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CHECK report for hapmapsnp6 on riesling1

This page was generated on 2021-01-14 15:59:08 -0500 (Thu, 14 Jan 2021).

TO THE DEVELOPERS/MAINTAINERS OF THE hapmapsnp6 PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 158/385HostnameOS / ArchINSTALLBUILDCHECK
hapmapsnp6 1.33.0
Benilton Carvalho
Snapshot Date: 2021-01-14 09:00:13 -0500 (Thu, 14 Jan 2021)
URL: https://git.bioconductor.org/packages/hapmapsnp6
Branch: master
Last Commit: 0255ee0
Last Changed Date: 2020-10-27 09:49:22 -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: hapmapsnp6
Version: 1.33.0
Command: D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:hapmapsnp6.install-out.txt --library=D:\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings hapmapsnp6_1.33.0.tar.gz
StartedAt: 2021-01-14 11:22:08 -0500 (Thu, 14 Jan 2021)
EndedAt: 2021-01-14 11:24:11 -0500 (Thu, 14 Jan 2021)
EllapsedTime: 122.8 seconds
RetCode: 0
Status:  OK  
CheckDir: hapmapsnp6.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:hapmapsnp6.install-out.txt --library=D:\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings hapmapsnp6_1.33.0.tar.gz
###
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* using log directory 'D:/biocbuild/bbs-3.13-data-experiment/meat/hapmapsnp6.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 'hapmapsnp6/DESCRIPTION' ... OK
* this is package 'hapmapsnp6' 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 'hapmapsnp6' can be installed ... OK
* checking installed package size ... NOTE
  installed size is 380.8Mb
  sub-directories of 1Mb or more:
    celFiles  197.6Mb
    data      183.2Mb
* 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU (user + system) or elapsed time > 5s
             user system elapsed
crlmmResult 17.82   0.33   18.14
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
             user system elapsed
crlmmResult 14.89   0.39   15.28
* checking PDF version of manual ... OK
* DONE

Status: 2 NOTEs
See
  'D:/biocbuild/bbs-3.13-data-experiment/meat/hapmapsnp6.Rcheck/00check.log'
for details.



Installation output

hapmapsnp6.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/hapmapsnp6_1.33.0.tar.gz && rm -rf hapmapsnp6.buildbin-libdir && mkdir hapmapsnp6.buildbin-libdir && D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=hapmapsnp6.buildbin-libdir hapmapsnp6_1.33.0.tar.gz && D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL hapmapsnp6_1.33.0.zip && rm hapmapsnp6_1.33.0.tar.gz hapmapsnp6_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  266M    0  199k    0     0   199k      0  0:22:47 --:--:--  0:22:47  199k
 12  266M   12 32.3M    0     0  16.3M      0  0:00:16  0:00:01  0:00:15 16.3M
 35  266M   35 93.5M    0     0  27.8M      0  0:00:09  0:00:03  0:00:06 27.8M
 40  266M   40  109M    0     0  24.6M      0  0:00:10  0:00:04  0:00:06 24.6M
 48  266M   48  128M    0     0  25.7M      0  0:00:10  0:00:04  0:00:06 25.7M
 72  266M   72  194M    0     0  32.4M      0  0:00:08  0:00:05  0:00:03 38.9M
 82  266M   82  221M    0     0  31.3M      0  0:00:08  0:00:07  0:00:01 37.1M
 83  266M   83  223M    0     0  27.9M      0  0:00:09  0:00:07  0:00:02 28.0M
 94  266M   94  253M    0     0  28.2M      0  0:00:09  0:00:08  0:00:01 31.6M
100  266M  100  266M    0     0  27.1M      0  0:00:09  0:00:09 --:--:-- 28.6M

install for i386

* installing *source* package 'hapmapsnp6' ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'hapmapsnp6'
    finding HTML links ... done
    crlmmResult                             html  
REDIRECT:topic	 crlmmResult -> crlmmResult.html [ SUCCESS ]
    hapmapsnp6-package                      html  
REDIRECT:topic	 hapmapsnp6-package -> hapmapsnp6-package.html [ SUCCESS ]
REDIRECT:topic	 hapmapsnp6 -> hapmapsnp6-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 'hapmapsnp6' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'hapmapsnp6' as hapmapsnp6_1.33.0.zip
* DONE (hapmapsnp6)
* installing to library 'D:/biocbuild/bbs-3.13-bioc/R/library'
package 'hapmapsnp6' successfully unpacked and MD5 sums checked

Tests output


Example timings

hapmapsnp6.Rcheck/examples_i386/hapmapsnp6-Ex.timings

nameusersystemelapsed
crlmmResult17.82 0.3318.14
hapmapsnp6-package000

hapmapsnp6.Rcheck/examples_x64/hapmapsnp6-Ex.timings

nameusersystemelapsed
crlmmResult14.89 0.3915.28
hapmapsnp6-package000