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CHECK report for yeastCC on riesling1

This page was generated on 2021-01-14 15:59:12 -0500 (Thu, 14 Jan 2021).

TO THE DEVELOPERS/MAINTAINERS OF THE yeastCC PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 379/385HostnameOS / ArchINSTALLBUILDCHECK
yeastCC 1.31.0
Sandrine Dudoit
Snapshot Date: 2021-01-14 09:00:13 -0500 (Thu, 14 Jan 2021)
URL: https://git.bioconductor.org/packages/yeastCC
Branch: master
Last Commit: 40ffaf7
Last Changed Date: 2020-10-27 09:47:12 -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: yeastCC
Version: 1.31.0
Command: D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:yeastCC.install-out.txt --library=D:\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings yeastCC_1.31.0.tar.gz
StartedAt: 2021-01-14 11:47:01 -0500 (Thu, 14 Jan 2021)
EndedAt: 2021-01-14 11:47:31 -0500 (Thu, 14 Jan 2021)
EllapsedTime: 30.4 seconds
RetCode: 0
Status:  WARNINGS  
CheckDir: yeastCC.Rcheck
Warnings: 2

Command output

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###
### Running command:
###
###   D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:yeastCC.install-out.txt --library=D:\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings yeastCC_1.31.0.tar.gz
###
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* using log directory 'D:/biocbuild/bbs-3.13-data-experiment/meat/yeastCC.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 'yeastCC/DESCRIPTION' ... OK
* this is package 'yeastCC' version '1.31.0'
* 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 'yeastCC' can be installed ... OK
* checking installed package size ... OK
* 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 ... 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 ... WARNING
  Warning: large data file saved inefficiently:
                 size ASCII compress
  spYCCmeta.rda 430Kb FALSE     none
  
  Note: significantly better compression could be obtained
        by using R CMD build --resave-data
                old_size new_size compress
  breeden.rda      1.9Mb    1.5Mb       xz
  spYCCES.rda      757Kb    483Kb       xz
  spYCCmeta.rda    430Kb     55Kb       xz
  yeastCC.rda      1.5Mb    484Kb       xz
* checking files in 'vignettes' ... WARNING
Files in the 'vignettes' directory but no files in 'inst/doc':
  'CellCycle98.txt', 'CellCycle98.xls', 'KnownGenes.doc',
    'KnownGenes.txt', 'Spellmanetal.pdf', 'consistentFHCRC.csv',
    'createYeastCC.R', 'orf800.txt'
Package has no Sweave vignette sources and no VignetteBuilder field.
* checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... OK
* checking PDF version of manual ... OK
* DONE

Status: 2 WARNINGs, 1 NOTE
See
  'D:/biocbuild/bbs-3.13-data-experiment/meat/yeastCC.Rcheck/00check.log'
for details.



Installation output

yeastCC.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/yeastCC_1.31.0.tar.gz && rm -rf yeastCC.buildbin-libdir && mkdir yeastCC.buildbin-libdir && D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=yeastCC.buildbin-libdir yeastCC_1.31.0.tar.gz && D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL yeastCC_1.31.0.zip && rm yeastCC_1.31.0.tar.gz yeastCC_1.31.0.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 5979k  100 5979k    0     0  67.1M      0 --:--:-- --:--:-- --:--:-- 67.1M

install for i386

* installing *source* package 'yeastCC' ...
** using staged installation
** data
*** moving datasets to lazyload DB
** inst
** help
*** installing help indices
  converting help for package 'yeastCC'
    finding HTML links ... done
    breeden                                 html  
REDIRECT:topic	 breeden -> breeden.html [ SUCCESS ]
    orf800                                  html  
REDIRECT:topic	 orf800 -> orf800.html [ SUCCESS ]
    spYCCmeta                               html  
REDIRECT:topic	 spYCCmeta -> spYCCmeta.html [ SUCCESS ]
    yeastCC                                 html  
REDIRECT:topic	 yeastCC -> yeastCC.html [ SUCCESS ]
REDIRECT:topic	 spYCCES -> yeastCC.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 'yeastCC' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'yeastCC' as yeastCC_1.31.0.zip
* DONE (yeastCC)
* installing to library 'D:/biocbuild/bbs-3.13-bioc/R/library'
package 'yeastCC' successfully unpacked and MD5 sums checked

Tests output


Example timings

yeastCC.Rcheck/examples_i386/yeastCC-Ex.timings

nameusersystemelapsed
breeden0.010.030.07
orf800000
spYCCmeta000
yeastCC0.030.000.03

yeastCC.Rcheck/examples_x64/yeastCC-Ex.timings

nameusersystemelapsed
breeden0.040.020.07
orf800000
spYCCmeta000
yeastCC0.030.000.03