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This page was generated on 2024-07-16 17:40 -0400 (Tue, 16 Jul 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.3 LTS)x86_644.4.1 (2024-06-14) -- "Race for Your Life" 4742
palomino7Windows Server 2022 Datacenterx644.4.1 (2024-06-14 ucrt) -- "Race for Your Life" 4484
merida1macOS 12.7.4 Montereyx86_644.4.1 (2024-06-14) -- "Race for Your Life" 4513
kjohnson1macOS 13.6.6 Venturaarm644.4.1 (2024-06-14) -- "Race for Your Life" 4462
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 259/2300HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
CaDrA 1.2.0  (landing page)
Reina Chau
Snapshot Date: 2024-07-14 14:00 -0400 (Sun, 14 Jul 2024)
git_url: https://git.bioconductor.org/packages/CaDrA
git_branch: RELEASE_3_19
git_last_commit: 829da92
git_last_commit_date: 2024-04-30 11:50:07 -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  
merida1macOS 12.7.4 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.6 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published


BUILD BIN results for CaDrA on merida1

To the developers/maintainers of the CaDrA package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/CaDrA.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: CaDrA
Version: 1.2.0
Command: rm -rf CaDrA.buildbin-libdir && mkdir CaDrA.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh CaDrA_1.2.0.tar.gz /Library/Frameworks/R.framework/Resources/bin/R CaDrA.buildbin-libdir
StartedAt: 2024-07-15 14:06:30 -0400 (Mon, 15 Jul 2024)
EndedAt: 2024-07-15 14:07:35 -0400 (Mon, 15 Jul 2024)
EllapsedTime: 65.1 seconds
RetCode: 0
Status:   OK  
PackageFile: CaDrA_1.2.0.tgz
PackageFileSize: 2.152 MiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf CaDrA.buildbin-libdir && mkdir CaDrA.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh CaDrA_1.2.0.tar.gz /Library/Frameworks/R.framework/Resources/bin/R CaDrA.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=CaDrA.buildbin-libdir CaDrA_1.2.0.tar.gz'
>>>>>>> 

* installing *source* package ‘CaDrA’ ...
** 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 registerDynamicSymbol.c -o registerDynamicSymbol.o
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 score_fun.c -o score_fun.o
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 CaDrA.so registerDynamicSymbol.o score_fun.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.19-bioc/meat/CaDrA.buildbin-libdir/00LOCK-CaDrA/00new/CaDrA/libs
** R
** data
** 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 (CaDrA)


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

>>>>>>> Paths before fix:
CaDrA.buildbin-libdir/CaDrA/libs/CaDrA.so:
	CaDrA.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" "CaDrA.buildbin-libdir/CaDrA/libs/CaDrA.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" "CaDrA.buildbin-libdir/CaDrA/libs/CaDrA.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" "CaDrA.buildbin-libdir/CaDrA/libs/CaDrA.so"

>>>>>>> Paths after fix:
CaDrA.buildbin-libdir/CaDrA/libs/CaDrA.so:
	CaDrA.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)