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CHECK report for MUGAExampleData on riesling1

This page was generated on 2021-01-21 16:01:32 -0500 (Thu, 21 Jan 2021).

TO THE DEVELOPERS/MAINTAINERS OF THE MUGAExampleData PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 242/386HostnameOS / ArchINSTALLBUILDCHECK
MUGAExampleData 1.11.0
Daniel Gatti
Snapshot Date: 2021-01-21 09:00:14 -0500 (Thu, 21 Jan 2021)
URL: https://git.bioconductor.org/packages/MUGAExampleData
Branch: master
Last Commit: eae8f71
Last Changed Date: 2020-10-27 10:09:20 -0500 (Tue, 27 Oct 2020)
malbec2 Linux (Ubuntu 20.04.1 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
riesling1 Windows Server 2019 Standard / x64  OK  OK [ WARNINGS ]

Summary

Package: MUGAExampleData
Version: 1.11.0
Command: D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:MUGAExampleData.install-out.txt --library=D:\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings MUGAExampleData_1.11.0.tar.gz
StartedAt: 2021-01-21 11:37:04 -0500 (Thu, 21 Jan 2021)
EndedAt: 2021-01-21 11:37:54 -0500 (Thu, 21 Jan 2021)
EllapsedTime: 50.1 seconds
RetCode: 0
Status:  WARNINGS  
CheckDir: MUGAExampleData.Rcheck
Warnings: 1

Command output

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###
### Running command:
###
###   D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:MUGAExampleData.install-out.txt --library=D:\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings MUGAExampleData_1.11.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'D:/biocbuild/bbs-3.13-data-experiment/meat/MUGAExampleData.Rcheck'
* using R Under development (unstable) (2020-12-30 r79736)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'MUGAExampleData/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'MUGAExampleData' version '1.11.0'
* 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 'MUGAExampleData' can be installed ... WARNING
Found the following significant warnings:
  Rd warning: Previous alias or file overwritten by alias: MUGAExampleData
See 'D:/biocbuild/bbs-3.13-data-experiment/meat/MUGAExampleData.Rcheck/00install.out' for details.
* checking installed package size ... NOTE
  installed size is 88.6Mb
  sub-directories of 1Mb or more:
    data  88.5Mb
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Title field: should not end in a period.
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... 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 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
** running examples for arch 'x64' ... 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

Status: 1 WARNING, 2 NOTEs
See
  'D:/biocbuild/bbs-3.13-data-experiment/meat/MUGAExampleData.Rcheck/00check.log'
for details.



Installation output

MUGAExampleData.Rcheck/00install.out

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##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://172.29.0.4/BBS/3.13/data-experiment/src/contrib/MUGAExampleData_1.11.0.tar.gz && rm -rf MUGAExampleData.buildbin-libdir && mkdir MUGAExampleData.buildbin-libdir && D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=MUGAExampleData.buildbin-libdir MUGAExampleData_1.11.0.tar.gz && D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL MUGAExampleData_1.11.0.zip && rm MUGAExampleData_1.11.0.tar.gz MUGAExampleData_1.11.0.zip
###
##############################################################################
##############################################################################


  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
 53 88.4M   53 47.1M    0     0  60.1M      0  0:00:01 --:--:--  0:00:01 60.0M
100 88.4M  100 88.4M    0     0  74.4M      0  0:00:01  0:00:01 --:--:-- 74.4M

install for i386

* installing *source* package 'MUGAExampleData' ...
** using staged installation
** data
** help
*** installing help indices
  converting help for package 'MUGAExampleData'
    finding HTML links ... done
    FinalReport1                            html  
REDIRECT:topic	 FinalReport1 -> FinalReport1.html [ SUCCESS ]
    FinalReport2                            html  
REDIRECT:topic	 FinalReport2 -> FinalReport2.html [ SUCCESS ]
    MUGAExampleData-package                 html  
REDIRECT:topic	 MUGAExampleData -> MUGAExampleData-package.html [ SUCCESS ]
REDIRECT:topic	 MUGAExampleData -> MUGAExampleData-package.html [ SUCCESS ]
REDIRECT:file	 MUGAExampleData-package.html -> MUGAExampleData-package.html [ SUCCESS ]
Rd warning: Previous alias or file overwritten by alias: MUGAExampleData
    Samples1                                html  
REDIRECT:topic	 Samples1 -> Samples1.html [ SUCCESS ]
    Samples2                                html  
REDIRECT:topic	 Samples2 -> Samples2.html [ SUCCESS ]
    call.rate.batch                         html  
REDIRECT:topic	 call.rate.batch -> call.rate.batch.html [ SUCCESS ]
    geno                                    html  
REDIRECT:topic	 geno -> geno.html [ SUCCESS ]
    model.probs                             html  
REDIRECT:topic	 model.probs -> model.probs.html [ SUCCESS ]
    pheno                                   html  
REDIRECT:topic	 pheno -> pheno.html [ SUCCESS ]
    x                                       html  
REDIRECT:topic	 x -> x.html [ SUCCESS ]
    y                                       html  
REDIRECT:topic	 y -> y.html [ SUCCESS ]
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path

install for x64

* installing *source* package 'MUGAExampleData' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'MUGAExampleData' as MUGAExampleData_1.11.0.zip
* DONE (MUGAExampleData)
* installing to library 'D:/biocbuild/bbs-3.13-bioc/R/library'
package 'MUGAExampleData' successfully unpacked and MD5 sums checked

Tests output


Example timings

MUGAExampleData.Rcheck/examples_i386/MUGAExampleData-Ex.timings

nameusersystemelapsed
FinalReport12.290.062.36
FinalReport21.390.021.41
MUGAExampleData-package2.250.052.30
Samples10.020.000.02
Samples2000
call.rate.batch000
geno0.560.030.60
model.probs0.630.010.64
pheno000
x0.060.000.06
y0.080.000.08

MUGAExampleData.Rcheck/examples_x64/MUGAExampleData-Ex.timings

nameusersystemelapsed
FinalReport11.690.051.73
FinalReport20.940.030.97
MUGAExampleData-package1.750.091.84
Samples1000
Samples2000
call.rate.batch0.010.000.01
geno0.500.020.52
model.probs0.530.080.61
pheno000
x0.060.000.06
y0.060.010.08