Back to Multiple platform build/check report for BioC 3.12
A[B]CDEFGHIJKLMNOPQRSTUVWXYZ

CHECK report for basilisk.utils on tokay1

This page was generated on 2020-12-01 11:57:57 -0500 (Tue, 01 Dec 2020).

TO THE DEVELOPERS/MAINTAINERS OF THE basilisk.utils PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 122/1974HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
basilisk.utils 1.2.0
Aaron Lun
Snapshot Date: 2020-11-30 14:42:56 -0500 (Mon, 30 Nov 2020)
URL: https://git.bioconductor.org/packages/basilisk.utils
Branch: RELEASE_3_12
Last Commit: b213e3f
Last Changed Date: 2020-10-27 11:53:41 -0500 (Tue, 27 Oct 2020)
malbec1 Linux (Ubuntu 18.04.4 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
nebbiolo1 Linux (Ubuntu 20.04.1 LTS) / x86_64  OK  OK  OK 
tokay1 Windows Server 2012 R2 Standard / x64  OK  OK [ OK ] OK UNNEEDED, same version exists in internal repository
merida1 macOS 10.14.6 Mojave / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: basilisk.utils
Version: 1.2.0
Command: C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:basilisk.utils.install-out.txt --library=C:\Users\biocbuild\bbs-3.12-bioc\R\library --no-vignettes --timings basilisk.utils_1.2.0.tar.gz
StartedAt: 2020-12-01 00:36:24 -0500 (Tue, 01 Dec 2020)
EndedAt: 2020-12-01 00:36:53 -0500 (Tue, 01 Dec 2020)
EllapsedTime: 29.5 seconds
RetCode: 0
Status:  OK  
CheckDir: basilisk.utils.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:basilisk.utils.install-out.txt --library=C:\Users\biocbuild\bbs-3.12-bioc\R\library --no-vignettes --timings basilisk.utils_1.2.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.12-bioc/meat/basilisk.utils.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 'basilisk.utils/DESCRIPTION' ... OK
* this is package 'basilisk.utils' version '1.2.0'
* 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 'basilisk.utils' 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
** running examples for arch 'x64' ... OK
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'testthat.R'
 OK
** running tests for arch 'x64' ...
  Running 'testthat.R'
 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: OK


Installation output

basilisk.utils.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.12/bioc/src/contrib/basilisk.utils_1.2.0.tar.gz && rm -rf basilisk.utils.buildbin-libdir && mkdir basilisk.utils.buildbin-libdir && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=basilisk.utils.buildbin-libdir basilisk.utils_1.2.0.tar.gz && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL basilisk.utils_1.2.0.zip && rm basilisk.utils_1.2.0.tar.gz basilisk.utils_1.2.0.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
100 13445  100 13445    0     0   341k      0 --:--:-- --:--:-- --:--:--  386k

install for i386

* installing *source* package 'basilisk.utils' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'basilisk.utils'
    finding HTML links ... done
    clearExternalDir                        html  
    destroyOldVersions                      html  
    dir.create2                             html  
    getBinaries                             html  
    getCondaDir                             html  
    getExternalDir                          html  
    finding level-2 HTML links ... done

    getSystemDir                            html  
    installConda                            html  
    isWindows                               html  
    lockExternalDir                         html  
    setVariable                             html  
    unlink2                                 html  
    useSystemDir                            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 'basilisk.utils' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'basilisk.utils' as basilisk.utils_1.2.0.zip
* DONE (basilisk.utils)
* installing to library 'C:/Users/biocbuild/bbs-3.12-bioc/R/library'
package 'basilisk.utils' successfully unpacked and MD5 sums checked

Tests output

basilisk.utils.Rcheck/tests_i386/testthat.Rout


R version 4.0.3 (2020-10-10) -- "Bunny-Wunnies Freak Out"
Copyright (C) 2020 The R Foundation for Statistical Computing
Platform: i386-w64-mingw32/i386 (32-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(testthat)
> library(basilisk.utils)
> test_check("basilisk.utils")
-- Skip (test-env.R:37:1): BASILISK_EXTERNAL_DIR works -------------------------
Reason: empty test

-- Warning (test-utils.R:20:5): special dir.create2 works as expected ----------
'C:\Users\biocbuild\bbs-3.12-bioc\tmpdir\RtmpOEz5aw\file2c48446254c' already exists

-- Skipped tests  --------------------------------------------------------------
* empty test (1)

== testthat results  ===========================================================
Warning (test-utils.R:20:5): special dir.create2 works as expected

[ FAIL 0 | WARN 1 | SKIP 1 | PASS 22 ]
> 
> proc.time()
   user  system elapsed 
   1.48    0.15    1.62 

basilisk.utils.Rcheck/tests_x64/testthat.Rout


R version 4.0.3 (2020-10-10) -- "Bunny-Wunnies Freak Out"
Copyright (C) 2020 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(testthat)
> library(basilisk.utils)
> test_check("basilisk.utils")
-- Skip (test-env.R:37:1): BASILISK_EXTERNAL_DIR works -------------------------
Reason: empty test

-- Warning (test-utils.R:20:5): special dir.create2 works as expected ----------
'C:\Users\biocbuild\bbs-3.12-bioc\tmpdir\Rtmpuc5c4H\file28045eb7c70' already exists

-- Skipped tests  --------------------------------------------------------------
* empty test (1)

== testthat results  ===========================================================
Warning (test-utils.R:20:5): special dir.create2 works as expected

[ FAIL 0 | WARN 1 | SKIP 1 | PASS 22 ]
> 
> proc.time()
   user  system elapsed 
   1.17    0.10    1.26 

Example timings

basilisk.utils.Rcheck/examples_i386/basilisk.utils-Ex.timings

nameusersystemelapsed
clearExternalDir000
dir.create2000
getBinaries000
getCondaDir000
getExternalDir000
getSystemDir000
installConda000
isWindows000
lockExternalDir000
unlink20.020.000.02

basilisk.utils.Rcheck/examples_x64/basilisk.utils-Ex.timings

nameusersystemelapsed
clearExternalDir000
dir.create2000
getBinaries000
getCondaDir000
getExternalDir000
getSystemDir000
installConda000
isWindows000
lockExternalDir0.020.000.02
unlink2000