BioC 3.5: CHECK report for IMPCdata on malbec2

Package: IMPCdata

Version: 1.10.0

Command: /home/biocbuild/bbs-3.5-bioc/R/bin/R CMD check --no-vignettes --timings IMPCdata_1.10.0.tar.gz

StartedAt: 2017-08-15 23:56:31 -0400 (Tue, 15 Aug 2017)

EndedAt: 2017-08-16 00:08:22 -0400 (Wed, 16 Aug 2017)

EllapsedTime: 710.5 seconds

RetCode: 0

Status:  OK

CheckDir: IMPCdata.Rcheck

Warnings: 0

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### Running command:
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###   /home/biocbuild/bbs-3.5-bioc/R/bin/R CMD check --no-vignettes --timings IMPCdata_1.10.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.5-bioc/meat/IMPCdata.Rcheck’
* using R version 3.4.1 (2017-06-30)
* 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 ‘1.10.0’
* 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 installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                  user system elapsed
printAlleles     0.912  0.212 161.339
getAlleles       0.860  0.240 162.144
getGenes         0.872  0.192 155.936
printGenes       0.876  0.164 156.756
printPhenCenters 0.060  0.008   9.570
getProcedures    0.044  0.016   9.268
printProcedures  0.040  0.012   9.074
getParameters    0.036  0.016   7.470
printParameters  0.044  0.004   7.451
getPhenCenters   0.032  0.008   5.360
* 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	0.860	0.240	162.144
getGenes	0.872	0.192	155.936
getIMPCDataset	0.540	0.000	2.734
getIMPCTable	0.008	0.004	1.413
getName	0.004	0.000	0.402
getParameters	0.036	0.016	7.470
getPhenCenters	0.032	0.008	5.360
getPipelines	0.016	0.000	1.619
getProcedures	0.044	0.016	9.268
getStrains	0.016	0.000	2.150
getZygosities	0.004	0.000	0.271
printAlleles	0.912	0.212	161.339
printGenes	0.876	0.164	156.756
printParameters	0.044	0.004	7.451
printPhenCenters	0.060	0.008	9.570
printPipelines	0.008	0.000	1.837
printProcedures	0.040	0.012	9.074
printStrains	0.008	0.004	2.121