BioC 3.3: CHECK report for IMPCdata on morelia

Package: IMPCdata

Version: 1.5.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings IMPCdata_1.5.0.tar.gz

StartedAt: 2015-10-22 07:20:34 -0400 (Thu, 22 Oct 2015)

EndedAt: 2015-10-22 07:23:47 -0400 (Thu, 22 Oct 2015)

EllapsedTime: 192.2 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_1.5.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.3-bioc/meat/IMPCdata.Rcheck’
* using R Under development (unstable) (2015-10-08 r69496)
* 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 ‘1.5.0’
* 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 ... [1s/1s] 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 ... [1s/177s] OK
Examples with CPU or elapsed time > 5s
                  user system elapsed
printAlleles     0.146  0.028  30.031
getAlleles       0.132  0.031  29.838
getGenes         0.124  0.028  30.172
printGenes       0.112  0.025  29.403
getParameters    0.039  0.008   7.868
printParameters  0.033  0.007   7.651
getProcedures    0.028  0.007   7.938
printProcedures  0.024  0.006   7.505
printPhenCenters 0.019  0.006   8.805
* 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	0.132	0.031	29.838
getGenes	0.124	0.028	30.172
getIMPCDataset	0.216	0.005	2.602
getIMPCTable	0.008	0.001	1.471
getName	0.002	0.001	0.346
getParameters	0.039	0.008	7.868
getPhenCenters	0.011	0.003	4.679
getPipelines	0.005	0.001	1.727
getProcedures	0.028	0.007	7.938
getStrains	0.009	0.001	2.220
getZygosities	0.001	0.001	0.291
printAlleles	0.146	0.028	30.031
printGenes	0.112	0.025	29.403
printParameters	0.033	0.007	7.651
printPhenCenters	0.019	0.006	8.805
printPipelines	0.004	0.001	1.625
printProcedures	0.024	0.006	7.505
printStrains	0.006	0.002	2.253