Back to Multiple platform build/check report for BioC 3.18: simplified long |
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This page was generated on 2024-03-29 11:37:49 -0400 (Fri, 29 Mar 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.3.3 (2024-02-29) -- "Angel Food Cake" | 4669 |
palomino4 | Windows Server 2022 Datacenter | x64 | 4.3.3 (2024-02-29 ucrt) -- "Angel Food Cake" | 4404 |
merida1 | macOS 12.7.1 Monterey | x86_64 | 4.3.3 (2024-02-29) -- "Angel Food Cake" | 4427 |
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 948/2266 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
HiCBricks 1.20.0 (landing page) Koustav Pal
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
merida1 | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson1 | macOS 13.6.1 Ventura / arm64 | see weekly results here | ||||||||||||
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: 1.20.0 |
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_1.20.0.tar.gz |
StartedAt: 2024-03-28 03:52:45 -0400 (Thu, 28 Mar 2024) |
EndedAt: 2024-03-28 03:58:34 -0400 (Thu, 28 Mar 2024) |
EllapsedTime: 349.1 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_1.20.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.18-bioc/meat/HiCBricks.Rcheck’ * using R version 4.3.3 (2024-02-29) * using platform: x86_64-apple-darwin20 (64-bit) * 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 12.7.1 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘HiCBricks/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘HiCBricks’ version ‘1.20.0’ * 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 R 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 5.640 0.543 6.507 Brick_vizart_plot_heatmap 4.583 0.513 5.562 * checking for unstated dependencies in vignettes ... OK * checking package vignettes in ‘inst/doc’ ... 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/4.3-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 | 2.729 | 0.179 | 3.157 | |
BrickContainer_change_output_directory | 2.021 | 0.124 | 2.275 | |
BrickContainer_get_path_to_file | 1.861 | 0.116 | 2.093 | |
BrickContainer_list_chromosomes | 1.893 | 0.115 | 2.154 | |
BrickContainer_list_experiment_name | 1.858 | 0.117 | 2.115 | |
BrickContainer_list_files | 1.908 | 0.116 | 2.143 | |
BrickContainer_list_output_directory | 1.843 | 0.107 | 2.084 | |
BrickContainer_list_resolutions | 1.825 | 0.107 | 2.061 | |
BrickContainer_unlink_resolution | 4.023 | 0.239 | 4.508 | |
Brick_add_ranges | 3.904 | 0.174 | 4.459 | |
Brick_call_compartments | 2.931 | 0.443 | 3.698 | |
Brick_export_to_sparse | 5.640 | 0.543 | 6.507 | |
Brick_fetch_range_index | 2.201 | 0.131 | 2.477 | |
Brick_fetch_row_vector | 3.321 | 0.426 | 4.004 | |
Brick_get_bintable | 2.344 | 0.117 | 2.626 | |
Brick_get_chrominfo | 1.825 | 0.112 | 2.058 | |
Brick_get_entire_matrix | 2.712 | 0.425 | 3.401 | |
Brick_get_matrix | 2.601 | 0.399 | 3.201 | |
Brick_get_matrix_mcols | 2.580 | 0.423 | 3.209 | |
Brick_get_matrix_within_coords | 3.639 | 0.471 | 4.382 | |
Brick_get_ranges | 1.930 | 0.118 | 2.185 | |
Brick_get_values_by_distance | 2.862 | 0.459 | 3.635 | |
Brick_get_vector_values | 2.602 | 0.382 | 3.085 | |
Brick_list_matrices | 1.796 | 0.112 | 1.969 | |
Brick_list_matrix_mcols | 1.787 | 0.111 | 1.954 | |
Brick_list_mcool_normalisations | 0.001 | 0.001 | 0.001 | |
Brick_list_mcool_resolutions | 0.000 | 0.000 | 0.001 | |
Brick_list_rangekeys | 1.828 | 0.112 | 1.992 | |
Brick_list_ranges_mcols | 1.796 | 0.109 | 1.957 | |
Brick_load_cis_matrix_till_distance | 2.394 | 0.302 | 2.786 | |
Brick_load_data_from_mcool | 0.000 | 0.001 | 0.001 | |
Brick_load_data_from_sparse | 0.001 | 0.001 | 0.002 | |
Brick_load_matrix | 2.483 | 0.354 | 3.003 | |
Brick_local_score_differentiator | 3.872 | 0.547 | 4.578 | |
Brick_make_ranges | 0.019 | 0.001 | 0.020 | |
Brick_matrix_dimensions | 2.468 | 0.380 | 2.952 | |
Brick_matrix_exists | 2.470 | 0.364 | 2.911 | |
Brick_matrix_filename | 2.461 | 0.306 | 2.996 | |
Brick_matrix_isdone | 2.452 | 0.335 | 2.836 | |
Brick_matrix_issparse | 2.500 | 0.387 | 2.978 | |
Brick_matrix_maxdist | 2.514 | 0.398 | 3.123 | |
Brick_matrix_minmax | 2.447 | 0.309 | 2.838 | |
Brick_mcool_normalisation_exists | 0.000 | 0.001 | 0.001 | |
Brick_rangekey_exists | 1.814 | 0.115 | 2.021 | |
Brick_return_region_position | 2.037 | 0.121 | 2.297 | |
Brick_vizart_plot_heatmap | 4.583 | 0.513 | 5.562 | |
Create_many_Bricks | 1.866 | 0.120 | 2.138 | |
Create_many_Bricks_from_mcool | 0.001 | 0.001 | 0.002 | |
load_BrickContainer | 1.934 | 0.114 | 2.183 | |