Multiple platform build/check report for BioC 3.23 - BUILD results for BiocParallel on nebbiolo1

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 24.04.3 LTS)	x86_64	R Under development (unstable) (2025-12-22 r89219) -- "Unsuffered Consequences"	4815
kjohnson3	macOS 13.7.7 Ventura	arm64	R Under development (unstable) (2025-11-04 r88984) -- "Unsuffered Consequences"	4593
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 BiocParallel on nebbiolo1

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

Version: 1.45.0

Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data BiocParallel

StartedAt: 2026-01-07 16:27:05 -0500 (Wed, 07 Jan 2026)

EndedAt: 2026-01-07 16:27:09 -0500 (Wed, 07 Jan 2026)

EllapsedTime: 4.0 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data BiocParallel
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* checking for file ‘BiocParallel/DESCRIPTION’ ... OK
* preparing ‘BiocParallel’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* running ‘cleanup’
* installing the package (it is needed to build vignettes)
      -----------------------------------
Warning: SystemRequirements specified C++11: support will be removed soon
* installing *source* package ‘BiocParallel’ ...
** this is package ‘BiocParallel’ version ‘1.45.0’
** using staged installation
checking whether the C++ compiler works... yes
checking for C++ compiler default output file name... a.out
checking for suffix of executables... 
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether the compiler supports GNU C++... yes
checking whether g++ -std=gnu++17 accepts -g... yes
checking for g++ -std=gnu++17 option to enable C++11 features... none needed
checking for library containing shm_open... none required
checking for stdio.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for strings.h... yes
checking for sys/stat.h... yes
checking for sys/types.h... yes
checking for unistd.h... yes
checking for sys/mman.h... yes
configure: creating ./config.status
config.status: creating src/Makevars
** libs
using C++ compiler: ‘g++ (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0’
using C++11
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.23-bioc/R/include" -DNDEBUG -I"./" -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/cpp11/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c cpp11.cpp -o cpp11.o
In file included from /home/biocbuild/bbs-3.23-bioc/R/site-library/cpp11/include/cpp11.hpp:7,
                 from /home/biocbuild/bbs-3.23-bioc/R/site-library/cpp11/include/cpp11/declarations.hpp:13,
                 from cpp11.cpp:5:
/home/biocbuild/bbs-3.23-bioc/R/site-library/cpp11/include/cpp11/data_frame.hpp: In static member function ‘static R_xlen_t cpp11::data_frame::calc_nrow(SEXP)’:
/home/biocbuild/bbs-3.23-bioc/R/site-library/cpp11/include/cpp11/data_frame.hpp:29:16: error: ‘R_nrow’ was not declared in this scope; did you mean ‘nrow’?
   29 |         return R_nrow(x);
      |                ^~~~~~
      |                nrow
make: *** [/home/biocbuild/bbs-3.23-bioc/R/etc/Makeconf:209: cpp11.o] Error 1
ERROR: compilation failed for package ‘BiocParallel’
* removing ‘/tmp/Rtmprxrzgj/Rinst286fa94d3db751/BiocParallel’
      -----------------------------------
ERROR: package installation failed