Multiple platform build/check report for BioC 3.14 - CHECK results for scFeatureFilter on tokay2

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo2	Linux (Ubuntu 20.04.4 LTS)	x86_64	4.1.3 (2022-03-10) -- "One Push-Up"	4324
tokay2	Windows Server 2012 R2 Standard	x64	4.1.3 (2022-03-10) -- "One Push-Up"	4077
machv2	macOS 10.14.6 Mojave	x86_64	4.1.3 (2022-03-10) -- "One Push-Up"	4137
Click on any hostname to see more info about the system (e.g. compilers) () as reported by 'uname -p', except on Windows and Mac OS X*

Package: scFeatureFilter

Version: 1.14.0

Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:scFeatureFilter.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings scFeatureFilter_1.14.0.tar.gz

StartedAt: 2022-04-13 02:23:54 -0400 (Wed, 13 Apr 2022)

EndedAt: 2022-04-13 02:27:09 -0400 (Wed, 13 Apr 2022)

EllapsedTime: 194.9 seconds

RetCode: 0

Status: OK

CheckDir: scFeatureFilter.Rcheck

Warnings: 0

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### Running command:
###
###   C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:scFeatureFilter.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings scFeatureFilter_1.14.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/scFeatureFilter.Rcheck'
* using R version 4.1.3 (2022-03-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'scFeatureFilter/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'scFeatureFilter' version '1.14.0'
* 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 'scFeatureFilter' 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... 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
plot_correlations_distributions 15.82   2.09   17.91
plot_metric                      7.36   1.39    8.75
sc_feature_filter                6.41   0.89    7.30
plot_mean_variance               6.86   0.30    7.15
bin_scdata                       5.36   0.34    5.70
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                                 user system elapsed
plot_correlations_distributions 13.91   1.26   15.17
plot_metric                      6.16   0.89    7.04
bin_scdata                       6.20   0.16    6.36
plot_mean_variance               6.18   0.16    6.35
sc_feature_filter                5.28   0.59    5.87
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'runTests.R'
  Running 'testthat.R'
 OK
** running tests for arch 'x64' ...
  Running 'runTests.R'
  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

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/scFeatureFilter_1.14.0.tar.gz && rm -rf scFeatureFilter.buildbin-libdir && mkdir scFeatureFilter.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=scFeatureFilter.buildbin-libdir scFeatureFilter_1.14.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL scFeatureFilter_1.14.0.zip && rm scFeatureFilter_1.14.0.tar.gz scFeatureFilter_1.14.0.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
  8 2919k    8  234k    0     0   763k      0  0:00:03 --:--:--  0:00:03  763k
 67 2919k   67 1981k    0     0  1513k      0  0:00:01  0:00:01 --:--:-- 1513k
100 2919k  100 2919k    0     0  1736k      0  0:00:01  0:00:01 --:--:-- 1736k

install for i386

* installing *source* package 'scFeatureFilter' ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'scFeatureFilter'
    finding HTML links ... done
    bin_scdata                              html  
    calculate_cvs                           html  
    correlate_windows                       html  
    correlations_to_densities               html  
    finding level-2 HTML links ... done

    define_top_genes                        html  
    determine_bin_cutoff                    html  
    filter_expression_table                 html  
    get_mean_median                         html  
    plot_correlations_distributions         html  
    plot_mean_variance                      html  
    plot_metric                             html  
    plot_top_window_autocor                 html  
    scData_hESC                             html  
    sc_feature_filter                       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 'scFeatureFilter' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'scFeatureFilter' as scFeatureFilter_1.14.0.zip
* DONE (scFeatureFilter)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'scFeatureFilter' successfully unpacked and MD5 sums checked


R version 4.1.3 (2022-03-10) -- "One Push-Up"
Copyright (C) 2022 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(dplyr)

Attaching package: 'dplyr'

The following object is masked from 'package:testthat':

    matches

The following objects are masked from 'package:stats':

    filter, lag

The following objects are masked from 'package:base':

    intersect, setdiff, setequal, union

> library(scFeatureFilter)
> 
> test_check("scFeatureFilter")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 34 ]
> 
> proc.time()
   user  system elapsed 
   8.40    0.51    8.90


R version 4.1.3 (2022-03-10) -- "One Push-Up"
Copyright (C) 2022 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(dplyr)

Attaching package: 'dplyr'

The following object is masked from 'package:testthat':

    matches

The following objects are masked from 'package:stats':

    filter, lag

The following objects are masked from 'package:base':

    intersect, setdiff, setequal, union

> library(scFeatureFilter)
> 
> test_check("scFeatureFilter")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 34 ]
> 
> proc.time()
   user  system elapsed 
   9.06    0.29    9.34


R version 4.1.3 (2022-03-10) -- "One Push-Up"
Copyright (C) 2022 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(dplyr)

Attaching package: 'dplyr'

The following object is masked from 'package:testthat':

    matches

The following objects are masked from 'package:stats':

    filter, lag

The following objects are masked from 'package:base':

    intersect, setdiff, setequal, union

> library(scFeatureFilter)
> 
> test_check("scFeatureFilter")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 34 ]
> 
> proc.time()
   user  system elapsed 
  10.03    0.71   10.73


R version 4.1.3 (2022-03-10) -- "One Push-Up"
Copyright (C) 2022 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(dplyr)

Attaching package: 'dplyr'

The following object is masked from 'package:testthat':

    matches

The following objects are masked from 'package:stats':

    filter, lag

The following objects are masked from 'package:base':

    intersect, setdiff, setequal, union

> library(scFeatureFilter)
> 
> test_check("scFeatureFilter")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 34 ]
> 
> proc.time()
   user  system elapsed 
   8.21    0.42    8.64

name	user	system	elapsed
bin_scdata	5.36	0.34	5.70
calculate_cvs	0.08	0.00	0.08
correlate_windows	0.13	0.04	0.15
correlations_to_densities	0.19	0.00	0.19
define_top_genes	0.14	0.00	0.14
determine_bin_cutoff	0.04	0.00	0.05
filter_expression_table	0.06	0.00	0.07
get_mean_median	0.09	0.00	0.09
plot_correlations_distributions	15.82	2.09	17.91
plot_mean_variance	6.86	0.30	7.15
plot_metric	7.36	1.39	8.75
plot_top_window_autocor	1.56	0.22	1.78
sc_feature_filter	6.41	0.89	7.30

name	user	system	elapsed
bin_scdata	6.20	0.16	6.36
calculate_cvs	0.05	0.00	0.04
correlate_windows	0.13	0.00	0.12
correlations_to_densities	0.17	0.02	0.19
define_top_genes	0.14	0.00	0.14
determine_bin_cutoff	0.04	0.00	0.04
filter_expression_table	0.08	0.00	0.08
get_mean_median	0.11	0.00	0.11
plot_correlations_distributions	13.91	1.26	15.17
plot_mean_variance	6.18	0.16	6.35
plot_metric	6.16	0.89	7.04
plot_top_window_autocor	0.68	0.08	0.77
sc_feature_filter	5.28	0.59	5.87

CHECK results for scFeatureFilter on tokay2

Summary

Command output

Installation output

Tests output

Example timings