Back to Multiple platform build/check report for BioC 3.22: simplified long |
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This page was generated on 2025-09-30 12:06 -0400 (Tue, 30 Sep 2025).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" | 4843 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4631 |
kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4575 |
taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4576 |
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 970/2337 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
HiCBricks 1.27.1 (landing page) Koustav Pal
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | ![]() | ||||||||
kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | OK | OK | OK | ![]() | ||||||||
taishan | 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: 1.27.1 |
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_1.27.1.tar.gz |
StartedAt: 2025-09-29 19:50:42 -0400 (Mon, 29 Sep 2025) |
EndedAt: 2025-09-29 19:51:41 -0400 (Mon, 29 Sep 2025) |
EllapsedTime: 58.7 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_1.27.1.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/HiCBricks.Rcheck’ * using R version 4.5.1 Patched (2025-09-10 r88807) * 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 13.7.7 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘HiCBricks/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘HiCBricks’ version ‘1.27.1’ * 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 ‘1.27.1’ ** 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 | 0.333 | 0.040 | 0.376 | |
BrickContainer_change_output_directory | 0.281 | 0.033 | 0.319 | |
BrickContainer_get_path_to_file | 0.220 | 0.032 | 0.256 | |
BrickContainer_list_chromosomes | 0.213 | 0.027 | 0.251 | |
BrickContainer_list_experiment_name | 0.209 | 0.029 | 0.251 | |
BrickContainer_list_files | 0.223 | 0.035 | 0.269 | |
BrickContainer_list_output_directory | 0.210 | 0.025 | 0.237 | |
BrickContainer_list_resolutions | 0.210 | 0.031 | 0.246 | |
BrickContainer_unlink_resolution | 0.451 | 0.062 | 0.611 | |
Brick_add_ranges | 0.549 | 0.043 | 0.594 | |
Brick_call_compartments | 0.406 | 0.056 | 0.481 | |
Brick_export_to_sparse | 0.665 | 0.070 | 0.760 | |
Brick_fetch_range_index | 0.246 | 0.032 | 0.280 | |
Brick_fetch_row_vector | 0.430 | 0.057 | 0.507 | |
Brick_get_bintable | 0.362 | 0.032 | 0.409 | |
Brick_get_chrominfo | 0.205 | 0.027 | 0.342 | |
Brick_get_entire_matrix | 0.340 | 0.060 | 0.416 | |
Brick_get_matrix | 0.330 | 0.050 | 0.389 | |
Brick_get_matrix_mcols | 0.331 | 0.054 | 0.389 | |
Brick_get_matrix_within_coords | 0.459 | 0.052 | 0.542 | |
Brick_get_ranges | 0.227 | 0.032 | 0.261 | |
Brick_get_values_by_distance | 0.370 | 0.063 | 0.445 | |
Brick_get_vector_values | 0.342 | 0.058 | 0.486 | |
Brick_list_matrices | 0.205 | 0.029 | 0.235 | |
Brick_list_matrix_mcols | 0.209 | 0.030 | 0.240 | |
Brick_list_mcool_normalisations | 0 | 0 | 0 | |
Brick_list_mcool_resolutions | 0 | 0 | 0 | |
Brick_list_rangekeys | 0.200 | 0.023 | 0.223 | |
Brick_list_ranges_mcols | 0.204 | 0.029 | 0.233 | |
Brick_load_cis_matrix_till_distance | 0.296 | 0.045 | 0.341 | |
Brick_load_data_from_mcool | 0 | 0 | 0 | |
Brick_load_data_from_sparse | 0 | 0 | 0 | |
Brick_load_matrix | 0.332 | 0.052 | 0.389 | |
Brick_local_score_differentiator | 0.534 | 0.108 | 0.677 | |
Brick_make_ranges | 0.002 | 0.000 | 0.002 | |
Brick_matrix_dimensions | 0.334 | 0.053 | 0.403 | |
Brick_matrix_exists | 0.332 | 0.056 | 0.392 | |
Brick_matrix_filename | 0.325 | 0.050 | 0.497 | |
Brick_matrix_isdone | 0.325 | 0.048 | 0.383 | |
Brick_matrix_issparse | 0.330 | 0.052 | 0.383 | |
Brick_matrix_maxdist | 0.328 | 0.046 | 0.390 | |
Brick_matrix_minmax | 0.332 | 0.055 | 0.421 | |
Brick_mcool_normalisation_exists | 0 | 0 | 0 | |
Brick_rangekey_exists | 0.202 | 0.029 | 0.235 | |
Brick_return_region_position | 0.236 | 0.030 | 0.267 | |
Brick_vizart_plot_heatmap | 0.683 | 0.099 | 0.921 | |
Create_many_Bricks | 0.212 | 0.025 | 0.242 | |
Create_many_Bricks_from_mcool | 0 | 0 | 0 | |
load_BrickContainer | 0.225 | 0.028 | 0.252 | |