Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-08-27 11:46 -0400 (Tue, 27 Aug 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4703 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4440 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4472 |
kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4421 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4415 |
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 996/2255 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
idr2d 1.19.0 (landing page) Konstantin Krismer
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | ![]() | ||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | ![]() | ||||||||
kjohnson3 | macOS 13.6.5 Ventura / arm64 | OK | OK | OK | OK | ![]() | ||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | ||||||||||
To the developers/maintainers of the idr2d package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/idr2d.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: idr2d |
Version: 1.19.0 |
Command: /home/biocbuild/R/R/bin/R CMD check --install=check:idr2d.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings idr2d_1.19.0.tar.gz |
StartedAt: 2024-08-27 05:50:57 -0000 (Tue, 27 Aug 2024) |
EndedAt: 2024-08-27 05:55:10 -0000 (Tue, 27 Aug 2024) |
EllapsedTime: 253.5 seconds |
RetCode: 0 |
Status: OK |
CheckDir: idr2d.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD check --install=check:idr2d.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings idr2d_1.19.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.20-bioc/meat/idr2d.Rcheck’ * using R version 4.4.1 (2024-06-14) * using platform: aarch64-unknown-linux-gnu * R was compiled by gcc (GCC) 12.2.1 20220819 (openEuler 12.2.1-14) GNU Fortran (GCC) 10.3.1 * running under: openEuler 22.03 (LTS-SP1) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘idr2d/DESCRIPTION’ ... OK * this is package ‘idr2d’ version ‘1.19.0’ * 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 ‘idr2d’ 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 whether startup messages can be suppressed ... 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 contents of ‘data’ directory ... OK * checking data for non-ASCII characters ... OK * checking data for ASCII and uncompressed saves ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed estimate_idr 9.199 0.136 9.361 estimate_idr2d 9.084 0.172 9.282 draw_hic_contact_map 5.746 0.088 5.849 * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘testthat.R’ 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
idr2d.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL idr2d ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.4.1/site-library’ * installing *source* package ‘idr2d’ ... ** using staged installation ** R ** data ** 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 (idr2d)
idr2d.Rcheck/tests/testthat.Rout
R version 4.4.1 (2024-06-14) -- "Race for Your Life" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: aarch64-unknown-linux-gnu R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > library(testthat) > library(idr2d) > > test_check("idr2d") [ FAIL 0 | WARN 1 | SKIP 0 | PASS 132 ] [ FAIL 0 | WARN 1 | SKIP 0 | PASS 132 ] > > proc.time() user system elapsed 81.314 1.702 83.000
idr2d.Rcheck/idr2d-Ex.timings
name | user | system | elapsed | |
calculate_midpoint_distance1d | 0.000 | 0.000 | 0.001 | |
calculate_midpoint_distance2d | 0 | 0 | 0 | |
calculate_relative_overlap1d | 0.001 | 0.000 | 0.002 | |
calculate_relative_overlap2d | 0.001 | 0.000 | 0.002 | |
determine_anchor_overlap | 0.410 | 0.056 | 0.468 | |
draw_hic_contact_map | 5.746 | 0.088 | 5.849 | |
draw_idr_distribution_histogram | 1.834 | 0.116 | 1.955 | |
draw_rank_idr_scatterplot | 1.909 | 0.031 | 1.947 | |
draw_value_idr_scatterplot | 1.776 | 0.036 | 1.816 | |
establish_bijection | 0.317 | 0.004 | 0.322 | |
establish_bijection1d | 0.319 | 0.004 | 0.325 | |
establish_bijection2d | 2.061 | 0.024 | 2.091 | |
establish_overlap1d | 0.178 | 0.004 | 0.182 | |
establish_overlap2d | 0.440 | 0.016 | 0.456 | |
estimate_idr | 9.199 | 0.136 | 9.361 | |
estimate_idr1d | 1.528 | 0.051 | 1.585 | |
estimate_idr2d | 9.084 | 0.172 | 9.282 | |
estimate_idr2d_hic | 4.442 | 0.004 | 4.460 | |
preprocess | 0.004 | 0.000 | 0.005 | |
remove_nonstandard_chromosomes1d | 0.206 | 0.012 | 0.219 | |
remove_nonstandard_chromosomes2d | 0.414 | 0.012 | 0.427 | |