Back to Mac ARM64 build report for BioC 3.20 |
|
This page was generated on 2024-05-13 11:32:09 -0400 (Mon, 13 May 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" | 4378 |
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
| kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | OK | OK | ||||||||
To the developers/maintainers of the nipalsMCIA package: - 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: 2024-05-12 21:20:41 -0400 (Sun, 12 May 2024) |
EndedAt: 2024-05-12 21:26:06 -0400 (Sun, 12 May 2024) |
EllapsedTime: 325.1 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-mac-arm64/meat/nipalsMCIA.Rcheck’ * using R version 4.4.0 Patched (2024-04-24 r86482) * using platform: aarch64-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 Ventura 13.6.6 * 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 8.088 0.546 8.639 nipals_multiblock 7.313 0.615 7.951 vis_load_ord 6.407 0.559 6.968 get_metadata_colors 6.398 0.357 6.755 global_scores_eigenvalues_plot 6.246 0.435 6.685 ord_loadings 6.053 0.522 6.577 get_colors 6.036 0.456 6.543 vis_load_plot 6.045 0.404 6.449 projection_plot 5.379 0.401 5.780 nmb_get_eigs 4.698 0.354 5.054 nmb_get_bs 4.645 0.364 5.010 * 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-arm64/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: 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 | | | 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 37.518 1.259 40.480
nipalsMCIA.Rcheck/nipalsMCIA-Ex.timings
name | user | system | elapsed | |
block_preproc | 0.001 | 0.000 | 0.002 | |
block_weights_heatmap | 8.088 | 0.546 | 8.639 | |
cc_preproc | 0.001 | 0.000 | 0.001 | |
col_preproc | 0.001 | 0.000 | 0.001 | |
deflate_block_bl | 0.000 | 0.000 | 0.001 | |
deflate_block_gs | 0.001 | 0.000 | 0.001 | |
extract_from_mae | 0.721 | 0.035 | 0.758 | |
get_colors | 6.036 | 0.456 | 6.543 | |
get_metadata_colors | 6.398 | 0.357 | 6.755 | |
get_tv | 0.290 | 0.006 | 0.298 | |
global_scores_eigenvalues_plot | 6.246 | 0.435 | 6.685 | |
nipals_iter | 0.298 | 0.008 | 0.305 | |
nipals_multiblock | 7.313 | 0.615 | 7.951 | |
nmb_get_bl | 3.826 | 0.354 | 4.181 | |
nmb_get_bs | 4.645 | 0.364 | 5.010 | |
nmb_get_bs_weights | 3.868 | 0.321 | 4.189 | |
nmb_get_eigs | 4.698 | 0.354 | 5.054 | |
nmb_get_gl | 3.828 | 0.355 | 4.185 | |
nmb_get_gs | 3.804 | 0.192 | 3.997 | |
nmb_get_metadata | 4.508 | 0.350 | 4.859 | |
ord_loadings | 6.053 | 0.522 | 6.577 | |
predict_gs | 1.119 | 0.083 | 1.202 | |
projection_plot | 5.379 | 0.401 | 5.780 | |
simple_mae | 0.407 | 0.007 | 0.414 | |
vis_load_ord | 6.407 | 0.559 | 6.968 | |
vis_load_plot | 6.045 | 0.404 | 6.449 | |