| Back to Multiple platform build/check report for BioC 3.22: simplified long |
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This page was generated on 2025-12-11 12:06 -0500 (Thu, 11 Dec 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble" | 4879 |
| merida1 | macOS 12.7.6 Monterey | x86_64 | 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble" | 4670 |
| kjohnson1 | macOS 13.7.5 Ventura | arm64 | 4.5.2 Patched (2025-11-04 r88984) -- "[Not] Part in a Rumble" | 4604 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4669 |
| 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 1463/2361 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| nipalsMCIA 1.8.0 (landing page) Maximilian Mattessich
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | OK |  | ||||||||
| merida1 | macOS 12.7.6 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson1 | macOS 13.7.5 Ventura / arm64 | OK | OK | OK | OK | | ||||||||
| taishan | 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. |
| Package: nipalsMCIA |
| Version: 1.8.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:nipalsMCIA.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings nipalsMCIA_1.8.0.tar.gz |
| StartedAt: 2025-12-10 14:32:36 -0500 (Wed, 10 Dec 2025) |
| EndedAt: 2025-12-10 14:41:02 -0500 (Wed, 10 Dec 2025) |
| EllapsedTime: 506.5 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: nipalsMCIA.Rcheck |
| Warnings: 0 |
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###
### Running command:
###
### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:nipalsMCIA.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings nipalsMCIA_1.8.0.tar.gz
###
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##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/nipalsMCIA.Rcheck’
* using R version 4.5.2 Patched (2025-11-04 r88984)
* using platform: aarch64-apple-darwin20
* R was compiled by
Apple clang version 16.0.0 (clang-1600.0.26.6)
GNU Fortran (GCC) 14.2.0
* running under: macOS Ventura 13.7.8
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘nipalsMCIA/DESCRIPTION’ ... OK
* this is package ‘nipalsMCIA’ version ‘1.8.0’
* 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 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
block_weights_heatmap 9.454 1.122 14.127
nipals_multiblock 9.057 1.373 13.897
vis_load_ord 7.377 1.120 10.930
get_colors 7.115 1.118 10.919
get_metadata_colors 6.935 1.145 10.476
vis_load_plot 6.974 1.044 10.632
projection_plot 6.100 1.057 9.144
global_scores_eigenvalues_plot 6.045 1.012 8.864
nmb_get_bs 6.149 0.793 9.050
ord_loadings 5.522 1.042 8.857
nmb_get_eigs 5.390 0.729 7.951
nmb_get_metadata 5.164 0.774 7.595
nmb_get_gs 4.419 0.661 6.905
nmb_get_bs_weights 4.315 0.713 6.411
nmb_get_gl 4.271 0.721 6.405
nmb_get_bl 4.340 0.647 6.570
* 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: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL nipalsMCIA ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library’ * installing *source* package ‘nipalsMCIA’ ... ** this is package ‘nipalsMCIA’ version ‘1.8.0’ ** 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 version 4.5.2 Patched (2025-11-04 r88984) -- "[Not] Part in a Rumble"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin20
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
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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
44.553 1.547 65.907
nipalsMCIA.Rcheck/nipalsMCIA-Ex.timings
| name | user | system | elapsed | |
| block_preproc | 0.001 | 0.000 | 0.001 | |
| block_weights_heatmap | 9.454 | 1.122 | 14.127 | |
| cc_preproc | 0.000 | 0.000 | 0.001 | |
| col_preproc | 0 | 0 | 0 | |
| deflate_block_bl | 0.000 | 0.001 | 0.001 | |
| deflate_block_gs | 0.000 | 0.000 | 0.001 | |
| extract_from_mae | 0.827 | 0.045 | 1.148 | |
| get_colors | 7.115 | 1.118 | 10.919 | |
| get_metadata_colors | 6.935 | 1.145 | 10.476 | |
| get_tv | 0.288 | 0.010 | 0.393 | |
| global_scores_eigenvalues_plot | 6.045 | 1.012 | 8.864 | |
| nipals_iter | 0.305 | 0.013 | 0.413 | |
| nipals_multiblock | 9.057 | 1.373 | 13.897 | |
| nmb_get_bl | 4.340 | 0.647 | 6.570 | |
| nmb_get_bs | 6.149 | 0.793 | 9.050 | |
| nmb_get_bs_weights | 4.315 | 0.713 | 6.411 | |
| nmb_get_eigs | 5.390 | 0.729 | 7.951 | |
| nmb_get_gl | 4.271 | 0.721 | 6.405 | |
| nmb_get_gs | 4.419 | 0.661 | 6.905 | |
| nmb_get_metadata | 5.164 | 0.774 | 7.595 | |
| ord_loadings | 5.522 | 1.042 | 8.857 | |
| predict_gs | 1.203 | 0.054 | 1.751 | |
| projection_plot | 6.100 | 1.057 | 9.144 | |
| simple_mae | 0.440 | 0.012 | 0.557 | |
| vis_load_ord | 7.377 | 1.120 | 10.930 | |
| vis_load_plot | 6.974 | 1.044 | 10.632 | |