Back to Multiple platform build/check report for BioC 3.19: simplified long |
|
This page was generated on 2024-06-11 14:42 -0400 (Tue, 11 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" | 4757 |
palomino3 | Windows Server 2022 Datacenter | x64 | 4.4.0 (2024-04-24 ucrt) -- "Puppy Cup" | 4491 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4522 |
kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4468 |
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 | ![]() | ||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | ![]() | ||||||||
kjohnson3 | macOS 13.6.5 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: 2024-06-09 20:51:48 -0400 (Sun, 09 Jun 2024) |
EndedAt: 2024-06-09 20:54:48 -0400 (Sun, 09 Jun 2024) |
EllapsedTime: 180.0 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 4.4.0 (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 | 1.350 | 0.123 | 1.488 | |
BrickContainer_change_output_directory | 1.044 | 0.082 | 1.131 | |
BrickContainer_get_path_to_file | 0.907 | 0.078 | 0.995 | |
BrickContainer_list_chromosomes | 0.956 | 0.079 | 1.041 | |
BrickContainer_list_experiment_name | 0.946 | 0.081 | 1.031 | |
BrickContainer_list_files | 1.014 | 0.094 | 1.125 | |
BrickContainer_list_output_directory | 0.970 | 0.083 | 1.059 | |
BrickContainer_list_resolutions | 0.968 | 0.092 | 1.073 | |
BrickContainer_unlink_resolution | 2.109 | 0.187 | 2.315 | |
Brick_add_ranges | 2.330 | 0.147 | 2.493 | |
Brick_call_compartments | 1.650 | 0.244 | 1.926 | |
Brick_export_to_sparse | 2.889 | 0.303 | 3.219 | |
Brick_fetch_range_index | 1.069 | 0.083 | 1.197 | |
Brick_fetch_row_vector | 1.681 | 0.245 | 1.938 | |
Brick_get_bintable | 0.925 | 0.088 | 1.027 | |
Brick_get_chrominfo | 0.888 | 0.077 | 0.969 | |
Brick_get_entire_matrix | 1.679 | 0.219 | 1.930 | |
Brick_get_matrix | 1.332 | 0.230 | 1.572 | |
Brick_get_matrix_mcols | 1.314 | 0.257 | 1.589 | |
Brick_get_matrix_within_coords | 1.820 | 0.218 | 2.050 | |
Brick_get_ranges | 0.962 | 0.089 | 1.060 | |
Brick_get_values_by_distance | 1.458 | 0.322 | 1.797 | |
Brick_get_vector_values | 1.299 | 0.259 | 1.571 | |
Brick_list_matrices | 0.885 | 0.089 | 0.985 | |
Brick_list_matrix_mcols | 0.876 | 0.081 | 0.961 | |
Brick_list_mcool_normalisations | 0.001 | 0.001 | 0.000 | |
Brick_list_mcool_resolutions | 0 | 0 | 0 | |
Brick_list_rangekeys | 0.892 | 0.084 | 0.986 | |
Brick_list_ranges_mcols | 0.913 | 0.088 | 1.020 | |
Brick_load_cis_matrix_till_distance | 1.208 | 0.260 | 1.479 | |
Brick_load_data_from_mcool | 0.000 | 0.000 | 0.001 | |
Brick_load_data_from_sparse | 0.000 | 0.001 | 0.001 | |
Brick_load_matrix | 1.313 | 0.238 | 1.564 | |
Brick_local_score_differentiator | 1.923 | 0.379 | 2.324 | |
Brick_make_ranges | 0.012 | 0.001 | 0.013 | |
Brick_matrix_dimensions | 1.234 | 0.236 | 1.487 | |
Brick_matrix_exists | 1.292 | 0.301 | 1.606 | |
Brick_matrix_filename | 1.259 | 0.291 | 1.567 | |
Brick_matrix_isdone | 1.289 | 0.214 | 1.515 | |
Brick_matrix_issparse | 1.280 | 0.191 | 1.504 | |
Brick_matrix_maxdist | 1.283 | 0.222 | 1.510 | |
Brick_matrix_minmax | 1.280 | 0.300 | 1.588 | |
Brick_mcool_normalisation_exists | 0.001 | 0.000 | 0.000 | |
Brick_rangekey_exists | 0.937 | 0.090 | 1.033 | |
Brick_return_region_position | 1.070 | 0.087 | 1.159 | |
Brick_vizart_plot_heatmap | 2.415 | 0.423 | 2.864 | |
Create_many_Bricks | 0.902 | 0.083 | 0.992 | |
Create_many_Bricks_from_mcool | 0 | 0 | 0 | |
load_BrickContainer | 0.909 | 0.083 | 0.992 | |