Back to Multiple platform build/check report for BioC 3.19: simplified long |
|
This page was generated on 2024-06-25 17:42 -0400 (Tue, 25 Jun 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4760 |
palomino3 | Windows Server 2022 Datacenter | x64 | 4.4.0 (2024-04-24 ucrt) -- "Puppy Cup" | 4494 |
merida1 | macOS 12.7.4 Monterey | x86_64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4508 |
kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4466 |
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 962/2300 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
HiCBricks 1.22.0 (landing page) Koustav Pal
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
merida1 | macOS 12.7.4 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson1 | macOS 13.6.6 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: 1.22.0 |
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_1.22.0.tar.gz |
StartedAt: 2024-06-24 05:48:52 -0400 (Mon, 24 Jun 2024) |
EndedAt: 2024-06-24 05:55:38 -0400 (Mon, 24 Jun 2024) |
EllapsedTime: 405.9 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_1.22.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.19-bioc/meat/HiCBricks.Rcheck’ * using R version 4.4.0 (2024-04-24) * 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 12.7.4 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘HiCBricks/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘HiCBricks’ version ‘1.22.0’ * 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 6.101 0.570 7.760 Brick_vizart_plot_heatmap 4.879 0.590 7.339 Brick_local_score_differentiator 4.211 0.669 5.633 BrickContainer_unlink_resolution 4.463 0.246 5.539 Brick_get_matrix_within_coords 4.003 0.470 5.341 Brick_add_ranges 4.269 0.172 5.133 * 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 | 2.929 | 0.182 | 3.889 | |
BrickContainer_change_output_directory | 2.289 | 0.131 | 2.977 | |
BrickContainer_get_path_to_file | 2.102 | 0.117 | 2.689 | |
BrickContainer_list_chromosomes | 2.055 | 0.116 | 2.658 | |
BrickContainer_list_experiment_name | 2.052 | 0.110 | 2.564 | |
BrickContainer_list_files | 2.093 | 0.116 | 2.584 | |
BrickContainer_list_output_directory | 2.026 | 0.111 | 2.501 | |
BrickContainer_list_resolutions | 2.042 | 0.115 | 2.431 | |
BrickContainer_unlink_resolution | 4.463 | 0.246 | 5.539 | |
Brick_add_ranges | 4.269 | 0.172 | 5.133 | |
Brick_call_compartments | 3.199 | 0.438 | 4.231 | |
Brick_export_to_sparse | 6.101 | 0.570 | 7.760 | |
Brick_fetch_range_index | 2.457 | 0.133 | 2.986 | |
Brick_fetch_row_vector | 3.603 | 0.413 | 4.633 | |
Brick_get_bintable | 2.145 | 0.126 | 2.638 | |
Brick_get_chrominfo | 2.071 | 0.125 | 2.543 | |
Brick_get_entire_matrix | 3.331 | 0.471 | 4.357 | |
Brick_get_matrix | 2.852 | 0.491 | 3.911 | |
Brick_get_matrix_mcols | 2.799 | 0.371 | 3.695 | |
Brick_get_matrix_within_coords | 4.003 | 0.470 | 5.341 | |
Brick_get_ranges | 2.104 | 0.116 | 2.547 | |
Brick_get_values_by_distance | 3.071 | 0.460 | 3.971 | |
Brick_get_vector_values | 2.816 | 0.426 | 3.636 | |
Brick_list_matrices | 2.007 | 0.115 | 2.356 | |
Brick_list_matrix_mcols | 2.011 | 0.121 | 2.423 | |
Brick_list_mcool_normalisations | 0.001 | 0.001 | 0.001 | |
Brick_list_mcool_resolutions | 0.000 | 0.001 | 0.000 | |
Brick_list_rangekeys | 1.975 | 0.114 | 2.326 | |
Brick_list_ranges_mcols | 1.988 | 0.115 | 2.341 | |
Brick_load_cis_matrix_till_distance | 2.620 | 0.470 | 3.491 | |
Brick_load_data_from_mcool | 0.001 | 0.001 | 0.001 | |
Brick_load_data_from_sparse | 0.000 | 0.002 | 0.002 | |
Brick_load_matrix | 2.690 | 0.466 | 3.626 | |
Brick_local_score_differentiator | 4.211 | 0.669 | 5.633 | |
Brick_make_ranges | 0.021 | 0.001 | 0.024 | |
Brick_matrix_dimensions | 2.729 | 0.502 | 3.711 | |
Brick_matrix_exists | 2.701 | 0.351 | 3.587 | |
Brick_matrix_filename | 2.715 | 0.412 | 3.570 | |
Brick_matrix_isdone | 2.724 | 0.380 | 3.362 | |
Brick_matrix_issparse | 2.763 | 0.404 | 3.674 | |
Brick_matrix_maxdist | 2.790 | 0.372 | 3.653 | |
Brick_matrix_minmax | 2.711 | 0.369 | 3.492 | |
Brick_mcool_normalisation_exists | 0.000 | 0.001 | 0.001 | |
Brick_rangekey_exists | 2.041 | 0.118 | 2.426 | |
Brick_return_region_position | 2.206 | 0.119 | 2.622 | |
Brick_vizart_plot_heatmap | 4.879 | 0.590 | 7.339 | |
Create_many_Bricks | 2.028 | 0.116 | 2.581 | |
Create_many_Bricks_from_mcool | 0.000 | 0.001 | 0.001 | |
load_BrickContainer | 2.101 | 0.124 | 2.674 | |