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BioC 3.0: CHECK report for bioassayR on moscato1

This page was generated on 2015-04-10 09:49:38 -0700 (Fri, 10 Apr 2015).

Package 85/933HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
bioassayR 1.4.3
Tyler Backman
Snapshot Date: 2015-04-09 16:20:12 -0700 (Thu, 09 Apr 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_0/madman/Rpacks/bioassayR
Last Changed Rev: 97300 / Revision: 102249
Last Changed Date: 2014-12-02 15:58:57 -0800 (Tue, 02 Dec 2014)
zin1 Linux (Ubuntu 12.04.4 LTS) / x86_64  NotNeeded  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK [ OK ] OK 
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  OK  OK  OK 
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK  OK 

Summary

Package: bioassayR
Version: 1.4.3
Command: rm -rf bioassayR.buildbin-libdir bioassayR.Rcheck && mkdir bioassayR.buildbin-libdir bioassayR.Rcheck && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=bioassayR.buildbin-libdir bioassayR_1.4.3.tar.gz >bioassayR.Rcheck\00install.out 2>&1 && cp bioassayR.Rcheck\00install.out bioassayR-install.out && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD check --library=bioassayR.buildbin-libdir --install="check:bioassayR-install.out" --force-multiarch --no-vignettes --timings bioassayR_1.4.3.tar.gz
StartedAt: 2015-04-09 22:56:51 -0700 (Thu, 09 Apr 2015)
EndedAt: 2015-04-09 22:59:05 -0700 (Thu, 09 Apr 2015)
EllapsedTime: 134.0 seconds
RetCode: 0
Status:  OK  
CheckDir: bioassayR.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### Running command:
###
###   rm -rf bioassayR.buildbin-libdir bioassayR.Rcheck && mkdir bioassayR.buildbin-libdir bioassayR.Rcheck && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=bioassayR.buildbin-libdir bioassayR_1.4.3.tar.gz >bioassayR.Rcheck\00install.out 2>&1 && cp bioassayR.Rcheck\00install.out bioassayR-install.out  && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD check --library=bioassayR.buildbin-libdir --install="check:bioassayR-install.out" --force-multiarch --no-vignettes --timings bioassayR_1.4.3.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'D:/biocbld/bbs-3.0-bioc/meat/bioassayR.Rcheck'
* using R version 3.1.3 (2015-03-09)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'bioassayR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'bioassayR' version '1.4.3'
* 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 'bioassayR' 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... [5s] OK
** running examples for arch 'x64' ... [7s] OK
* 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

bioassayR.Rcheck/00install.out:


install for i386

* installing *source* package 'bioassayR' ...
** R
** data
** 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 'bioassayR' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'bioassayR' as bioassayR_1.4.3.zip
* DONE (bioassayR)

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

nameusersystemelapsed
BioAssayDB-class000
activeAgainst0.020.000.02
activeTargets0.010.000.02
activityMatrix0.050.020.06
addBioassayIndex0.010.000.01
addDataSource0.020.000.02
bioassay-class0.020.000.01
bioassaySet-class0.010.000.02
connectBioassayDB000
disconnectBioassayDB0.020.000.02
dropBioassay0.040.000.14
dropBioassayIndex0.020.020.03
getAssay000
getAssays0.040.000.03
getBioassaySetByCids0.620.060.69
loadBioassay0.030.000.03
newBioassayDB0.020.000.02
parsePubChemBioassay0.010.000.01
perTargetMatrix0.030.000.03
queryBioassayDB0.050.000.05
samplebioassay000
selectiveAgainst0.170.000.17

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

nameusersystemelapsed
BioAssayDB-class000
activeAgainst0.030.000.03
activeTargets0.030.000.03
activityMatrix0.090.000.09
addBioassayIndex0.030.000.07
addDataSource0.040.000.03
bioassay-class0.030.000.03
bioassaySet-class000
connectBioassayDB0.030.000.03
disconnectBioassayDB0.010.000.02
dropBioassay0.080.000.25
dropBioassayIndex0.020.020.03
getAssay0.000.010.01
getAssays0.040.000.03
getBioassaySetByCids0.970.161.12
loadBioassay0.060.000.06
newBioassayDB0.020.000.02
parsePubChemBioassay0.010.010.03
perTargetMatrix0.070.000.06
queryBioassayDB0.060.000.06
samplebioassay000
selectiveAgainst0.290.000.28