| Back to Multiple platform build/check report for BioC 3.21: simplified long |
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This page was generated on 2025-10-16 11:40 -0400 (Thu, 16 Oct 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" | 4833 |
| merida1 | macOS 12.7.6 Monterey | x86_64 | 4.5.1 RC (2025-06-05 r88288) -- "Great Square Root" | 4614 |
| kjohnson1 | macOS 13.7.5 Ventura | arm64 | 4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" | 4555 |
| kunpeng2 | Linux (openEuler 24.03 LTS) | aarch64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4586 |
| 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 12.7.6 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
| kjohnson1 | macOS 13.7.5 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: 2025-10-15 00:19:55 -0400 (Wed, 15 Oct 2025) |
| EndedAt: 2025-10-15 00:22:46 -0400 (Wed, 15 Oct 2025) |
| EllapsedTime: 171.3 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_1.26.0.tar.gz
###
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* 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 | 1.214 | 0.117 | 1.348 | |
| BrickContainer_change_output_directory | 0.763 | 0.092 | 0.864 | |
| BrickContainer_get_path_to_file | 0.696 | 0.106 | 0.817 | |
| BrickContainer_list_chromosomes | 0.708 | 0.105 | 0.822 | |
| BrickContainer_list_experiment_name | 0.702 | 0.120 | 0.854 | |
| BrickContainer_list_files | 0.717 | 0.102 | 0.830 | |
| BrickContainer_list_output_directory | 0.700 | 0.122 | 0.830 | |
| BrickContainer_list_resolutions | 0.682 | 0.104 | 0.794 | |
| BrickContainer_unlink_resolution | 1.527 | 0.242 | 1.797 | |
| Brick_add_ranges | 1.835 | 0.179 | 2.030 | |
| Brick_call_compartments | 1.296 | 0.232 | 1.556 | |
| Brick_export_to_sparse | 2.333 | 0.297 | 2.666 | |
| Brick_fetch_range_index | 0.856 | 0.120 | 0.998 | |
| Brick_fetch_row_vector | 1.392 | 0.165 | 1.566 | |
| Brick_get_bintable | 1.189 | 0.096 | 1.296 | |
| Brick_get_chrominfo | 0.681 | 0.085 | 0.770 | |
| Brick_get_entire_matrix | 1.117 | 0.176 | 1.300 | |
| Brick_get_matrix | 1.072 | 0.146 | 1.223 | |
| Brick_get_matrix_mcols | 1.056 | 0.157 | 1.222 | |
| Brick_get_matrix_within_coords | 1.537 | 0.154 | 1.699 | |
| Brick_get_ranges | 0.736 | 0.088 | 0.848 | |
| Brick_get_values_by_distance | 1.185 | 0.198 | 1.430 | |
| Brick_get_vector_values | 1.121 | 0.215 | 1.360 | |
| Brick_list_matrices | 0.709 | 0.083 | 0.798 | |
| Brick_list_matrix_mcols | 0.698 | 0.086 | 0.793 | |
| Brick_list_mcool_normalisations | 0.000 | 0.000 | 0.001 | |
| Brick_list_mcool_resolutions | 0 | 0 | 0 | |
| Brick_list_rangekeys | 0.673 | 0.093 | 0.776 | |
| Brick_list_ranges_mcols | 0.679 | 0.090 | 0.772 | |
| Brick_load_cis_matrix_till_distance | 0.962 | 0.201 | 1.178 | |
| Brick_load_data_from_mcool | 0.000 | 0.001 | 0.000 | |
| Brick_load_data_from_sparse | 0.000 | 0.001 | 0.001 | |
| Brick_load_matrix | 1.049 | 0.190 | 1.264 | |
| Brick_local_score_differentiator | 1.673 | 0.300 | 2.033 | |
| Brick_make_ranges | 0.009 | 0.000 | 0.009 | |
| Brick_matrix_dimensions | 1.023 | 0.164 | 1.205 | |
| Brick_matrix_exists | 1.037 | 0.184 | 1.245 | |
| Brick_matrix_filename | 0.952 | 0.173 | 1.216 | |
| Brick_matrix_isdone | 0.713 | 0.163 | 0.915 | |
| Brick_matrix_issparse | 1.045 | 0.205 | 1.282 | |
| Brick_matrix_maxdist | 1.082 | 0.184 | 1.286 | |
| Brick_matrix_minmax | 1.045 | 0.174 | 1.231 | |
| Brick_mcool_normalisation_exists | 0.000 | 0.001 | 0.000 | |
| Brick_rangekey_exists | 0.715 | 0.121 | 0.846 | |
| Brick_return_region_position | 0.804 | 0.109 | 0.918 | |
| Brick_vizart_plot_heatmap | 2.236 | 0.217 | 2.490 | |
| Create_many_Bricks | 0.722 | 0.087 | 0.814 | |
| Create_many_Bricks_from_mcool | 0.000 | 0.001 | 0.001 | |
| load_BrickContainer | 0.750 | 0.088 | 0.847 | |