Back to Multiple platform build/check report for BioC 3.22: simplified long |
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This page was generated on 2025-08-07 12:05 -0400 (Thu, 07 Aug 2025).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 24.04.2 LTS) | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4815 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.5.1 (2025-06-13 ucrt) -- "Great Square Root" | 4550 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4592 |
kjohnson3 | macOS 13.7.1 Ventura | arm64 | 4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" | 4534 |
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 959/2315 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
HiCBricks 1.27.1 (landing page) Koustav Pal
| nebbiolo2 | Linux (Ubuntu 24.04.2 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
palomino8 | 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 | ![]() | ||||||||
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: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:HiCBricks.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings HiCBricks_1.27.1.tar.gz |
StartedAt: 2025-08-06 23:19:21 -0400 (Wed, 06 Aug 2025) |
EndedAt: 2025-08-06 23:22:35 -0400 (Wed, 06 Aug 2025) |
EllapsedTime: 194.2 seconds |
RetCode: 0 |
Status: OK |
CheckDir: HiCBricks.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:HiCBricks.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings HiCBricks_1.27.1.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/HiCBricks.Rcheck’ * using R version 4.5.1 (2025-06-13) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0 GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0 * running under: Ubuntu 24.04.2 LTS * using session charset: UTF-8 * 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 loading without being on the library search path ... 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 re-building of vignette outputs ... OK * checking PDF version of manual ... OK * DONE Status: OK
HiCBricks.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD INSTALL HiCBricks ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.22-bioc/R/site-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 | 1.252 | 0.042 | 1.297 | |
BrickContainer_change_output_directory | 0.929 | 0.025 | 0.957 | |
BrickContainer_get_path_to_file | 0.821 | 0.061 | 0.884 | |
BrickContainer_list_chromosomes | 0.900 | 0.022 | 0.946 | |
BrickContainer_list_experiment_name | 0.747 | 0.012 | 0.761 | |
BrickContainer_list_files | 0.746 | 0.040 | 0.789 | |
BrickContainer_list_output_directory | 0.743 | 0.014 | 0.759 | |
BrickContainer_list_resolutions | 0.726 | 0.014 | 0.743 | |
BrickContainer_unlink_resolution | 1.652 | 0.039 | 1.699 | |
Brick_add_ranges | 1.728 | 0.041 | 1.772 | |
Brick_call_compartments | 1.186 | 0.056 | 1.245 | |
Brick_export_to_sparse | 2.204 | 0.046 | 2.253 | |
Brick_fetch_range_index | 0.880 | 0.013 | 0.896 | |
Brick_fetch_row_vector | 1.347 | 0.022 | 1.373 | |
Brick_get_bintable | 0.762 | 0.012 | 0.872 | |
Brick_get_chrominfo | 0.723 | 0.017 | 0.743 | |
Brick_get_entire_matrix | 1.171 | 0.031 | 1.206 | |
Brick_get_matrix | 1.398 | 0.027 | 1.429 | |
Brick_get_matrix_mcols | 0.968 | 0.035 | 1.006 | |
Brick_get_matrix_within_coords | 1.409 | 0.022 | 1.434 | |
Brick_get_ranges | 0.843 | 0.018 | 0.886 | |
Brick_get_values_by_distance | 1.077 | 0.017 | 1.096 | |
Brick_get_vector_values | 1.006 | 0.062 | 1.071 | |
Brick_list_matrices | 0.731 | 0.018 | 0.752 | |
Brick_list_matrix_mcols | 0.712 | 0.011 | 0.725 | |
Brick_list_mcool_normalisations | 0.001 | 0.000 | 0.000 | |
Brick_list_mcool_resolutions | 0 | 0 | 0 | |
Brick_list_rangekeys | 0.760 | 0.009 | 0.771 | |
Brick_list_ranges_mcols | 0.816 | 0.017 | 0.861 | |
Brick_load_cis_matrix_till_distance | 0.908 | 0.024 | 0.934 | |
Brick_load_data_from_mcool | 0.001 | 0.000 | 0.000 | |
Brick_load_data_from_sparse | 0 | 0 | 0 | |
Brick_load_matrix | 0.976 | 0.026 | 1.004 | |
Brick_local_score_differentiator | 1.642 | 0.050 | 1.696 | |
Brick_make_ranges | 0.009 | 0.000 | 0.009 | |
Brick_matrix_dimensions | 0.993 | 0.053 | 1.049 | |
Brick_matrix_exists | 0.981 | 0.023 | 1.006 | |
Brick_matrix_filename | 0.994 | 0.014 | 1.011 | |
Brick_matrix_isdone | 1.013 | 0.023 | 1.038 | |
Brick_matrix_issparse | 0.955 | 0.020 | 1.020 | |
Brick_matrix_maxdist | 0.992 | 0.016 | 1.010 | |
Brick_matrix_minmax | 0.984 | 0.020 | 1.006 | |
Brick_mcool_normalisation_exists | 0 | 0 | 0 | |
Brick_rangekey_exists | 0.713 | 0.011 | 0.727 | |
Brick_return_region_position | 0.808 | 0.013 | 0.823 | |
Brick_vizart_plot_heatmap | 1.884 | 0.077 | 1.963 | |
Create_many_Bricks | 0.752 | 0.011 | 0.765 | |
Create_many_Bricks_from_mcool | 0 | 0 | 0 | |
load_BrickContainer | 0.765 | 0.007 | 0.774 | |