Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-05-03 11:38:37 -0400 (Fri, 03 May 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.0 RC (2024-04-16 r86468) -- "Puppy Cup" | 4660 |
palomino4 | Windows Server 2022 Datacenter | x64 | 4.4.0 RC (2024-04-16 r86468 ucrt) -- "Puppy Cup" | 4391 |
merida1 | macOS 12.7.4 Monterey | x86_64 | 4.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" | 4422 |
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 1385/2230 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
nipalsMCIA 1.3.0 (landing page) Maximilian Mattessich
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
merida1 | macOS 12.7.4 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson1 | macOS 13.6.6 Ventura / arm64 | see weekly results here | ||||||||||||
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: 1.3.0 |
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_1.3.0.tar.gz |
StartedAt: 2024-05-02 08:21:34 -0400 (Thu, 02 May 2024) |
EndedAt: 2024-05-02 08:33:22 -0400 (Thu, 02 May 2024) |
EllapsedTime: 708.0 seconds |
RetCode: 0 |
Status: OK |
CheckDir: nipalsMCIA.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### 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_1.3.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/nipalsMCIA.Rcheck’ * using R version 4.4.0 Patched (2024-04-24 r86482) * using platform: x86_64-apple-darwin20 * R was compiled by Apple clang version 14.0.0 (clang-1400.0.29.202) GNU Fortran (GCC) 12.2.0 * running under: macOS Monterey 12.7.4 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘nipalsMCIA/DESCRIPTION’ ... OK * this is package ‘nipalsMCIA’ version ‘1.3.0’ * 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 13.649 0.476 16.493 nipals_multiblock 13.722 0.304 16.527 get_colors 11.374 0.271 13.697 vis_load_plot 11.219 0.274 13.868 vis_load_ord 11.187 0.296 13.749 ord_loadings 10.620 0.252 13.236 get_metadata_colors 10.577 0.242 14.065 global_scores_eigenvalues_plot 10.431 0.241 13.598 projection_plot 9.802 0.235 12.025 nmb_get_gs 8.556 0.235 10.997 nmb_get_bs_weights 8.570 0.197 9.968 nmb_get_bs 7.905 0.200 9.420 nmb_get_bl 7.894 0.182 8.987 nmb_get_gl 7.279 0.154 8.663 nmb_get_eigs 7.198 0.164 8.293 nmb_get_metadata 7.123 0.169 8.898 * 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/4.4-x86_64/Resources/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 4.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: x86_64-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 | | | 0% | |= | 2% | |== | 3% | |=== | 5% | |==== | 6% | |===== | 8% | |======= | 9% | |======== | 11% | |========= | 12% | |========== | 14% | |=========== | 16% | |============ | 17% | |============= | 19% | |============== | 20% | |=============== | 22% | |================ | 23% | |================== | 25% | |=================== | 27% | |==================== | 28% | |===================== | 30% | |====================== | 31% | |======================= | 33% | |======================== | 34% | |========================= | 36% | |========================== | 38% | |=========================== | 39% | |============================ | 41% | |============================== | 42% | |=============================== | 44% | |================================ | 45% | |================================= | 47% | |================================== | 48% | |=================================== | 50% | |==================================== | 52% | |===================================== | 53% | |====================================== | 55% | |======================================= | 56% | |======================================== | 58% | |========================================== | 59% | |=========================================== | 61% | |============================================ | 62% | |============================================= | 64% | |============================================== | 66% | |=============================================== | 67% | |================================================ | 69% | |================================================= | 70% | |================================================== | 72% | |=================================================== | 73% | |==================================================== | 75% | |====================================================== | 77% | |======================================================= | 78% | |======================================================== | 80% | |========================================================= | 81% | |========================================================== | 83% | |=========================================================== | 84% | |============================================================ | 86% | |============================================================= | 88% | |============================================================== | 89% | |=============================================================== | 91% | |================================================================= | 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 72.076 2.311 95.822
nipalsMCIA.Rcheck/nipalsMCIA-Ex.timings
name | user | system | elapsed | |
block_preproc | 0.001 | 0.001 | 0.002 | |
block_weights_heatmap | 13.649 | 0.476 | 16.493 | |
cc_preproc | 0.001 | 0.001 | 0.001 | |
col_preproc | 0.000 | 0.000 | 0.001 | |
deflate_block_bl | 0.001 | 0.000 | 0.001 | |
deflate_block_gs | 0.000 | 0.000 | 0.001 | |
extract_from_mae | 1.664 | 0.137 | 2.056 | |
get_colors | 11.374 | 0.271 | 13.697 | |
get_metadata_colors | 10.577 | 0.242 | 14.065 | |
get_tv | 0.544 | 0.017 | 0.663 | |
global_scores_eigenvalues_plot | 10.431 | 0.241 | 13.598 | |
nipals_iter | 0.575 | 0.014 | 0.860 | |
nipals_multiblock | 13.722 | 0.304 | 16.527 | |
nmb_get_bl | 7.894 | 0.182 | 8.987 | |
nmb_get_bs | 7.905 | 0.200 | 9.420 | |
nmb_get_bs_weights | 8.570 | 0.197 | 9.968 | |
nmb_get_eigs | 7.198 | 0.164 | 8.293 | |
nmb_get_gl | 7.279 | 0.154 | 8.663 | |
nmb_get_gs | 8.556 | 0.235 | 10.997 | |
nmb_get_metadata | 7.123 | 0.169 | 8.898 | |
ord_loadings | 10.620 | 0.252 | 13.236 | |
predict_gs | 2.543 | 0.050 | 3.120 | |
projection_plot | 9.802 | 0.235 | 12.025 | |
simple_mae | 0.876 | 0.011 | 1.026 | |
vis_load_ord | 11.187 | 0.296 | 13.749 | |
vis_load_plot | 11.219 | 0.274 | 13.868 | |