Back to Multiple platform build/check report for BioC 3.19: simplified long |
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This page was generated on 2024-03-04 11:39:20 -0500 (Mon, 04 Mar 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | R Under development (unstable) (2024-01-16 r85808) -- "Unsuffered Consequences" | 4676 |
palomino3 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-01-14 r85805 ucrt) -- "Unsuffered Consequences" | 4414 |
merida1 | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-01-16 r85808) -- "Unsuffered Consequences" | 4441 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-01-16 r85812) -- "Unsuffered Consequences" | 4417 |
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 943/2251 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
HiCBricks 1.21.0 (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 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | 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: 1.21.0 |
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_1.21.0.tar.gz |
StartedAt: 2024-03-02 05:10:13 -0500 (Sat, 02 Mar 2024) |
EndedAt: 2024-03-02 05:16:21 -0500 (Sat, 02 Mar 2024) |
EllapsedTime: 367.7 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_1.21.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.19-bioc/meat/HiCBricks.Rcheck’ * using R Under development (unstable) (2024-01-16 r85808) * 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 ‘1.21.0’ * 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 5.716 0.525 7.177 Brick_vizart_plot_heatmap 4.631 0.549 6.000 Brick_local_score_differentiator 4.010 0.611 5.440 * 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 | 2.707 | 0.177 | 3.632 | |
BrickContainer_change_output_directory | 2.145 | 0.134 | 2.835 | |
BrickContainer_get_path_to_file | 1.884 | 0.116 | 2.343 | |
BrickContainer_list_chromosomes | 1.879 | 0.107 | 2.227 | |
BrickContainer_list_experiment_name | 1.892 | 0.106 | 2.286 | |
BrickContainer_list_files | 1.953 | 0.114 | 2.495 | |
BrickContainer_list_output_directory | 1.840 | 0.106 | 2.265 | |
BrickContainer_list_resolutions | 1.866 | 0.100 | 2.281 | |
BrickContainer_unlink_resolution | 4.066 | 0.236 | 4.962 | |
Brick_add_ranges | 4.009 | 0.172 | 4.837 | |
Brick_call_compartments | 3.020 | 0.493 | 4.084 | |
Brick_export_to_sparse | 5.716 | 0.525 | 7.177 | |
Brick_fetch_range_index | 2.299 | 0.119 | 3.072 | |
Brick_fetch_row_vector | 3.421 | 0.368 | 4.592 | |
Brick_get_bintable | 1.964 | 0.116 | 2.542 | |
Brick_get_chrominfo | 1.919 | 0.118 | 2.517 | |
Brick_get_entire_matrix | 3.090 | 0.384 | 4.383 | |
Brick_get_matrix | 2.636 | 0.426 | 3.763 | |
Brick_get_matrix_mcols | 2.571 | 0.339 | 3.432 | |
Brick_get_matrix_within_coords | 3.606 | 0.381 | 4.848 | |
Brick_get_ranges | 1.963 | 0.120 | 2.411 | |
Brick_get_values_by_distance | 2.842 | 0.406 | 3.736 | |
Brick_get_vector_values | 2.696 | 0.395 | 3.607 | |
Brick_list_matrices | 1.936 | 0.125 | 2.513 | |
Brick_list_matrix_mcols | 1.896 | 0.117 | 2.430 | |
Brick_list_mcool_normalisations | 0.000 | 0.000 | 0.001 | |
Brick_list_mcool_resolutions | 0.000 | 0.001 | 0.000 | |
Brick_list_rangekeys | 1.866 | 0.114 | 2.381 | |
Brick_list_ranges_mcols | 1.876 | 0.118 | 2.429 | |
Brick_load_cis_matrix_till_distance | 2.458 | 0.324 | 3.351 | |
Brick_load_data_from_mcool | 0.000 | 0.001 | 0.001 | |
Brick_load_data_from_sparse | 0.000 | 0.001 | 0.003 | |
Brick_load_matrix | 2.538 | 0.349 | 3.503 | |
Brick_local_score_differentiator | 4.010 | 0.611 | 5.440 | |
Brick_make_ranges | 0.021 | 0.001 | 0.025 | |
Brick_matrix_dimensions | 2.585 | 0.422 | 3.457 | |
Brick_matrix_exists | 2.610 | 0.417 | 3.485 | |
Brick_matrix_filename | 2.556 | 0.405 | 3.580 | |
Brick_matrix_isdone | 2.612 | 0.398 | 3.477 | |
Brick_matrix_issparse | 2.604 | 0.465 | 3.593 | |
Brick_matrix_maxdist | 2.593 | 0.389 | 3.452 | |
Brick_matrix_minmax | 2.554 | 0.362 | 3.461 | |
Brick_mcool_normalisation_exists | 0.000 | 0.001 | 0.002 | |
Brick_rangekey_exists | 1.855 | 0.117 | 2.318 | |
Brick_return_region_position | 2.105 | 0.125 | 2.598 | |
Brick_vizart_plot_heatmap | 4.631 | 0.549 | 6.000 | |
Create_many_Bricks | 1.882 | 0.117 | 2.332 | |
Create_many_Bricks_from_mcool | 0.000 | 0.001 | 0.002 | |
load_BrickContainer | 2.013 | 0.126 | 2.454 | |