| Back to Multiple platform build/check report for BioC 3.22: simplified long |
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This page was generated on 2025-10-21 12:07 -0400 (Tue, 21 Oct 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" | 4887 |
| lconway | macOS 12.7.6 Monterey | x86_64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4677 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4622 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4642 |
| 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 611/2353 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| DNAfusion 1.11.0 (landing page) Christoffer Trier Maansson
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | OK |  | ||||||||
| lconway | macOS 12.7.6 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | OK | OK | OK | | ||||||||
| taishan | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | ERROR | ||||||||||
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To the developers/maintainers of the DNAfusion package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/DNAfusion.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: DNAfusion |
| Version: 1.11.0 |
| Command: /home/biocbuild/R/R/bin/R CMD check --install=check:DNAfusion.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings DNAfusion_1.11.0.tar.gz |
| StartedAt: 2025-10-21 07:38:15 -0000 (Tue, 21 Oct 2025) |
| EndedAt: 2025-10-21 07:38:24 -0000 (Tue, 21 Oct 2025) |
| EllapsedTime: 9.0 seconds |
| RetCode: 1 |
| Status: ERROR |
| CheckDir: DNAfusion.Rcheck |
| Warnings: NA |
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### Running command:
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### /home/biocbuild/R/R/bin/R CMD check --install=check:DNAfusion.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings DNAfusion_1.11.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/DNAfusion.Rcheck’
* using R version 4.5.0 (2025-04-11)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0
GNU Fortran (GCC) 14.2.0
* running under: openEuler 24.03 (LTS)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘DNAfusion/DESCRIPTION’ ... OK
* this is package ‘DNAfusion’ version ‘1.11.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ...Warning in close.connection(con) :
Problem closing connection: No space left on device
Error: inferior call failed
Execution halted
DNAfusion.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL DNAfusion ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.5.0/site-library’ * installing *source* package ‘DNAfusion’ ... ** this is package ‘DNAfusion’ version ‘1.11.0’ ** 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 (DNAfusion)
DNAfusion.Rcheck/tests/testthat.Rout
R version 4.5.0 (2025-04-11) -- "How About a Twenty-Six"
Copyright (C) 2025 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(DNAfusion)
> library(testthat)
> test_check("DNAfusion")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 55 ]
>
> proc.time()
user system elapsed
138.682 1.727 140.647
DNAfusion.Rcheck/DNAfusion-Ex.timings
| name | user | system | elapsed | |
| ALK_sequence | 1.480 | 0.064 | 1.558 | |
| EML4_ALK_analysis | 0.847 | 0.020 | 0.869 | |
| EML4_ALK_detection | 0.454 | 0.016 | 0.472 | |
| EML4_sequence | 0.489 | 0.003 | 0.495 | |
| break_position | 0.917 | 0.008 | 0.928 | |
| break_position_depth | 1.353 | 0.008 | 1.365 | |
| find_variants | 62.403 | 0.977 | 64.062 | |
| introns_ALK_EML4 | 56.569 | 0.208 | 56.862 | |