BioC 3.2: CHECK report for IMPCdata on perceval

Package: IMPCdata

Version: 1.4.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings IMPCdata_1.4.0.tar.gz

StartedAt: 2015-10-27 09:02:46 -0400 (Tue, 27 Oct 2015)

EndedAt: 2015-10-27 09:06:04 -0400 (Tue, 27 Oct 2015)

EllapsedTime: 197.7 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_1.4.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.2-bioc/meat/IMPCdata.Rcheck’
* using R version 3.2.2 Patched (2015-10-08 r69496)
* using platform: x86_64-apple-darwin10.8.0 (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 ‘1.4.0’
* 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 ... [2s/182s] OK
Examples with CPU or elapsed time > 5s
                  user system elapsed
printAlleles     0.185  0.033  29.895
getAlleles       0.153  0.037  30.150
getGenes         0.138  0.032  29.649
printGenes       0.137  0.032  29.726
getParameters    0.040  0.008   8.101
getProcedures    0.037  0.008   7.558
printParameters  0.036  0.008  11.826
printProcedures  0.033  0.008   7.626
printPhenCenters 0.023  0.006   8.899
* 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	0.153	0.037	30.150
getGenes	0.138	0.032	29.649
getIMPCDataset	0.499	0.013	3.828
getIMPCTable	0.009	0.002	1.319
getName	0.002	0.001	0.420
getParameters	0.040	0.008	8.101
getPhenCenters	0.012	0.003	4.611
getPipelines	0.006	0.002	1.648
getProcedures	0.037	0.008	7.558
getStrains	0.013	0.002	2.068
getZygosities	0.002	0.001	0.292
printAlleles	0.185	0.033	29.895
printGenes	0.137	0.032	29.726
printParameters	0.036	0.008	11.826
printPhenCenters	0.023	0.006	8.899
printPipelines	0.005	0.002	1.709
printProcedures	0.033	0.008	7.626
printStrains	0.007	0.002	2.068