Back to Multiple platform build/check report for BioC 3.19: simplified long |
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This page was generated on 2024-05-30 11:35:38 -0400 (Thu, 30 May 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" | 4753 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4518 |
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 | |||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson3 | macOS 13.6.5 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: 1.22.0 |
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: 2024-05-29 21:21:19 -0400 (Wed, 29 May 2024) |
EndedAt: 2024-05-29 21:24:26 -0400 (Wed, 29 May 2024) |
EllapsedTime: 186.9 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 12.7.1 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘HiCBricks/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘HiCBricks’ version ‘1.22.0’ * 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 * 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 | 1.398 | 0.132 | 1.553 | |
BrickContainer_change_output_directory | 1.133 | 0.102 | 1.243 | |
BrickContainer_get_path_to_file | 0.978 | 0.094 | 1.084 | |
BrickContainer_list_chromosomes | 0.943 | 0.095 | 1.053 | |
BrickContainer_list_experiment_name | 0.929 | 0.094 | 1.037 | |
BrickContainer_list_files | 1.037 | 0.098 | 1.152 | |
BrickContainer_list_output_directory | 0.977 | 0.092 | 1.085 | |
BrickContainer_list_resolutions | 0.963 | 0.093 | 1.068 | |
BrickContainer_unlink_resolution | 2.018 | 0.188 | 2.223 | |
Brick_add_ranges | 2.192 | 0.148 | 2.364 | |
Brick_call_compartments | 1.540 | 0.268 | 1.847 | |
Brick_export_to_sparse | 2.849 | 0.326 | 3.208 | |
Brick_fetch_range_index | 1.097 | 0.099 | 1.211 | |
Brick_fetch_row_vector | 1.654 | 0.245 | 1.945 | |
Brick_get_bintable | 0.919 | 0.089 | 1.022 | |
Brick_get_chrominfo | 0.897 | 0.089 | 0.998 | |
Brick_get_entire_matrix | 1.762 | 0.262 | 2.054 | |
Brick_get_matrix | 1.338 | 0.221 | 1.584 | |
Brick_get_matrix_mcols | 1.308 | 0.268 | 1.613 | |
Brick_get_matrix_within_coords | 1.866 | 0.251 | 2.161 | |
Brick_get_ranges | 1.005 | 0.097 | 1.116 | |
Brick_get_values_by_distance | 1.491 | 0.296 | 1.845 | |
Brick_get_vector_values | 1.408 | 0.328 | 1.780 | |
Brick_list_matrices | 0.921 | 0.089 | 1.021 | |
Brick_list_matrix_mcols | 0.885 | 0.085 | 0.977 | |
Brick_list_mcool_normalisations | 0.000 | 0.000 | 0.001 | |
Brick_list_mcool_resolutions | 0 | 0 | 0 | |
Brick_list_rangekeys | 0.900 | 0.091 | 1.002 | |
Brick_list_ranges_mcols | 0.918 | 0.090 | 1.025 | |
Brick_load_cis_matrix_till_distance | 1.208 | 0.181 | 1.405 | |
Brick_load_data_from_mcool | 0 | 0 | 0 | |
Brick_load_data_from_sparse | 0.000 | 0.000 | 0.001 | |
Brick_load_matrix | 1.351 | 0.283 | 1.663 | |
Brick_local_score_differentiator | 1.982 | 0.282 | 2.290 | |
Brick_make_ranges | 0.009 | 0.000 | 0.010 | |
Brick_matrix_dimensions | 1.282 | 0.302 | 1.630 | |
Brick_matrix_exists | 1.296 | 0.256 | 1.576 | |
Brick_matrix_filename | 1.325 | 0.232 | 1.579 | |
Brick_matrix_isdone | 1.238 | 0.307 | 1.603 | |
Brick_matrix_issparse | 1.235 | 0.228 | 1.479 | |
Brick_matrix_maxdist | 1.261 | 0.313 | 1.600 | |
Brick_matrix_minmax | 1.249 | 0.237 | 1.509 | |
Brick_mcool_normalisation_exists | 0.000 | 0.001 | 0.001 | |
Brick_rangekey_exists | 0.872 | 0.090 | 0.973 | |
Brick_return_region_position | 1.005 | 0.091 | 1.111 | |
Brick_vizart_plot_heatmap | 2.373 | 0.447 | 2.860 | |
Create_many_Bricks | 0.947 | 0.095 | 1.054 | |
Create_many_Bricks_from_mcool | 0.000 | 0.000 | 0.001 | |
load_BrickContainer | 0.952 | 0.099 | 1.055 | |