Multiple platform build/check report for BioC 3.23 - BUILD BIN results for bacon on kjohnson3

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 24.04.3 LTS)	x86_64	R Under development (unstable) (2026-03-05 r89546) -- "Unsuffered Consequences"	4866
kjohnson3	macOS 13.7.7 Ventura	arm64	R Under development (unstable) (2026-03-20 r89666) -- "Unsuffered Consequences"	4545
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 BIN results for bacon on kjohnson3

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

Version: 1.39.0

Command: rm -rf bacon.buildbin-libdir && mkdir bacon.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh bacon_1.39.0.tar.gz /Library/Frameworks/R.framework/Resources/bin/R bacon.buildbin-libdir

StartedAt: 2026-03-21 02:17:01 -0400 (Sat, 21 Mar 2026)

EndedAt: 2026-03-21 02:17:06 -0400 (Sat, 21 Mar 2026)

EllapsedTime: 5.1 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

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###
### Running command:
###
###   rm -rf bacon.buildbin-libdir && mkdir bacon.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh bacon_1.39.0.tar.gz /Library/Frameworks/R.framework/Resources/bin/R bacon.buildbin-libdir
###
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=bacon.buildbin-libdir bacon_1.39.0.tar.gz'
>>>>>>> 

* installing *source* package ‘bacon’ ...
** this is package ‘bacon’ version ‘1.39.0’
** using staged installation
** libs
using C compiler: ‘Apple clang version 17.0.0 (clang-1700.6.4.2)’
using SDK: ‘MacOSX26.2.sdk’
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c Rinit.c -o Rinit.o
Rinit.c:11:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
   11 |   NULL
      |   ^~~~
      |   {   }
/Library/Developer/CommandLineTools/usr/lib/clang/17/include/__stddef_null.h:26:14: note: expanded from macro 'NULL'
   26 | #define NULL ((void*)0)
      |              ^~~~~~~~~~
1 warning generated.
clang -arch arm64 -std=gnu23 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c bacon.c -o bacon.o
clang -arch arm64 -std=gnu23 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o bacon.so Rinit.o bacon.o -F/Library/Frameworks/R.framework/.. -framework R
installing to /Users/biocbuild/bbs-3.23-bioc/meat/bacon.buildbin-libdir/00LOCK-bacon/00new/bacon/libs
** 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
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (bacon)


>>>>>>> 
>>>>>>> FIXING PATHS TO DYNAMIC LIBRARIES FOR bacon.buildbin-libdir/bacon/libs/bacon.so
>>>>>>> 

>>>>>>> Paths before fix:
bacon.buildbin-libdir/bacon/libs/bacon.so:
	bacon.so (compatibility version 0.0.0, current version 0.0.0)
	/Library/Frameworks/R.framework/Versions/4.6/Resources/lib/libR.dylib (compatibility version 4.6.0, current version 4.6.0)
	/usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current version 1356.0.0)

>>>>>>> Fix with install_name_tool:
ERROR: R installation problem: File /Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/lib/libR.dylib not found!