Back to Mac ARM64 build report for BioC 3.16
ABCDEFGHIJKL[M]NOPQRSTUVWXYZ

This page was generated on 2023-04-19 11:01:56 -0400 (Wed, 19 Apr 2023).

HostnameOSArch (*)R versionInstalled pkgs
kjohnsonmacOS 13.0 Venturaarm644.2.2 (2022-10-31) -- "Innocent and Trusting" 4256
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 MsCoreUtils on kjohnson


To the developers/maintainers of the MsCoreUtils package:
Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 1270/2183HostnameOS / ArchINSTALLBUILDBUILD BIN
MsCoreUtils 1.10.0  (landing page)
RforMassSpectrometry Package Maintainer
Snapshot Date: 2023-04-12 13:00:02 -0400 (Wed, 12 Apr 2023)
git_url: https://git.bioconductor.org/packages/MsCoreUtils
git_branch: RELEASE_3_16
git_last_commit: 742c0c7
git_last_commit_date: 2022-11-01 11:21:49 -0400 (Tue, 01 Nov 2022)
kjohnsonmacOS 13.0 Ventura / arm64  OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: MsCoreUtils
Version: 1.10.0
Command: rm -rf MsCoreUtils.buildbin-libdir && mkdir MsCoreUtils.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh MsCoreUtils_1.10.0.tar.gz /Library/Frameworks/R.framework/Resources/bin/R MsCoreUtils.buildbin-libdir
StartedAt: 2023-04-18 17:34:55 -0400 (Tue, 18 Apr 2023)
EndedAt: 2023-04-18 17:35:13 -0400 (Tue, 18 Apr 2023)
EllapsedTime: 18.1 seconds
RetCode: 0
Status:   OK  
PackageFile: MsCoreUtils_1.10.0.tgz
PackageFileSize: 465.1 KiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf MsCoreUtils.buildbin-libdir && mkdir MsCoreUtils.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh MsCoreUtils_1.10.0.tar.gz /Library/Frameworks/R.framework/Resources/bin/R MsCoreUtils.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=MsCoreUtils.buildbin-libdir MsCoreUtils_1.10.0.tar.gz'
>>>>>>> 

* installing *source* package ‘MsCoreUtils’ ...
** using staged installation
** libs
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include   -fPIC  -falign-functions=64 -Wall -g -O2  -c closest.c -o closest.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include   -fPIC  -falign-functions=64 -Wall -g -O2  -c impNeighbourAvg.c -o impNeighbourAvg.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include   -fPIC  -falign-functions=64 -Wall -g -O2  -c init.c -o init.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include   -fPIC  -falign-functions=64 -Wall -g -O2  -c join.c -o join.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include   -fPIC  -falign-functions=64 -Wall -g -O2  -c localMaxima.c -o localMaxima.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include   -fPIC  -falign-functions=64 -Wall -g -O2  -c which.c -o which.o
clang -arch arm64 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o MsCoreUtils.so closest.o impNeighbourAvg.o init.o join.o localMaxima.o which.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: -undefined dynamic_lookup may not work with chained fixups
installing to /Volumes/External/bbs-3.16-bioc-m1/meat/MsCoreUtils.buildbin-libdir/00LOCK-MsCoreUtils/00new/MsCoreUtils/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** 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 (MsCoreUtils)


>>>>>>> 
>>>>>>> FIXING LINKS FOR MsCoreUtils.buildbin-libdir/MsCoreUtils/libs/MsCoreUtils.so
>>>>>>> 

install_name_tool -change "/opt/R/arm64/lib/libgcc_s.1.1.dylib" "/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/lib/libgcc_s.1.1.dylib" "MsCoreUtils.buildbin-libdir/MsCoreUtils/libs/MsCoreUtils.so"
install_name_tool -change "/opt/R/arm64/lib/libgfortran.5.dylib" "/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/lib/libgfortran.5.dylib" "MsCoreUtils.buildbin-libdir/MsCoreUtils/libs/MsCoreUtils.so"
install_name_tool -change "/opt/R/arm64/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/lib/libquadmath.0.dylib" "MsCoreUtils.buildbin-libdir/MsCoreUtils/libs/MsCoreUtils.so"