Multiple platform build/check report for BioC 3.12 - CHECK report for GSgalgoR on tokay1

Package: GSgalgoR

Version: 1.0.0

Command: C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:GSgalgoR.install-out.txt --library=C:\Users\biocbuild\bbs-3.12-bioc\R\library --no-vignettes --timings GSgalgoR_1.0.0.tar.gz

StartedAt: 2021-05-06 03:28:36 -0400 (Thu, 06 May 2021)

EndedAt: 2021-05-06 03:38:16 -0400 (Thu, 06 May 2021)

EllapsedTime: 579.4 seconds

RetCode: 0

Status: OK

CheckDir: GSgalgoR.Rcheck

Warnings: 0

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### Running command:
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###   C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:GSgalgoR.install-out.txt --library=C:\Users\biocbuild\bbs-3.12-bioc\R\library --no-vignettes --timings GSgalgoR_1.0.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.12-bioc/meat/GSgalgoR.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 'GSgalgoR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'GSgalgoR' 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 'GSgalgoR' 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
plot_pareto              2.88   0.22   11.73
classify_multiple        2.78   0.22   10.75
callback_base_report     2.60   0.34   20.08
to_dataframe             2.22   0.22   10.45
callback_default         2.19   0.24   10.01
create_centroids         2.24   0.17    9.56
callback_no_report       2.16   0.23    8.81
to_list                  2.15   0.19    9.17
non_dominated_summary    2.17   0.14    9.53
callback_base_return_pop 1.97   0.20    8.74
galgo                    1.95   0.17    9.12
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                         user system elapsed
plot_pareto              4.34   0.47   14.88
callback_base_report     3.34   0.31   11.11
non_dominated_summary    3.41   0.17   14.45
classify_multiple        3.25   0.32   13.53
to_dataframe             3.09   0.33   11.66
create_centroids         3.09   0.28   13.32
callback_default         2.81   0.35   14.17
to_list                  2.75   0.31   12.12
callback_no_report       2.61   0.40   13.36
galgo                    2.48   0.32   11.00
callback_base_return_pop 2.45   0.22   10.06
* 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

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://172.29.0.3/BBS/3.12/bioc/src/contrib/GSgalgoR_1.0.0.tar.gz && rm -rf GSgalgoR.buildbin-libdir && mkdir GSgalgoR.buildbin-libdir && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=GSgalgoR.buildbin-libdir GSgalgoR_1.0.0.tar.gz && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL GSgalgoR_1.0.0.zip && rm GSgalgoR_1.0.0.tar.gz GSgalgoR_1.0.0.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
 31 4079k   31 1280k    0     0  6951k      0 --:--:-- --:--:-- --:--:-- 6957k
100 4079k  100 4079k    0     0  16.3M      0 --:--:-- --:--:-- --:--:-- 16.3M

install for i386

* installing *source* package 'GSgalgoR' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'GSgalgoR'
    finding HTML links ... done
    GSgalgoR-package                        html  
    calculate_distance                      html  
    callback_base_report                    html  
    callback_base_return_pop                html  
    callback_default                        html  
    callback_no_report                      html  
    classify_multiple                       html  
    cluster_algorithm                       html  
    cluster_classify                        html  
    cosine_similarity                       html  
    create_centroids                        html  
    galgo.Obj-class                         html  
    galgo                                   html  
    k_centroids                             html  
    non_dominated_summary                   html  
    plot_pareto                             html  
    surv_fitness                            html  
    to_dataframe                            html  
    to_list                                 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 'GSgalgoR' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'GSgalgoR' as GSgalgoR_1.0.0.zip
* DONE (GSgalgoR)
* installing to library 'C:/Users/biocbuild/bbs-3.12-bioc/R/library'
package 'GSgalgoR' successfully unpacked and MD5 sums checked


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(GSgalgoR)
> 
> test_check("GSgalgoR")
..........         k                      rnkIndex   CrowD
result.1 8 0.02212350 201.10126        1     Inf
result.3 9 0.02402496 160.41638        1 1.37352
result.4 8 0.03651880  48.37265        1     Inf
         k                      rnkIndex    CrowD
result.1 8 0.02212350 201.10126        1      Inf
result.3 2 0.11803624  30.01863        1      Inf
result.4 4 0.04509859 173.43985        1 1.798893
......[ FAIL 0 | WARN 0 | SKIP 0 | PASS 13 ]
> 
> proc.time()
   user  system elapsed 
  27.93    2.78  128.03


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(GSgalgoR)
> 
> test_check("GSgalgoR")
..........         k                      rnkIndex   CrowD
result.1 8 0.02212350 201.10126        1     Inf
result.3 9 0.02402496 160.41638        1 1.37352
result.4 8 0.03651880  48.37265        1     Inf
         k                      rnkIndex    CrowD
result.1 8 0.02212350 201.10126        1      Inf
result.3 2 0.11803624  30.01863        1      Inf
result.4 4 0.04509859 173.43985        1 1.798893
......[ FAIL 0 | WARN 0 | SKIP 0 | PASS 13 ]
> 
> proc.time()
   user  system elapsed 
  25.23    2.78  120.04

name	user	system	elapsed
calculate_distance	2.31	0.08	2.39
callback_base_report	2.60	0.34	20.08
callback_base_return_pop	1.97	0.20	8.74
callback_default	2.19	0.24	10.01
callback_no_report	2.16	0.23	8.81
classify_multiple	2.78	0.22	10.75
cluster_algorithm	1.11	0.03	1.15
cluster_classify	0.9	0.1	1.0
cosine_similarity	0	0	0
create_centroids	2.24	0.17	9.56
galgo	1.95	0.17	9.12
k_centroids	1.04	0.09	1.14
non_dominated_summary	2.17	0.14	9.53
plot_pareto	2.88	0.22	11.73
surv_fitness	0.72	0.04	0.77
to_dataframe	2.22	0.22	10.45
to_list	2.15	0.19	9.17

name	user	system	elapsed
calculate_distance	2.89	0.09	3.00
callback_base_report	3.34	0.31	11.11
callback_base_return_pop	2.45	0.22	10.06
callback_default	2.81	0.35	14.17
callback_no_report	2.61	0.40	13.36
classify_multiple	3.25	0.32	13.53
cluster_algorithm	1.58	0.03	1.64
cluster_classify	1.20	0.29	1.50
cosine_similarity	0	0	0
create_centroids	3.09	0.28	13.32
galgo	2.48	0.32	11.00
k_centroids	1.52	0.06	1.70
non_dominated_summary	3.41	0.17	14.45
plot_pareto	4.34	0.47	14.88
surv_fitness	0.99	0.06	1.04
to_dataframe	3.09	0.33	11.66
to_list	2.75	0.31	12.12

CHECK report for GSgalgoR on tokay1

Summary

Command output

Installation output

Tests output

Example timings