Back to Multiple platform build/check report for BioC 3.19: simplified long |
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This page was generated on 2024-05-31 17:03:00 -0400 (Fri, 31 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 |
kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4464 |
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 | |||||||||
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: /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:HiCBricks.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings HiCBricks_1.22.0.tar.gz |
StartedAt: 2024-05-31 04:31:48 -0400 (Fri, 31 May 2024) |
EndedAt: 2024-05-31 04:35:05 -0400 (Fri, 31 May 2024) |
EllapsedTime: 197.4 seconds |
RetCode: 0 |
Status: OK |
CheckDir: HiCBricks.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:HiCBricks.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings HiCBricks_1.22.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.19-bioc/meat/HiCBricks.Rcheck’ * using R version 4.4.0 (2024-04-24) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 * running under: Ubuntu 22.04.4 LTS * using session charset: UTF-8 * 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 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 re-building of vignette outputs ... OK * checking PDF version of manual ... OK * DONE Status: OK
HiCBricks.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD INSTALL HiCBricks ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.19-bioc/R/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 | 1.092 | 0.036 | 1.147 | |
BrickContainer_change_output_directory | 0.867 | 0.041 | 0.907 | |
BrickContainer_get_path_to_file | 0.756 | 0.032 | 0.788 | |
BrickContainer_list_chromosomes | 0.778 | 0.004 | 0.782 | |
BrickContainer_list_experiment_name | 0.770 | 0.024 | 0.794 | |
BrickContainer_list_files | 0.904 | 0.032 | 0.937 | |
BrickContainer_list_output_directory | 0.773 | 0.036 | 0.808 | |
BrickContainer_list_resolutions | 0.745 | 0.003 | 0.749 | |
BrickContainer_unlink_resolution | 1.650 | 0.052 | 1.701 | |
Brick_add_ranges | 1.936 | 0.056 | 1.992 | |
Brick_call_compartments | 1.327 | 0.088 | 1.437 | |
Brick_export_to_sparse | 2.320 | 0.092 | 2.411 | |
Brick_fetch_range_index | 0.905 | 0.008 | 0.915 | |
Brick_fetch_row_vector | 1.383 | 0.020 | 1.403 | |
Brick_get_bintable | 0.800 | 0.036 | 0.836 | |
Brick_get_chrominfo | 0.898 | 0.016 | 0.928 | |
Brick_get_entire_matrix | 1.056 | 0.008 | 1.065 | |
Brick_get_matrix | 1.416 | 0.120 | 1.536 | |
Brick_get_matrix_mcols | 1.011 | 0.040 | 1.050 | |
Brick_get_matrix_within_coords | 1.465 | 0.072 | 1.601 | |
Brick_get_ranges | 0.754 | 0.024 | 0.779 | |
Brick_get_values_by_distance | 1.165 | 0.051 | 1.216 | |
Brick_get_vector_values | 1.066 | 0.032 | 1.098 | |
Brick_list_matrices | 0.741 | 0.032 | 0.773 | |
Brick_list_matrix_mcols | 0.728 | 0.012 | 0.740 | |
Brick_list_mcool_normalisations | 0.001 | 0.000 | 0.000 | |
Brick_list_mcool_resolutions | 0.001 | 0.000 | 0.000 | |
Brick_list_rangekeys | 0.81 | 0.02 | 0.83 | |
Brick_list_ranges_mcols | 0.791 | 0.008 | 0.812 | |
Brick_load_cis_matrix_till_distance | 0.993 | 0.040 | 1.049 | |
Brick_load_data_from_mcool | 0 | 0 | 0 | |
Brick_load_data_from_sparse | 0.001 | 0.000 | 0.000 | |
Brick_load_matrix | 0.986 | 0.031 | 1.017 | |
Brick_local_score_differentiator | 1.633 | 0.064 | 1.698 | |
Brick_make_ranges | 0.007 | 0.000 | 0.007 | |
Brick_matrix_dimensions | 0.990 | 0.044 | 1.034 | |
Brick_matrix_exists | 1.071 | 0.044 | 1.178 | |
Brick_matrix_filename | 1.009 | 0.020 | 1.029 | |
Brick_matrix_isdone | 1.055 | 0.020 | 1.075 | |
Brick_matrix_issparse | 1.075 | 0.012 | 1.087 | |
Brick_matrix_maxdist | 1.046 | 0.012 | 1.058 | |
Brick_matrix_minmax | 1.103 | 0.028 | 1.130 | |
Brick_mcool_normalisation_exists | 0.001 | 0.000 | 0.000 | |
Brick_rangekey_exists | 0.737 | 0.008 | 0.772 | |
Brick_return_region_position | 0.853 | 0.008 | 0.938 | |
Brick_vizart_plot_heatmap | 1.917 | 0.036 | 1.952 | |
Create_many_Bricks | 0.745 | 0.016 | 0.761 | |
Create_many_Bricks_from_mcool | 0.001 | 0.000 | 0.000 | |
load_BrickContainer | 0.816 | 0.008 | 0.824 | |