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This page was generated on 2024-12-24 11:45 -0500 (Tue, 24 Dec 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.1 LTS)x86_64R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" 4754
palomino7Windows Server 2022 Datacenterx64R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" 4472
lconwaymacOS 12.7.1 Montereyx86_64R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" 4426
kjohnson3macOS 13.7.1 Venturaarm64R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" 4381
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch64R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" 4373
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 866/2274HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
GlobalAncova 4.25.0  (landing page)
Manuela Hummel
Snapshot Date: 2024-12-23 13:40 -0500 (Mon, 23 Dec 2024)
git_url: https://git.bioconductor.org/packages/GlobalAncova
git_branch: devel
git_last_commit: 5090aa6
git_last_commit_date: 2024-10-29 09:25:11 -0500 (Tue, 29 Oct 2024)
nebbiolo1Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
palomino7Windows Server 2022 Datacenter / x64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.1 Ventura / arm64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
kunpeng2Linux (openEuler 22.03 LTS-SP1) / aarch64  OK    OK    WARNINGS  

BUILD BIN results for GlobalAncova on kjohnson3

To the developers/maintainers of the GlobalAncova package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/GlobalAncova.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: GlobalAncova
Version: 4.25.0
Command: rm -rf GlobalAncova.buildbin-libdir && mkdir GlobalAncova.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh GlobalAncova_4.25.0.tar.gz /Library/Frameworks/R.framework/Resources/bin/R GlobalAncova.buildbin-libdir
StartedAt: 2024-12-23 22:29:29 -0500 (Mon, 23 Dec 2024)
EndedAt: 2024-12-23 22:29:41 -0500 (Mon, 23 Dec 2024)
EllapsedTime: 11.2 seconds
RetCode: 0
Status:   OK  
PackageFile: GlobalAncova_4.25.0.tgz
PackageFileSize: 1.62 MiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf GlobalAncova.buildbin-libdir && mkdir GlobalAncova.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh GlobalAncova_4.25.0.tar.gz /Library/Frameworks/R.framework/Resources/bin/R GlobalAncova.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=GlobalAncova.buildbin-libdir GlobalAncova_4.25.0.tar.gz'
>>>>>>> 

* installing *source* package ‘GlobalAncova’ ...
** using staged installation
** libs
using C compiler: ‘Apple clang version 15.0.0 (clang-1500.1.0.2.5)’
using SDK: ‘MacOSX11.3.sdk’
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c GlobalAncova.c -o GlobalAncova.o
GlobalAncova.c:34:7: warning: format specifies type 'int' but the argument has type 'unsigned long' [-Wformat]
      (*sD)*(*sD)*sizeof(double));
      ^~~~~~~~~~~~~~~~~~~~~~~~~~
GlobalAncova.c:39:7: warning: format specifies type 'int' but the argument has type 'unsigned long' [-Wformat]
      (*sD)*(*sD)*sizeof(double) );
      ^~~~~~~~~~~~~~~~~~~~~~~~~~
GlobalAncova.c:44:7: warning: format specifies type 'int' but the argument has type 'unsigned long' [-Wformat]
      (*zD)*(*sD)*sizeof(double)  );
      ^~~~~~~~~~~~~~~~~~~~~~~~~~
GlobalAncova.c:49:7: warning: format specifies type 'int' but the argument has type 'unsigned long' [-Wformat]
      (*zD)*(*zD)*sizeof(double) );
      ^~~~~~~~~~~~~~~~~~~~~~~~~~
GlobalAncova.c:89:7: warning: format specifies type 'int' but the argument has type 'unsigned long' [-Wformat]
      (*zxx)*(*zD_full) * sizeof(double) );
      ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
GlobalAncova.c:101:9: warning: format specifies type 'int' but the argument has type 'unsigned long' [-Wformat]
        (*zxx)*(*zD_red) * sizeof(double) );
        ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
GlobalAncova.c:149:6: warning: format specifies type 'int' but the argument has type 'unsigned long' [-Wformat]
     (*zrr) * sizeof(double) );
     ^~~~~~~~~~~~~~~~~~~~~~~
GlobalAncova.c:154:5: warning: format specifies type 'int' but the argument has type 'unsigned long' [-Wformat]
    (*zrr) * sizeof(double));
    ^~~~~~~~~~~~~~~~~~~~~~~
GlobalAncova.c:159:5: warning: format specifies type 'int' but the argument has type 'unsigned long' [-Wformat]
    (*n_test_genes) * sizeof(double));
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
GlobalAncova.c:164:5: warning: format specifies type 'int' but the argument has type 'unsigned long' [-Wformat]
    (*sD_full)*(*sD_full) * sizeof(double));
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
GlobalAncova.c:171:7: warning: format specifies type 'int' but the argument has type 'unsigned long' [-Wformat]
      (*N_Subjects) * sizeof(int));
      ^~~~~~~~~~~~~~~~~~~~~~~~~~~
GlobalAncova.c:251:6: warning: format specifies type 'int' but the argument has type 'unsigned long' [-Wformat]
     (*zrr) * sizeof(double) );
     ^~~~~~~~~~~~~~~~~~~~~~~
GlobalAncova.c:256:5: warning: format specifies type 'int' but the argument has type 'unsigned long' [-Wformat]
    (*zrr) * sizeof(double));
    ^~~~~~~~~~~~~~~~~~~~~~~
GlobalAncova.c:261:5: warning: format specifies type 'int' but the argument has type 'unsigned long' [-Wformat]
    (*n_test_genes) * sizeof(double));
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
GlobalAncova.c:266:5: warning: format specifies type 'int' but the argument has type 'unsigned long' [-Wformat]
    (*sD_full)*(*sD_full) * sizeof(double));
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
GlobalAncova.c:273:7: warning: format specifies type 'int' but the argument has type 'unsigned long' [-Wformat]
      (*N_Subjects) * sizeof(int));
      ^~~~~~~~~~~~~~~~~~~~~~~~~~~
16 warnings generated.
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c ludcmp.c -o ludcmp.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c matrix.c -o matrix.o
clang -arch arm64 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o GlobalAncova.so GlobalAncova.o ludcmp.o matrix.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.21-bioc/meat/GlobalAncova.buildbin-libdir/00LOCK-GlobalAncova/00new/GlobalAncova/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 (GlobalAncova)


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

>>>>>>> Paths before fix:
GlobalAncova.buildbin-libdir/GlobalAncova/libs/GlobalAncova.so:
	GlobalAncova.so (compatibility version 0.0.0, current version 0.0.0)
	/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/lib/libR.dylib (compatibility version 4.5.0, current version 4.5.0)
	/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/4.5-arm64/Resources/lib/libgcc_s.1.1.dylib" "GlobalAncova.buildbin-libdir/GlobalAncova/libs/GlobalAncova.so"
install_name_tool -change "/usr/local/lib/libgfortran.5.dylib" "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/lib/libgfortran.5.dylib" "GlobalAncova.buildbin-libdir/GlobalAncova/libs/GlobalAncova.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/lib/libquadmath.0.dylib" "GlobalAncova.buildbin-libdir/GlobalAncova/libs/GlobalAncova.so"

>>>>>>> Paths after fix:
GlobalAncova.buildbin-libdir/GlobalAncova/libs/GlobalAncova.so:
	GlobalAncova.so (compatibility version 0.0.0, current version 0.0.0)
	/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/lib/libR.dylib (compatibility version 4.5.0, current version 4.5.0)
	/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)