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CHECK report for alpineData on riesling1

This page was generated on 2021-01-14 15:59:06 -0500 (Thu, 14 Jan 2021).

TO THE DEVELOPERS/MAINTAINERS OF THE alpineData PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 13/385HostnameOS / ArchINSTALLBUILDCHECK
alpineData 1.17.0
Michael Love
Snapshot Date: 2021-01-14 09:00:13 -0500 (Thu, 14 Jan 2021)
URL: https://git.bioconductor.org/packages/alpineData
Branch: master
Last Commit: e1c33cf
Last Changed Date: 2020-10-27 10:21:31 -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 [ OK ]

Summary

Package: alpineData
Version: 1.17.0
Command: D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:alpineData.install-out.txt --library=D:\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings alpineData_1.17.0.tar.gz
StartedAt: 2021-01-14 11:06:48 -0500 (Thu, 14 Jan 2021)
EndedAt: 2021-01-14 11:09:20 -0500 (Thu, 14 Jan 2021)
EllapsedTime: 152.1 seconds
RetCode: 0
Status:  OK  
CheckDir: alpineData.Rcheck
Warnings: 0

Command output

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###
### Running command:
###
###   D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:alpineData.install-out.txt --library=D:\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings alpineData_1.17.0.tar.gz
###
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* using log directory 'D:/biocbuild/bbs-3.13-data-experiment/meat/alpineData.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 'alpineData/DESCRIPTION' ... OK
* this is package 'alpineData' version '1.17.0'
* 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 'alpineData' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Package listed in more than one of Depends, Imports, Suggests, Enhances:
  'GenomicAlignments'
A package should be listed in only one of these fields.
* 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 ... NOTE
Package in Depends field not imported from: 'GenomicAlignments'
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
* 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 files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                   user system elapsed
alpineData-package 3.96   0.86    5.39
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                   user system elapsed
alpineData-package 4.06   0.75    5.45
* 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: 2 NOTEs
See
  'D:/biocbuild/bbs-3.13-data-experiment/meat/alpineData.Rcheck/00check.log'
for details.



Installation output

alpineData.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/alpineData_1.17.0.tar.gz && rm -rf alpineData.buildbin-libdir && mkdir alpineData.buildbin-libdir && D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=alpineData.buildbin-libdir alpineData_1.17.0.tar.gz && D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL alpineData_1.17.0.zip && rm alpineData_1.17.0.tar.gz alpineData_1.17.0.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  5082  100  5082    0     0  22192      0 --:--:-- --:--:-- --:--:-- 22192

install for i386

* installing *source* package 'alpineData' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'alpineData'
    finding HTML links ... done
    alpineData-package                      html  
REDIRECT:topic	 alpineData -> alpineData-package.html [ SUCCESS ]
REDIRECT:topic	 alpineData-package -> alpineData-package.html [ SUCCESS ]
REDIRECT:topic	 ERR188297 -> alpineData-package.html [ SUCCESS ]
REDIRECT:topic	 ERR188088 -> alpineData-package.html [ SUCCESS ]
REDIRECT:topic	 ERR188204 -> alpineData-package.html [ SUCCESS ]
REDIRECT:topic	 ERR188317 -> alpineData-package.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 'alpineData' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'alpineData' as alpineData_1.17.0.zip
* DONE (alpineData)
* installing to library 'D:/biocbuild/bbs-3.13-bioc/R/library'
package 'alpineData' successfully unpacked and MD5 sums checked

Tests output


Example timings

alpineData.Rcheck/examples_i386/alpineData-Ex.timings

nameusersystemelapsed
alpineData-package3.960.865.39

alpineData.Rcheck/examples_x64/alpineData-Ex.timings

nameusersystemelapsed
alpineData-package4.060.755.45