| Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2025-01-02 12:05 -0500 (Thu, 02 Jan 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4744 |
| palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" | 4487 |
| merida1 | macOS 12.7.5 Monterey | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4515 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4467 |
| 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 1418/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| nipalsMCIA 1.4.2 (landing page) Maximilian Mattessich
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK |  | ||||||||
| palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| merida1 | macOS 12.7.5 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | 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: 1.4.2 |
| Command: F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:nipalsMCIA.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings nipalsMCIA_1.4.2.tar.gz |
| StartedAt: 2024-12-31 03:59:05 -0500 (Tue, 31 Dec 2024) |
| EndedAt: 2024-12-31 04:04:58 -0500 (Tue, 31 Dec 2024) |
| EllapsedTime: 353.1 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: nipalsMCIA.Rcheck |
| Warnings: 0 |
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###
### Running command:
###
### F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:nipalsMCIA.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings nipalsMCIA_1.4.2.tar.gz
###
##############################################################################
##############################################################################
* using log directory 'F:/biocbuild/bbs-3.20-bioc/meat/nipalsMCIA.Rcheck'
* using R version 4.4.2 (2024-10-31 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
gcc.exe (GCC) 13.3.0
GNU Fortran (GCC) 13.3.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'nipalsMCIA/DESCRIPTION' ... OK
* this is package 'nipalsMCIA' version '1.4.2'
* 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 '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
nipals_multiblock 9.38 0.28 9.68
vis_load_plot 9.08 0.32 9.40
block_weights_heatmap 8.47 0.77 9.09
ord_loadings 7.80 0.28 8.09
get_colors 7.24 0.23 7.47
vis_load_ord 7.25 0.21 7.47
get_metadata_colors 7.04 0.17 7.22
global_scores_eigenvalues_plot 6.91 0.25 7.15
projection_plot 6.90 0.16 7.06
nmb_get_bl 5.61 0.15 5.76
nmb_get_metadata 5.42 0.12 5.56
nmb_get_gl 5.31 0.15 5.47
nmb_get_gs 5.22 0.18 5.39
nmb_get_bs_weights 5.09 0.27 5.36
nmb_get_bs 5.05 0.19 5.23
nmb_get_eigs 4.91 0.17 5.08
* 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: ### ### F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD INSTALL nipalsMCIA ### ############################################################################## ############################################################################## * installing to library 'F:/biocbuild/bbs-3.20-bioc/R/library' * installing *source* package 'nipalsMCIA' ... ** 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 4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64
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 9 | PASS 48 ]
══ Skipped tests (9) ═══════════════════════════════════════════════════════════
• empty test (9): 'test-block_weights_heatmap.R:5:1',
'test-global_scores_eigenvalues_plot.R:2:1',
'test-global_scores_heatmap.R:1:1', 'test-global_scores_heatmap.R:7:1',
'test-projection_plot.R:8:1', 'test-projection_plot.R:40:1',
'test-vis_load_ord.R:13:1', 'test-vis_load_plot.R:1:1',
'test-vis_load_plot.R:20:1'
[ FAIL 0 | WARN 0 | SKIP 9 | PASS 48 ]
>
> proc.time()
user system elapsed
37.15 2.14 38.79
nipalsMCIA.Rcheck/nipalsMCIA-Ex.timings
| name | user | system | elapsed | |
| block_preproc | 0 | 0 | 0 | |
| block_weights_heatmap | 8.47 | 0.77 | 9.09 | |
| cc_preproc | 0 | 0 | 0 | |
| col_preproc | 0 | 0 | 0 | |
| deflate_block_bl | 0 | 0 | 0 | |
| deflate_block_gs | 0 | 0 | 0 | |
| extract_from_mae | 1.05 | 0.47 | 0.94 | |
| get_colors | 7.24 | 0.23 | 7.47 | |
| get_metadata_colors | 7.04 | 0.17 | 7.22 | |
| get_tv | 0.31 | 0.03 | 0.35 | |
| global_scores_eigenvalues_plot | 6.91 | 0.25 | 7.15 | |
| nipals_iter | 0.29 | 0.07 | 0.36 | |
| nipals_multiblock | 9.38 | 0.28 | 9.68 | |
| nmb_get_bl | 5.61 | 0.15 | 5.76 | |
| nmb_get_bs | 5.05 | 0.19 | 5.23 | |
| nmb_get_bs_weights | 5.09 | 0.27 | 5.36 | |
| nmb_get_eigs | 4.91 | 0.17 | 5.08 | |
| nmb_get_gl | 5.31 | 0.15 | 5.47 | |
| nmb_get_gs | 5.22 | 0.18 | 5.39 | |
| nmb_get_metadata | 5.42 | 0.12 | 5.56 | |
| ord_loadings | 7.80 | 0.28 | 8.09 | |
| predict_gs | 1.38 | 0.08 | 1.46 | |
| projection_plot | 6.90 | 0.16 | 7.06 | |
| simple_mae | 0.45 | 0.01 | 0.47 | |
| vis_load_ord | 7.25 | 0.21 | 7.47 | |
| vis_load_plot | 9.08 | 0.32 | 9.40 | |