Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2025-01-30 12:11 -0500 (Thu, 30 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" | 4494 |
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" | 4400 |
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: 2025-01-28 07:56:53 -0000 (Tue, 28 Jan 2025) |
EndedAt: 2025-01-28 08:01:13 -0000 (Tue, 28 Jan 2025) |
EllapsedTime: 259.2 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 | 1.487 | 0.082 | 1.595 | |
BrickContainer_change_output_directory | 1.209 | 0.077 | 1.319 | |
BrickContainer_get_path_to_file | 1.061 | 0.055 | 1.149 | |
BrickContainer_list_chromosomes | 1.106 | 0.051 | 1.175 | |
BrickContainer_list_experiment_name | 1.117 | 0.023 | 1.157 | |
BrickContainer_list_files | 1.079 | 0.047 | 1.146 | |
BrickContainer_list_output_directory | 1.101 | 0.038 | 1.152 | |
BrickContainer_list_resolutions | 1.123 | 0.051 | 1.200 | |
BrickContainer_unlink_resolution | 2.318 | 0.101 | 2.457 | |
Brick_add_ranges | 2.311 | 0.104 | 2.455 | |
Brick_call_compartments | 2.145 | 0.051 | 2.230 | |
Brick_export_to_sparse | 3.036 | 0.186 | 3.268 | |
Brick_fetch_range_index | 1.274 | 0.089 | 1.392 | |
Brick_fetch_row_vector | 1.809 | 0.066 | 1.997 | |
Brick_get_bintable | 1.116 | 0.078 | 1.214 | |
Brick_get_chrominfo | 1.032 | 0.055 | 1.103 | |
Brick_get_entire_matrix | 1.436 | 0.090 | 1.562 | |
Brick_get_matrix | 1.686 | 0.106 | 1.848 | |
Brick_get_matrix_mcols | 1.435 | 0.036 | 1.475 | |
Brick_get_matrix_within_coords | 2.023 | 0.044 | 2.074 | |
Brick_get_ranges | 1.143 | 0.064 | 1.214 | |
Brick_get_values_by_distance | 1.584 | 0.036 | 1.624 | |
Brick_get_vector_values | 1.468 | 0.047 | 1.521 | |
Brick_list_matrices | 1.099 | 0.028 | 1.130 | |
Brick_list_matrix_mcols | 1.114 | 0.012 | 1.185 | |
Brick_list_mcool_normalisations | 0.001 | 0.000 | 0.001 | |
Brick_list_mcool_resolutions | 0.001 | 0.000 | 0.000 | |
Brick_list_rangekeys | 1.103 | 0.000 | 1.105 | |
Brick_list_ranges_mcols | 1.088 | 0.024 | 1.115 | |
Brick_load_cis_matrix_till_distance | 1.369 | 0.040 | 1.413 | |
Brick_load_data_from_mcool | 0 | 0 | 0 | |
Brick_load_data_from_sparse | 0 | 0 | 0 | |
Brick_load_matrix | 1.444 | 0.036 | 1.484 | |
Brick_local_score_differentiator | 2.257 | 0.064 | 2.332 | |
Brick_make_ranges | 0.011 | 0.000 | 0.011 | |
Brick_matrix_dimensions | 1.429 | 0.036 | 1.470 | |
Brick_matrix_exists | 1.448 | 0.008 | 1.461 | |
Brick_matrix_filename | 1.443 | 0.052 | 1.500 | |
Brick_matrix_isdone | 1.425 | 0.051 | 1.481 | |
Brick_matrix_issparse | 1.464 | 0.025 | 1.588 | |
Brick_matrix_maxdist | 1.462 | 0.023 | 1.491 | |
Brick_matrix_minmax | 1.384 | 0.048 | 1.436 | |
Brick_mcool_normalisation_exists | 0 | 0 | 0 | |
Brick_rangekey_exists | 1.095 | 0.012 | 1.110 | |
Brick_return_region_position | 1.230 | 0.044 | 1.279 | |
Brick_vizart_plot_heatmap | 2.664 | 0.060 | 2.788 | |
Create_many_Bricks | 1.192 | 0.008 | 1.203 | |
Create_many_Bricks_from_mcool | 0.001 | 0.000 | 0.000 | |
load_BrickContainer | 1.183 | 0.020 | 1.209 | |