Issue in compiling Matlab wrapper

[ssahu]

Compiling with R2015b and Apple LLVM version 7.0.0 (clang-700.1.76) gives the following error during linking, anyone else facing the same issue?

Undefined symbols for architecture x86_64:
  "_mxArrayToString", referenced from:
      get_solver(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      solver_restore(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      get_net(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      net_copy_from(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      net_save(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      read_mean(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      write_mean(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      ...
  "_mxCreateCellMatrix_700", referenced from:
      str_vec_to_mx_strcell(std::__1::vector<std::__1::basic_string<char, std::__1::char_traits<char>, std::__1::allocator<char> >, std::__1::allocator<std::__1::basic_string<char, std::__1::char_traits<char>, std::__1::allocator<char> > > > const&) in caffe_.o
  "_mxCreateDoubleMatrix_700", referenced from:
      net_get_attr(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      blob_get_shape(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
  "_mxCreateDoubleScalar", referenced from:
      get_solver(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      solver_get_attr(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      solver_get_iter(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      get_net(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      net_get_attr(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      get_init_key(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      mxArray_tag* ptr_vec_to_handle_vec<caffe::Blob<float> >(std::__1::vector<boost::shared_ptr<caffe::Blob<float> >, std::__1::allocator<boost::shared_ptr<caffe::Blob<float> > > > const&) in caffe_.o
      ...
  "_mxCreateNumericArray_700", referenced from:
      blob_to_mx_mat(caffe::Blob<float> const*, WhichMemory) in caffe_.o
  "_mxCreateNumericMatrix_700", referenced from:
      get_solver(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      solver_get_attr(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      get_net(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      net_get_attr(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      mxArray_tag* ptr_vec_to_handle_vec<caffe::Blob<float> >(std::__1::vector<boost::shared_ptr<caffe::Blob<float> >, std::__1::allocator<boost::shared_ptr<caffe::Blob<float> > > > const&) in caffe_.o
  "_mxCreateString", referenced from:
      layer_get_type(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      str_vec_to_mx_strcell(std::__1::vector<std::__1::basic_string<char, std::__1::char_traits<char>, std::__1::allocator<char> >, std::__1::allocator<std::__1::basic_string<char, std::__1::char_traits<char>, std::__1::allocator<char> > > > const&) in caffe_.o
  "_mxCreateStructMatrix_700", referenced from:
      get_solver(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      solver_get_attr(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      get_net(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      net_get_attr(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      layer_get_attr(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      mxArray_tag* ptr_vec_to_handle_vec<caffe::Blob<float> >(std::__1::vector<boost::shared_ptr<caffe::Blob<float> >, std::__1::allocator<boost::shared_ptr<caffe::Blob<float> > > > const&) in caffe_.o
  "_mxFree", referenced from:
      get_solver(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      solver_restore(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      get_net(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      net_copy_from(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      net_save(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      read_mean(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      write_mean(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      ...
  "_mxGetData", referenced from:
      get_solver(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      solver_get_attr(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      get_net(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      net_get_attr(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      caffe::Solver<float>* handle_to_ptr<caffe::Solver<float> >(mxArray_tag const*) in caffe_.o
      caffe::Net<float>* handle_to_ptr<caffe::Net<float> >(mxArray_tag const*) in caffe_.o
      mxArray_tag* ptr_vec_to_handle_vec<caffe::Blob<float> >(std::__1::vector<boost::shared_ptr<caffe::Blob<float> >, std::__1::allocator<boost::shared_ptr<caffe::Blob<float> > > > const&) in caffe_.o
      ...
  "_mxGetDimensions_700", referenced from:
      write_mean(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
  "_mxGetField_700", referenced from:
      caffe::Solver<float>* handle_to_ptr<caffe::Solver<float> >(mxArray_tag const*) in caffe_.o
      caffe::Net<float>* handle_to_ptr<caffe::Net<float> >(mxArray_tag const*) in caffe_.o
      caffe::Layer<float>* handle_to_ptr<caffe::Layer<float> >(mxArray_tag const*) in caffe_.o
      caffe::Blob<float>* handle_to_ptr<caffe::Blob<float> >(mxArray_tag const*) in caffe_.o
  "_mxGetNumberOfDimensions_700", referenced from:
      write_mean(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
  "_mxGetNumberOfElements", referenced from:
      blob_reshape(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      mx_mat_to_blob(mxArray_tag const*, caffe::Blob<float>*, WhichMemory) in caffe_.o
  "_mxGetPr", referenced from:
      net_get_attr(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      blob_get_shape(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      blob_reshape(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
  "_mxGetScalar", referenced from:
      solver_step(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      set_device(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      caffe::Solver<float>* handle_to_ptr<caffe::Solver<float> >(mxArray_tag const*) in caffe_.o
      caffe::Net<float>* handle_to_ptr<caffe::Net<float> >(mxArray_tag const*) in caffe_.o
      caffe::Layer<float>* handle_to_ptr<caffe::Layer<float> >(mxArray_tag const*) in caffe_.o
      caffe::Blob<float>* handle_to_ptr<caffe::Blob<float> >(mxArray_tag const*) in caffe_.o
  "_mxIsChar", referenced from:
      get_solver(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      solver_restore(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      get_net(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      net_copy_from(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      net_save(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      read_mean(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      write_mean(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      ...
  "_mxIsDouble", referenced from:
      solver_step(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      blob_reshape(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      set_device(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
  "_mxIsSingle", referenced from:
      blob_set_data(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      blob_set_diff(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      write_mean(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
  "_mxIsStruct", referenced from:
      solver_get_attr(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      solver_get_iter(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      solver_restore(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      solver_solve(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      solver_step(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      net_get_attr(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      net_forward(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      ...
  "_mxIsUint64", referenced from:
      caffe::Solver<float>* handle_to_ptr<caffe::Solver<float> >(mxArray_tag const*) in caffe_.o
      caffe::Net<float>* handle_to_ptr<caffe::Net<float> >(mxArray_tag const*) in caffe_.o
      caffe::Layer<float>* handle_to_ptr<caffe::Layer<float> >(mxArray_tag const*) in caffe_.o
      caffe::Blob<float>* handle_to_ptr<caffe::Blob<float> >(mxArray_tag const*) in caffe_.o
  "_mxSetCell_700", referenced from:
      str_vec_to_mx_strcell(std::__1::vector<std::__1::basic_string<char, std::__1::char_traits<char>, std::__1::allocator<char> >, std::__1::allocator<std::__1::basic_string<char, std::__1::char_traits<char>, std::__1::allocator<char> > > > const&) in caffe_.o
  "_mxSetField_700", referenced from:
      get_solver(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      solver_get_attr(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      get_net(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      net_get_attr(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      layer_get_attr(int, mxArray_tag**, int, mxArray_tag const**) in caffe_.o
      mxArray_tag* ptr_vec_to_handle_vec<caffe::Blob<float> >(std::__1::vector<boost::shared_ptr<caffe::Blob<float> >, std::__1::allocator<boost::shared_ptr<caffe::Blob<float> > > > const&) in caffe_.o
ld: symbol(s) not found for architecture x86_64
clang: error: linker command failed with exit code 1 (use -v to see invocation)

make: *** [matlab/+caffe/private/caffe_.mexmaci64] Error 255

[UsamaShafiq91]

Do anybody resolve this issue. I also come across this problem on MacOs.

[ronghanghu]

See https://groups.google.com/forum/?utm_medium=email&utm_source=footer#!msg/caffe-users/1sVAqSDLvpk/r9LMUXp7EgAJ

[ssahu]

also needed to add /usr/local/lib /Applications/MATLAB_R2015b.app/bin/maci64 in LIBRARY_DIRS in Makefile.config

LIBRARY_DIRS := $(PYTHON_LIB) /usr/local/lib /Applications/MATLAB_R2015b.app/bin/maci64 /usr/lib

thanks @ronghanghu for your help.