BioC 3.0: CHECK report for IMPCdata on oaxaca

Package: IMPCdata

Version: 1.0.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch IMPCdata_1.0.0.tar.gz

StartedAt: 2015-04-10 00:38:19 -0700 (Fri, 10 Apr 2015)

EndedAt: 2015-04-10 00:41:42 -0700 (Fri, 10 Apr 2015)

EllapsedTime: 202.8 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 --no-multiarch IMPCdata_1.0.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.0-bioc/meat/IMPCdata.Rcheck’
* using R version 3.1.3 (2015-03-09)
* 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 ‘1.0.0’
* 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/184s] OK
Examples with CPU or elapsed time > 5s
                  user system elapsed
printAlleles     0.164  0.028  32.111
getGenes         0.154  0.029  32.365
getAlleles       0.145  0.029  31.902
printGenes       0.129  0.027  31.931
getParameters    0.036  0.007   8.200
printParameters  0.034  0.007   8.183
printProcedures  0.031  0.006   7.087
getProcedures    0.026  0.006   7.368
printPhenCenters 0.020  0.006   8.598
* 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

* 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	0.145	0.029	31.902
getGenes	0.154	0.029	32.365
getIMPCDataset	0.236	0.005	3.114
getIMPCTable	0.010	0.002	1.306
getName	0.001	0.001	0.352
getParameters	0.036	0.007	8.200
getPhenCenters	0.010	0.003	4.949
getPipelines	0.003	0.000	0.753
getProcedures	0.026	0.006	7.368
getStrains	0.009	0.001	2.042
getZygosities	0.002	0.000	0.314
printAlleles	0.164	0.028	32.111
printGenes	0.129	0.027	31.931
printParameters	0.034	0.007	8.183
printPhenCenters	0.020	0.006	8.598
printPipelines	0.002	0.000	0.756
printProcedures	0.031	0.006	7.087
printStrains	0.007	0.002	2.026