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CHECK report for AssessORF on tokay1

This page was generated on 2021-02-22 12:36:59 -0500 (Mon, 22 Feb 2021).

To the developers/maintainers of the AssessORF package:
Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 96/1974HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
AssessORF 1.8.0
Deepank Korandla
Snapshot Date: 2021-02-21 14:52:07 -0500 (Sun, 21 Feb 2021)
URL: https://git.bioconductor.org/packages/AssessORF
Branch: RELEASE_3_12
Last Commit: 3cb4cb1
Last Changed Date: 2020-10-27 11:40:18 -0500 (Tue, 27 Oct 2020)
malbec1Linux (Ubuntu 18.04.5 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version exists in internal repository
nebbiolo1Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    OK  
tokay1Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version exists in internal repository
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version exists in internal repository

Summary

Package: AssessORF
Version: 1.8.0
Command: C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:AssessORF.install-out.txt --library=C:\Users\biocbuild\bbs-3.12-bioc\R\library --no-vignettes --timings AssessORF_1.8.0.tar.gz
StartedAt: 2021-02-22 00:28:35 -0500 (Mon, 22 Feb 2021)
EndedAt: 2021-02-22 00:32:39 -0500 (Mon, 22 Feb 2021)
EllapsedTime: 244.2 seconds
RetCode: 0
Status:   OK   
CheckDir: AssessORF.Rcheck
Warnings: 0

Command output

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###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:AssessORF.install-out.txt --library=C:\Users\biocbuild\bbs-3.12-bioc\R\library --no-vignettes --timings AssessORF_1.8.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.12-bioc/meat/AssessORF.Rcheck'
* using R version 4.0.3 (2020-10-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'AssessORF/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'AssessORF' version '1.8.0'
* 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 'AssessORF' can be installed ... OK
* checking installed package size ... OK
* 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 files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                   user system elapsed
MapAssessmentData 19.11   1.52   21.25
plot.Assessment   12.78   2.37   15.22
AssessGenes       14.10   0.19   14.53
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                   user system elapsed
MapAssessmentData 19.14   2.10   21.23
AssessGenes       14.00   0.07   14.07
plot.Assessment   10.49   2.87   13.36
* 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: OK


Installation output

AssessORF.Rcheck/00install.out

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.12/bioc/src/contrib/AssessORF_1.8.0.tar.gz && rm -rf AssessORF.buildbin-libdir && mkdir AssessORF.buildbin-libdir && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=AssessORF.buildbin-libdir AssessORF_1.8.0.tar.gz && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL AssessORF_1.8.0.zip && rm AssessORF_1.8.0.tar.gz AssessORF_1.8.0.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 4552k  100 4552k    0     0  47.2M      0 --:--:-- --:--:-- --:--:-- 50.5M

install for i386

* installing *source* package 'AssessORF' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'AssessORF'
    finding HTML links ... done
    AssessGenes                             html  
    Assessment-class                        html  
    CompareAssessmentResults                html  
    MapAssessmentData                       html  
    ScoreAssessmentResults                  html  
    as.matrix.Assessment                    html  
    mosaicplot.Assessment                   html  
    plot.Assessment                         html  
    print.Assessment                        html  
** 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 'AssessORF' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'AssessORF' as AssessORF_1.8.0.zip
* DONE (AssessORF)
* installing to library 'C:/Users/biocbuild/bbs-3.12-bioc/R/library'
package 'AssessORF' successfully unpacked and MD5 sums checked

Tests output


Example timings

AssessORF.Rcheck/examples_i386/AssessORF-Ex.timings

nameusersystemelapsed
AssessGenes14.10 0.1914.53
CompareAssessmentResults0.010.010.03
MapAssessmentData19.11 1.5221.25
ScoreAssessmentResults0.010.000.01
as.matrix.Assessment000
mosaicplot.Assessment0.030.000.03
plot.Assessment12.78 2.3715.22
print.Assessment1.390.061.46

AssessORF.Rcheck/examples_x64/AssessORF-Ex.timings

nameusersystemelapsed
AssessGenes14.00 0.0714.07
CompareAssessmentResults0.030.000.03
MapAssessmentData19.14 2.1021.23
ScoreAssessmentResults000
as.matrix.Assessment000
mosaicplot.Assessment0.030.000.03
plot.Assessment10.49 2.8713.36
print.Assessment0.810.020.83