Back to Multiple platform build/check report for BioC 3.21: simplified long |
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This page was generated on 2024-12-24 11:46 -0500 (Tue, 24 Dec 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" | 4754 |
palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" | 4472 |
lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4426 |
kjohnson3 | macOS 13.7.1 Ventura | arm64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4381 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" | 4373 |
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 912/2274 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
GSgalgoR 1.17.0 (landing page) Carlos Catania
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson3 | macOS 13.7.1 Ventura / arm64 | OK | OK | OK | OK | |||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | ||||||||||
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. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
Package: GSgalgoR |
Version: 1.17.0 |
Command: /home/biocbuild/R/R/bin/R CMD check --install=check:GSgalgoR.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings GSgalgoR_1.17.0.tar.gz |
StartedAt: 2024-12-24 07:27:18 -0000 (Tue, 24 Dec 2024) |
EndedAt: 2024-12-24 07:30:21 -0000 (Tue, 24 Dec 2024) |
EllapsedTime: 182.3 seconds |
RetCode: 0 |
Status: OK |
CheckDir: GSgalgoR.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD check --install=check:GSgalgoR.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings GSgalgoR_1.17.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/GSgalgoR.Rcheck’ * using R Under development (unstable) (2024-11-24 r87369) * using platform: aarch64-unknown-linux-gnu * R was compiled by aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0 GNU Fortran (GCC) 14.2.0 * running under: openEuler 24.03 (LTS) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘GSgalgoR/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘GSgalgoR’ version ‘1.17.0’ * 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 ... NOTE Found the following Rd file(s) with Rd \link{} targets missing package anchors: galgo.Rd: survival non_dominated_summary.Rd: survival Please provide package anchors for all Rd \link{} targets not in the package itself and the base packages. * 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 3.399 0.357 8.783 classify_multiple 2.846 0.220 8.121 callback_base_report 2.672 0.106 7.988 create_centroids 2.564 0.042 7.020 non_dominated_summary 2.449 0.022 6.756 to_dataframe 2.233 0.169 6.671 to_list 2.168 0.121 6.781 callback_base_return_pop 1.953 0.290 7.148 callback_default 1.957 0.257 7.304 callback_no_report 1.961 0.199 7.294 galgo 1.885 0.045 6.298 * 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 running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 1 NOTE See ‘/home/biocbuild/bbs-3.21-bioc/meat/GSgalgoR.Rcheck/00check.log’ for details.
GSgalgoR.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL GSgalgoR ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.5.0-devel_2024-11-24/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)
GSgalgoR.Rcheck/tests/testthat.Rout
R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: aarch64-unknown-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 18.913 3.114 73.961
GSgalgoR.Rcheck/GSgalgoR-Ex.timings
name | user | system | elapsed | |
calculate_distance | 1.830 | 0.060 | 1.892 | |
callback_base_report | 2.672 | 0.106 | 7.988 | |
callback_base_return_pop | 1.953 | 0.290 | 7.148 | |
callback_default | 1.957 | 0.257 | 7.304 | |
callback_no_report | 1.961 | 0.199 | 7.294 | |
classify_multiple | 2.846 | 0.220 | 8.121 | |
cluster_algorithm | 0.461 | 0.016 | 0.478 | |
cluster_classify | 1.764 | 0.008 | 1.775 | |
cosine_similarity | 0 | 0 | 0 | |
create_centroids | 2.564 | 0.042 | 7.020 | |
galgo | 1.885 | 0.045 | 6.298 | |
k_centroids | 0.475 | 0.016 | 0.492 | |
non_dominated_summary | 2.449 | 0.022 | 6.756 | |
plot_pareto | 3.399 | 0.357 | 8.783 | |
surv_fitness | 0.610 | 0.008 | 0.619 | |
to_dataframe | 2.233 | 0.169 | 6.671 | |
to_list | 2.168 | 0.121 | 6.781 | |