| Back to Multiple platform build/check report for BioC 3.22: simplified long |
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This page was generated on 2025-11-24 12:06 -0500 (Mon, 24 Nov 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble" | 4873 |
| merida1 | macOS 12.7.6 Monterey | x86_64 | 4.5.2 Patched (2025-11-05 r88990) -- "[Not] Part in a Rumble" | 4654 |
| kjohnson1 | macOS 13.7.5 Ventura | arm64 | 4.5.2 Patched (2025-11-04 r88984) -- "[Not] Part in a Rumble" | 4600 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4668 |
| 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 978/2361 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| HiCBricks 1.28.0 (landing page) Koustav Pal
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | OK | |||||||||
| merida1 | macOS 12.7.6 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
| kjohnson1 | macOS 13.7.5 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: 1.28.0 |
| 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_1.28.0.tar.gz |
| StartedAt: 2025-11-22 06:59:18 -0500 (Sat, 22 Nov 2025) |
| EndedAt: 2025-11-22 07:03:23 -0500 (Sat, 22 Nov 2025) |
| EllapsedTime: 245.3 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: HiCBricks.Rcheck |
| Warnings: 0 |
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### Running command:
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### /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_1.28.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/HiCBricks.Rcheck’
* using R version 4.5.2 Patched (2025-11-04 r88984)
* 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 13.7.8
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘HiCBricks/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘HiCBricks’ version ‘1.28.0’
* 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 ‘1.28.0’ ** 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 | 1.318 | 0.132 | 2.053 | |
| BrickContainer_change_output_directory | 0.863 | 0.102 | 1.374 | |
| BrickContainer_get_path_to_file | 0.756 | 0.091 | 1.187 | |
| BrickContainer_list_chromosomes | 0.772 | 0.099 | 1.175 | |
| BrickContainer_list_experiment_name | 0.791 | 0.095 | 1.268 | |
| BrickContainer_list_files | 0.805 | 0.095 | 1.299 | |
| BrickContainer_list_output_directory | 0.789 | 0.094 | 1.253 | |
| BrickContainer_list_resolutions | 0.786 | 0.098 | 1.188 | |
| BrickContainer_unlink_resolution | 1.756 | 0.208 | 2.840 | |
| Brick_add_ranges | 1.907 | 0.135 | 2.852 | |
| Brick_call_compartments | 1.327 | 0.234 | 2.082 | |
| Brick_export_to_sparse | 2.608 | 0.330 | 4.049 | |
| Brick_fetch_range_index | 1.404 | 0.128 | 2.097 | |
| Brick_fetch_row_vector | 1.520 | 0.222 | 2.457 | |
| Brick_get_bintable | 0.821 | 0.106 | 1.242 | |
| Brick_get_chrominfo | 0.767 | 0.096 | 1.189 | |
| Brick_get_entire_matrix | 1.196 | 0.218 | 2.043 | |
| Brick_get_matrix | 1.174 | 0.186 | 1.864 | |
| Brick_get_matrix_mcols | 1.159 | 0.183 | 1.963 | |
| Brick_get_matrix_within_coords | 1.625 | 0.269 | 2.661 | |
| Brick_get_ranges | 0.824 | 0.105 | 1.332 | |
| Brick_get_values_by_distance | 1.288 | 0.224 | 2.251 | |
| Brick_get_vector_values | 1.227 | 0.238 | 2.181 | |
| Brick_list_matrices | 0.765 | 0.146 | 1.302 | |
| Brick_list_matrix_mcols | 0.760 | 0.137 | 1.123 | |
| Brick_list_mcool_normalisations | 0.001 | 0.001 | 0.001 | |
| Brick_list_mcool_resolutions | 0.000 | 0.001 | 0.001 | |
| Brick_list_rangekeys | 0.777 | 0.106 | 1.059 | |
| Brick_list_ranges_mcols | 0.743 | 0.100 | 1.220 | |
| Brick_load_cis_matrix_till_distance | 0.994 | 0.232 | 1.681 | |
| Brick_load_data_from_mcool | 0.000 | 0.000 | 0.001 | |
| Brick_load_data_from_sparse | 0.000 | 0.001 | 0.001 | |
| Brick_load_matrix | 1.139 | 0.215 | 1.781 | |
| Brick_local_score_differentiator | 1.829 | 0.289 | 3.063 | |
| Brick_make_ranges | 0.009 | 0.000 | 0.010 | |
| Brick_matrix_dimensions | 1.175 | 0.221 | 2.089 | |
| Brick_matrix_exists | 1.126 | 0.194 | 1.758 | |
| Brick_matrix_filename | 1.134 | 0.200 | 1.937 | |
| Brick_matrix_isdone | 1.148 | 0.228 | 1.819 | |
| Brick_matrix_issparse | 1.142 | 0.182 | 1.740 | |
| Brick_matrix_maxdist | 1.125 | 0.154 | 1.799 | |
| Brick_matrix_minmax | 1.138 | 0.179 | 1.710 | |
| Brick_mcool_normalisation_exists | 0 | 0 | 0 | |
| Brick_rangekey_exists | 0.810 | 0.117 | 1.380 | |
| Brick_return_region_position | 0.880 | 0.110 | 1.322 | |
| Brick_vizart_plot_heatmap | 2.328 | 0.288 | 3.663 | |
| Create_many_Bricks | 0.811 | 0.107 | 1.250 | |
| Create_many_Bricks_from_mcool | 0.000 | 0.001 | 0.000 | |
| load_BrickContainer | 0.824 | 0.101 | 1.204 | |