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This page was generated on 2025-01-23 12:05 -0500 (Thu, 23 Jan 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.1 LTS)x86_644.4.2 (2024-10-31) -- "Pile of Leaves" 4746
palomino8Windows Server 2022 Datacenterx644.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" 4493
merida1macOS 12.7.5 Montereyx86_644.4.2 (2024-10-31) -- "Pile of Leaves" 4517
kjohnson1macOS 13.6.6 Venturaarm644.4.2 (2024-10-31) -- "Pile of Leaves" 4469
taishanLinux (openEuler 24.03 LTS)aarch644.4.2 (2024-10-31) -- "Pile of Leaves" 4394
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 918/2289HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
GSgalgoR 1.16.0  (landing page)
Carlos Catania
Snapshot Date: 2025-01-20 13:00 -0500 (Mon, 20 Jan 2025)
git_url: https://git.bioconductor.org/packages/GSgalgoR
git_branch: RELEASE_3_20
git_last_commit: 0588dad
git_last_commit_date: 2024-10-29 10:53:20 -0500 (Tue, 29 Oct 2024)
nebbiolo2Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino8Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 12.7.5 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.6 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    OK    OK  


CHECK results for GSgalgoR on nebbiolo2

To the developers/maintainers of the GSgalgoR package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/GSgalgoR.git to reflect on this report. See Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results


Summary

Package: GSgalgoR
Version: 1.16.0
Command: /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:GSgalgoR.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings GSgalgoR_1.16.0.tar.gz
StartedAt: 2025-01-20 22:43:15 -0500 (Mon, 20 Jan 2025)
EndedAt: 2025-01-20 22:47:59 -0500 (Mon, 20 Jan 2025)
EllapsedTime: 283.5 seconds
RetCode: 0
Status:   OK  
CheckDir: GSgalgoR.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:GSgalgoR.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings GSgalgoR_1.16.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.20-bioc/meat/GSgalgoR.Rcheck’
* using R version 4.4.2 (2024-10-31)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
    GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* checking for file ‘GSgalgoR/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘GSgalgoR’ version ‘1.16.0’
* 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 for sufficient/correct file permissions ... 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 code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* 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 loading without being on the library search path ... 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 ... OK
Examples with CPU (user + system) or elapsed time > 5s
                          user system elapsed
plot_pareto              3.062  0.067   6.401
callback_base_report     2.460  0.394   7.946
create_centroids         2.375  0.327   6.010
to_dataframe             2.406  0.257   6.323
callback_base_return_pop 2.107  0.373   7.656
classify_multiple        2.242  0.191   7.831
non_dominated_summary    2.214  0.217   5.757
callback_default         1.787  0.497   7.789
to_list                  1.870  0.144   5.172
galgo                    1.787  0.049   5.417
callback_no_report       1.664  0.152   7.355
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: OK


Installation output

GSgalgoR.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD INSTALL GSgalgoR
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.20-bioc/R/site-library’
* installing *source* package ‘GSgalgoR’ ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** 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
* DONE (GSgalgoR)

Tests output

GSgalgoR.Rcheck/tests/testthat.Rout


R version 4.4.2 (2024-10-31) -- "Pile of Leaves"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu

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 
 20.465   2.479  87.363 

Example timings

GSgalgoR.Rcheck/GSgalgoR-Ex.timings

nameusersystemelapsed
calculate_distance2.1380.0932.232
callback_base_report2.4600.3947.946
callback_base_return_pop2.1070.3737.656
callback_default1.7870.4977.789
callback_no_report1.6640.1527.355
classify_multiple2.2420.1917.831
cluster_algorithm1.2040.0191.224
cluster_classify0.4910.0120.504
cosine_similarity000
create_centroids2.3750.3276.010
galgo1.7870.0495.417
k_centroids1.2410.0251.267
non_dominated_summary2.2140.2175.757
plot_pareto3.0620.0676.401
surv_fitness0.6380.0300.667
to_dataframe2.4060.2576.323
to_list1.8700.1445.172