Nicole Ortogero
| Snapshot Date: 2022-07-06 14:00:06 -0400 (Wed, 06 Jul 2022) |
| git_url: https://git.bioconductor.org/packages/GeoDiff |
| git_branch: master |
| git_last_commit: b4d537f |
| git_last_commit_date: 2022-04-26 12:19:40 -0400 (Tue, 26 Apr 2022) |
| Back to Multiple platform build/check report for BioC 3.16 |
|
This page was generated on 2022-07-07 11:11:12 -0400 (Thu, 07 Jul 2022).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | 4.2.0 Patched (2022-06-02 r82447) -- "Vigorous Calisthenics" | 4343 |
| palomino4 | Windows Server 2022 Datacenter | x64 | 4.2.0 Patched (2022-06-02 r82447 ucrt) -- "Vigorous Calisthenics" | 4148 |
| lconway | macOS 12.2.1 Monterey | x86_64 | 4.2.0 Patched (2022-05-29 r82424) -- "Vigorous Calisthenics" | 4160 |
| kjohnson | macOS 12.4 Monterey | arm64 | 4.2.0 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 | ||||
|
To the developers/maintainers of the GeoDiff package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/GeoDiff.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. |
| Package 777/2124 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| GeoDiff 1.3.0 (landing page) Nicole Ortogero
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| lconway | macOS 12.2.1 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson | macOS 12.4 Monterey / arm64 | ERROR | OK | NA | ERROR | |||||||||
| Package: GeoDiff |
| Version: 1.3.0 |
| Command: rm -rf GeoDiff.buildbin-libdir && mkdir GeoDiff.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh GeoDiff_1.3.0.tar.gz /Library/Frameworks/R.framework/Resources/bin/R GeoDiff.buildbin-libdir |
| StartedAt: 2022-07-07 08:04:20 -0400 (Thu, 07 Jul 2022) |
| EndedAt: 2022-07-07 08:07:35 -0400 (Thu, 07 Jul 2022) |
| EllapsedTime: 195.1 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### rm -rf GeoDiff.buildbin-libdir && mkdir GeoDiff.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh GeoDiff_1.3.0.tar.gz /Library/Frameworks/R.framework/Resources/bin/R GeoDiff.buildbin-libdir
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>>>>>>>
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=GeoDiff.buildbin-libdir GeoDiff_1.3.0.tar.gz'
>>>>>>>
* installing *source* package ‘GeoDiff’ ...
** using staged installation
** libs
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/roptim/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c NBthDEOptPara.cpp -o NBthDEOptPara.o
NBthDEOptPara.cpp:34:9: warning: unused variable 'm' [-Wunused-variable]
int m = y.n_elem;
^
NBthDEOptPara.cpp:58:9: warning: unused variable 'm' [-Wunused-variable]
int m = y.n_elem;
^
2 warnings generated.
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/roptim/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c NBthmDEGrad.cpp -o NBthmDEGrad.o
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/roptim/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c NBthmDEMH.cpp -o NBthmDEMH.o
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/roptim/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c NBthmDEOptPara.cpp -o NBthmDEOptPara.o
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/roptim/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c NBthmDEOptU.cpp -o NBthmDEOptU.o
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/roptim/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c PoisthNormOptPara.cpp -o PoisthNormOptPara.o
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/roptim/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c RcppExports.cpp -o RcppExports.o
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/roptim/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c dnbinom_mu_vec.cpp -o dnbinom_mu_vec.o
clang++ -arch arm64 -std=gnu++11 -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 GeoDiff.so NBthDEOptPara.o NBthmDEGrad.o NBthmDEMH.o NBthmDEOptPara.o NBthmDEOptU.o PoisthNormOptPara.o RcppExports.o dnbinom_mu_vec.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/opt/R/arm64/gfortran/lib/gcc/aarch64-apple-darwin20.6.0/12.0.1 -L/opt/R/arm64/gfortran/lib -lgfortran -lemutls_w -lquadmath -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.16-bioc/meat/GeoDiff.buildbin-libdir/00LOCK-GeoDiff/00new/GeoDiff/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 (GeoDiff)
>>>>>>>
>>>>>>> FIXING LINKS FOR GeoDiff.buildbin-libdir/GeoDiff/libs/GeoDiff.so
>>>>>>>
ERROR: R installation problem: File /Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libgcc_s.1.dylib not found!