BioC 3.3: CHECK report for IMPCdata on linux2.bioconductor.org

Package: IMPCdata

Version: 1.5.0

Command: /home/biocbuild/bbs-3.3-bioc/R/bin/R CMD check --no-vignettes --timings IMPCdata_1.5.0.tar.gz

StartedAt: 2015-10-27 04:59:40 -0400 (Tue, 27 Oct 2015)

EndedAt: 2015-10-27 05:01:44 -0400 (Tue, 27 Oct 2015)

EllapsedTime: 123.7 seconds

RetCode: 0

Status:  OK

CheckDir: IMPCdata.Rcheck

Warnings: 0

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.3-bioc/R/bin/R CMD check --no-vignettes --timings IMPCdata_1.5.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.3-bioc/meat/IMPCdata.Rcheck’
* using R Under development (unstable) (2015-09-09 r69333)
* using platform: x86_64-pc-linux-gnu (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 installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [1s/113s] OK
Examples with CPU or elapsed time > 5s
                  user system elapsed
getAlleles       0.148  0.024  21.186
printAlleles     0.157  0.015  18.071
getGenes         0.144  0.018  17.843
printGenes       0.152  0.003  18.109
getProcedures    0.033  0.001   5.127
printProcedures  0.020  0.009   5.989
printPhenCenters 0.026  0.000   5.892
* 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	0.148	0.024	21.186
getGenes	0.144	0.018	17.843
getIMPCDataset	0.124	0.003	1.660
getIMPCTable	0.009	0.000	0.820
getName	0.001	0.000	0.227
getParameters	0.041	0.013	4.707
getPhenCenters	0.011	0.003	2.944
getPipelines	0.006	0.000	1.360
getProcedures	0.033	0.001	5.127
getStrains	0.009	0.000	1.352
getZygosities	0.002	0.000	0.177
printAlleles	0.157	0.015	18.071
printGenes	0.152	0.003	18.109
printParameters	0.033	0.008	4.692
printPhenCenters	0.026	0.000	5.892
printPipelines	0.004	0.000	1.147
printProcedures	0.020	0.009	5.989
printStrains	0.009	0.000	1.316