.006	0.002	2.283