Back to Multiple platform build/check report for BioC 3.21: simplified long |
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This page was generated on 2025-06-16 11:47 -0400 (Mon, 16 Jun 2025).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 24.04.2 LTS) | x86_64 | 4.5.0 RC (2025-04-04 r88126) -- "How About a Twenty-Six" | 4838 |
palomino7 | Windows Server 2022 Datacenter | x64 | 4.5.0 RC (2025-04-04 r88126 ucrt) -- "How About a Twenty-Six" | 4578 |
merida1 | macOS 12.7.5 Monterey | x86_64 | 4.5.0 RC (2025-04-04 r88126) -- "How About a Twenty-Six" | 4602 |
kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.5.0 RC (2025-04-04 r88129) -- "How About a Twenty-Six" | 4556 |
kunpeng2 | Linux (openEuler 24.03 LTS) | aarch64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4576 |
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 1446/2341 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
nipalsMCIA 1.6.0 (landing page) Maximilian Mattessich
| nebbiolo1 | Linux (Ubuntu 24.04.2 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | ![]() | ||||||||
merida1 | macOS 12.7.5 Monterey / x86_64 | OK | ERROR | skipped | skipped | |||||||||
kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | OK | OK | ![]() | ||||||||
kunpeng2 | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | OK | ||||||||||
To the developers/maintainers of the nipalsMCIA package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/nipalsMCIA.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: nipalsMCIA |
Version: 1.6.0 |
Command: /home/biocbuild/R/R/bin/R CMD check --install=check:nipalsMCIA.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings nipalsMCIA_1.6.0.tar.gz |
StartedAt: 2025-06-13 12:18:01 -0000 (Fri, 13 Jun 2025) |
EndedAt: 2025-06-13 12:26:35 -0000 (Fri, 13 Jun 2025) |
EllapsedTime: 514.7 seconds |
RetCode: 0 |
Status: OK |
CheckDir: nipalsMCIA.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD check --install=check:nipalsMCIA.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings nipalsMCIA_1.6.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/nipalsMCIA.Rcheck’ * using R Under development (unstable) (2025-02-19 r87757) * 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-SP1) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘nipalsMCIA/DESCRIPTION’ ... OK * this is package ‘nipalsMCIA’ version ‘1.6.0’ * 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 ‘nipalsMCIA’ 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 contents of ‘data’ directory ... OK * checking data for non-ASCII characters ... OK * checking data for ASCII and uncompressed saves ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed nipals_multiblock 19.489 0.012 20.671 block_weights_heatmap 18.232 0.104 18.614 vis_load_ord 16.243 0.020 16.925 vis_load_plot 16.239 0.016 16.594 global_scores_eigenvalues_plot 15.923 0.044 16.328 get_colors 14.532 0.112 15.630 get_metadata_colors 14.214 0.056 15.121 projection_plot 13.906 0.011 14.527 ord_loadings 12.986 0.025 13.416 nmb_get_bl 11.801 0.008 12.953 nmb_get_bs_weights 11.550 0.015 12.149 nmb_get_metadata 11.416 0.000 12.052 nmb_get_bs 11.395 0.000 11.987 nmb_get_gl 11.133 0.004 11.849 nmb_get_eigs 10.308 0.024 10.813 nmb_get_gs 10.127 0.012 10.384 * 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: OK
nipalsMCIA.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL nipalsMCIA ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-devel_2025-02-19/site-library’ * installing *source* package ‘nipalsMCIA’ ... ** this is package ‘nipalsMCIA’ version ‘1.6.0’ ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** 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 (nipalsMCIA)
nipalsMCIA.Rcheck/tests/testthat.Rout
R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" Copyright (C) 2025 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. > # This file is part of the standard setup for testthat. > # It is recommended that you do not modify it. > > library(nipalsMCIA) > library(testthat) > > test_check("nipalsMCIA") Performing column-level pre-processing... Column pre-processing completed. Performing block-level preprocessing... Block pre-processing completed. Computing order 1 scores Computing order 2 scores Performing column-level pre-processing... Column pre-processing completed. Performing block-level preprocessing... Block pre-processing completed. Computing order 1 scores Computing order 2 scores Computing order 3 scores Performing column-level pre-processing... Column pre-processing completed. Performing block-level preprocessing... Block pre-processing completed. Computing order 1 scores Computing order 2 scores Running GSEA for Factor 1 | | | 0% | |= | 2% | |== | 3% | |=== | 5% | |==== | 6% | |====== | 8% | |======= | 10% | |======== | 11% | |========= | 13% | |========== | 14% | |=========== | 16% | |============ | 17% | |============= | 19% | |============== | 21% | |================ | 22% | |================= | 24% | |================== | 25% | |=================== | 27% | |==================== | 29% | |===================== | 30% | |====================== | 32% | |======================= | 33% | |======================== | 35% | |========================== | 37% | |=========================== | 38% | |============================ | 40% | |============================= | 41% | |============================== | 43% | |=============================== | 44% | |================================ | 46% | |================================= | 48% | |================================== | 49% | |==================================== | 51% | |===================================== | 52% | |====================================== | 54% | |======================================= | 56% | |======================================== | 57% | |========================================= | 59% | |========================================== | 60% | |=========================================== | 62% | |============================================ | 63% | |============================================== | 65% | |=============================================== | 67% | |================================================ | 68% | |================================================= | 70% | |================================================== | 71% | |=================================================== | 73% | |==================================================== | 75% | |===================================================== | 76% | |====================================================== | 78% | |======================================================== | 79% | |========================================================= | 81% | |========================================================== | 83% | |=========================================================== | 84% | |============================================================ | 86% | |============================================================= | 87% | |============================================================== | 89% | |=============================================================== | 90% | |================================================================ | 92% | |================================================================== | 94% | |=================================================================== | 95% | |==================================================================== | 97% | |===================================================================== | 98% | |======================================================================| 100% Performing column-level pre-processing... Column pre-processing completed. Performing block-level preprocessing... Block pre-processing completed. Computing order 1 scores Computing order 2 scores Computing order 3 scores Computing order 4 scores Performing pre-processing on data Pre-processing completed color_col option not recognized, defaulting to black/white plotting. [ FAIL 0 | WARN 0 | SKIP 0 | PASS 57 ] > > proc.time() user system elapsed 46.118 1.140 52.272
nipalsMCIA.Rcheck/nipalsMCIA-Ex.timings
name | user | system | elapsed | |
block_preproc | 0.001 | 0.000 | 0.001 | |
block_weights_heatmap | 18.232 | 0.104 | 18.614 | |
cc_preproc | 0.001 | 0.000 | 0.000 | |
col_preproc | 0.001 | 0.000 | 0.000 | |
deflate_block_bl | 0.000 | 0.000 | 0.001 | |
deflate_block_gs | 0 | 0 | 0 | |
extract_from_mae | 0.811 | 0.114 | 1.009 | |
get_colors | 14.532 | 0.112 | 15.630 | |
get_metadata_colors | 14.214 | 0.056 | 15.121 | |
get_tv | 0.326 | 0.016 | 0.342 | |
global_scores_eigenvalues_plot | 15.923 | 0.044 | 16.328 | |
nipals_iter | 0.370 | 0.000 | 0.372 | |
nipals_multiblock | 19.489 | 0.012 | 20.671 | |
nmb_get_bl | 11.801 | 0.008 | 12.953 | |
nmb_get_bs | 11.395 | 0.000 | 11.987 | |
nmb_get_bs_weights | 11.550 | 0.015 | 12.149 | |
nmb_get_eigs | 10.308 | 0.024 | 10.813 | |
nmb_get_gl | 11.133 | 0.004 | 11.849 | |
nmb_get_gs | 10.127 | 0.012 | 10.384 | |
nmb_get_metadata | 11.416 | 0.000 | 12.052 | |
ord_loadings | 12.986 | 0.025 | 13.416 | |
predict_gs | 1.571 | 0.004 | 1.584 | |
projection_plot | 13.906 | 0.011 | 14.527 | |
simple_mae | 0.499 | 0.000 | 0.532 | |
vis_load_ord | 16.243 | 0.020 | 16.925 | |
vis_load_plot | 16.239 | 0.016 | 16.594 | |