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Context: I work in a project that produces a python library. This library has several dependencies and we build most of the dependencies from source. Everything is done in docker images with Ubuntu 22.

In order to deal with all the dependencies the team created (long ago) a repository based on brew. The idea is: one formula per dependency to be built (and packaged).

The problem: We need to add Open3D as a dependency to the project, so we need to build and package it. But when running make one dependey of Open3D called embree seems to be missing.

To run the build we "simply" use: brew install --build-from-source my-open3d And a formula:

require "formula"
class MyOpen3d < Formula
  homepage 'http://www.open3d.org/'
  url "http://mirror.OUR_MIRROR/open3d-0.15.1.zip"
  sha256 "1664ad0539d7175215b02aea6ee09eec154ce7f9865abd4fdbc5369fce4ec511" # Same file from github

  def install
    cmake_args = %W[
        -DBUILD_GUI=OFF
        -DCMAKE_INSTALL_PREFIX=#{prefix}
        -DBUILD_SHARED_LIBS=ON
        ]

    system "mkdir", "builds"
    Dir.chdir('builds/') do
      system "cmake", "..", *cmake_args
      system "make", "-j#{ENV.make_jobs}", "install"
    end
  end
end

When running this, I see most of the build is done, but it stops at this error:

[ 88%] Building CXX object cpp/pybind/CMakeFiles/pybind.dir/core/tensor_accessor.cpp.o
cd /cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/builds/cpp/pybind && /usr/bin/ccache /cache/brew/Library/Homebrew/shims/linux/super/g++ -DBUILD_ISPC_MODULE -DFMT_HEADER_ONLY=0 -DFMT_STRING_ALIAS=1 -DFMT_USE_WINDOWS_H=0 -DOPEN3D_CUDA_COMPILER_ID=\"\" -DOPEN3D_CUDA_COMPILER_VERSION=\"\" -DOPEN3D_CXX_COMPILER_ID=\"GNU\" -DOPEN3D_CXX_COMPILER_VERSION=\"11.4.0\" -DOPEN3D_CXX_STANDARD=\"14\" -DUNIX -DUSE_BLAS -DWITH_IPPICV -DZMQ_STATIC -D_FORTIFY_SOURCE=2 -D_GLIBCXX_USE_CXX11_ABI=1 -D__TBB_LIB_NAME=tbb_static -Dpybind_EXPORTS -I/cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/cpp/pybind/.. -I/cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/cpp -isystem /cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/builds/_deps/ext_pybind11-src/include -isystem /usr/include/python3.10 -isystem /cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/3rdparty/glew/include -isystem /cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/3rdparty/glfw/include -isystem /cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/builds/fmt/include -isystem /cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/builds/eigen/src/ext_eigen -isystem /cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/builds/parallelstl/src/ext_parallelstl/include -O3 -DNDEBUG -fPIC -fvisibility=hidden -fstack-protector-strong -Wformat -Wformat-security -Wall -Wextra -Werror -Wno-unused-parameter -fdiagnostics-color=always -Wno-unknown-pragmas -flto -fno-fat-lto-objects -std=c++14 -MD -MT cpp/pybind/CMakeFiles/pybind.dir/core/tensor_accessor.cpp.o -MF CMakeFiles/pybind.dir/core/tensor_accessor.cpp.o.d -o CMakeFiles/pybind.dir/core/tensor_accessor.cpp.o -c /cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/cpp/pybind/core/tensor_accessor.cpp
[ 88%] Building CXX object cpp/pybind/CMakeFiles/pybind.dir/core/tensor_converter.cpp.o
cd /cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/builds/cpp/pybind && /usr/bin/ccache /cache/brew/Library/Homebrew/shims/linux/super/g++ -DBUILD_ISPC_MODULE -DFMT_HEADER_ONLY=0 -DFMT_STRING_ALIAS=1 -DFMT_USE_WINDOWS_H=0 -DOPEN3D_CUDA_COMPILER_ID=\"\" -DOPEN3D_CUDA_COMPILER_VERSION=\"\" -DOPEN3D_CXX_COMPILER_ID=\"GNU\" -DOPEN3D_CXX_COMPILER_VERSION=\"11.4.0\" -DOPEN3D_CXX_STANDARD=\"14\" -DUNIX -DUSE_BLAS -DWITH_IPPICV -DZMQ_STATIC -D_FORTIFY_SOURCE=2 -D_GLIBCXX_USE_CXX11_ABI=1 -D__TBB_LIB_NAME=tbb_static -Dpybind_EXPORTS -I/cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/cpp/pybind/.. -I/cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/cpp -isystem /cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/builds/_deps/ext_pybind11-src/include -isystem /usr/include/python3.10 -isystem /cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/3rdparty/glew/include -isystem /cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/3rdparty/glfw/include -isystem /cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/builds/fmt/include -isystem /cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/builds/eigen/src/ext_eigen -isystem /cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/builds/parallelstl/src/ext_parallelstl/include -O3 -DNDEBUG -fPIC -fvisibility=hidden -fstack-protector-strong -Wformat -Wformat-security -Wall -Wextra -Werror -Wno-unused-parameter -fdiagnostics-color=always -Wno-unknown-pragmas -flto -fno-fat-lto-objects -std=c++14 -MD -MT cpp/pybind/CMakeFiles/pybind.dir/core/tensor_converter.cpp.o -MF CMakeFiles/pybind.dir/core/tensor_converter.cpp.o.d -o CMakeFiles/pybind.dir/core/tensor_converter.cpp.o -c /cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/cpp/pybind/core/tensor_converter.cpp
[ 88%] Building CXX object cpp/pybind/CMakeFiles/pybind.dir/core/tensor_function.cpp.o
cd /cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/builds/cpp/pybind && /usr/bin/ccache /cache/brew/Library/Homebrew/shims/linux/super/g++ -DBUILD_ISPC_MODULE -DFMT_HEADER_ONLY=0 -DFMT_STRING_ALIAS=1 -DFMT_USE_WINDOWS_H=0 -DOPEN3D_CUDA_COMPILER_ID=\"\" -DOPEN3D_CUDA_COMPILER_VERSION=\"\" -DOPEN3D_CXX_COMPILER_ID=\"GNU\" -DOPEN3D_CXX_COMPILER_VERSION=\"11.4.0\" -DOPEN3D_CXX_STANDARD=\"14\" -DUNIX -DUSE_BLAS -DWITH_IPPICV -DZMQ_STATIC -D_FORTIFY_SOURCE=2 -D_GLIBCXX_USE_CXX11_ABI=1 -D__TBB_LIB_NAME=tbb_static -Dpybind_EXPORTS -I/cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/cpp/pybind/.. -I/cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/cpp -isystem /cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/builds/_deps/ext_pybind11-src/include -isystem /usr/include/python3.10 -isystem /cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/3rdparty/glew/include -isystem /cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/3rdparty/glfw/include -isystem /cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/builds/fmt/include -isystem /cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/builds/eigen/src/ext_eigen -isystem /cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/builds/parallelstl/src/ext_parallelstl/include -O3 -DNDEBUG -fPIC -fvisibility=hidden -fstack-protector-strong -Wformat -Wformat-security -Wall -Wextra -Werror -Wno-unused-parameter -fdiagnostics-color=always -Wno-unknown-pragmas -flto -fno-fat-lto-objects -std=c++14 -MD -MT cpp/pybind/CMakeFiles/pybind.dir/core/tensor_function.cpp.o -MF CMakeFiles/pybind.dir/core/tensor_function.cpp.o.d -o CMakeFiles/pybind.dir/core/tensor_function.cpp.o -c /cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/cpp/pybind/core/tensor_function.cpp
[ 88%] Linking CXX executable ../../bin/MergeMesh
cd /cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/builds/cpp/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/MergeMesh.dir/link.txt --verbose=1
/cache/brew/Library/Homebrew/shims/linux/super/g++ -O3 -DNDEBUG -Wl,-z,noexecstack -Wl,-z,relro,-z,now -pie -Wl,--strip-debug CMakeFiles/MergeMesh.dir/MergeMesh.cpp.o -o ../../bin/MergeMesh  -Wl,-rpath,/cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/builds/lib/Release ../../lib/Release/libOpen3D.so -lstdc++fs 
/usr/bin/ld: ../../lib/Release/libOpen3D.so: undefined reference to `embree::avx2::BVH8Triangle4iMBIntersector4HybridPluecker()'
/usr/bin/ld: ../../lib/Release/libOpen3D.so: undefined reference to `embree::avx2::BVH8Triangle4vMBIntersector8HybridPluecker()'
/usr/bin/ld: ../../lib/Release/libOpen3D.so: undefined reference to `embree::avx2::BVH8Triangle4iIntersector1Moeller()'...

And like 1000 more lines with

../../lib/Release/libOpen3D.so: undefined reference to `embree::avx2::SOME_FUNCTION

Fun facts (not really fun):

  1. It actually works if I set DBUILD_SHARED_LIBS=OFF (I guess the problem comes from this)
  2. If I run cmake and make directly (no brew) this compilations flags build properly.
  3. When I check the logs I see that the lib embree was built:
...
-- Installing: /cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/builds/embree/lib/cmake/embree-3.13.0/embree_avx2-targets.cmake
-- Installing: /cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/builds/embree/lib/cmake/embree-3.13.0/embree_avx2-targets-release.cmake
-- Installing: /cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/builds/embree/lib/libembree3.a
-- Installing: /cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/builds/embree/lib/cmake/embree-3.13.0/embree-targets.cmake
-- Installing: /cache/brew.temp/ltu-open3d-20251001-205119-6fsqd9/Open3D-0.15.1/builds/embree/lib/cmake/embree-3.13.0/embree-targets-release.cmake
...
[ 41%] Completed 'ext_embree'

The Question: what might change when building with brew? Am I missing something?

Improve this question
2
  • 1
    "But when running make one dependey of Open3D called embree seems to be missing." - No, you got it wrong. The error message tells that the linker has found all libraries, which libOpen3D.so depends from. But none of those libraries contains the symbol embree::avx2::SOME_FUNCTION. Note, that the file libOpen3D.so has been created successfully, so at the time of creation the symbol was defined by one of its dependency. So it smells like there are two embree libraries on your system: one which defines the symbol embree::avx2::SOME_FUNCTION, and the one which doesn't define it. Commented Oct 1 at 21:15
  • You may start debugging by examine the embree library, which is built according to the logs. Does that library actually defines the symbol embree::avx2::BVH8Triangle4iMBIntersector4HybridPluecker()? Commented Oct 1 at 21:19
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