Back to Mac ARM64 build report for BioC 3.17 |
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This page was generated on 2023-10-20 09:37:58 -0400 (Fri, 20 Oct 2023).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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kjohnson2 | macOS 12.6.1 Monterey | arm64 | 4.3.1 (2023-06-16) -- "Beagle Scouts" | 4347 |
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 159/2230 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
BHC 1.52.0 (landing page) Rich Savage
| kjohnson2 | macOS 12.6.1 Monterey / arm64 | ERROR | ERROR | skipped | skipped | ||||||||
To the developers/maintainers of the BHC package: - 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. |
Package: BHC |
Version: 1.52.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data BHC |
StartedAt: 2023-10-15 21:40:37 -0400 (Sun, 15 Oct 2023) |
EndedAt: 2023-10-15 21:40:49 -0400 (Sun, 15 Oct 2023) |
EllapsedTime: 12.0 seconds |
RetCode: 1 |
Status: ERROR |
PackageFile: None |
PackageFileSize: NA |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data BHC ### ############################################################################## ############################################################################## * checking for file ‘BHC/DESCRIPTION’ ... OK * preparing ‘BHC’: * checking DESCRIPTION meta-information ... OK * cleaning src * installing the package to build vignettes ----------------------------------- * installing *source* package ‘BHC’ ... ** using staged installation checking for gcc... clang -arch arm64 checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether clang -arch arm64 accepts -g... yes checking for clang -arch arm64 option to accept ISO C89... none needed checking for clang -arch arm64 option to support OpenMP... unsupported configure: WARNING: No OpenMP support. If using GCC, upgrade to >= 4.2 configure: creating ./config.status config.status: creating src/Makevars ** libs using C++ compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’ using SDK: ‘MacOSX11.3.sdk’ clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c BlockCovarianceMatrix.cpp -o BlockCovarianceMatrix.o In file included from BlockCovarianceMatrix.cpp:15: In file included from ./BlockCovarianceMatrix.h:16: ./header.h:16:9: warning: 'NDEBUG' macro redefined [-Wmacro-redefined] #define NDEBUG ^ <command line>:1:9: note: previous definition is here #define NDEBUG 1 ^ 1 warning generated. clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c CubicSplineTimecourseDataSet.cpp -o CubicSplineTimecourseDataSet.o In file included from CubicSplineTimecourseDataSet.cpp:15: In file included from ./CubicSplineTimecourseDataSet.h:20: In file included from ./TimecourseDataSet.h:20: In file included from ./DataSet.h:16: ./header.h:16:9: warning: 'NDEBUG' macro redefined [-Wmacro-redefined] #define NDEBUG ^ <command line>:1:9: note: previous definition is here #define NDEBUG 1 ^ In file included from CubicSplineTimecourseDataSet.cpp:15: ./CubicSplineTimecourseDataSet.h:29:10: warning: 'CubicSplineTimecourseDataSet::GetMLIINoise' hides overloaded virtual function [-Woverloaded-virtual] double GetMLIINoise(const vector<int>& itemIndex); ^ ./TimecourseDataSet.h:36:10: note: hidden overloaded virtual function 'TimecourseDataSet::GetMLIINoise' declared here: type mismatch at 1st parameter ('vector<int>' vs 'const vector<int> &') double GetMLIINoise(vector<int> itemIndex); ^ 2 warnings generated. clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c DataSet.cpp -o DataSet.o In file included from DataSet.cpp:13: In file included from ./DataSet.h:16: ./header.h:16:9: warning: 'NDEBUG' macro redefined [-Wmacro-redefined] #define NDEBUG ^ <command line>:1:9: note: previous definition is here #define NDEBUG 1 ^ DataSet.cpp:36:48: warning: if statement has empty body [-Wempty-body] if(!system("PAUSE")) /* could not pause */ ; ^ DataSet.cpp:36:48: note: put the semicolon on a separate line to silence this warning 2 warnings generated. clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c DirichletProcessMixture.cpp -o DirichletProcessMixture.o In file included from DirichletProcessMixture.cpp:15: In file included from ./DirichletProcessMixture.h:4: ./header.h:16:9: warning: 'NDEBUG' macro redefined [-Wmacro-redefined] #define NDEBUG ^ <command line>:1:9: note: previous definition is here #define NDEBUG 1 ^ DirichletProcessMixture.cpp:164:12: error: no member named 'random_shuffle' in namespace 'std' std::random_shuffle(random_id.begin(), random_id.end()); ~~~~~^ 1 warning and 1 error generated. make: *** [DirichletProcessMixture.o] Error 1 ERROR: compilation failed for package ‘BHC’ * removing ‘/private/tmp/RtmpJlt2G5/Rinst971040795283/BHC’ ----------------------------------- ERROR: package installation failed