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BioC 3.5: CHECK report for IMPCdata on malbec2

This page was generated on 2017-08-16 13:16:12 -0400 (Wed, 16 Aug 2017).

Package 667/1382HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
IMPCdata 1.10.0
Jeremy Mason
Snapshot Date: 2017-08-15 17:17:57 -0400 (Tue, 15 Aug 2017)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_5/madman/Rpacks/IMPCdata
Last Changed Rev: 129126 / Revision: 131943
Last Changed Date: 2017-04-24 15:25:24 -0400 (Mon, 24 Apr 2017)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  NotNeeded  OK [ OK ]UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository
veracruz2 OS X 10.11.6 El Capitan / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

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

Command output

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


* 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

IMPCdata.Rcheck/00install.out:

* 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)

IMPCdata.Rcheck/IMPCdata-Ex.timings:

nameusersystemelapsed
getAlleles 0.860 0.240162.144
getGenes 0.872 0.192155.936
getIMPCDataset0.5400.0002.734
getIMPCTable0.0080.0041.413
getName0.0040.0000.402
getParameters0.0360.0167.470
getPhenCenters0.0320.0085.360
getPipelines0.0160.0001.619
getProcedures0.0440.0169.268
getStrains0.0160.0002.150
getZygosities0.0040.0000.271
printAlleles 0.912 0.212161.339
printGenes 0.876 0.164156.756
printParameters0.0440.0047.451
printPhenCenters0.0600.0089.570
printPipelines0.0080.0001.837
printProcedures0.0400.0129.074
printStrains0.0080.0042.121