Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-12-23 12:04 -0500 (Mon, 23 Dec 2024).
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: /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:nipalsMCIA.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings nipalsMCIA_1.4.2.tar.gz |
StartedAt: 2024-12-20 03:38:38 -0500 (Fri, 20 Dec 2024) |
EndedAt: 2024-12-20 03:49:07 -0500 (Fri, 20 Dec 2024) |
EllapsedTime: 629.5 seconds |
RetCode: 0 |
Status: OK |
CheckDir: nipalsMCIA.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:nipalsMCIA.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings nipalsMCIA_1.4.2.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.20-bioc/meat/nipalsMCIA.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 ‘nipalsMCIA/DESCRIPTION’ ... OK * this is package ‘nipalsMCIA’ version ‘1.4.2’ * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib: cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES' 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 block_weights_heatmap 6.210 0.119 6.329 nipals_multiblock 6.093 0.031 6.124 vis_load_plot 5.917 0.008 5.926 * 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
nipalsMCIA.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD INSTALL nipalsMCIA ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.20-bioc/R/site-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) -- "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. > # 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 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 30.118 1.201 31.651
nipalsMCIA.Rcheck/nipalsMCIA-Ex.timings
name | user | system | elapsed | |
block_preproc | 0.000 | 0.000 | 0.001 | |
block_weights_heatmap | 6.210 | 0.119 | 6.329 | |
cc_preproc | 0.001 | 0.000 | 0.001 | |
col_preproc | 0 | 0 | 0 | |
deflate_block_bl | 0.000 | 0.000 | 0.001 | |
deflate_block_gs | 0 | 0 | 0 | |
extract_from_mae | 0.560 | 0.018 | 0.579 | |
get_colors | 4.810 | 0.159 | 4.969 | |
get_metadata_colors | 4.740 | 0.012 | 4.752 | |
get_tv | 0.209 | 0.003 | 0.212 | |
global_scores_eigenvalues_plot | 4.230 | 0.025 | 4.255 | |
nipals_iter | 0.225 | 0.001 | 0.226 | |
nipals_multiblock | 6.093 | 0.031 | 6.124 | |
nmb_get_bl | 3.030 | 0.001 | 3.031 | |
nmb_get_bs | 3.545 | 0.012 | 3.557 | |
nmb_get_bs_weights | 3.006 | 0.012 | 3.018 | |
nmb_get_eigs | 3.530 | 0.012 | 3.542 | |
nmb_get_gl | 3.019 | 0.004 | 3.022 | |
nmb_get_gs | 3.526 | 0.013 | 3.538 | |
nmb_get_metadata | 3.009 | 0.010 | 3.019 | |
ord_loadings | 4.253 | 0.015 | 4.269 | |
predict_gs | 1.392 | 0.014 | 1.407 | |
projection_plot | 4.777 | 0.021 | 4.799 | |
simple_mae | 0.317 | 0.000 | 0.317 | |
vis_load_ord | 4.421 | 0.011 | 4.432 | |
vis_load_plot | 5.917 | 0.008 | 5.926 | |