Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-05-30 12:36:56 -0400 (Thu, 30 May 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.0 RC (2024-04-16 r86468) -- "Puppy Cup" | 4669 |
palomino4 | Windows Server 2022 Datacenter | x64 | 4.4.0 RC (2024-04-16 r86468 ucrt) -- "Puppy Cup" | 4404 |
merida1 | macOS 12.7.4 Monterey | x86_64 | 4.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" | 4431 |
kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" | 4384 |
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 932/2233 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
HiCBricks 1.23.0 (landing page) Koustav Pal
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
merida1 | macOS 12.7.4 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson1 | macOS 13.6.6 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: 1.23.0 |
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_1.23.0.tar.gz |
StartedAt: 2024-05-30 02:08:43 -0400 (Thu, 30 May 2024) |
EndedAt: 2024-05-30 02:15:08 -0400 (Thu, 30 May 2024) |
EllapsedTime: 385.5 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_1.23.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/HiCBricks.Rcheck’ * using R version 4.4.0 Patched (2024-04-24 r86482) * 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 12.7.4 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘HiCBricks/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘HiCBricks’ version ‘1.23.0’ * 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 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 6.084 0.543 7.426 Brick_vizart_plot_heatmap 5.069 0.559 6.439 Brick_local_score_differentiator 4.211 0.608 5.057 BrickContainer_unlink_resolution 4.482 0.268 5.637 Brick_add_ranges 4.288 0.192 5.269 * 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 | 2.818 | 0.179 | 3.095 | |
BrickContainer_change_output_directory | 2.267 | 0.130 | 2.589 | |
BrickContainer_get_path_to_file | 2.062 | 0.118 | 2.388 | |
BrickContainer_list_chromosomes | 2.092 | 0.121 | 2.437 | |
BrickContainer_list_experiment_name | 2.100 | 0.125 | 2.639 | |
BrickContainer_list_files | 2.121 | 0.122 | 2.591 | |
BrickContainer_list_output_directory | 1.991 | 0.119 | 2.415 | |
BrickContainer_list_resolutions | 2.100 | 0.131 | 2.617 | |
BrickContainer_unlink_resolution | 4.482 | 0.268 | 5.637 | |
Brick_add_ranges | 4.288 | 0.192 | 5.269 | |
Brick_call_compartments | 3.163 | 0.439 | 4.041 | |
Brick_export_to_sparse | 6.084 | 0.543 | 7.426 | |
Brick_fetch_range_index | 2.431 | 0.127 | 2.872 | |
Brick_fetch_row_vector | 3.627 | 0.386 | 4.442 | |
Brick_get_bintable | 2.128 | 0.132 | 2.539 | |
Brick_get_chrominfo | 1.989 | 0.123 | 2.366 | |
Brick_get_entire_matrix | 3.287 | 0.369 | 4.134 | |
Brick_get_matrix | 2.791 | 0.408 | 3.628 | |
Brick_get_matrix_mcols | 2.715 | 0.395 | 3.301 | |
Brick_get_matrix_within_coords | 3.881 | 0.461 | 4.520 | |
Brick_get_ranges | 2.051 | 0.130 | 2.209 | |
Brick_get_values_by_distance | 3.013 | 0.486 | 3.556 | |
Brick_get_vector_values | 2.763 | 0.389 | 3.189 | |
Brick_list_matrices | 1.977 | 0.127 | 2.122 | |
Brick_list_matrix_mcols | 1.978 | 0.126 | 2.197 | |
Brick_list_mcool_normalisations | 0.001 | 0.000 | 0.001 | |
Brick_list_mcool_resolutions | 0.000 | 0.001 | 0.001 | |
Brick_list_rangekeys | 1.980 | 0.121 | 2.131 | |
Brick_list_ranges_mcols | 1.996 | 0.124 | 2.180 | |
Brick_load_cis_matrix_till_distance | 2.532 | 0.373 | 2.983 | |
Brick_load_data_from_mcool | 0.001 | 0.001 | 0.001 | |
Brick_load_data_from_sparse | 0.000 | 0.001 | 0.001 | |
Brick_load_matrix | 2.653 | 0.341 | 3.035 | |
Brick_local_score_differentiator | 4.211 | 0.608 | 5.057 | |
Brick_make_ranges | 0.024 | 0.001 | 0.027 | |
Brick_matrix_dimensions | 2.662 | 0.467 | 3.356 | |
Brick_matrix_exists | 2.706 | 0.389 | 3.477 | |
Brick_matrix_filename | 2.713 | 0.389 | 3.511 | |
Brick_matrix_isdone | 2.765 | 0.432 | 3.773 | |
Brick_matrix_issparse | 2.743 | 0.402 | 3.675 | |
Brick_matrix_maxdist | 2.766 | 0.402 | 3.755 | |
Brick_matrix_minmax | 2.733 | 0.364 | 4.208 | |
Brick_mcool_normalisation_exists | 0.001 | 0.001 | 0.001 | |
Brick_rangekey_exists | 1.995 | 0.130 | 2.503 | |
Brick_return_region_position | 2.232 | 0.127 | 3.226 | |
Brick_vizart_plot_heatmap | 5.069 | 0.559 | 6.439 | |
Create_many_Bricks | 2.021 | 0.131 | 3.064 | |
Create_many_Bricks_from_mcool | 0.001 | 0.001 | 0.002 | |
load_BrickContainer | 2.186 | 0.130 | 2.708 | |