| Back to Multiple platform build/check report for BioC 3.21: simplified long |
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This page was generated on 2025-04-22 13:16 -0400 (Tue, 22 Apr 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.5.0 RC (2025-04-04 r88126) -- "How About a Twenty-Six" | 4831 |
| palomino7 | Windows Server 2022 Datacenter | x64 | 4.5.0 RC (2025-04-04 r88126 ucrt) -- "How About a Twenty-Six" | 4573 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.5.0 RC (2025-04-04 r88126) -- "How About a Twenty-Six" | 4599 |
| kjohnson3 | macOS 13.7.1 Ventura | arm64 | 4.5.0 RC (2025-04-04 r88126) -- "How About a Twenty-Six" | 4553 |
| kunpeng2 | Linux (openEuler 24.03 LTS) | aarch64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4570 |
| 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 24.04.1 LTS) / x86_64 | OK | OK | OK | |||||||||
| palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
| kjohnson3 | macOS 13.7.1 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: 2025-04-21 21:13:42 -0400 (Mon, 21 Apr 2025) |
| EndedAt: 2025-04-21 21:16:34 -0400 (Mon, 21 Apr 2025) |
| EllapsedTime: 171.8 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: HiCBricks.Rcheck |
| Warnings: 0 |
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### 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
###
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* using log directory ‘/Users/biocbuild/bbs-3.21-bioc/meat/HiCBricks.Rcheck’
* using R version 4.5.0 RC (2025-04-04 r88126)
* using platform: x86_64-apple-darwin20
* R was compiled by
Apple clang version 14.0.0 (clang-1400.0.29.202)
GNU Fortran (GCC) 14.2.0
* running under: macOS Monterey 12.7.6
* 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-x86_64/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 | 1.192 | 0.117 | 1.322 | |
| BrickContainer_change_output_directory | 0.999 | 0.082 | 1.085 | |
| BrickContainer_get_path_to_file | 0.846 | 0.079 | 0.930 | |
| BrickContainer_list_chromosomes | 0.829 | 0.076 | 0.909 | |
| BrickContainer_list_experiment_name | 0.833 | 0.075 | 0.916 | |
| BrickContainer_list_files | 0.874 | 0.080 | 0.961 | |
| BrickContainer_list_output_directory | 0.862 | 0.083 | 0.952 | |
| BrickContainer_list_resolutions | 0.856 | 0.077 | 0.938 | |
| BrickContainer_unlink_resolution | 1.846 | 0.161 | 2.013 | |
| Brick_add_ranges | 1.938 | 0.125 | 2.076 | |
| Brick_call_compartments | 1.429 | 0.250 | 1.693 | |
| Brick_export_to_sparse | 2.627 | 0.279 | 2.923 | |
| Brick_fetch_range_index | 0.977 | 0.078 | 1.063 | |
| Brick_fetch_row_vector | 1.494 | 0.240 | 1.748 | |
| Brick_get_bintable | 0.839 | 0.081 | 0.929 | |
| Brick_get_chrominfo | 0.795 | 0.077 | 0.878 | |
| Brick_get_entire_matrix | 1.192 | 0.353 | 1.561 | |
| Brick_get_matrix | 1.456 | 0.318 | 1.784 | |
| Brick_get_matrix_mcols | 1.168 | 0.390 | 1.574 | |
| Brick_get_matrix_within_coords | 1.643 | 0.312 | 1.977 | |
| Brick_get_ranges | 0.867 | 0.080 | 0.959 | |
| Brick_get_values_by_distance | 1.326 | 0.375 | 1.715 | |
| Brick_get_vector_values | 1.237 | 0.389 | 1.672 | |
| Brick_list_matrices | 0.832 | 0.081 | 0.924 | |
| Brick_list_matrix_mcols | 0.786 | 0.076 | 0.869 | |
| Brick_list_mcool_normalisations | 0.001 | 0.001 | 0.001 | |
| Brick_list_mcool_resolutions | 0 | 0 | 0 | |
| Brick_list_rangekeys | 0.787 | 0.076 | 0.868 | |
| Brick_list_ranges_mcols | 0.848 | 0.077 | 0.935 | |
| Brick_load_cis_matrix_till_distance | 1.057 | 0.213 | 1.284 | |
| Brick_load_data_from_mcool | 0 | 0 | 0 | |
| Brick_load_data_from_sparse | 0.001 | 0.001 | 0.000 | |
| Brick_load_matrix | 1.166 | 0.335 | 1.514 | |
| Brick_local_score_differentiator | 1.817 | 0.433 | 2.266 | |
| Brick_make_ranges | 0.008 | 0.000 | 0.009 | |
| Brick_matrix_dimensions | 1.205 | 0.328 | 1.548 | |
| Brick_matrix_exists | 1.220 | 0.358 | 1.593 | |
| Brick_matrix_filename | 1.121 | 0.280 | 1.412 | |
| Brick_matrix_isdone | 1.109 | 0.263 | 1.381 | |
| Brick_matrix_issparse | 1.143 | 0.265 | 1.423 | |
| Brick_matrix_maxdist | 1.149 | 0.338 | 1.498 | |
| Brick_matrix_minmax | 1.189 | 0.386 | 1.587 | |
| Brick_mcool_normalisation_exists | 0 | 0 | 0 | |
| Brick_rangekey_exists | 0.824 | 0.080 | 0.910 | |
| Brick_return_region_position | 0.939 | 0.086 | 1.035 | |
| Brick_vizart_plot_heatmap | 2.264 | 0.599 | 2.886 | |
| Create_many_Bricks | 0.841 | 0.083 | 0.935 | |
| Create_many_Bricks_from_mcool | 0.001 | 0.001 | 0.001 | |
| load_BrickContainer | 0.910 | 0.088 | 1.007 | |