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Macaulay2 / homebrew-tap

The Macaulay2 tap for Homebrew
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error: unknown argument: '-MD' #181

Closed bstone closed 1 year ago

bstone commented 1 year ago

When installing on my M1 Macbook Pro via brew I get the error unknown argument: '-MD'. I have pasted terminal output below as well as my brew config. Not sure if I am missing a dependancy or not.

Brew Config

% brew --config
HOMEBREW_VERSION: 4.0.18
ORIGIN: https://github.com/Homebrew/brew
HEAD: b0dc84b117f54f6b18e0528b95477c54e409ebdd
Last commit: 5 days ago
Core tap origin: https://github.com/Homebrew/homebrew-core
Core tap HEAD: d690bfc28b1a23765a51a9bd02eff0c2b58d50a5
Core tap last commit: 9 weeks ago
Core tap branch: master
Core tap JSON: 17 May 21:40 UTC
HOMEBREW_PREFIX: /opt/homebrew
HOMEBREW_CASK_OPTS: []
HOMEBREW_MAKE_JOBS: 10
Homebrew Ruby: 2.6.10 => /System/Library/Frameworks/Ruby.framework/Versions/2.6/usr/bin/ruby
CPU: 10-core 64-bit arm_firestorm_icestorm
Clang: 14.0.0 build 1400
Git: 2.37.1 => /Library/Developer/CommandLineTools/usr/bin/git
Curl: 7.87.0 => /usr/bin/curl
macOS: 12.6.5-arm64
CLT: 14.2.0.0.1.1668646533
Xcode: N/A
Rosetta 2: false

Terminal Output

% brew install Macaulay2/tap/M2
==> Downloading https://formulae.brew.sh/api/formula.jws.json
##O=#   #                                                                                                     
==> Fetching macaulay2/tap/macaulay2
==> Downloading https://github.com/Macaulay2/M2/commit/c4bf16f3278118ff1b6fdf20d4ad68441f4b26c5.patch?full_inde
Already downloaded: /Users/bstone49/Library/Caches/Homebrew/downloads/ac963ad48c0661b05ac4a1f73dd8e6849b57769bffc050d958df262ef5ff1ed2--c4bf16f3278118ff1b6fdf20d4ad68441f4b26c5.patch
==> Downloading https://github.com/Macaulay2/M2/archive/refs/tags/release-1.21.tar.gz
Already downloaded: /Users/bstone49/Library/Caches/Homebrew/downloads/b03ad43a23f645eabed8b116df2ac468d83d4aaa15520e71a73159c95c0c5156--M2-release-1.21.tar.gz
==> Installing macaulay2 from macaulay2/tap
==> Patching
==> Applying c4bf16f3278118ff1b6fdf20d4ad68441f4b26c5.patch
patching file M2/Macaulay2/packages/Normaliz.m2
==> git clone https://github.com/Macaulay2/M2-emacs.git M2/Macaulay2/editors/emacs --branch main
==> git clone https://github.com/Macaulay2/memtailor.git M2/submodules/memtailor
==> git clone https://github.com/Macaulay2/mathic.git M2/submodules/mathic
==> git clone https://github.com/Macaulay2/mathicgb.git M2/submodules/mathicgb
==> cmake -GNinja -SM2 -BM2/BUILD/build-brew -DBUILD_NATIVE=OFF -DCMAKE_PREFIX_PATH=/opt/homebrew/opt/bison;/op
==> cmake --build M2/BUILD/build-brew --target M2-core M2-emacs M2-highlightjs
Last 15 lines from /Users/bstone49/Library/Logs/Homebrew/macaulay2/06.cmake:
/opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DNDEBUG -DOM_NDEBUG -DSING_NDEBUG -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/d -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/c -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/BUILD/build-brew/Macaulay2/d -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e/mathic -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e/memtailor -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e/mathicgb -I/Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk/usr/include/libxml2 -I/opt/homebrew/opt/mpsolve/include -I/opt/homebrew/opt/frobby/include -I/opt/homebrew/opt/factory/include -I/opt/homebrew/opt/flint/include -I/opt/homebrew/opt/ntl/include -I/opt/homebrew/opt/mpfi/include -I/opt/homebrew/opt/mpfr/include -I/opt/homebrew/opt/bdw-gc/include -I/opt/homebrew/opt/gdbm/include -I/opt/homebrew/opt/libatomic_ops/include -isystem /opt/homebrew/opt/eigen/include/eigen3 -isystem /opt/homebrew/opt/gmp/include -isystem /opt/homebrew/Cellar/givaro/4.2.0/include -isystem /opt/homebrew/Cellar/fflas-ffpack/2.5.0/include -isystem /opt/homebrew/opt/tbb/include -O3 -DNDEBUG -std=gnu++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk -mmacosx-version-min=12 -Wuninitialized -g --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/BUILD/build-brew/usr-host/include -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/include -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/BUILD/build-brew/include -Wall -Wextra -Wfatal-errors -Wcast-qual -Wno-unused-parameter -Wno-attributes -Wno-unused-command-line-argument -Wno-cast-qual -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated-register -Wno-mismatched-tags -Wno-unused-variable -Xpreprocessor -fopenmp /opt/homebrew/opt/libomp/lib/libomp.dylib -Xclang -MD -MT Macaulay2/e/CMakeFiles/M2-engine.dir/interface/aring.cpp.o -MF Macaulay2/e/CMakeFiles/M2-engine.dir/interface/aring.cpp.o.d -o Macaulay2/e/CMakeFiles/M2-engine.dir/interface/aring.cpp.o -c /tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e/interface/aring.cpp
error: unknown argument: '-MD'
[214/412] /opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DNDEBUG -DOM_NDEBUG -DSING_NDEBUG -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/d -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/c -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/BUILD/build-brew/Macaulay2/d -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e/mathic -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e/memtailor -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e/mathicgb -I/Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk/usr/include/libxml2 -I/opt/homebrew/opt/mpsolve/include -I/opt/homebrew/opt/frobby/include -I/opt/homebrew/opt/factory/include -I/opt/homebrew/opt/flint/include -I/opt/homebrew/opt/ntl/include -I/opt/homebrew/opt/mpfi/include -I/opt/homebrew/opt/mpfr/include -I/opt/homebrew/opt/bdw-gc/include -I/opt/homebrew/opt/gdbm/include -I/opt/homebrew/opt/libatomic_ops/include -isystem /opt/homebrew/opt/eigen/include/eigen3 -isystem /opt/homebrew/opt/gmp/include -isystem /opt/homebrew/Cellar/givaro/4.2.0/include -isystem /opt/homebrew/Cellar/fflas-ffpack/2.5.0/include -isystem /opt/homebrew/opt/tbb/include -O3 -DNDEBUG -std=gnu++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk -mmacosx-version-min=12 -Wuninitialized -g --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/BUILD/build-brew/usr-host/include -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/include -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/BUILD/build-brew/include -Wall -Wextra -Wfatal-errors -Wcast-qual -Wno-unused-parameter -Wno-attributes -Wno-unused-command-line-argument -Wno-cast-qual -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated-register -Wno-mismatched-tags -Wno-unused-variable -Xpreprocessor -fopenmp /opt/homebrew/opt/libomp/lib/libomp.dylib -Xclang -MD -MT Macaulay2/e/CMakeFiles/M2-engine.dir/matrix-symm.cpp.o -MF Macaulay2/e/CMakeFiles/M2-engine.dir/matrix-symm.cpp.o.d -o Macaulay2/e/CMakeFiles/M2-engine.dir/matrix-symm.cpp.o -c /tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e/matrix-symm.cpp
FAILED: Macaulay2/e/CMakeFiles/M2-engine.dir/matrix-symm.cpp.o 
/opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DNDEBUG -DOM_NDEBUG -DSING_NDEBUG -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/d -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/c -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/BUILD/build-brew/Macaulay2/d -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e/mathic -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e/memtailor -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e/mathicgb -I/Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk/usr/include/libxml2 -I/opt/homebrew/opt/mpsolve/include -I/opt/homebrew/opt/frobby/include -I/opt/homebrew/opt/factory/include -I/opt/homebrew/opt/flint/include -I/opt/homebrew/opt/ntl/include -I/opt/homebrew/opt/mpfi/include -I/opt/homebrew/opt/mpfr/include -I/opt/homebrew/opt/bdw-gc/include -I/opt/homebrew/opt/gdbm/include -I/opt/homebrew/opt/libatomic_ops/include -isystem /opt/homebrew/opt/eigen/include/eigen3 -isystem /opt/homebrew/opt/gmp/include -isystem /opt/homebrew/Cellar/givaro/4.2.0/include -isystem /opt/homebrew/Cellar/fflas-ffpack/2.5.0/include -isystem /opt/homebrew/opt/tbb/include -O3 -DNDEBUG -std=gnu++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk -mmacosx-version-min=12 -Wuninitialized -g --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/BUILD/build-brew/usr-host/include -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/include -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/BUILD/build-brew/include -Wall -Wextra -Wfatal-errors -Wcast-qual -Wno-unused-parameter -Wno-attributes -Wno-unused-command-line-argument -Wno-cast-qual -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated-register -Wno-mismatched-tags -Wno-unused-variable -Xpreprocessor -fopenmp /opt/homebrew/opt/libomp/lib/libomp.dylib -Xclang -MD -MT Macaulay2/e/CMakeFiles/M2-engine.dir/matrix-symm.cpp.o -MF Macaulay2/e/CMakeFiles/M2-engine.dir/matrix-symm.cpp.o.d -o Macaulay2/e/CMakeFiles/M2-engine.dir/matrix-symm.cpp.o -c /tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e/matrix-symm.cpp
error: unknown argument: '-MD'
[215/412] /opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DNDEBUG -DOM_NDEBUG -DSING_NDEBUG -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/d -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/c -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/BUILD/build-brew/Macaulay2/d -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e/mathic -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e/memtailor -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e/mathicgb -I/Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk/usr/include/libxml2 -I/opt/homebrew/opt/mpsolve/include -I/opt/homebrew/opt/frobby/include -I/opt/homebrew/opt/factory/include -I/opt/homebrew/opt/flint/include -I/opt/homebrew/opt/ntl/include -I/opt/homebrew/opt/mpfi/include -I/opt/homebrew/opt/mpfr/include -I/opt/homebrew/opt/bdw-gc/include -I/opt/homebrew/opt/gdbm/include -I/opt/homebrew/opt/libatomic_ops/include -isystem /opt/homebrew/opt/eigen/include/eigen3 -isystem /opt/homebrew/opt/gmp/include -isystem /opt/homebrew/Cellar/givaro/4.2.0/include -isystem /opt/homebrew/Cellar/fflas-ffpack/2.5.0/include -isystem /opt/homebrew/opt/tbb/include -O3 -DNDEBUG -std=gnu++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk -mmacosx-version-min=12 -Wuninitialized -g --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/BUILD/build-brew/usr-host/include -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/include -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/BUILD/build-brew/include -Wall -Wextra -Wfatal-errors -Wcast-qual -Wno-unused-parameter -Wno-attributes -Wno-unused-command-line-argument -Wno-cast-qual -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated-register -Wno-mismatched-tags -Wno-unused-variable -Xpreprocessor -fopenmp /opt/homebrew/opt/libomp/lib/libomp.dylib -Xclang -MD -MT Macaulay2/e/CMakeFiles/M2-engine.dir/matrix-kbasis.cpp.o -MF Macaulay2/e/CMakeFiles/M2-engine.dir/matrix-kbasis.cpp.o.d -o Macaulay2/e/CMakeFiles/M2-engine.dir/matrix-kbasis.cpp.o -c /tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e/matrix-kbasis.cpp
FAILED: Macaulay2/e/CMakeFiles/M2-engine.dir/matrix-kbasis.cpp.o 
/opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DNDEBUG -DOM_NDEBUG -DSING_NDEBUG -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/d -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/c -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/BUILD/build-brew/Macaulay2/d -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e/mathic -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e/memtailor -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e/mathicgb -I/Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk/usr/include/libxml2 -I/opt/homebrew/opt/mpsolve/include -I/opt/homebrew/opt/frobby/include -I/opt/homebrew/opt/factory/include -I/opt/homebrew/opt/flint/include -I/opt/homebrew/opt/ntl/include -I/opt/homebrew/opt/mpfi/include -I/opt/homebrew/opt/mpfr/include -I/opt/homebrew/opt/bdw-gc/include -I/opt/homebrew/opt/gdbm/include -I/opt/homebrew/opt/libatomic_ops/include -isystem /opt/homebrew/opt/eigen/include/eigen3 -isystem /opt/homebrew/opt/gmp/include -isystem /opt/homebrew/Cellar/givaro/4.2.0/include -isystem /opt/homebrew/Cellar/fflas-ffpack/2.5.0/include -isystem /opt/homebrew/opt/tbb/include -O3 -DNDEBUG -std=gnu++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk -mmacosx-version-min=12 -Wuninitialized -g --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/BUILD/build-brew/usr-host/include -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/include -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/BUILD/build-brew/include -Wall -Wextra -Wfatal-errors -Wcast-qual -Wno-unused-parameter -Wno-attributes -Wno-unused-command-line-argument -Wno-cast-qual -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated-register -Wno-mismatched-tags -Wno-unused-variable -Xpreprocessor -fopenmp /opt/homebrew/opt/libomp/lib/libomp.dylib -Xclang -MD -MT Macaulay2/e/CMakeFiles/M2-engine.dir/matrix-kbasis.cpp.o -MF Macaulay2/e/CMakeFiles/M2-engine.dir/matrix-kbasis.cpp.o.d -o Macaulay2/e/CMakeFiles/M2-engine.dir/matrix-kbasis.cpp.o -c /tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e/matrix-kbasis.cpp
error: unknown argument: '-MD'
[216/412] /opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DNDEBUG -DOM_NDEBUG -DSING_NDEBUG -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/d -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/c -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/BUILD/build-brew/Macaulay2/d -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e/mathic -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e/memtailor -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e/mathicgb -I/Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk/usr/include/libxml2 -I/opt/homebrew/opt/mpsolve/include -I/opt/homebrew/opt/frobby/include -I/opt/homebrew/opt/factory/include -I/opt/homebrew/opt/flint/include -I/opt/homebrew/opt/ntl/include -I/opt/homebrew/opt/mpfi/include -I/opt/homebrew/opt/mpfr/include -I/opt/homebrew/opt/bdw-gc/include -I/opt/homebrew/opt/gdbm/include -I/opt/homebrew/opt/libatomic_ops/include -isystem /opt/homebrew/opt/eigen/include/eigen3 -isystem /opt/homebrew/opt/gmp/include -isystem /opt/homebrew/Cellar/givaro/4.2.0/include -isystem /opt/homebrew/Cellar/fflas-ffpack/2.5.0/include -isystem /opt/homebrew/opt/tbb/include -O3 -DNDEBUG -std=gnu++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk -mmacosx-version-min=12 -Wuninitialized -g --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/BUILD/build-brew/usr-host/include -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/include -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/BUILD/build-brew/include -Wall -Wextra -Wfatal-errors -Wcast-qual -Wno-unused-parameter -Wno-attributes -Wno-unused-command-line-argument -Wno-cast-qual -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated-register -Wno-mismatched-tags -Wno-unused-variable -Xpreprocessor -fopenmp /opt/homebrew/opt/libomp/lib/libomp.dylib -Xclang -MD -MT Macaulay2/e/CMakeFiles/M2-engine.dir/matrix-sort.cpp.o -MF Macaulay2/e/CMakeFiles/M2-engine.dir/matrix-sort.cpp.o.d -o Macaulay2/e/CMakeFiles/M2-engine.dir/matrix-sort.cpp.o -c /tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e/matrix-sort.cpp
FAILED: Macaulay2/e/CMakeFiles/M2-engine.dir/matrix-sort.cpp.o 
/opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DNDEBUG -DOM_NDEBUG -DSING_NDEBUG -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/d -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/c -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/BUILD/build-brew/Macaulay2/d -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e/mathic -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e/memtailor -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e/mathicgb -I/Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk/usr/include/libxml2 -I/opt/homebrew/opt/mpsolve/include -I/opt/homebrew/opt/frobby/include -I/opt/homebrew/opt/factory/include -I/opt/homebrew/opt/flint/include -I/opt/homebrew/opt/ntl/include -I/opt/homebrew/opt/mpfi/include -I/opt/homebrew/opt/mpfr/include -I/opt/homebrew/opt/bdw-gc/include -I/opt/homebrew/opt/gdbm/include -I/opt/homebrew/opt/libatomic_ops/include -isystem /opt/homebrew/opt/eigen/include/eigen3 -isystem /opt/homebrew/opt/gmp/include -isystem /opt/homebrew/Cellar/givaro/4.2.0/include -isystem /opt/homebrew/Cellar/fflas-ffpack/2.5.0/include -isystem /opt/homebrew/opt/tbb/include -O3 -DNDEBUG -std=gnu++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk -mmacosx-version-min=12 -Wuninitialized -g --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/BUILD/build-brew/usr-host/include -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/include -I/tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/BUILD/build-brew/include -Wall -Wextra -Wfatal-errors -Wcast-qual -Wno-unused-parameter -Wno-attributes -Wno-unused-command-line-argument -Wno-cast-qual -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated-register -Wno-mismatched-tags -Wno-unused-variable -Xpreprocessor -fopenmp /opt/homebrew/opt/libomp/lib/libomp.dylib -Xclang -MD -MT Macaulay2/e/CMakeFiles/M2-engine.dir/matrix-sort.cpp.o -MF Macaulay2/e/CMakeFiles/M2-engine.dir/matrix-sort.cpp.o.d -o Macaulay2/e/CMakeFiles/M2-engine.dir/matrix-sort.cpp.o -c /tmp/macaulay2-20230517-52689-neaod2/M2-release-1.21/M2/Macaulay2/e/matrix-sort.cpp
error: unknown argument: '-MD'
ninja: build stopped: subcommand failed.

If reporting this issue please do so at (not Homebrew/brew or Homebrew/homebrew-core):
  https://github.com/macaulay2/homebrew-tap/issues
mahrud commented 1 year ago

Apparently @antonleykin has been running into the same issue, as well as @trevorkarn on a non-M1 MacBook here: https://github.com/Macaulay2/M2/issues/2809

My guess is that it's a bug introduced in your version of Xcode or macOS and doesn't have anything to do with the architecture. Perhaps it would be useful if the three of you compared your macOS and Xcode versions.

I think you can run xcodebuild -version to get the Xcode version, and the macOS version is in the output of brew config.

Knowing this would be helpful, because presumably many people will have the same issue at the next workshop.

cc: @mikestillman

bstone commented 1 year ago

I don't have xcode installed. I use xcode-select --install to get the command line tools. As for my OS version it's macOS: 12.6.5-arm64. I could install xcode and see if that fixes things; I'll try this and report back.

bstone commented 1 year ago

For reference I have xcode-select version 2395.

mahrud commented 1 year ago

I think that's what I meant; whatever is installed with xcode-select. I don't actually have a mac, but hopefully @mikestillman or someone else with an M1 mac will be able to help.

mahrud commented 1 year ago

@moorewf might also be able to help.

antonleykin commented 1 year ago 
bash-3.2$ xcode-select --version
xcode-select version 2397.

(I have access to my mac only when in my office on campus.)

mikestillman commented 1 year ago

@mahrud I'm ready to attack this one. I'll try it out.

mikestillman commented 1 year ago

I don't quite understand how brew is doing the build, but one difference between the e directory and d directory builds (d works, but then e fails) seems to be the addition of -Xclang -MD instead of -MD by itself. I don't see (yet) where the -Xclang is added to the compile line. @mahrud Do you have any idea where that might occur?

mikestillman commented 1 year ago

@mahrud But the -Xclang addition is probably done by cmake?

mahrud commented 1 year ago

Either by cmake, or by some dependency (e.g. how fflas-ffpack used to add some extra argument). Note that cmake on linux isn't adding -Xclang at any point.

For instance, on linux we have:

... -fopenmp -MD -MT.../aring.cpp.o -MF .../aring.cpp.o.d -o .../aring.cpp.o -c .../aring.cpp

But in the first comment above the equivalent command is:

... -Xpreprocessor -fopenmp .../libomp.dylib -Xclang -MD -MT .../aring.cpp.o -MF .../aring.cpp.o.d -o .../aring.cpp.o -c .../aring.cpp
mikestillman commented 1 year ago

If in ninja.build, I remove all the occurences of -Xclang except those which have -fopenmp directly after them, the build (to M2-core) runs to completion.

Perhaps something is taking the 2 -fopenmp's on a command line, and removing the second one? I have seen this before, where some tools don't realize that the -Xclang -fopenmp are really to be combined. These are all in build.ninja however...

mikestillman commented 1 year ago

This is all because of the brain-damaged way that apple clang handles openmp... But still, it was working until fairly recently. I'm not sure who is removing the second -fopenmp... (if in fact that that is what is happening)

mikestillman commented 1 year ago

I think if we make sure there is only one -fopenmp on the compile line (I have no idea how to do that though), it would work, since it would not remove the -fopenmp after the -Xclang.

mikestillman commented 1 year ago

I'm not sure if there is any real difference between -Xpreprocessor and -Xclang. There probably is, but they both seem to be used with -fopenmp (and on the mac, you must explicitly include the libomp dylib too)

mahrud commented 1 year ago

Actually, nothing in the d directory depends on openmp. Only the e directory because of this line: https://github.com/Macaulay2/M2/blob/862517ce675dfa6bd86533b8da06f40ffff7118f/M2/Macaulay2/e/CMakeLists.txt#L363 So why is -fopenmp included when building interpreter files at all?

mahrud commented 1 year ago

Can you send me your CMakeCache.txt file from a build directory that is failing because of this error?

mikestillman commented 1 year ago

Here is one entry from build.ninja:

build Macaulay2/d/CMakeFiles/M2-interpreter.dir/M2types.c.o: C_COMPILER__M2-interpreter_unscanned_RelWithDebInfo /Users/mike/src/M2-complexes-for-1-21/M2/Macaulay2/d/M2types.c || cmake_object_order_depends_target_M2-interpreter
  DEFINES = -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DNDEBUG -DOM_NDEBUG -DSING_NDEBUG
  DEP_FILE = Macaulay2/d/CMakeFiles/M2-interpreter.dir/M2types.c.o.d
  FLAGS = -O2 -g -DNDEBUG -std=gnu11 -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX13.1.sdk -mmacosx-version-min=12.6 -Wuninitialized -g --sysroot=/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX13.1.sdk -I/Users/mike/src/M2-complexes-for-1-21/M2/BUILD/mike/builds.tmp/cmake-appleclang/usr-host/include -I/Users/mike/src/M2-complexes-for-1-21/M2/include -I/Users/mike/src/M2-complexes-for-1-21/M2/BUILD/mike/builds.tmp/cmake-appleclang/include -Wall -Wextra -Wfatal-errors -Wcast-qual -Wno-unused-parameter -Wno-attributes -Wno-unused-command-line-argument -Wno-cast-qual -Wno-sign-compare -Wno-uninitialized -Wno-unused -Wno-array-bounds -Wno-parentheses-equality -Xpreprocessor -fopenmp /opt/homebrew/opt/libomp/lib/libomp.dylib
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Notice that this file includes fflas, and givaro. I don't think these should be needed (only e directory files should need these). If they are being used, we should perhaps somehow change that.

Actually, maybe that will take some effort to tease that apart...

mahrud commented 1 year ago

This is helpful, but it's from the interpreter. Could you get one from something in the engine? Like aring.cpp.o and engine.o.

I believe the interpreter only needs fflas and givaro for version.dd, and fflas requires openmp, so that's why it's getting included there. That must mean something about the way this line links to openmp for the e directory is wrong. Looking at the CMakeCache file you sent me, the culprit must be one of these:

//CXX compiler flags for OpenMP parallelization
OpenMP_CXX_FLAGS:STRING=-Xclang -fopenmp
--
//C compiler flags for OpenMP parallelization
OpenMP_C_FLAGS:STRING=-Xclang -fopenmp
--
//Details about finding OpenMP_C
FIND_PACKAGE_MESSAGE_DETAILS_OpenMP_C:INTERNAL=[-Xclang -fopenmp][/opt/homebrew/lib/libomp.dylib][v5.0()]
//Details about finding OpenMP_CXX
FIND_PACKAGE_MESSAGE_DETAILS_OpenMP_CXX:INTERNAL=[-Xclang -fopenmp][/opt/homebrew/lib/libomp.dylib][v5.0()]
--
//Result of TRY_COMPILE
OpenMP_COMPILE_RESULT_CXX_Xclang fopenmp:INTERNAL=TRUE
//Result of TRY_COMPILE
OpenMP_COMPILE_RESULT_C_Xclang fopenmp:INTERNAL=TRUE

Maybe some code is treating the space in -Xclang -fopenmp as two separate strings and printing only the first one? Looking at the build.ninja lines for something in the engine would be helpful.

mikestillman commented 1 year ago

@mahrud Here is the build.ninja entry for engine.cpp.o

build Macaulay2/e/CMakeFiles/M2-engine.dir/engine.cpp.o: CXX_COMPILER__M2-engine_unscanned_RelWithDebInfo /Users/mike/src/M2-complexes-for-1-21/M2/Macaulay2/e/engine.cpp || cmake_object_order_depends_target_M2-engine
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  OBJECT_DIR = Macaulay2/e/CMakeFiles/M2-engine.dir
  OBJECT_FILE_DIR = Macaulay2/e/CMakeFiles/M2-engine.dir
mikestillman commented 1 year ago

Using the Makefile generator for cmake gives the following (and essentially the same error). Here is the flags.make file in the build dir at /Macaulay2/e/CMakeFiles/M2-engine.dir/flags.make.

# CMAKE generated file: DO NOT EDIT!
# Generated by "Unix Makefiles" Generator, CMake Version 3.26

# compile C with /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/cc
# compile CXX with /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/c++
C_DEFINES = -DNDEBUG -DOM_NDEBUG -DSING_NDEBUG

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CXX_INCLUDES = -I/Users/mike/src/M2-complexes-for-1-21/M2/Macaulay2/e -I/Users/mike/src/M2-complexes-for-1-21/M2/Macaulay2/d -I/Users/mike/src/M2-complexes-for-1-21/M2/Macaulay2/c -I/Users/mike/src/M2-complexes-for-1-21/M2/BUILD/mike/builds.tmp/cmake-make-appleclang/Macaulay2/d -I/Users/mike/src/M2-complexes-for-1-21/M2/Macaulay2/e/mathic -I/Users/mike/src/M2-complexes-for-1-21/M2/Macaulay2/e/memtailor -I/Users/mike/src/M2-complexes-for-1-21/M2/Macaulay2/e/mathicgb -I/opt/homebrew/opt/readline/include -I/Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk/usr/include/libxml2 -isystem /opt/homebrew/include/eigen3 -isystem /opt/homebrew/include -isystem /opt/homebrew/Cellar/fflas-ffpack/2.5.0/include -isystem /opt/homebrew/opt/libomp/include -isystem /opt/homebrew/Cellar/givaro/4.2.0/include -isystem /opt/homebrew/opt/gmp/include -isystem /opt/homebrew/opt/tbb/include

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CXX_FLAGS = -O2 -g -DNDEBUG -std=gnu++17 -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX13.1.sdk -mmacosx-version-min=12.6 -Wuninitialized -g --sysroot=/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX13.1.sdk -I/Users/mike/src/M2-complexes-for-1-21/M2/BUILD/mike/builds.tmp/cmake-make-appleclang/usr-host/include -I/Users/mike/src/M2-complexes-for-1-21/M2/include -I/Users/mike/src/M2-complexes-for-1-21/M2/BUILD/mike/builds.tmp/cmake-make-appleclang/include -Wall -Wextra -Wfatal-errors -Wcast-qual -Wno-unused-parameter -Wno-attributes -Wno-unused-command-line-argument -Wno-cast-qual -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated-register -Wno-mismatched-tags -Wno-unused-variable -Xpreprocessor -fopenmp /opt/homebrew/opt/libomp/lib/libomp.dylib -Xclang
mikestillman commented 1 year ago

@mahrud I am using cmake version 3.26.4, xcode version 2395, but moorewf is using 3.24.1, and building M2 works fine for him. It also worked for me until recently when I upgraded brew (and therefore cmake). Perhaps it is a bug that was introduced recently in cmake?

mahrud commented 1 year ago

I made an issue for CMake: https://gitlab.kitware.com/cmake/cmake/-/issues/24966

For now, I'm patching it so e doesn't link with OpenMP (though d is still linked with it).

mahrud commented 1 year ago

What is tripping up CMake is that fflas-ffpack is including the lines

Libs: -Xpreprocessor -fopenmp -I@@HOMEBREW_PREFIX@@/opt/libomp/include @@HOMEBREW_PREFIX@@/opt/libomp/lib/libomp.dylib  
Cflags: -I${prefix}/include    -Xpreprocessor -fopenmp -I@@HOMEBREW_PREFIX@@/opt/libomp/include @@HOMEBREW_PREFIX@@/opt/libomp/lib/libomp.dylib

while openmp is including the options:

-Xclang -fopenmp

If either both used -Xclang or -Xpreprocessor this wouldn't have happened.

trevorkarn commented 1 year ago

Sorry I'm late to the party:

xcode-select --version
xcode-select version 2397.
bstone commented 1 year ago

Update, I upgraded from Monterey to Ventura and the install worked just fine. Not sure if you did something on your end or not, but thanks for working on this.

mikestillman commented 1 year ago

brew upgrade failed for me, with this same error:

==> Upgrading macaulay2/tap/macaulay2
  1.22-rc1 -> 1.22 

==> Patching
==> git clone https://github.com/Macaulay2/M2-emacs.git M2/Macaulay2/editors/emacs --branch main
==> git clone https://github.com/Macaulay2/memtailor.git M2/submodules/memtailor
==> git clone https://github.com/Macaulay2/mathic.git M2/submodules/mathic
==> git clone https://github.com/Macaulay2/mathicgb.git M2/submodules/mathicgb
==> cmake -GNinja -SM2 -BM2/BUILD/build-brew -DBUILD_NATIVE=OFF -DCMAKE_PREFIX_PATH=/opt/homebrew/opt/bison;/opt
==> cmake --build M2/BUILD/build-brew --target M2-core M2-emacs M2-highlightjs
Last 15 lines from /Users/mike/Library/Logs/Homebrew/macaulay2/06.cmake:
[199/401] /opt/homebrew/bin/ccache /opt/homebrew/Library/Homebrew/shims/mac/super/clang -DBOOST_REGEX_NO_LIB -DNDEBUG -DOM_NDEBUG -DSING_NDEBUG -I/tmp/macaulay2-20230620-84510-16xq6v1/M2-release-1.22/M2/Macaulay2/d -I/tmp/macaulay2-20230620-84510-16xq6v1/M2-release-1.22/M2/Macaulay2/e -I/tmp/macaulay2-20230620-84510-16xq6v1/M2-release-1.22/M2/Macaulay2/c -I/tmp/macaulay2-20230620-84510-16xq6v1/M2-release-1.22/M2/BUILD/build-brew/Macaulay2/d -I/tmp/macaulay2-20230620-84510-16xq6v1/M2-release-1.22/M2/Macaulay2/e/mathic -I/tmp/macaulay2-20230620-84510-16xq6v1/M2-release-1.22/M2/Macaulay2/e/memtailor -I/tmp/macaulay2-20230620-84510-16xq6v1/M2-release-1.22/M2/Macaulay2/e/mathicgb -I/Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk/usr/include/libxml2 -I/opt/homebrew/opt/eigen/include/eigen3 -I/opt/homebrew/opt/mpsolve/include -I/opt/homebrew/opt/frobby/include -I/opt/homebrew/opt/factory/include -I/opt/homebrew/opt/flint/include -I/opt/homebrew/opt/ntl/include -I/opt/homebrew/opt/mpfi/include -I/opt/homebrew/opt/mpfr/include -I/opt/homebrew/opt/bdw-gc/include -I/opt/homebrew/opt/gdbm/include -I/opt/homebrew/opt/libatomic_ops/include -I/tmp/macaulay2-20230620-84510-16xq6v1/M2-release-1.22/M2/Macaulay2/system -isystem /opt/homebrew/opt/gmp/include -isystem /opt/homebrew/Cellar/boost/1.82.0_1/include -isystem /opt/homebrew/opt/tbb/include -isystem /opt/homebrew/Cellar/givaro/4.2.0/include -isystem /opt/homebrew/Cellar/fflas-ffpack/2.5.0/include -O3 -DNDEBUG -std=gnu11 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk -mmacosx-version-min=12 -Wuninitialized -g --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk -I/tmp/macaulay2-20230620-84510-16xq6v1/M2-release-1.22/M2/BUILD/build-brew/usr-host/include -I/tmp/macaulay2-20230620-84510-16xq6v1/M2-release-1.22/M2/include -I/tmp/macaulay2-20230620-84510-16xq6v1/M2-release-1.22/M2/BUILD/build-brew/include -Wall -Wextra -Wfatal-errors -Wcast-qual -Wno-unused-parameter -Wno-attributes -Wno-unused-command-line-argument -Wno-cast-qual -Wno-sign-compare -Wno-uninitialized -Wno-unused -Wno-array-bounds -Wno-parentheses-equality -Xpreprocessor -fopenmp /opt/homebrew/opt/libomp/lib/libomp.dylib -MD -MT Macaulay2/d/CMakeFiles/M2-interpreter.dir/actors5-tmp.c.o -MF Macaulay2/d/CMakeFiles/M2-interpreter.dir/actors5-tmp.c.o.d -o Macaulay2/d/CMakeFiles/M2-interpreter.dir/actors5-tmp.c.o -c /tmp/macaulay2-20230620-84510-16xq6v1/M2-release-1.22/M2/BUILD/build-brew/Macaulay2/d/actors5-tmp.c
[200/401] /opt/homebrew/bin/ccache /opt/homebrew/Library/Homebrew/shims/mac/super/clang++ -DNDEBUG -DOM_NDEBUG -DSING_NDEBUG -I/tmp/macaulay2-20230620-84510-16xq6v1/M2-release-1.22/M2/Macaulay2/e -I/tmp/macaulay2-20230620-84510-16xq6v1/M2-release-1.22/M2/Macaulay2/d -I/tmp/macaulay2-20230620-84510-16xq6v1/M2-release-1.22/M2/Macaulay2/c -I/tmp/macaulay2-20230620-84510-16xq6v1/M2-release-1.22/M2/BUILD/build-brew/Macaulay2/d -I/tmp/macaulay2-20230620-84510-16xq6v1/M2-release-1.22/M2/Macaulay2/e/mathic -I/tmp/macaulay2-20230620-84510-16xq6v1/M2-release-1.22/M2/Macaulay2/e/memtailor -I/tmp/macaulay2-20230620-84510-16xq6v1/M2-release-1.22/M2/Macaulay2/e/mathicgb -I/Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk/usr/include/libxml2 -I/opt/homebrew/opt/mpsolve/include -I/opt/homebrew/opt/frobby/include -I/opt/homebrew/opt/factory/include -I/opt/homebrew/opt/flint/include -I/opt/homebrew/opt/ntl/include -I/opt/homebrew/opt/mpfi/include -I/opt/homebrew/opt/mpfr/include -I/opt/homebrew/opt/bdw-gc/include -I/opt/homebrew/opt/gdbm/include -I/opt/homebrew/opt/libatomic_ops/include -isystem /opt/homebrew/opt/eigen/include/eigen3 -isystem /opt/homebrew/opt/gmp/include -isystem /opt/homebrew/Cellar/givaro/4.2.0/include -isystem /opt/homebrew/Cellar/fflas-ffpack/2.5.0/include -isystem /opt/homebrew/opt/tbb/include -O3 -DNDEBUG -std=gnu++17 -arch arm64 -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk -mmacosx-version-min=12 -Wuninitialized -g --sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk -I/tmp/macaulay2-20230620-84510-16xq6v1/M2-release-1.22/M2/BUILD/build-brew/usr-host/include -I/tmp/macaulay2-20230620-84510-16xq6v1/M2-release-1.22/M2/include -I/tmp/macaulay2-20230620-84510-16xq6v1/M2-release-1.22/M2/BUILD/build-brew/include -Wall -Wextra -Wfatal-errors -Wcast-qual -Wno-unused-parameter -Wno-attributes -Wno-unused-command-line-argument -Wno-cast-qual -Wno-sign-compare -Wno-unused-local-typedefs -Wno-deprecated-register -Wno-mismatched-tags -Wno-unused-variable -Xpreprocessor -fopenmp /opt/homebrew/opt/libomp/lib/libomp.dylib -Xclang -MD -MT Macaulay2/e/CMakeFiles/M2-engine.dir/matrix-kbasis.cpp.o -MF Macaulay2/e/CMakeFiles/M2-engine.dir/matrix-kbasis.cpp.o.d -o Macaulay2/e/CMakeFiles/M2-engine.dir/matrix-kbasis.cpp.o -c /tmp/macaulay2-20230620-84510-16xq6v1/M2-release-1.22/M2/Macaulay2/e/matrix-kbasis.cpp
FAILED: Macaulay2/e/CMakeFiles/M2-engine.dir/matrix-kbasis.cpp.o 
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error: unknown argument: '-MD'
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FAILED: Macaulay2/e/CMakeFiles/M2-engine.dir/matrix-sort.cpp.o 
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error: unknown argument: '-MD'
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ninja: build stopped: subcommand failed.

If reporting this issue please do so at (not Homebrew/brew or Homebrew/homebrew-core):
  https://github.com/macaulay2/homebrew-tap/issues
mahrud commented 1 year ago

I thought this patch should have alleviated it until a new version of cmake is out.

You could try building bottle with --debug which lets you enter a shell when the compiles fails. At that stage, you could check if the patch successfully applied to Macaulay2/e/CMakeLists.txt or not.

mahrud commented 1 year ago

The macOS builds seem to be working fine now, so I'll close this issue. Feel free to comment or reopen if you experience the same issue when building M2 via brew.

The patch added above can be removed once the next version of CMake is released with this patch included.

mahrud commented 1 year ago

@mikestillman if you still can't install M2 via brew, try the following:

cd $(brew --repo macaulay2/tap)
git fetch origin
git checkout main
git reset --hard origin/main

And then build again.