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CHECK report for hapmapsnp5 on riesling1

This page was generated on 2021-01-21 16:01:29 -0500 (Thu, 21 Jan 2021).

TO THE DEVELOPERS/MAINTAINERS OF THE hapmapsnp5 PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 157/386HostnameOS / ArchINSTALLBUILDCHECK
hapmapsnp5 1.33.0
Benilton Carvalho
Snapshot Date: 2021-01-21 09:00:14 -0500 (Thu, 21 Jan 2021)
URL: https://git.bioconductor.org/packages/hapmapsnp5
Branch: master
Last Commit: 0437731
Last Changed Date: 2020-10-27 09:49:14 -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: hapmapsnp5
Version: 1.33.0
Command: D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:hapmapsnp5.install-out.txt --library=D:\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings hapmapsnp5_1.33.0.tar.gz
StartedAt: 2021-01-21 11:26:34 -0500 (Thu, 21 Jan 2021)
EndedAt: 2021-01-21 11:26:56 -0500 (Thu, 21 Jan 2021)
EllapsedTime: 21.6 seconds
RetCode: 0
Status:  OK  
CheckDir: hapmapsnp5.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:hapmapsnp5.install-out.txt --library=D:\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings hapmapsnp5_1.33.0.tar.gz
###
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* using log directory 'D:/biocbuild/bbs-3.13-data-experiment/meat/hapmapsnp5.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 'hapmapsnp5/DESCRIPTION' ... OK
* this is package 'hapmapsnp5' version '1.33.0'
* 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 'hapmapsnp5' can be installed ... OK
* checking installed package size ... NOTE
  installed size is 134.5Mb
  sub-directories of 1Mb or more:
    celFiles  134.5Mb
* 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
* 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 examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... OK
* checking PDF version of manual ... OK
* DONE

Status: 2 NOTEs
See
  'D:/biocbuild/bbs-3.13-data-experiment/meat/hapmapsnp5.Rcheck/00check.log'
for details.



Installation output

hapmapsnp5.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/hapmapsnp5_1.33.0.tar.gz && rm -rf hapmapsnp5.buildbin-libdir && mkdir hapmapsnp5.buildbin-libdir && D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=hapmapsnp5.buildbin-libdir hapmapsnp5_1.33.0.tar.gz && D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL hapmapsnp5_1.33.0.zip && rm hapmapsnp5_1.33.0.tar.gz hapmapsnp5_1.33.0.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 61.6M    0  344k    0     0   907k      0  0:01:09 --:--:--  0:01:09  907k
 23 61.6M   23 14.3M    0     0  8083k      0  0:00:07  0:00:01  0:00:06 8083k
 25 61.6M   25 15.7M    0     0  6685k      0  0:00:09  0:00:02  0:00:07 6682k
 30 61.6M   30 18.7M    0     0  5634k      0  0:00:11  0:00:03  0:00:08 5634k
 41 61.6M   41 25.3M    0     0  5913k      0  0:00:10  0:00:04  0:00:06 5913k
 50 61.6M   50 31.0M    0     0  5434k      0  0:00:11  0:00:05  0:00:06 5749k
 52 61.6M   52 32.4M    0     0  5008k      0  0:00:12  0:00:06  0:00:06 3848k
 55 61.6M   55 33.9M    0     0  4671k      0  0:00:13  0:00:07  0:00:06 3704k
 57 61.6M   57 35.4M    0     0  4240k      0  0:00:14  0:00:08  0:00:06 3321k
 62 61.6M   62 38.2M    0     0  4038k      0  0:00:15  0:00:09  0:00:06 2492k
 64 61.6M   64 39.6M    0     0  3855k      0  0:00:16  0:00:10  0:00:06 1886k
 71 61.6M   71 44.1M    0     0  3975k      0  0:00:15  0:00:11  0:00:04 2527k
 89 61.6M   89 55.4M    0     0  4564k      0  0:00:13  0:00:12  0:00:01 4405k
 94 61.6M   94 58.1M    0     0  4440k      0  0:00:14  0:00:13  0:00:01 4790k
100 61.6M  100 61.6M    0     0  4566k      0  0:00:13  0:00:13 --:--:-- 5804k

install for i386

* installing *source* package 'hapmapsnp5' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'hapmapsnp5'
    finding HTML links ... done
    hapmapsnp5-package                      html  
REDIRECT:topic	 hapmapsnp5-package -> hapmapsnp5-package.html [ SUCCESS ]
REDIRECT:topic	 hapmapsnp5 -> hapmapsnp5-package.html [ SUCCESS ]
** 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 'hapmapsnp5' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'hapmapsnp5' as hapmapsnp5_1.33.0.zip
* DONE (hapmapsnp5)
* installing to library 'D:/biocbuild/bbs-3.13-bioc/R/library'
package 'hapmapsnp5' successfully unpacked and MD5 sums checked

Tests output


Example timings

hapmapsnp5.Rcheck/examples_i386/hapmapsnp5-Ex.timings

nameusersystemelapsed
hapmapsnp5-package000

hapmapsnp5.Rcheck/examples_x64/hapmapsnp5-Ex.timings

nameusersystemelapsed
hapmapsnp5-package000