Back to Multiple platform build/check report for BioC 3.16
ABCDE[F]GHIJKLMNOPQRSTUVWXYZ

This page was generated on 2022-07-07 11:11:08 -0400 (Thu, 07 Jul 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.2.0 Patched (2022-06-02 r82447) -- "Vigorous Calisthenics" 4343
palomino4Windows Server 2022 Datacenterx644.2.0 Patched (2022-06-02 r82447 ucrt) -- "Vigorous Calisthenics" 4148
lconwaymacOS 12.2.1 Montereyx86_644.2.0 Patched (2022-05-29 r82424) -- "Vigorous Calisthenics" 4160
kjohnsonmacOS 12.4 Montereyarm644.2.0 Patched (2022-06-09 r82473) -- "Vigorous Calisthenics" 3115
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 FlowSOM on kjohnson


To the developers/maintainers of the FlowSOM package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/FlowSOM.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 686/2124HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
FlowSOM 2.5.2  (landing page)
Sofie Van Gassen
Snapshot Date: 2022-07-06 14:00:06 -0400 (Wed, 06 Jul 2022)
git_url: https://git.bioconductor.org/packages/FlowSOM
git_branch: master
git_last_commit: 4eb0823
git_last_commit_date: 2022-06-08 07:38:41 -0400 (Wed, 08 Jun 2022)
nebbiolo2Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino4Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.2.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnsonmacOS 12.4 Monterey / arm64  OK    OK    NA    ERROR  

Summary

Package: FlowSOM
Version: 2.5.2
Command: rm -rf FlowSOM.buildbin-libdir && mkdir FlowSOM.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh FlowSOM_2.5.2.tar.gz /Library/Frameworks/R.framework/Resources/bin/R FlowSOM.buildbin-libdir
StartedAt: 2022-07-07 07:57:29 -0400 (Thu, 07 Jul 2022)
EndedAt: 2022-07-07 07:57:51 -0400 (Thu, 07 Jul 2022)
EllapsedTime: 22.5 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf FlowSOM.buildbin-libdir && mkdir FlowSOM.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh FlowSOM_2.5.2.tar.gz /Library/Frameworks/R.framework/Resources/bin/R FlowSOM.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=FlowSOM.buildbin-libdir FlowSOM_2.5.2.tar.gz'
>>>>>>> 

* installing *source* package ‘FlowSOM’ ...
** using staged installation
** libs
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/opt/R/arm64/include   -fPIC  -falign-functions=64 -Wall -g -O2  -c som.c -o som.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 FlowSOM.so som.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.16-bioc/meat/FlowSOM.buildbin-libdir/00LOCK-FlowSOM/00new/FlowSOM/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 (FlowSOM)


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

ERROR: R installation problem: File /Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libgcc_s.1.dylib not found!