| Back to Multiple platform build/check report for BioC 3.22: simplified long |
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This page was generated on 2025-10-23 12:06 -0400 (Thu, 23 Oct 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" | 4894 |
| lconway | macOS 12.7.6 Monterey | x86_64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4684 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4629 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4642 |
| 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 975/2355 | 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 12.7.6 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 | NA | ||||||||||
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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: 2025-10-22 20:11:04 -0400 (Wed, 22 Oct 2025) |
| EndedAt: 2025-10-22 20:12:01 -0400 (Wed, 22 Oct 2025) |
| EllapsedTime: 56.7 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_1.27.1.tar.gz
###
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* 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 | 0.338 | 0.041 | 0.379 | |
| BrickContainer_change_output_directory | 0.265 | 0.030 | 0.307 | |
| BrickContainer_get_path_to_file | 0.212 | 0.026 | 0.240 | |
| BrickContainer_list_chromosomes | 0.209 | 0.025 | 0.236 | |
| BrickContainer_list_experiment_name | 0.212 | 0.027 | 0.244 | |
| BrickContainer_list_files | 0.212 | 0.028 | 0.240 | |
| BrickContainer_list_output_directory | 0.199 | 0.024 | 0.224 | |
| BrickContainer_list_resolutions | 0.203 | 0.026 | 0.231 | |
| BrickContainer_unlink_resolution | 0.436 | 0.061 | 0.498 | |
| Brick_add_ranges | 0.544 | 0.042 | 0.587 | |
| Brick_call_compartments | 0.404 | 0.057 | 0.497 | |
| Brick_export_to_sparse | 0.671 | 0.073 | 0.753 | |
| Brick_fetch_range_index | 0.254 | 0.028 | 0.289 | |
| Brick_fetch_row_vector | 0.418 | 0.052 | 0.471 | |
| Brick_get_bintable | 0.375 | 0.031 | 0.407 | |
| Brick_get_chrominfo | 0.207 | 0.029 | 0.246 | |
| Brick_get_entire_matrix | 0.336 | 0.048 | 0.387 | |
| Brick_get_matrix | 0.325 | 0.047 | 0.375 | |
| Brick_get_matrix_mcols | 0.329 | 0.054 | 0.389 | |
| Brick_get_matrix_within_coords | 0.456 | 0.052 | 0.512 | |
| Brick_get_ranges | 0.216 | 0.029 | 0.246 | |
| Brick_get_values_by_distance | 0.366 | 0.070 | 0.448 | |
| Brick_get_vector_values | 0.340 | 0.056 | 0.397 | |
| Brick_list_matrices | 0.211 | 0.031 | 0.241 | |
| Brick_list_matrix_mcols | 0.208 | 0.032 | 0.241 | |
| Brick_list_mcool_normalisations | 0.000 | 0.000 | 0.001 | |
| Brick_list_mcool_resolutions | 0 | 0 | 0 | |
| Brick_list_rangekeys | 0.206 | 0.030 | 0.238 | |
| Brick_list_ranges_mcols | 0.210 | 0.028 | 0.249 | |
| Brick_load_cis_matrix_till_distance | 0.287 | 0.047 | 0.334 | |
| Brick_load_data_from_mcool | 0 | 0 | 0 | |
| Brick_load_data_from_sparse | 0 | 0 | 0 | |
| Brick_load_matrix | 0.323 | 0.062 | 0.391 | |
| Brick_local_score_differentiator | 0.522 | 0.083 | 0.683 | |
| Brick_make_ranges | 0.003 | 0.000 | 0.002 | |
| Brick_matrix_dimensions | 0.321 | 0.045 | 0.418 | |
| Brick_matrix_exists | 0.318 | 0.057 | 0.381 | |
| Brick_matrix_filename | 0.321 | 0.053 | 0.376 | |
| Brick_matrix_isdone | 0.332 | 0.059 | 0.392 | |
| Brick_matrix_issparse | 0.323 | 0.053 | 0.385 | |
| Brick_matrix_maxdist | 0.332 | 0.052 | 0.384 | |
| Brick_matrix_minmax | 0.327 | 0.043 | 0.428 | |
| Brick_mcool_normalisation_exists | 0 | 0 | 0 | |
| Brick_rangekey_exists | 0.201 | 0.026 | 0.271 | |
| Brick_return_region_position | 0.236 | 0.029 | 0.265 | |
| Brick_vizart_plot_heatmap | 0.693 | 0.071 | 0.768 | |
| Create_many_Bricks | 0.211 | 0.027 | 0.241 | |
| Create_many_Bricks_from_mcool | 0 | 0 | 0 | |
| load_BrickContainer | 0.228 | 0.028 | 0.254 | |