| Back to Multiple platform build/check report for BioC 3.18: simplified long |
|
This page was generated on 2024-03-04 11:37:26 -0500 (Mon, 04 Mar 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.3.2 Patched (2023-11-13 r85521) -- "Eye Holes" | 4692 |
| palomino4 | Windows Server 2022 Datacenter | x64 | 4.3.2 (2023-10-31 ucrt) -- "Eye Holes" | 4445 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.3.2 Patched (2023-11-01 r85457) -- "Eye Holes" | 4466 |
| 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 948/2266 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| HiCBricks 1.20.0 (landing page) Koustav Pal
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | |||||||||
| palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | |||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
| kjohnson1 | macOS 13.6.1 Ventura / arm64 | see weekly results here | ||||||||||||
|
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: 1.20.0 |
| 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_1.20.0.tar.gz |
| StartedAt: 2024-03-03 21:07:22 -0500 (Sun, 03 Mar 2024) |
| EndedAt: 2024-03-03 21:10:24 -0500 (Sun, 03 Mar 2024) |
| EllapsedTime: 181.9 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: HiCBricks.Rcheck |
| Warnings: 0 |
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### Running command:
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### /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_1.20.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.18-bioc/meat/HiCBricks.Rcheck’
* using R version 4.3.2 Patched (2023-11-01 r85457)
* using platform: x86_64-apple-darwin20 (64-bit)
* R was compiled by
Apple clang version 14.0.3 (clang-1403.0.22.14.1)
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 ‘1.20.0’
* 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
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... 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/4.3-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 | 1.381 | 0.137 | 1.558 | |
| BrickContainer_change_output_directory | 0.979 | 0.099 | 1.107 | |
| BrickContainer_get_path_to_file | 0.891 | 0.083 | 0.988 | |
| BrickContainer_list_chromosomes | 0.907 | 0.088 | 1.009 | |
| BrickContainer_list_experiment_name | 0.913 | 0.092 | 1.023 | |
| BrickContainer_list_files | 0.938 | 0.089 | 1.045 | |
| BrickContainer_list_output_directory | 0.917 | 0.089 | 1.019 | |
| BrickContainer_list_resolutions | 0.886 | 0.087 | 0.985 | |
| BrickContainer_unlink_resolution | 1.937 | 0.187 | 2.146 | |
| Brick_add_ranges | 1.948 | 0.134 | 2.102 | |
| Brick_call_compartments | 1.426 | 0.252 | 1.700 | |
| Brick_export_to_sparse | 2.688 | 0.346 | 3.068 | |
| Brick_fetch_range_index | 1.052 | 0.091 | 1.154 | |
| Brick_fetch_row_vector | 1.671 | 0.263 | 1.968 | |
| Brick_get_bintable | 1.272 | 0.097 | 1.385 | |
| Brick_get_chrominfo | 0.889 | 0.091 | 0.992 | |
| Brick_get_entire_matrix | 1.356 | 0.278 | 1.669 | |
| Brick_get_matrix | 1.303 | 0.241 | 1.579 | |
| Brick_get_matrix_mcols | 1.254 | 0.244 | 1.518 | |
| Brick_get_matrix_within_coords | 1.767 | 0.285 | 2.095 | |
| Brick_get_ranges | 0.901 | 0.090 | 1.005 | |
| Brick_get_values_by_distance | 1.434 | 0.310 | 1.831 | |
| Brick_get_vector_values | 1.361 | 0.230 | 1.614 | |
| Brick_list_matrices | 0.897 | 0.089 | 0.997 | |
| Brick_list_matrix_mcols | 0.901 | 0.088 | 0.999 | |
| Brick_list_mcool_normalisations | 0.001 | 0.000 | 0.001 | |
| Brick_list_mcool_resolutions | 0 | 0 | 0 | |
| Brick_list_rangekeys | 0.890 | 0.088 | 0.986 | |
| Brick_list_ranges_mcols | 0.865 | 0.090 | 0.972 | |
| Brick_load_cis_matrix_till_distance | 1.129 | 0.205 | 1.357 | |
| Brick_load_data_from_mcool | 0.000 | 0.001 | 0.001 | |
| Brick_load_data_from_sparse | 0.000 | 0.001 | 0.000 | |
| Brick_load_matrix | 1.227 | 0.250 | 1.509 | |
| Brick_local_score_differentiator | 1.868 | 0.331 | 2.251 | |
| Brick_make_ranges | 0.007 | 0.000 | 0.007 | |
| Brick_matrix_dimensions | 1.238 | 0.202 | 1.459 | |
| Brick_matrix_exists | 1.212 | 0.203 | 1.434 | |
| Brick_matrix_filename | 1.199 | 0.221 | 1.443 | |
| Brick_matrix_isdone | 1.212 | 0.181 | 1.418 | |
| Brick_matrix_issparse | 1.265 | 0.204 | 1.502 | |
| Brick_matrix_maxdist | 1.217 | 0.249 | 1.490 | |
| Brick_matrix_minmax | 1.250 | 0.209 | 1.478 | |
| Brick_mcool_normalisation_exists | 0.000 | 0.000 | 0.001 | |
| Brick_rangekey_exists | 0.880 | 0.097 | 0.994 | |
| Brick_return_region_position | 1.025 | 0.095 | 1.140 | |
| Brick_vizart_plot_heatmap | 2.284 | 0.324 | 2.632 | |
| Create_many_Bricks | 0.907 | 0.092 | 1.014 | |
| Create_many_Bricks_from_mcool | 0 | 0 | 0 | |
| load_BrickContainer | 0.952 | 0.091 | 1.053 | |