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CHECK report for wpm on tokay1

This page was generated on 2021-05-06 12:34:12 -0400 (Thu, 06 May 2021).

To the developers/maintainers of the wpm package:
Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 1956/1974HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
wpm 1.0.0  (landing page)
Helene Borges
Snapshot Date: 2021-05-05 14:51:38 -0400 (Wed, 05 May 2021)
URL: https://git.bioconductor.org/packages/wpm
Branch: RELEASE_3_12
Last Commit: aef0431
Last Changed Date: 2020-10-27 11:58:53 -0400 (Tue, 27 Oct 2020)
malbec1Linux (Ubuntu 18.04.5 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version exists in internal repository
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: wpm
Version: 1.0.0
Command: C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:wpm.install-out.txt --library=C:\Users\biocbuild\bbs-3.12-bioc\R\library --no-vignettes --timings wpm_1.0.0.tar.gz
StartedAt: 2021-05-06 07:57:42 -0400 (Thu, 06 May 2021)
EndedAt: 2021-05-06 07:59:30 -0400 (Thu, 06 May 2021)
EllapsedTime: 108.2 seconds
RetCode: 0
Status:   OK   
CheckDir: wpm.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:wpm.install-out.txt --library=C:\Users\biocbuild\bbs-3.12-bioc\R\library --no-vignettes --timings wpm_1.0.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.12-bioc/meat/wpm.Rcheck'
* using R version 4.0.5 (2021-03-31)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'wpm/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'wpm' version '1.0.0'
* 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 'wpm' 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
convertESet 6.34   0.35    6.76
convertSE   4.89   0.20    5.10
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
            user system elapsed
convertESet 6.08   0.22    6.42
* 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

wpm.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://172.29.0.3/BBS/3.12/bioc/src/contrib/wpm_1.0.0.tar.gz && rm -rf wpm.buildbin-libdir && mkdir wpm.buildbin-libdir && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=wpm.buildbin-libdir wpm_1.0.0.tar.gz && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL wpm_1.0.0.zip && rm wpm_1.0.0.tar.gz wpm_1.0.0.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 2226k  100 2226k    0     0  36.9M      0 --:--:-- --:--:-- --:--:-- 37.4M

install for i386

* installing *source* package 'wpm' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'wpm'
    finding HTML links ... done
    backtracking                            html  
    balancedGrpDistrib                      html  
    checkConstraints                        html  
    checkWpmInputs                          html  
    convertCSV                              html  
    convertESet                             html  
    convertSE                               html  
    convertVector2Df                        html  
    defineBufferCoords                      html  
    drawMap                                 html  
    findNEWSneighbors                       html  
    findNSneighbors                         html  
    findWEneighbors                         html  
    generateMap                             html  
    joinDataframes                          html  
    randomWalk                              html  
    resample                                html  
    solveCell                               html  
    wpm                                     html  
    wrapperWPM                              html  
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location

-- This is the Well-Plate Maker package. ---------------------------------------
If you want to use the shiny application, then simply run: `wpm()`.If you want
to see the Tutorial vignette and use WPM in command line, run:
`browseVignettes('wpm')`.
** testing if installed package can be loaded from final location

-- This is the Well-Plate Maker package. ---------------------------------------
If you want to use the shiny application, then simply run: `wpm()`.If you want
to see the Tutorial vignette and use WPM in command line, run:
`browseVignettes('wpm')`.
** testing if installed package keeps a record of temporary installation path

install for x64

* installing *source* package 'wpm' ...
** testing if installed package can be loaded

-- This is the Well-Plate Maker package. ---------------------------------------
If you want to use the shiny application, then simply run: `wpm()`.If you want
to see the Tutorial vignette and use WPM in command line, run:
`browseVignettes('wpm')`.
* MD5 sums
packaged installation of 'wpm' as wpm_1.0.0.zip
* DONE (wpm)
* installing to library 'C:/Users/biocbuild/bbs-3.12-bioc/R/library'
package 'wpm' successfully unpacked and MD5 sums checked

Tests output

wpm.Rcheck/tests_i386/testthat.Rout


R version 4.0.5 (2021-03-31) -- "Shake and Throw"
Copyright (C) 2021 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(wpm)

-- This is the Well-Plate Maker package. ---------------------------------------
If you want to use the shiny application, then simply run: `wpm()`.If you want
to see the Tutorial vignette and use WPM in command line, run:
`browseVignettes('wpm')`.
cli-2444-1
> testthat::test_check("wpm")
2021-05-06 07:58:55 WARNING::the dimensions of the plate are incompatible with
                             the wells.
2021-05-06 07:58:55 WARNING::the dimensions of the plate are incompatible with
                             the wells.
2021-05-06 07:58:55 INFO::gp_fiels: Group, class: character
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 12 ]
> 
> proc.time()
   user  system elapsed 
  12.18    1.07   13.84 

wpm.Rcheck/tests_x64/testthat.Rout


R version 4.0.5 (2021-03-31) -- "Shake and Throw"
Copyright (C) 2021 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(wpm)

-- This is the Well-Plate Maker package. ---------------------------------------
If you want to use the shiny application, then simply run: `wpm()`.If you want
to see the Tutorial vignette and use WPM in command line, run:
`browseVignettes('wpm')`.
cli-2444-1
> testthat::test_check("wpm")
2021-05-06 07:59:09 WARNING::the dimensions of the plate are incompatible with
                             the wells.
2021-05-06 07:59:09 WARNING::the dimensions of the plate are incompatible with
                             the wells.
2021-05-06 07:59:09 INFO::gp_fiels: Group, class: character
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 12 ]
> 
> proc.time()
   user  system elapsed 
  14.28    0.60   15.03 

Example timings

wpm.Rcheck/examples_i386/wpm-Ex.timings

nameusersystemelapsed
convertCSV0.140.010.16
convertESet6.340.356.76
convertSE4.890.205.10
convertVector2Df0.050.020.06
drawMap0.510.310.83
wpm000
wrapperWPM0.140.000.14

wpm.Rcheck/examples_x64/wpm-Ex.timings

nameusersystemelapsed
convertCSV0.150.000.15
convertESet6.080.226.42
convertSE4.170.134.30
convertVector2Df0.040.010.06
drawMap1.100.031.12
wpm000
wrapperWPM0.150.000.16