Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2025-01-23 12:12 -0500 (Thu, 23 Jan 2025).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4746 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" | 4493 |
merida1 | macOS 12.7.5 Monterey | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4517 |
kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4469 |
taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4394 |
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 953/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
HiCBricks 1.24.0 (landing page) Koustav Pal
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | OK | 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 | |||||||||
taishan | Linux (openEuler 24.03 LTS) / 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. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
Package: HiCBricks |
Version: 1.24.0 |
Command: /home/biocbuild/R/R/bin/R CMD check --install=check:HiCBricks.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings HiCBricks_1.24.0.tar.gz |
StartedAt: 2025-01-21 07:46:52 -0000 (Tue, 21 Jan 2025) |
EndedAt: 2025-01-21 07:50:47 -0000 (Tue, 21 Jan 2025) |
EllapsedTime: 235.2 seconds |
RetCode: 0 |
Status: OK |
CheckDir: HiCBricks.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD check --install=check:HiCBricks.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings HiCBricks_1.24.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.20-bioc/meat/HiCBricks.Rcheck’ * using R version 4.4.2 (2024-10-31) * using platform: aarch64-unknown-linux-gnu * R was compiled by aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0 GNU Fortran (GCC) 12.3.1 (openEuler 12.3.1-36.oe2403) * running under: openEuler 24.03 (LTS) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘HiCBricks/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘HiCBricks’ version ‘1.24.0’ * 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 loading without being on the library search path ... 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: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL HiCBricks ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.4.2/site-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 | 1.497 | 0.020 | 1.520 | |
BrickContainer_change_output_directory | 1.216 | 0.020 | 1.240 | |
BrickContainer_get_path_to_file | 1.084 | 0.036 | 1.126 | |
BrickContainer_list_chromosomes | 1.115 | 0.011 | 1.131 | |
BrickContainer_list_experiment_name | 1.124 | 0.036 | 1.164 | |
BrickContainer_list_files | 1.125 | 0.016 | 1.146 | |
BrickContainer_list_output_directory | 1.096 | 0.024 | 1.124 | |
BrickContainer_list_resolutions | 1.127 | 0.036 | 1.167 | |
BrickContainer_unlink_resolution | 2.437 | 0.068 | 2.513 | |
Brick_add_ranges | 2.404 | 0.060 | 2.469 | |
Brick_call_compartments | 2.192 | 0.091 | 2.332 | |
Brick_export_to_sparse | 3.250 | 0.052 | 3.598 | |
Brick_fetch_range_index | 1.334 | 0.048 | 1.617 | |
Brick_fetch_row_vector | 1.907 | 0.056 | 1.970 | |
Brick_get_bintable | 1.170 | 0.020 | 1.194 | |
Brick_get_chrominfo | 1.109 | 0.028 | 1.141 | |
Brick_get_entire_matrix | 1.535 | 0.031 | 1.851 | |
Brick_get_matrix | 1.798 | 0.087 | 1.891 | |
Brick_get_matrix_mcols | 1.443 | 0.044 | 1.579 | |
Brick_get_matrix_within_coords | 2.035 | 0.024 | 2.065 | |
Brick_get_ranges | 1.177 | 0.012 | 1.192 | |
Brick_get_values_by_distance | 1.599 | 0.052 | 1.657 | |
Brick_get_vector_values | 1.476 | 0.044 | 1.524 | |
Brick_list_matrices | 1.105 | 0.020 | 1.386 | |
Brick_list_matrix_mcols | 1.054 | 0.023 | 1.081 | |
Brick_list_mcool_normalisations | 0 | 0 | 0 | |
Brick_list_mcool_resolutions | 0 | 0 | 0 | |
Brick_list_rangekeys | 1.079 | 0.014 | 1.097 | |
Brick_list_ranges_mcols | 1.114 | 0.024 | 1.141 | |
Brick_load_cis_matrix_till_distance | 1.384 | 0.032 | 1.441 | |
Brick_load_data_from_mcool | 0.001 | 0.000 | 0.000 | |
Brick_load_data_from_sparse | 0 | 0 | 0 | |
Brick_load_matrix | 1.440 | 0.068 | 1.513 | |
Brick_local_score_differentiator | 2.257 | 0.052 | 2.319 | |
Brick_make_ranges | 0.011 | 0.000 | 0.011 | |
Brick_matrix_dimensions | 1.432 | 0.011 | 1.465 | |
Brick_matrix_exists | 1.383 | 0.028 | 1.416 | |
Brick_matrix_filename | 1.399 | 0.032 | 1.435 | |
Brick_matrix_isdone | 1.379 | 0.060 | 1.443 | |
Brick_matrix_issparse | 1.391 | 0.036 | 1.432 | |
Brick_matrix_maxdist | 1.421 | 0.028 | 1.454 | |
Brick_matrix_minmax | 1.389 | 0.016 | 1.410 | |
Brick_mcool_normalisation_exists | 0 | 0 | 0 | |
Brick_rangekey_exists | 1.061 | 0.016 | 1.084 | |
Brick_return_region_position | 1.197 | 0.012 | 1.212 | |
Brick_vizart_plot_heatmap | 2.508 | 0.048 | 2.564 | |
Create_many_Bricks | 1.049 | 0.020 | 1.074 | |
Create_many_Bricks_from_mcool | 0 | 0 | 0 | |
load_BrickContainer | 1.110 | 0.036 | 1.149 | |