Back to Multiple platform build/check report for BioC 3.19: simplified long |
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This page was generated on 2024-10-15 21:54 -0400 (Tue, 15 Oct 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4763 |
merida1 | macOS 12.7.5 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4529 |
kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4479 |
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 | |||||||||
merida1 | macOS 12.7.5 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: 2024-10-14 06:19:49 -0400 (Mon, 14 Oct 2024) |
EndedAt: 2024-10-14 06:26:34 -0400 (Mon, 14 Oct 2024) |
EllapsedTime: 405.0 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 4.4.1 (2024-06-14) * 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 ‘1.22.0’ * 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 5.956 0.481 8.061 Brick_vizart_plot_heatmap 4.805 0.494 6.357 Brick_local_score_differentiator 4.176 0.542 6.254 BrickContainer_unlink_resolution 4.292 0.232 5.347 Brick_add_ranges 4.172 0.170 5.634 Brick_get_matrix_within_coords 3.784 0.466 5.384 Brick_fetch_row_vector 3.526 0.421 5.225 Brick_load_cis_matrix_till_distance 2.442 0.402 7.839 * 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 | 2.786 | 0.175 | 3.287 | |
BrickContainer_change_output_directory | 2.170 | 0.122 | 2.517 | |
BrickContainer_get_path_to_file | 1.957 | 0.103 | 2.343 | |
BrickContainer_list_chromosomes | 1.964 | 0.111 | 2.417 | |
BrickContainer_list_experiment_name | 1.974 | 0.112 | 2.532 | |
BrickContainer_list_files | 2.025 | 0.106 | 2.521 | |
BrickContainer_list_output_directory | 2.033 | 0.112 | 2.483 | |
BrickContainer_list_resolutions | 2.014 | 0.110 | 2.538 | |
BrickContainer_unlink_resolution | 4.292 | 0.232 | 5.347 | |
Brick_add_ranges | 4.172 | 0.170 | 5.634 | |
Brick_call_compartments | 3.124 | 0.459 | 4.791 | |
Brick_export_to_sparse | 5.956 | 0.481 | 8.061 | |
Brick_fetch_range_index | 2.350 | 0.123 | 2.922 | |
Brick_fetch_row_vector | 3.526 | 0.421 | 5.225 | |
Brick_get_bintable | 2.037 | 0.112 | 2.501 | |
Brick_get_chrominfo | 1.905 | 0.106 | 2.908 | |
Brick_get_entire_matrix | 3.175 | 0.380 | 4.509 | |
Brick_get_matrix | 2.712 | 0.424 | 3.914 | |
Brick_get_matrix_mcols | 2.678 | 0.410 | 3.872 | |
Brick_get_matrix_within_coords | 3.784 | 0.466 | 5.384 | |
Brick_get_ranges | 2.047 | 0.117 | 3.056 | |
Brick_get_values_by_distance | 2.934 | 0.451 | 4.130 | |
Brick_get_vector_values | 2.797 | 0.393 | 4.215 | |
Brick_list_matrices | 1.972 | 0.114 | 2.422 | |
Brick_list_matrix_mcols | 1.944 | 0.116 | 3.055 | |
Brick_list_mcool_normalisations | 0.001 | 0.000 | 0.001 | |
Brick_list_mcool_resolutions | 0.000 | 0.000 | 0.001 | |
Brick_list_rangekeys | 1.940 | 0.115 | 2.441 | |
Brick_list_ranges_mcols | 1.928 | 0.109 | 4.084 | |
Brick_load_cis_matrix_till_distance | 2.442 | 0.402 | 7.839 | |
Brick_load_data_from_mcool | 0.000 | 0.001 | 0.002 | |
Brick_load_data_from_sparse | 0.000 | 0.002 | 0.002 | |
Brick_load_matrix | 2.665 | 0.343 | 3.634 | |
Brick_local_score_differentiator | 4.176 | 0.542 | 6.254 | |
Brick_make_ranges | 0.021 | 0.001 | 0.025 | |
Brick_matrix_dimensions | 2.631 | 0.399 | 4.114 | |
Brick_matrix_exists | 2.653 | 0.380 | 3.681 | |
Brick_matrix_filename | 2.673 | 0.531 | 4.375 | |
Brick_matrix_isdone | 2.662 | 0.356 | 3.614 | |
Brick_matrix_issparse | 2.645 | 0.371 | 4.108 | |
Brick_matrix_maxdist | 2.684 | 0.397 | 3.703 | |
Brick_matrix_minmax | 2.644 | 0.416 | 4.237 | |
Brick_mcool_normalisation_exists | 0.000 | 0.001 | 0.001 | |
Brick_rangekey_exists | 1.972 | 0.122 | 2.460 | |
Brick_return_region_position | 2.182 | 0.119 | 3.244 | |
Brick_vizart_plot_heatmap | 4.805 | 0.494 | 6.357 | |
Create_many_Bricks | 1.997 | 0.117 | 2.493 | |
Create_many_Bricks_from_mcool | 0.000 | 0.001 | 0.001 | |
load_BrickContainer | 2.046 | 0.115 | 2.612 | |