Back to Multiple platform build/check report for BioC 3.13 experimental data
ABCDEFGH[I]JKLMNOPQRSTUVWXYZ

CHECK report for ITALICSData on riesling1

This page was generated on 2021-01-11 15:59:31 -0500 (Mon, 11 Jan 2021).

TO THE DEVELOPERS/MAINTAINERS OF THE ITALICSData PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 186/385HostnameOS / ArchINSTALLBUILDCHECK
ITALICSData 2.29.0
Guillem Rigaill
Snapshot Date: 2021-01-11 09:00:09 -0500 (Mon, 11 Jan 2021)
URL: https://git.bioconductor.org/packages/ITALICSData
Branch: master
Last Commit: 3b9d4f3
Last Changed Date: 2020-10-27 09:50:31 -0500 (Tue, 27 Oct 2020)
malbec2 Linux (Ubuntu 20.04.1 LTS) / x86_64  OK  OK  WARNINGS UNNEEDED, same version exists in internal repository
riesling1 Windows Server 2019 Standard / x64  OK  OK [ WARNINGS ]

Summary

Package: ITALICSData
Version: 2.29.0
Command: D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:ITALICSData.install-out.txt --library=D:\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings ITALICSData_2.29.0.tar.gz
StartedAt: 2021-01-11 11:30:14 -0500 (Mon, 11 Jan 2021)
EndedAt: 2021-01-11 11:30:37 -0500 (Mon, 11 Jan 2021)
EllapsedTime: 23.2 seconds
RetCode: 0
Status:  WARNINGS  
CheckDir: ITALICSData.Rcheck
Warnings: 2

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:ITALICSData.install-out.txt --library=D:\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings ITALICSData_2.29.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'D:/biocbuild/bbs-3.13-data-experiment/meat/ITALICSData.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 'ITALICSData/DESCRIPTION' ... OK
* this is package 'ITALICSData' version '2.29.0'
* 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 'ITALICSData' can be installed ... WARNING
Found the following significant warnings:
  Rd warning: Previous alias or file overwritten by alias: Hind.QuartetEffect
  Rd warning: Previous alias or file overwritten by alias: Nsp.QuartetEffect
  Rd warning: Previous alias or file overwritten by alias: Sty.QuartetEffect
  Rd warning: Previous alias or file overwritten by alias: Xba.QuartetEffect
  Rd warning: Previous alias or file overwritten by alias: quartet
  Rd warning: Previous alias or file overwritten by alias: snpInfo
See 'D:/biocbuild/bbs-3.13-data-experiment/meat/ITALICSData.Rcheck/00install.out' for details.
* checking installed package size ... NOTE
  installed size is 182.5Mb
  sub-directories of 1Mb or more:
    extdata  181.6Mb
* checking package directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Description field: should contain one or more complete sentences.
* 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 ... NOTE
prepare_Rd: Hind.QuartetEffect.Rd:6-8: Dropping empty section \usage
prepare_Rd: Hind.QuartetEffect.Rd:14-16: Dropping empty section \format
prepare_Rd: Hind.QuartetEffect.Rd:17: Dropping empty section \source
prepare_Rd: Hind.QuartetEffect.Rd:18-19: Dropping empty section \references
prepare_Rd: Nsp.QuartetEffect.Rd:6-8: Dropping empty section \usage
prepare_Rd: Nsp.QuartetEffect.Rd:14-16: Dropping empty section \format
prepare_Rd: Nsp.QuartetEffect.Rd:17: Dropping empty section \source
prepare_Rd: Nsp.QuartetEffect.Rd:18-19: Dropping empty section \references
prepare_Rd: Sty.QuartetEffect.Rd:6-8: Dropping empty section \usage
prepare_Rd: Sty.QuartetEffect.Rd:14-16: Dropping empty section \format
prepare_Rd: Sty.QuartetEffect.Rd:17: Dropping empty section \source
prepare_Rd: Sty.QuartetEffect.Rd:18-19: Dropping empty section \references
prepare_Rd: Xba.QuartetEffect.Rd:6-8: Dropping empty section \usage
prepare_Rd: Xba.QuartetEffect.Rd:14-16: Dropping empty section \format
prepare_Rd: Xba.QuartetEffect.Rd:17: Dropping empty section \source
prepare_Rd: Xba.QuartetEffect.Rd:18-19: Dropping empty section \references
prepare_Rd: quartetInfo.Rd:12-14: Dropping empty section \format
prepare_Rd: quartetInfo.Rd:15-17: Dropping empty section \source
prepare_Rd: quartetInfo.Rd:18-19: Dropping empty section \references
prepare_Rd: snpInfo.Rd:12-14: Dropping empty section \format
prepare_Rd: snpInfo.Rd:16-18: Dropping empty section \source
prepare_Rd: snpInfo.Rd:19-20: Dropping empty section \references
* 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 ... WARNING
  
  Note: significantly better compression could be obtained
        by using R CMD build --resave-data
                    old_size new_size compress
  quartetInfo.RData    727Kb    516Kb       xz
  snpInfo.RData         68Kb     56Kb       xz
* checking examples ... NONE
* checking PDF version of manual ... OK
* DONE

Status: 2 WARNINGs, 3 NOTEs
See
  'D:/biocbuild/bbs-3.13-data-experiment/meat/ITALICSData.Rcheck/00check.log'
for details.



Installation output

ITALICSData.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://172.29.0.4/BBS/3.13/data-experiment/src/contrib/ITALICSData_2.29.0.tar.gz && rm -rf ITALICSData.buildbin-libdir && mkdir ITALICSData.buildbin-libdir && D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=ITALICSData.buildbin-libdir ITALICSData_2.29.0.tar.gz && D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL ITALICSData_2.29.0.zip && rm ITALICSData_2.29.0.tar.gz ITALICSData_2.29.0.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
  0 84.0M    0  705k    0     0  1354k      0  0:01:03 --:--:--  0:01:03 1351k
  8 84.0M    8 6978k    0     0  4394k      0  0:00:19  0:00:01  0:00:18 4392k
 51 84.0M   51 42.9M    0     0  17.0M      0  0:00:04  0:00:02  0:00:02 17.0M
100 84.0M  100 84.0M    0     0  26.3M      0  0:00:03  0:00:03 --:--:-- 26.3M

install for i386

* installing *source* package 'ITALICSData' ...
** using staged installation
** data
** inst
** help
*** installing help indices
  converting help for package 'ITALICSData'
    finding HTML links ... done
    Hind.QuartetEffect                      html  
REDIRECT:topic	 Hind.QuartetEffect -> Hind.QuartetEffect.html [ SUCCESS ]
REDIRECT:topic	 Hind.QuartetEffect -> Hind.QuartetEffect.html [ SUCCESS ]
Rd warning: Previous alias or file overwritten by alias: Hind.QuartetEffect
    Nsp.QuartetEffect                       html  
REDIRECT:topic	 Nsp.QuartetEffect -> Nsp.QuartetEffect.html [ SUCCESS ]
REDIRECT:topic	 Nsp.QuartetEffect -> Nsp.QuartetEffect.html [ SUCCESS ]
Rd warning: Previous alias or file overwritten by alias: Nsp.QuartetEffect
    Sty.QuartetEffect                       html  
REDIRECT:topic	 Sty.QuartetEffect -> Sty.QuartetEffect.html [ SUCCESS ]
REDIRECT:topic	 Sty.QuartetEffect -> Sty.QuartetEffect.html [ SUCCESS ]
Rd warning: Previous alias or file overwritten by alias: Sty.QuartetEffect
    Xba.QuartetEffect                       html  
REDIRECT:topic	 Xba.QuartetEffect -> Xba.QuartetEffect.html [ SUCCESS ]
REDIRECT:topic	 Xba.QuartetEffect -> Xba.QuartetEffect.html [ SUCCESS ]
Rd warning: Previous alias or file overwritten by alias: Xba.QuartetEffect
    quartetInfo                             html  
REDIRECT:topic	 quartet -> quartetInfo.html [ SUCCESS ]
REDIRECT:topic	 quartet -> quartetInfo.html [ SUCCESS ]
REDIRECT:file	 quartetInfo.html -> quartetInfo.html [ SUCCESS ]
Rd warning: Previous alias or file overwritten by alias: quartet
    snpInfo                                 html  
REDIRECT:topic	 snpInfo -> snpInfo.html [ SUCCESS ]
REDIRECT:topic	 snpInfo -> snpInfo.html [ SUCCESS ]
Rd warning: Previous alias or file overwritten by alias: snpInfo
** building package indices
** 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 'ITALICSData' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'ITALICSData' as ITALICSData_2.29.0.zip
* DONE (ITALICSData)
* installing to library 'D:/biocbuild/bbs-3.13-bioc/R/library'
package 'ITALICSData' successfully unpacked and MD5 sums checked

Tests output


Example timings