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BioC 3.5: CHECK report for metabomxtr on toluca2

This page was generated on 2017-04-23 14:38:48 -0400 (Sun, 23 Apr 2017).

Package 785/1377HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
metabomxtr 1.9.3
Michael Nodzenski
Snapshot Date: 2017-04-22 17:18:01 -0400 (Sat, 22 Apr 2017)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/metabomxtr
Last Changed Rev: 125376 / Revision: 129046
Last Changed Date: 2016-12-21 11:01:29 -0500 (Wed, 21 Dec 2016)
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
toluca2 Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK [ OK ] OK 
veracruz2 OS X 10.11.6 El Capitan / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: metabomxtr
Version: 1.9.3
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings metabomxtr_1.9.3.tar.gz
StartedAt: 2017-04-23 06:23:12 -0400 (Sun, 23 Apr 2017)
EndedAt: 2017-04-23 06:25:06 -0400 (Sun, 23 Apr 2017)
EllapsedTime: 113.7 seconds
RetCode: 0
Status:  OK 
CheckDir: metabomxtr.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings metabomxtr_1.9.3.tar.gz
###
##############################################################################
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* using log directory ‘/Users/biocbuild/bbs-3.5-bioc/meat/metabomxtr.Rcheck’
* using R Under development (unstable) (2017-02-15 r72187)
* using platform: x86_64-apple-darwin13.4.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘metabomxtr/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘metabomxtr’ version ‘1.9.3’
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘metabomxtr’ 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking sizes of PDF files under ‘inst/doc’ ... 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
metabplot          3.496  0.095   5.599
metabomxtr-package 0.912  0.213   6.440
mxtrmod            0.221  0.145   7.259
* 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

metabomxtr.Rcheck/00install.out:

* installing *source* package ‘metabomxtr’ ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (metabomxtr)

metabomxtr.Rcheck/metabomxtr-Ex.timings:

nameusersystemelapsed
addBatchMeans0.2200.0030.224
addOutlierInfo0.0020.0000.003
allMissingLevels0.0060.0000.006
anyMissingLevels0.0030.0000.004
idMissingLevels0.0210.0000.022
metabomxtr-package0.9120.2136.440
metabplot3.4960.0955.599
mixnorm0.1360.0632.149
mxtrmod0.2210.1457.259
mxtrmodLL0.0050.0030.008
mxtrmodLRT0.0890.0883.140
mxtrmodstart0.0050.0000.005
removeAllMissingCatVar0.0760.0090.086
removeMissingLevels0.0050.0010.006
runMxtrmod2.4640.0882.570