Back to Multiple platform build/check report for BioC 3.21: simplified long |
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This page was generated on 2025-08-21 11:41 -0400 (Thu, 21 Aug 2025).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4824 |
merida1 | macOS 12.7.5 Monterey | x86_64 | 4.5.1 RC (2025-06-05 r88288) -- "Great Square Root" | 4604 |
kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" | 4545 |
kunpeng2 | Linux (openEuler 24.03 LTS) | aarch64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4579 |
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 970/2341 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
HiCBricks 1.26.0 (landing page) Koustav Pal
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | 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 | ![]() | ||||||||
kunpeng2 | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | OK | ||||||||||
To the developers/maintainers of the HiCBricks package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/HiCBricks.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: HiCBricks |
Version: 1.26.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:HiCBricks.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings HiCBricks_1.26.0.tar.gz |
StartedAt: 2025-08-19 23:58:57 -0400 (Tue, 19 Aug 2025) |
EndedAt: 2025-08-20 00:01:38 -0400 (Wed, 20 Aug 2025) |
EllapsedTime: 161.4 seconds |
RetCode: 0 |
Status: OK |
CheckDir: HiCBricks.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:HiCBricks.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings HiCBricks_1.26.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.21-bioc/meat/HiCBricks.Rcheck’ * using R version 4.5.1 Patched (2025-06-14 r88325) * 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 13.7.5 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘HiCBricks/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘HiCBricks’ version ‘1.26.0’ * 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 ‘HiCBricks’ 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 files in ‘vignettes’ ... OK * checking examples ... 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
HiCBricks.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL HiCBricks ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library’ * installing *source* package ‘HiCBricks’ ... ** this is package ‘HiCBricks’ version ‘1.26.0’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** 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 (HiCBricks)
HiCBricks.Rcheck/HiCBricks-Ex.timings
name | user | system | elapsed | |
BrickContainer_change_experiment_name | 1.046 | 0.131 | 1.189 | |
BrickContainer_change_output_directory | 0.847 | 0.097 | 0.980 | |
BrickContainer_get_path_to_file | 0.673 | 0.082 | 0.784 | |
BrickContainer_list_chromosomes | 0.690 | 0.082 | 0.779 | |
BrickContainer_list_experiment_name | 0.671 | 0.079 | 0.753 | |
BrickContainer_list_files | 0.688 | 0.085 | 0.795 | |
BrickContainer_list_output_directory | 0.656 | 0.080 | 0.737 | |
BrickContainer_list_resolutions | 0.659 | 0.076 | 0.747 | |
BrickContainer_unlink_resolution | 1.428 | 0.170 | 1.612 | |
Brick_add_ranges | 1.723 | 0.149 | 1.889 | |
Brick_call_compartments | 1.313 | 0.204 | 1.559 | |
Brick_export_to_sparse | 2.269 | 0.246 | 2.553 | |
Brick_fetch_range_index | 0.517 | 0.070 | 0.603 | |
Brick_fetch_row_vector | 1.176 | 0.157 | 1.413 | |
Brick_get_bintable | 0.740 | 0.088 | 0.856 | |
Brick_get_chrominfo | 0.658 | 0.079 | 0.742 | |
Brick_get_entire_matrix | 1.087 | 0.173 | 1.277 | |
Brick_get_matrix | 1.471 | 0.149 | 1.653 | |
Brick_get_matrix_mcols | 0.708 | 0.126 | 0.886 | |
Brick_get_matrix_within_coords | 1.385 | 0.142 | 1.564 | |
Brick_get_ranges | 0.717 | 0.083 | 0.810 | |
Brick_get_values_by_distance | 1.128 | 0.165 | 1.296 | |
Brick_get_vector_values | 1.062 | 0.162 | 1.257 | |
Brick_list_matrices | 0.685 | 0.094 | 0.782 | |
Brick_list_matrix_mcols | 0.642 | 0.087 | 0.731 | |
Brick_list_mcool_normalisations | 0 | 0 | 0 | |
Brick_list_mcool_resolutions | 0.000 | 0.000 | 0.001 | |
Brick_list_rangekeys | 0.674 | 0.091 | 0.770 | |
Brick_list_ranges_mcols | 0.664 | 0.086 | 0.755 | |
Brick_load_cis_matrix_till_distance | 0.913 | 0.128 | 1.048 | |
Brick_load_data_from_mcool | 0 | 0 | 0 | |
Brick_load_data_from_sparse | 0.000 | 0.001 | 0.001 | |
Brick_load_matrix | 1.010 | 0.149 | 1.213 | |
Brick_local_score_differentiator | 1.633 | 0.220 | 1.858 | |
Brick_make_ranges | 0.008 | 0.000 | 0.009 | |
Brick_matrix_dimensions | 1.029 | 0.144 | 1.179 | |
Brick_matrix_exists | 0.998 | 0.131 | 1.151 | |
Brick_matrix_filename | 1.001 | 0.135 | 1.143 | |
Brick_matrix_isdone | 1.018 | 0.152 | 1.173 | |
Brick_matrix_issparse | 1.042 | 0.163 | 1.238 | |
Brick_matrix_maxdist | 1.071 | 0.177 | 1.271 | |
Brick_matrix_minmax | 1.033 | 0.191 | 1.243 | |
Brick_mcool_normalisation_exists | 0.000 | 0.001 | 0.001 | |
Brick_rangekey_exists | 0.693 | 0.113 | 0.828 | |
Brick_return_region_position | 0.784 | 0.116 | 0.918 | |
Brick_vizart_plot_heatmap | 2.049 | 0.287 | 2.422 | |
Create_many_Bricks | 0.706 | 0.114 | 0.844 | |
Create_many_Bricks_from_mcool | 0.000 | 0.000 | 0.001 | |
load_BrickContainer | 0.722 | 0.113 | 0.858 | |