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This page was generated on 2025-03-24 11:40 -0400 (Mon, 24 Mar 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.1 LTS)x86_64R Under development (unstable) (2025-03-13 r87965) -- "Unsuffered Consequences" 4779
palomino7Windows Server 2022 Datacenterx64R Under development (unstable) (2025-03-01 r87860 ucrt) -- "Unsuffered Consequences" 4550
lconwaymacOS 12.7.1 Montereyx86_64R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences" 4578
kjohnson3macOS 13.7.1 Venturaarm64R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences" 4530
kunpeng2Linux (openEuler 24.03 LTS)aarch64R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" 4461
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 962/2313HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
HiCBricks 1.25.0  (landing page)
Koustav Pal
Snapshot Date: 2025-03-23 13:40 -0400 (Sun, 23 Mar 2025)
git_url: https://git.bioconductor.org/packages/HiCBricks
git_branch: devel
git_last_commit: 51b1cc8
git_last_commit_date: 2024-10-29 10:32:24 -0400 (Tue, 29 Oct 2024)
nebbiolo1Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino7Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.1 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
kunpeng2Linux (openEuler 24.03 LTS) / aarch64  OK    OK    OK  


CHECK results for HiCBricks on nebbiolo1

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.

raw results


Summary

Package: HiCBricks
Version: 1.25.0
Command: /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --install=check:HiCBricks.install-out.txt --library=/home/biocbuild/bbs-3.21-bioc/R/site-library --timings HiCBricks_1.25.0.tar.gz
StartedAt: 2025-03-23 22:57:41 -0400 (Sun, 23 Mar 2025)
EndedAt: 2025-03-23 23:01:03 -0400 (Sun, 23 Mar 2025)
EllapsedTime: 201.2 seconds
RetCode: 0
Status:   OK  
CheckDir: HiCBricks.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### Running command:
###
###   /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --install=check:HiCBricks.install-out.txt --library=/home/biocbuild/bbs-3.21-bioc/R/site-library --timings HiCBricks_1.25.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/HiCBricks.Rcheck’
* using R Under development (unstable) (2025-03-13 r87965)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
    GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.2 LTS
* using session charset: UTF-8
* checking for file ‘HiCBricks/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘HiCBricks’ version ‘1.25.0’
* 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


Installation output

HiCBricks.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD INSTALL HiCBricks
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.21-bioc/R/site-library’
* installing *source* package ‘HiCBricks’ ...
** this is package ‘HiCBricks’ version ‘1.25.0’
** 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)

Tests output


Example timings

HiCBricks.Rcheck/HiCBricks-Ex.timings

nameusersystemelapsed
BrickContainer_change_experiment_name1.0330.0351.068
BrickContainer_change_output_directory0.9290.0680.997
BrickContainer_get_path_to_file0.8110.0350.847
BrickContainer_list_chromosomes0.7630.0170.780
BrickContainer_list_experiment_name0.7740.0120.787
BrickContainer_list_files0.7800.0080.788
BrickContainer_list_output_directory0.8030.0100.812
BrickContainer_list_resolutions0.8930.0160.908
BrickContainer_unlink_resolution1.7110.0221.733
Brick_add_ranges1.9840.0372.021
Brick_call_compartments1.3790.0561.438
Brick_export_to_sparse2.4740.0472.522
Brick_fetch_range_index1.0410.0131.055
Brick_fetch_row_vector1.5660.0221.588
Brick_get_bintable0.8770.0630.940
Brick_get_chrominfo0.8300.0110.841
Brick_get_entire_matrix1.2690.0571.326
Brick_get_matrix1.7240.0701.795
Brick_get_matrix_mcols1.1000.0671.167
Brick_get_matrix_within_coords1.5640.0241.588
Brick_get_ranges0.8870.0380.926
Brick_get_values_by_distance1.3870.0381.425
Brick_get_vector_values1.1940.0231.217
Brick_list_matrices0.8480.0140.862
Brick_list_matrix_mcols0.7960.0120.808
Brick_list_mcool_normalisations0.0010.0000.000
Brick_list_mcool_resolutions0.0010.0000.000
Brick_list_rangekeys0.7710.0110.781
Brick_list_ranges_mcols0.8920.0150.907
Brick_load_cis_matrix_till_distance1.0840.0161.101
Brick_load_data_from_mcool000
Brick_load_data_from_sparse0.0010.0000.000
Brick_load_matrix1.1500.0171.167
Brick_local_score_differentiator1.9440.0441.989
Brick_make_ranges0.0110.0010.012
Brick_matrix_dimensions1.1830.0201.203
Brick_matrix_exists1.2270.0201.247
Brick_matrix_filename1.0810.0101.092
Brick_matrix_isdone1.1040.0231.129
Brick_matrix_issparse1.2060.0151.221
Brick_matrix_maxdist1.1980.0171.216
Brick_matrix_minmax1.1190.0161.135
Brick_mcool_normalisation_exists000
Brick_rangekey_exists0.7910.0130.805
Brick_return_region_position0.9010.0180.919
Brick_vizart_plot_heatmap2.0450.0242.070
Create_many_Bricks0.7880.0120.800
Create_many_Bricks_from_mcool0.0000.0000.001
load_BrickContainer0.8270.0110.839