Qfyilyi

I am trying to compile this library: https://github.com/dthuerck/culip but I get the following error during make:

[ 73%] Linking CXX executable culip-tests-la

/usr/bin/cmake -E cmake_link_script CMakeFiles/culip-tests-la.dir/link.txt --verbose=1

/usr/bin/c++    -fPIC -fopenmp -march=native -m64 -DGPU_BLAS -Wfatal-errors -O3   CMakeFiles/culip-tests-la.dir/tests/la/test_sparse.cc.o CMakeFiles/culip-tests-la.dir/tests/la/test_spmv.cc.o CMakeFiles/culip-tests-la.dir/tests/la/test_sqmr.cc.o  -o culip-tests-la  -L/gcc/home/sahmad/Desktop/culip/dependencies/mmio/lib -rdynamic /usr/local/cuda-9.1/lib64/libcudart_static.a -lpthread -ldl -lrt liblibutils.so liblibdatastructures.so liblibla.so liblibalgorithms.so -lmmio liblibtest.so -lblas -lhwloc -lgfortran -lblas -llapacke -lmmio ../dependencies/gtest/lib/libgtest.so ../dependencies/gtest/lib/libgtest_main.so /usr/local/cuda-9.1/lib64/libcudart_static.a -lpthread -ldl -lrt /usr/local/cuda-9.1/lib64/libcublas.so /usr/local/cuda-9.1/lib64/libcusparse.so /usr/local/cuda-9.1/lib64/libcusolver.so /usr/local/cuda-9.1/lib64/libcudadevrt.a -lblas -lhwloc -lgfortran -llapacke ../dependencies/gtest/lib/libgtest.so ../dependencies/gtest/lib/libgtest_main.so /usr/local/cuda-9.1/lib64/libcublas.so /usr/local/cuda-9.1/lib64/libcusparse.so /usr/local/cuda-9.1/lib64/libcusolver.so /usr/local/cuda-9.1/lib64/libcudadevrt.a /usr/local/cuda-9.1/lib64/libcudart_static.a -lpthread -ldl -lrt -Wl,-rpath,/gcc/home/sahmad/Desktop/culip/build:/gcc/home/sahmad/Desktop/culip/dependencies/mmio/lib:/gcc/home/sahmad/Desktop/culip/dependencies/gtest/lib:/usr/local/cuda-9.1/lib64 

/usr/bin/ld: /gcc/home/sahmad/Downloads/lapack-3.8.0/liblapacke.a(lapacke_dposv_work.o): undefined reference to symbol 'dposv_'

//usr/lib/libopenblas.so.0: error adding symbols: DSO missing from command line

collect2: error: ld returned 1 exit status

CMakeFiles/culip-tests-la.dir/build.make:171: recipe for target 'culip-tests-la' failed

make[2]: *** [culip-tests-la] Error 1

make[2]: Leaving directory '/gcc/home/sahmad/Desktop/culip/build'

CMakeFiles/Makefile2:72: recipe for target 'CMakeFiles/culip-tests-la.dir/all' failed

make[1]: *** [CMakeFiles/culip-tests-la.dir/all] Error 2

make[1]: Leaving directory '/gcc/home/sahmad/Desktop/culip/build'

Makefile:83: recipe for target 'all' failed

make: *** [all] Error 2

I know this is a common error and I've tried following other's solutions on similar errors but as I have little experience with Ubuntu and C++, I couldn't solve it. It's obviously some kind of linking error and I tried linking the libraries in a different order, but no luck yet.

I am working on Ubuntu 16.04 with gcc 5.4.0 and CUDA 9.1.

Any help would be greatly appreciated.

Lapacke is an interface to lapack: lapack is not embedded in lapacke. As a result, both need to be linked. Moreover, the order matters: all functions used in the library on the left must be defined by libraries on the right.
As a consequence, could you try to link -llapacke -llapack -lblas -lm?

More specifically, at some point in the test, the function dposv_ is called and this function is implemented in Lapack, not in Lapacke. Indeed, Lapacke contains an interface LAPACKE_dposv(), calling LAPACKE_dposv_work(), calling LAPACK_dposv(), that is LAPACK_GLOBAL(dposv,DPOSV), boiling down to dposv_ on your plateform.

In Cmake, if the lapack library is in your library search path, modifying the target_link_libraries() in the CMakeLists.txt could locally do the trick.

target_link_libraries(culip-tests-la lapacke lapack blas m)

The best way to go would be to add the following commands to the CMakeLists.txt to make sure that Blas and Lapack are installed and found:

find_package(BLAS REQUIRED)

find_package(LAPACK REQUIRED)

The last line sets flags like LAPACK_LIBRARIES and LAPACK_LINKER_FLAGS as defined in FindLAPACK.html and FindLAPACK.cmake. Then (As in CMake link atlas and llapack):

target_compile_options(culip-tests-la ${LAPACK_LINKER_FLAGS})

target_link_libraries(culip-tests-la lapacke ${LAPACK_LIBRARIES})

The line find_package(BLAS REQUIRED) is superfluous as it is almost the first thing done in FindLAPACK.cmake. Moreover the variable ${LAPACK_LIBRARIES} likely contains something like -llapack -lblas -lm or more. It can be printed by:

message( ${LAPACK_LIBRARIES} )