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BioC 3.5: CHECK report for IMPCdata on tokay2

This page was generated on 2017-08-16 13:23:55 -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: rm -rf IMPCdata.buildbin-libdir IMPCdata.Rcheck && mkdir IMPCdata.buildbin-libdir IMPCdata.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=IMPCdata.buildbin-libdir IMPCdata_1.10.0.tar.gz >IMPCdata.Rcheck\00install.out 2>&1 && cp IMPCdata.Rcheck\00install.out IMPCdata-install.out && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=IMPCdata.buildbin-libdir --install="check:IMPCdata-install.out" --force-multiarch --no-vignettes --timings IMPCdata_1.10.0.tar.gz
StartedAt: 2017-08-16 00:37:57 -0400 (Wed, 16 Aug 2017)
EndedAt: 2017-08-16 00:46:30 -0400 (Wed, 16 Aug 2017)
EllapsedTime: 513.2 seconds
RetCode: 0
Status:  OK  
CheckDir: IMPCdata.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf IMPCdata.buildbin-libdir IMPCdata.Rcheck && mkdir IMPCdata.buildbin-libdir IMPCdata.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=IMPCdata.buildbin-libdir IMPCdata_1.10.0.tar.gz >IMPCdata.Rcheck\00install.out 2>&1 && cp IMPCdata.Rcheck\00install.out IMPCdata-install.out  &&  C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=IMPCdata.buildbin-libdir --install="check:IMPCdata-install.out" --force-multiarch --no-vignettes --timings IMPCdata_1.10.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.5-bioc/meat/IMPCdata.Rcheck'
* using R version 3.4.1 (2017-06-30)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* 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 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
* loading checks for arch 'i386'
** 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
* loading checks for arch 'x64'
** 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 ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
                user system elapsed
getIMPCDataset 10.79   3.93   15.82
getGenes        1.44   0.14   51.02
printGenes      1.25   0.18   50.11
getAlleles      1.22   0.11   52.15
printAlleles    1.08   0.18   52.17
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
               user system elapsed
getIMPCDataset 4.86   2.36    8.34
getAlleles     1.49   0.09   52.15
printAlleles   1.33   0.10   52.06
getGenes       1.15   0.06   50.40
printGenes     1.16   0.04   49.78
* 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:


install for i386

* 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

install for x64

* installing *source* package 'IMPCdata' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'IMPCdata' as IMPCdata_1.10.0.zip
* DONE (IMPCdata)

IMPCdata.Rcheck/examples_i386/IMPCdata-Ex.timings:

nameusersystemelapsed
getAlleles 1.22 0.1152.15
getGenes 1.44 0.1451.02
getIMPCDataset10.79 3.9315.82
getIMPCTable0.030.000.71
getName0.000.000.15
getParameters0.080.002.46
getPhenCenters0.030.003.03
getPipelines0.010.000.65
getProcedures0.100.003.44
getStrains0.010.001.16
getZygosities0.000.000.09
printAlleles 1.08 0.1852.17
printGenes 1.25 0.1850.11
printParameters0.110.002.57
printPhenCenters0.090.004.57
printPipelines0.020.000.88
printProcedures0.060.023.39
printStrains0.030.001.06

IMPCdata.Rcheck/examples_x64/IMPCdata-Ex.timings:

nameusersystemelapsed
getAlleles 1.49 0.0952.15
getGenes 1.15 0.0650.40
getIMPCDataset4.862.368.34
getIMPCTable0.030.001.44
getName0.000.000.15
getParameters0.070.002.49
getPhenCenters0.030.002.90
getPipelines0.050.000.65
getProcedures0.080.003.43
getStrains0.020.001.10
getZygosities0.010.000.09
printAlleles 1.33 0.1052.06
printGenes 1.16 0.0449.78
printParameters0.040.002.41
printPhenCenters0.060.004.73
printPipelines0.020.000.79
printProcedures0.080.023.48
printStrains0.050.001.13