Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2025-01-23 12:08 -0500 (Thu, 23 Jan 2025).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4746 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" | 4493 |
merida1 | macOS 12.7.5 Monterey | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4517 |
kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4469 |
taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4394 |
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 953/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
HiCBricks 1.24.0 (landing page) Koustav Pal
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
merida1 | macOS 12.7.5 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson1 | macOS 13.6.6 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: 1.24.0 |
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_1.24.0.tar.gz |
StartedAt: 2025-01-21 05:04:30 -0500 (Tue, 21 Jan 2025) |
EndedAt: 2025-01-21 05:10:13 -0500 (Tue, 21 Jan 2025) |
EllapsedTime: 343.1 seconds |
RetCode: 0 |
Status: OK |
CheckDir: HiCBricks.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### 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_1.24.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/HiCBricks.Rcheck’ * using R version 4.4.2 (2024-10-31) * using platform: x86_64-apple-darwin20 * R was compiled by Apple clang version 14.0.0 (clang-1400.0.29.202) GNU Fortran (GCC) 12.2.0 * 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 ‘1.24.0’ * 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 Examples with CPU (user + system) or elapsed time > 5s user system elapsed Brick_export_to_sparse 5.683 0.488 6.211 Brick_vizart_plot_heatmap 4.688 0.695 6.491 * 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/4.4-x86_64/Resources/library’ * installing *source* package ‘HiCBricks’ ... ** 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 | 2.699 | 0.171 | 2.948 | |
BrickContainer_change_output_directory | 2.145 | 0.117 | 2.326 | |
BrickContainer_get_path_to_file | 1.978 | 0.110 | 2.131 | |
BrickContainer_list_chromosomes | 1.909 | 0.112 | 2.066 | |
BrickContainer_list_experiment_name | 1.931 | 0.110 | 2.077 | |
BrickContainer_list_files | 1.942 | 0.109 | 2.101 | |
BrickContainer_list_output_directory | 1.926 | 0.114 | 2.077 | |
BrickContainer_list_resolutions | 1.915 | 0.109 | 2.077 | |
BrickContainer_unlink_resolution | 4.141 | 0.233 | 4.430 | |
Brick_add_ranges | 4.074 | 0.179 | 4.311 | |
Brick_call_compartments | 3.042 | 0.447 | 3.545 | |
Brick_export_to_sparse | 5.683 | 0.488 | 6.211 | |
Brick_fetch_range_index | 2.186 | 0.115 | 2.316 | |
Brick_fetch_row_vector | 3.296 | 0.382 | 3.704 | |
Brick_get_bintable | 1.952 | 0.114 | 2.081 | |
Brick_get_chrominfo | 1.818 | 0.097 | 1.925 | |
Brick_get_entire_matrix | 3.032 | 0.384 | 3.463 | |
Brick_get_matrix | 2.531 | 0.333 | 2.880 | |
Brick_get_matrix_mcols | 2.559 | 0.349 | 2.927 | |
Brick_get_matrix_within_coords | 3.613 | 0.339 | 3.993 | |
Brick_get_ranges | 1.964 | 0.112 | 2.104 | |
Brick_get_values_by_distance | 2.833 | 0.441 | 3.320 | |
Brick_get_vector_values | 2.616 | 0.321 | 2.964 | |
Brick_list_matrices | 1.855 | 0.104 | 2.005 | |
Brick_list_matrix_mcols | 1.860 | 0.106 | 2.114 | |
Brick_list_mcool_normalisations | 0.001 | 0.001 | 0.001 | |
Brick_list_mcool_resolutions | 0.000 | 0.000 | 0.001 | |
Brick_list_rangekeys | 1.830 | 0.102 | 2.021 | |
Brick_list_ranges_mcols | 1.876 | 0.110 | 2.088 | |
Brick_load_cis_matrix_till_distance | 2.426 | 0.343 | 2.969 | |
Brick_load_data_from_mcool | 0.001 | 0.000 | 0.001 | |
Brick_load_data_from_sparse | 0.000 | 0.002 | 0.002 | |
Brick_load_matrix | 2.594 | 0.569 | 3.361 | |
Brick_local_score_differentiator | 4.088 | 0.576 | 4.999 | |
Brick_make_ranges | 0.021 | 0.001 | 0.021 | |
Brick_matrix_dimensions | 2.565 | 0.401 | 3.531 | |
Brick_matrix_exists | 2.584 | 0.464 | 3.538 | |
Brick_matrix_filename | 2.547 | 0.375 | 3.799 | |
Brick_matrix_isdone | 2.579 | 0.357 | 3.343 | |
Brick_matrix_issparse | 2.575 | 0.441 | 3.726 | |
Brick_matrix_maxdist | 2.593 | 0.384 | 3.541 | |
Brick_matrix_minmax | 2.563 | 0.435 | 3.357 | |
Brick_mcool_normalisation_exists | 0.001 | 0.001 | 0.003 | |
Brick_rangekey_exists | 1.878 | 0.115 | 2.108 | |
Brick_return_region_position | 2.101 | 0.122 | 2.847 | |
Brick_vizart_plot_heatmap | 4.688 | 0.695 | 6.491 | |
Create_many_Bricks | 1.895 | 0.113 | 2.167 | |
Create_many_Bricks_from_mcool | 0.000 | 0.002 | 0.002 | |
load_BrickContainer | 2.015 | 0.120 | 2.298 | |