Multiple platform build/check report for BioC 3.23 - BUILD results for GenomicFeatures on kunpeng2

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 24.04.4 LTS)	x86_64	4.6.0 alpha (2026-04-05 r89794)	4957
kjohnson3	macOS 13.7.7 Ventura	arm64	4.6.0 alpha (2026-04-08 r89818)	4686
kunpeng2	Linux (openEuler 24.03 LTS)	aarch64	R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences"	4627
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*

BUILD results for GenomicFeatures on kunpeng2

To the developers/maintainers of the GenomicFeatures package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/GenomicFeatures.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.

raw results

Summary

Package: GenomicFeatures

Version: 1.63.2

Command: /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data GenomicFeatures

StartedAt: 2026-04-16 23:44:45 -0000 (Thu, 16 Apr 2026)

EndedAt: 2026-04-16 23:44:53 -0000 (Thu, 16 Apr 2026)

EllapsedTime: 8.0 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

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### Running command:
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###   /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data GenomicFeatures
###
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* checking for file ‘GenomicFeatures/DESCRIPTION’ ... OK
* preparing ‘GenomicFeatures’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
      -----------------------------------
* installing *source* package ‘GenomicFeatures’ ...
** this is package ‘GenomicFeatures’ version ‘1.63.2’
** using staged installation
** libs
using C compiler: ‘aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0’
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/S4Vectors/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/IRanges/include' -I/usr/local/include    -fPIC  -g -O2  -Wall -Werror=format-security -c IRanges_stubs.c -o IRanges_stubs.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/S4Vectors/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/IRanges/include' -I/usr/local/include    -fPIC  -g -O2  -Wall -Werror=format-security -c R_init_GenomicFeatures.c -o R_init_GenomicFeatures.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/S4Vectors/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/IRanges/include' -I/usr/local/include    -fPIC  -g -O2  -Wall -Werror=format-security -c S4Vectors_stubs.c -o S4Vectors_stubs.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/S4Vectors/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/IRanges/include' -I/usr/local/include    -fPIC  -g -O2  -Wall -Werror=format-security -c transcriptLocs2refLocs.c -o transcriptLocs2refLocs.o
In function ‘tloc2rloc’,
    inlined from ‘C_tlocs2rlocs’ at transcriptLocs2refLocs.c:208:26:
transcriptLocs2refLocs.c:143:45: warning: ‘start’ may be used uninitialized [-Wmaybe-uninitialized]
  143 |         return on_minus_strand ? end - tloc : start + tloc;
      |                ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~
transcriptLocs2refLocs.c: In function ‘C_tlocs2rlocs’:
transcriptLocs2refLocs.c:120:24: note: ‘start’ was declared here
  120 |         int nexons, j, start, end, width;
      |                        ^~~~~
In function ‘tloc2rloc’,
    inlined from ‘C_tlocs2rlocs’ at transcriptLocs2refLocs.c:208:26:
transcriptLocs2refLocs.c:143:45: warning: ‘end’ may be used uninitialized [-Wmaybe-uninitialized]
  143 |         return on_minus_strand ? end - tloc : start + tloc;
      |                ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~
transcriptLocs2refLocs.c: In function ‘C_tlocs2rlocs’:
transcriptLocs2refLocs.c:120:31: note: ‘end’ was declared here
  120 |         int nexons, j, start, end, width;
      |                               ^~~
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -shared -L/home/biocbuild/R/R/lib -L/usr/local/lib -o GenomicFeatures.so IRanges_stubs.o R_init_GenomicFeatures.o S4Vectors_stubs.o transcriptLocs2refLocs.o -L/home/biocbuild/R/R/lib -lR
installing to /home/biocbuild/tmp/Rtmp43nUoI/Rinst9ca076bb0d08f/00LOCK-GenomicFeatures/00new/GenomicFeatures/libs
** R
** inst
** byte-compile and prepare package for lazy loading
Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : 
  namespace ‘rtracklayer’ 1.68.0 is being loaded, but >= 1.69.1 is required
Calls: <Anonymous> ... namespaceImportFrom -> asNamespace -> loadNamespace
Execution halted
ERROR: lazy loading failed for package ‘GenomicFeatures’
* removing ‘/home/biocbuild/tmp/Rtmp43nUoI/Rinst9ca076bb0d08f/GenomicFeatures’
      -----------------------------------
ERROR: package installation failed