Back to Multiple platform build/check report for BioC 3.18: simplified long |
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This page was generated on 2024-04-17 11:37:31 -0400 (Wed, 17 Apr 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.3.3 (2024-02-29) -- "Angel Food Cake" | 4676 |
palomino4 | Windows Server 2022 Datacenter | x64 | 4.3.3 (2024-02-29 ucrt) -- "Angel Food Cake" | 4414 |
merida1 | macOS 12.7.1 Monterey | x86_64 | 4.3.3 (2024-02-29) -- "Angel Food Cake" | 4437 |
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 159/2266 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
BHC 1.54.0 (landing page) Rich Savage
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
merida1 | macOS 12.7.1 Monterey / x86_64 | ERROR | ERROR | skipped | skipped | |||||||||
kjohnson1 | macOS 13.6.1 Ventura / arm64 | see weekly results here | ||||||||||||
To the developers/maintainers of the BHC package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/BHC.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. |
Package: BHC |
Version: 1.54.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL BHC |
StartedAt: 2024-04-15 15:23:56 -0400 (Mon, 15 Apr 2024) |
EndedAt: 2024-04-15 15:24:16 -0400 (Mon, 15 Apr 2024) |
EllapsedTime: 20.3 seconds |
RetCode: 1 |
Status: ERROR |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL BHC ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/library’ * installing *source* package ‘BHC’ ... ** using staged installation checking for gcc... clang -arch x86_64 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 x86_64 accepts -g... yes checking for clang -arch x86_64 option to accept ISO C89... none needed checking for clang -arch x86_64 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 x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/x86_64/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 x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/x86_64/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 x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/x86_64/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 x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/x86_64/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 ‘/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/library/BHC’