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CHECK report for AssessORFData on riesling1

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

TO THE DEVELOPERS/MAINTAINERS OF THE AssessORFData PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 21/385HostnameOS / ArchINSTALLBUILDCHECK
AssessORFData 1.9.0
Deepank Korandla
Snapshot Date: 2021-01-14 09:00:13 -0500 (Thu, 14 Jan 2021)
URL: https://git.bioconductor.org/packages/AssessORFData
Branch: master
Last Commit: a2da368
Last Changed Date: 2020-10-27 10:28:32 -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: AssessORFData
Version: 1.9.0
Command: D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:AssessORFData.install-out.txt --library=D:\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings AssessORFData_1.9.0.tar.gz
StartedAt: 2021-01-14 11:07:18 -0500 (Thu, 14 Jan 2021)
EndedAt: 2021-01-14 11:10:42 -0500 (Thu, 14 Jan 2021)
EllapsedTime: 204.4 seconds
RetCode: 0
Status:  OK  
CheckDir: AssessORFData.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:AssessORFData.install-out.txt --library=D:\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings AssessORFData_1.9.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'D:/biocbuild/bbs-3.13-data-experiment/meat/AssessORFData.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 'AssessORFData/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'AssessORFData' version '1.9.0'
* package encoding: UTF-8
* 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 'AssessORFData' can be installed ... OK
* checking installed package size ... NOTE
  installed size is 146.2Mb
  sub-directories of 1Mb or more:
    data     124.9Mb
    extdata   20.6Mb
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... OK
* 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 files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... OK
* 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: 1 NOTE
See
  'D:/biocbuild/bbs-3.13-data-experiment/meat/AssessORFData.Rcheck/00check.log'
for details.



Installation output

AssessORFData.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://172.29.0.4/BBS/3.13/data-experiment/src/contrib/AssessORFData_1.9.0.tar.gz && rm -rf AssessORFData.buildbin-libdir && mkdir AssessORFData.buildbin-libdir && D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=AssessORFData.buildbin-libdir AssessORFData_1.9.0.tar.gz && D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL AssessORFData_1.9.0.zip && rm AssessORFData_1.9.0.tar.gz AssessORFData_1.9.0.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
  2  144M    2 3437k    0     0  58.8M      0  0:00:02 --:--:--  0:00:02 57.8M
 79  144M   79  115M    0     0   109M      0  0:00:01  0:00:01 --:--:--  109M
100  144M  100  144M    0     0   104M      0  0:00:01  0:00:01 --:--:--  104M

install for i386

* installing *source* package 'AssessORFData' ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'AssessORFData'
    finding HTML links ... done
    AP1                                     html  
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    ATCC11842                               html  
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    ATCC17978                               html  
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    ATCC700084                              html  
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    AssessORF_StrainIDs                     html  
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    BW25113                                 html  
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    CCMP1375                                html  
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    CECT5344                                html  
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    D_UW_3_CX                               html  
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    EGD_e                                   html  
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    GetDataMapObj                           html  
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    GetGeneSources                          html  
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    GetResultsObj                           html  
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    GetStrainIDs                            html  
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    H37Rv                                   html  
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    HG001                                   html  
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    Il1403                                  html  
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    K_12_MG1655                             html  
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    LAL14_1                                 html  
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    MG1363                                  html  
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    MGAS5005                                html  
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    NCIB_3610                               html  
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    PAO1                                    html  
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    SaveGenomeToPath                        html  
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    Strain10403S                            html  
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    Strain168                               html  
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    TCH1516                                 html  
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** 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 'AssessORFData' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'AssessORFData' as AssessORFData_1.9.0.zip
* DONE (AssessORFData)
* installing to library 'D:/biocbuild/bbs-3.13-bioc/R/library'
package 'AssessORFData' successfully unpacked and MD5 sums checked

Tests output


Example timings

AssessORFData.Rcheck/examples_i386/AssessORFData-Ex.timings

nameusersystemelapsed
GetDataMapObj1.070.091.15
GetGeneSources000
GetResultsObj0.040.000.05
GetStrainIDs000
SaveGenomeToPath0.080.020.09

AssessORFData.Rcheck/examples_x64/AssessORFData-Ex.timings

nameusersystemelapsed
GetDataMapObj1.020.101.11
GetGeneSources000
GetResultsObj0.020.010.03
GetStrainIDs000
SaveGenomeToPath0.060.020.08