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).

HostnameOSArch (*)R versionInstalled pkgs
kjohnson2macOS 12.6.1 Montereyarm644.3.1 (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 158/2230HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
bgx 1.66.0  (landing page)
Ernest Turro
Snapshot Date: 2023-10-15 14:00:07 -0400 (Sun, 15 Oct 2023)
git_url: https://git.bioconductor.org/packages/bgx
git_branch: RELEASE_3_17
git_last_commit: 21cf621
git_last_commit_date: 2023-04-25 09:45:24 -0400 (Tue, 25 Apr 2023)
kjohnson2macOS 12.6.1 Monterey / arm64  ERROR    ERROR  skippedskipped

INSTALL results for bgx on kjohnson2


To the developers/maintainers of the bgx 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.

raw results


Summary

Package: bgx
Version: 1.66.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL bgx
StartedAt: 2023-10-15 15:31:54 -0400 (Sun, 15 Oct 2023)
EndedAt: 2023-10-15 15:32:19 -0400 (Sun, 15 Oct 2023)
EllapsedTime: 24.6 seconds
RetCode: 1
Status:   ERROR  

Command output

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### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL bgx
###
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* installing to library ‘/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library’
* installing *source* package ‘bgx’ ...
** using staged installation
checking for gcc... clang -arch arm64
checking for C compiler default output file name... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables... 
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 C compiler vendor... gnu
checking whether C compiler accepts -ffast-math... yes
checking whether C compiler accepts -O3... yes
checking build system type... aarch64-apple-darwin21.6.0
checking host system type... aarch64-apple-darwin21.6.0
checking for gcc architecture flag... 
checking for gcc architecture flag... unknown
checking for clang -arch arm64 option to accept ISO C99... none needed
checking for main in -lm... yes
Untarring Boost header files...
checking for an ANSI C-conforming const... yes
checking for inline... inline
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 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 ../boostIncl -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -falign-functions=64 -Wall -g -O2  -ffast-math -O3 -DUSING_R -c bgx.cc -o bgx.o
In file included from bgx.cc:32:
In file included from ./rand.hh:32:
In file included from ../boostIncl/boost/random.hpp:70:
../boostIncl/boost/random/uniform_on_sphere.hpp:55:25: error: no member named 'bind2nd' in namespace 'std'
                   std::bind2nd(std::divides<RealType>(), sqrt(sqsum)));
                   ~~~~~^
bgx.cc:44:13: warning: 'FLUSH' macro redefined [-Wmacro-redefined]
    #define FLUSH {R_FlushConsole(); R_ProcessEvents();}
            ^
./rand.hh:42:13: note: previous definition is here
    #define FLUSH R_FlushConsole();
            ^
In file included from bgx.cc:36:
./bgx_updates.hh:47:8: warning: private field 'categories' is not used [-Wunused-private-field]
  int* categories;
       ^
./bgx_updates.hh:310:8: warning: private field 'categories' is not used [-Wunused-private-field]
  int *categories;
       ^
./bgx_updates.hh:311:7: warning: private field 'numberCategories' is not used [-Wunused-private-field]
  int numberCategories;
      ^
4 warnings and 1 error generated.
make: *** [bgx.o] Error 1
ERROR: compilation failed for package ‘bgx’
* removing ‘/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/bgx’