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CHECK report for metabomxtr on tokay1

This page was generated on 2019-04-13 11:24:10 -0400 (Sat, 13 Apr 2019).

Package 916/1649HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
metabomxtr 1.16.1
Michael Nodzenski
Snapshot Date: 2019-04-12 17:01:30 -0400 (Fri, 12 Apr 2019)
URL: https://git.bioconductor.org/packages/metabomxtr
Branch: RELEASE_3_8
Last Commit: ad960fb
Last Changed Date: 2019-01-04 13:37:57 -0400 (Fri, 04 Jan 2019)
malbec1 Linux (Ubuntu 16.04.6 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay1 Windows Server 2012 R2 Standard / x64  OK  OK [ OK ] OK UNNEEDED, same version exists in internal repository
merida1 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: metabomxtr
Version: 1.16.1
Command: C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:metabomxtr.install-out.txt --library=C:\Users\biocbuild\bbs-3.8-bioc\R\library --no-vignettes --timings metabomxtr_1.16.1.tar.gz
StartedAt: 2019-04-13 03:38:50 -0400 (Sat, 13 Apr 2019)
EndedAt: 2019-04-13 03:43:12 -0400 (Sat, 13 Apr 2019)
EllapsedTime: 262.4 seconds
RetCode: 0
Status:  OK  
CheckDir: metabomxtr.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:metabomxtr.install-out.txt --library=C:\Users\biocbuild\bbs-3.8-bioc\R\library --no-vignettes --timings metabomxtr_1.16.1.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.8-bioc/meat/metabomxtr.Rcheck'
* using R version 3.5.3 (2019-03-11)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'metabomxtr/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'metabomxtr' version '1.16.1'
* checking package namespace information ... OK
* checking package dependencies ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib:
  cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES'
 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 '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
* 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
* 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 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 files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
                   user system elapsed
metabplot          0.74   0.09    7.53
metabomxtr-package 0.42   0.00   15.67
mxtrmod            0.11   0.02   17.14
mixnorm            0.11   0.00    6.11
mxtrmodLRT         0.01   0.00   10.06
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
                   user system elapsed
metabplot          1.33   0.08    8.50
metabomxtr-package 0.78   0.06   17.40
mxtrmod            0.14   0.06   19.13
mixnorm            0.11   0.02    7.41
mxtrmodLRT         0.03   0.03   10.26
* 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


Installation output

metabomxtr.Rcheck/00install.out

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.8/bioc/src/contrib/metabomxtr_1.16.1.tar.gz && rm -rf metabomxtr.buildbin-libdir && mkdir metabomxtr.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=metabomxtr.buildbin-libdir metabomxtr_1.16.1.tar.gz && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL metabomxtr_1.16.1.zip && rm metabomxtr_1.16.1.tar.gz metabomxtr_1.16.1.zip
###
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  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100 58349  100 58349    0     0  1427k      0 --:--:-- --:--:-- --:--:-- 1582k

install for i386

* installing *source* package 'metabomxtr' ...
** R
** data
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'metabomxtr'
    finding HTML links ... done
    addBatchMeans                           html  
    addOutlierInfo                          html  
    allMissingLevels                        html  
    anyMissingLevels                        html  
    euMetabCData                            html  
    euMetabData                             html  
    idMissingLevels                         html  
    metabdata                               html  
    metabomxtr-package                      html  
    metabplot                               html  
    mixnorm                                 html  
    mxtrmod                                 html  
    mxtrmodLL                               html  
    mxtrmodLRT                              html  
    mxtrmodstart                            html  
    removeAllMissingCatVar                  html  
    removeMissingLevels                     html  
    runMxtrmod                              html  
    xdesign-methods                         html  
    yvals-methods                           html  
    zdesign-methods                         html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'metabomxtr' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'metabomxtr' as metabomxtr_1.16.1.zip
* DONE (metabomxtr)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.8-bioc/R/library'
package 'metabomxtr' successfully unpacked and MD5 sums checked
In R CMD INSTALL

Tests output


Example timings

metabomxtr.Rcheck/examples_i386/metabomxtr-Ex.timings

nameusersystemelapsed
addBatchMeans0.030.000.03
addOutlierInfo000
allMissingLevels000
anyMissingLevels000
idMissingLevels0.020.000.02
metabomxtr-package 0.42 0.0015.67
metabplot0.740.097.53
mixnorm0.110.006.11
mxtrmod 0.11 0.0217.14
mxtrmodLL000
mxtrmodLRT 0.01 0.0010.06
mxtrmodstart000
removeAllMissingCatVar0.020.000.02
removeMissingLevels000
runMxtrmod1.140.011.15

metabomxtr.Rcheck/examples_x64/metabomxtr-Ex.timings

nameusersystemelapsed
addBatchMeans0.060.000.06
addOutlierInfo000
allMissingLevels0.000.010.01
anyMissingLevels0.000.020.02
idMissingLevels000
metabomxtr-package 0.78 0.0617.40
metabplot1.330.088.50
mixnorm0.110.027.41
mxtrmod 0.14 0.0619.13
mxtrmodLL000
mxtrmodLRT 0.03 0.0310.26
mxtrmodstart000
removeAllMissingCatVar0.010.000.02
removeMissingLevels000
runMxtrmod1.130.021.14