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This page was generated on 2024-10-18 20:41 -0400 (Fri, 18 Oct 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.3 LTS)x86_644.4.1 (2024-06-14) -- "Race for Your Life" 4763
palomino7Windows Server 2022 Datacenterx644.4.1 (2024-06-14 ucrt) -- "Race for Your Life" 4500
merida1macOS 12.7.5 Montereyx86_644.4.1 (2024-06-14) -- "Race for Your Life" 4530
kjohnson1macOS 13.6.6 Venturaarm644.4.1 (2024-06-14) -- "Race for Your Life" 4480
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

Package 2210/2300HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
trigger 1.50.0  (landing page)
John D. Storey
Snapshot Date: 2024-10-16 14:00 -0400 (Wed, 16 Oct 2024)
git_url: https://git.bioconductor.org/packages/trigger
git_branch: RELEASE_3_19
git_last_commit: dfd0db8
git_last_commit_date: 2024-04-30 10:26:24 -0400 (Tue, 30 Apr 2024)
nebbiolo1Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino7Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 12.7.5 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.6 Ventura / arm64  OK    OK    OK    NA  

BUILD BIN results for trigger on merida1

To the developers/maintainers of the trigger package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/trigger.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: trigger
Version: 1.50.0
Command: rm -rf trigger.buildbin-libdir && mkdir trigger.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh trigger_1.50.0.tar.gz /Library/Frameworks/R.framework/Resources/bin/R trigger.buildbin-libdir
StartedAt: 2024-10-17 17:23:36 -0400 (Thu, 17 Oct 2024)
EndedAt: 2024-10-17 17:24:42 -0400 (Thu, 17 Oct 2024)
EllapsedTime: 66.4 seconds
RetCode: 0
Status:   OK  
PackageFile: trigger_1.50.0.tgz
PackageFileSize: 2.208 MiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf trigger.buildbin-libdir && mkdir trigger.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh trigger_1.50.0.tar.gz /Library/Frameworks/R.framework/Resources/bin/R trigger.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=trigger.buildbin-libdir trigger_1.50.0.tar.gz'
>>>>>>> 

* installing *source* package ‘trigger’ ...
** using staged installation
** libs
using C compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’
using SDK: ‘MacOSX11.3.sdk’
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c trigger.c -o trigger.o
trigger.c:25:20: warning: variable 'n3' set but not used [-Wunused-but-set-variable]
int i1,i2,i3,n1,n2,n3;
                   ^
trigger.c:81:10: warning: variable 'nct' set but not used [-Wunused-but-set-variable]
int ntr, nct, i, j;
         ^
trigger.c:153:10: warning: variable 'nct' set but not used [-Wunused-but-set-variable]
int ntr, nct, i, j, k, nk;
         ^
trigger.c:233:10: warning: variable 'nct' set but not used [-Wunused-but-set-variable]
int ntr, nct, i, j;
         ^
trigger.c:310:10: warning: variable 'nct' set but not used [-Wunused-but-set-variable]
int ntr, nct, i, j, k, nk;
         ^
trigger.c:393:10: warning: variable 'nct' set but not used [-Wunused-but-set-variable]
int ntr, nct, i, j, k, nk;
         ^
6 warnings generated.
clang -arch x86_64 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/x86_64/lib -o trigger.so trigger.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.19-bioc/meat/trigger.buildbin-libdir/00LOCK-trigger/00new/trigger/libs
** R
** data
** 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 (trigger)


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

>>>>>>> Paths before fix:
trigger.buildbin-libdir/trigger/libs/trigger.so:
	trigger.so (compatibility version 0.0.0, current version 0.0.0)
	/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/lib/libR.dylib (compatibility version 4.4.0, current version 4.4.1)
	/System/Library/Frameworks/CoreFoundation.framework/Versions/A/CoreFoundation (compatibility version 150.0.0, current version 1775.118.101)
	/usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current version 1292.100.5)

>>>>>>> Fix with install_name_tool:
install_name_tool -change "/usr/local/lib/libgcc_s.1.1.dylib" "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/lib/libgcc_s.1.1.dylib" "trigger.buildbin-libdir/trigger/libs/trigger.so"
install_name_tool -change "/usr/local/lib/libgfortran.5.dylib" "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/lib/libgfortran.5.dylib" "trigger.buildbin-libdir/trigger/libs/trigger.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/lib/libquadmath.0.dylib" "trigger.buildbin-libdir/trigger/libs/trigger.so"

>>>>>>> Paths after fix:
trigger.buildbin-libdir/trigger/libs/trigger.so:
	trigger.so (compatibility version 0.0.0, current version 0.0.0)
	/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/lib/libR.dylib (compatibility version 4.4.0, current version 4.4.1)
	/System/Library/Frameworks/CoreFoundation.framework/Versions/A/CoreFoundation (compatibility version 150.0.0, current version 1775.118.101)
	/usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current version 1292.100.5)