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This page was generated on 2021-10-18 12:03:57 -0400 (Mon, 18 Oct 2021).

CHECK results for alevinQC on riesling1

To the developers/maintainers of the alevinQC package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/alevinQC.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information.
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raw results

Package 41/2060HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
alevinQC 1.9.0  (landing page)
Charlotte Soneson
Snapshot Date: 2021-10-17 14:50:03 -0400 (Sun, 17 Oct 2021)
git_url: https://git.bioconductor.org/packages/alevinQC
git_branch: master
git_last_commit: 7caf501
git_last_commit_date: 2021-05-19 12:41:11 -0400 (Wed, 19 May 2021)
nebbiolo2Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
riesling1Windows Server 2019 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: alevinQC
Version: 1.9.0
Command: D:\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:alevinQC.install-out.txt --library=D:\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings alevinQC_1.9.0.tar.gz
StartedAt: 2021-10-17 23:48:04 -0400 (Sun, 17 Oct 2021)
EndedAt: 2021-10-17 23:51:19 -0400 (Sun, 17 Oct 2021)
EllapsedTime: 194.6 seconds
RetCode: 0
Status:   OK  
CheckDir: alevinQC.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   D:\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:alevinQC.install-out.txt --library=D:\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings alevinQC_1.9.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'D:/biocbuild/bbs-3.14-bioc/meat/alevinQC.Rcheck'
* using R version 4.1.1 (2021-08-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'alevinQC/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'alevinQC' 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 'alevinQC' can be installed ... OK
* checking installed package size ... NOTE
  installed size is 11.7Mb
  sub-directories of 1Mb or more:
    extdata  11.6Mb
* 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 files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU (user + system) or elapsed time > 5s
               user system elapsed
alevinQCReport 6.12   1.13    8.38
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
               user system elapsed
alevinQCReport 4.74   0.73    6.44
* 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: 1 NOTE
See
  'D:/biocbuild/bbs-3.14-bioc/meat/alevinQC.Rcheck/00check.log'
for details.



Installation output

alevinQC.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/alevinQC_1.9.0.tar.gz && rm -rf alevinQC.buildbin-libdir && mkdir alevinQC.buildbin-libdir && D:\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=alevinQC.buildbin-libdir alevinQC_1.9.0.tar.gz && D:\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL alevinQC_1.9.0.zip && rm alevinQC_1.9.0.tar.gz alevinQC_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
100 4745k  100 4745k    0     0  8167k      0 --:--:-- --:--:-- --:--:-- 8181k

install for i386

* installing *source* package 'alevinQC' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'alevinQC'
    finding HTML links ... done
    alevinQC-pkg                            html  
    alevinQCReport                          html  
    alevinQCShiny                           html  
    checkAlevinInputFiles                   html  
    plotAlevinBarcodeCollapse               html  
    plotAlevinHistogram                     html  
    plotAlevinKneeNbrGenes                  html  
    plotAlevinKneeRaw                       html  
    plotAlevinQuant                         html  
    plotAlevinQuantPairs                    html  
    readAlevinQC                            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 'alevinQC' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'alevinQC' as alevinQC_1.9.0.zip
* DONE (alevinQC)
* installing to library 'D:/biocbuild/bbs-3.14-bioc/R/library'
package 'alevinQC' successfully unpacked and MD5 sums checked

Tests output

alevinQC.Rcheck/tests_i386/testthat.Rout


R version 4.1.1 (2021-08-10) -- "Kick Things"
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(alevinQC)
> 
> test_check("alevinQC")
[ FAIL 0 | WARN 1 | SKIP 0 | PASS 57 ]
> 
> proc.time()
   user  system elapsed 
  13.68    2.25   17.67 

alevinQC.Rcheck/tests_x64/testthat.Rout


R version 4.1.1 (2021-08-10) -- "Kick Things"
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(alevinQC)
> 
> test_check("alevinQC")
[ FAIL 0 | WARN 1 | SKIP 0 | PASS 57 ]
> 
> proc.time()
   user  system elapsed 
  12.98    2.26   17.14 

Example timings

alevinQC.Rcheck/examples_i386/alevinQC-Ex.timings

nameusersystemelapsed
alevinQCReport6.121.138.38
alevinQCShiny0.360.050.40
checkAlevinInputFiles000
plotAlevinBarcodeCollapse0.690.010.71
plotAlevinHistogram0.410.020.42
plotAlevinKneeNbrGenes0.430.010.45
plotAlevinKneeRaw2.520.222.74
plotAlevinQuant0.860.080.93
plotAlevinQuantPairs1.780.031.82
readAlevinQC0.450.020.46

alevinQC.Rcheck/examples_x64/alevinQC-Ex.timings

nameusersystemelapsed
alevinQCReport4.740.736.44
alevinQCShiny0.250.050.30
checkAlevinInputFiles0.010.000.01
plotAlevinBarcodeCollapse0.530.020.55
plotAlevinHistogram0.360.000.36
plotAlevinKneeNbrGenes0.300.030.33
plotAlevinKneeRaw1.670.111.78
plotAlevinQuant0.610.030.64
plotAlevinQuantPairs1.280.011.29
readAlevinQC0.240.000.24