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DeltaGroupNJUPT / Vina-GPU-2.0

Vina-GPU 2.0 accelerates AutoDock Vina and its related commonly derived docking methods, such as QuickVina 2 and QuickVina-W with GPUs.
Apache License 2.0
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Error running Vina-GPU: libboost_program_options.so.1.77.0: cannot open shared object file #30

Closed Panzer-vor-08 closed 1 year ago

Panzer-vor-08 commented 1 year ago

I am using ubuntu 22.04 on wsl in windows11. when I followed the README instructions and finish compiling, I run the Vina-GPU generated by compiler and got this error message: ./Vina-GPU: error while loading shared libraries: libboost_program_options.so.1.77.0: cannot open shared object file: No such file or directory

this is the output of make debug :

gcc -o Vina-GPU -I../../boost_1_77_0 -I../../boost_1_77_0/boost  -I./lib -I./OpenCL/inc  -I/usr/local/cuda/include ./main/main.cpp -g ./lib/*.cpp ./OpenCL/src/wrapcl.cpp ../../boost_1_77_0/libs/thread/src/pthread/thread.cpp ../../boost_1_77_0/libs/thread/src/pthread/once.cpp  -lboost_program_options -lboost_system -lboost_filesystem -lOpenCL -lstdc++ -lstdc++fs -lm -lpthread -L../../boost_1_77_0/stage/lib -L/usr/local/cuda/lib64 -DOPENCL_3_0 -DNVIDIA_PLATFORM   -DBUILD_KERNEL_FROM_SOURCE
In file included from /usr/local/cuda/include/CL/opencl.h:24,
                 from ./OpenCL/inc/commonMacros.h:13,
                 from ./lib/monte_carlo.h:28,
                 from ./lib/parallel_mc.h:26,
                 from ./main/main.cpp:34:
/usr/local/cuda/include/CL/cl.h:26:104: note: ‘#pragma message: cl_version.h: CL_TARGET_OPENCL_VERSION is not defined. Defaulting to 300 (OpenCL 3.0)’
   26 | #pragma message("cl_version.h: CL_TARGET_OPENCL_VERSION is not defined. Defaulting to 300 (OpenCL 3.0)")
      |                                                                                                        ^
In file included from /usr/local/cuda/include/CL/opencl.h:24,
                 from ./OpenCL/inc/commonMacros.h:13,
                 from ./lib/cache.h:32,
                 from ./lib/cache.cpp:41:
/usr/local/cuda/include/CL/cl.h:26:104: note: ‘#pragma message: cl_version.h: CL_TARGET_OPENCL_VERSION is not defined. Defaulting to 300 (OpenCL 3.0)’
   26 | #pragma message("cl_version.h: CL_TARGET_OPENCL_VERSION is not defined. Defaulting to 300 (OpenCL 3.0)")
      |                                                                                                        ^
In file included from /usr/local/cuda/include/CL/opencl.h:24,
                 from ./OpenCL/inc/commonMacros.h:13,
                 from ./lib/cache.h:32,
                 from ./lib/main_procedure_cl.cpp:1:
/usr/local/cuda/include/CL/cl.h:26:104: note: ‘#pragma message: cl_version.h: CL_TARGET_OPENCL_VERSION is not defined. Defaulting to 300 (OpenCL 3.0)’
   26 | #pragma message("cl_version.h: CL_TARGET_OPENCL_VERSION is not defined. Defaulting to 300 (OpenCL 3.0)")
      |                                                                                                        ^
In file included from ../../boost_1_77_0/boost/config/header_deprecated.hpp:18,
                 from ../../boost_1_77_0/boost/progress.hpp:22,
                 from ./lib/main_procedure_cl.cpp:10:
../../boost_1_77_0/boost/config/pragma_message.hpp:24:34: note: ‘#pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> or <boost/timer/progress_display.hpp> instead.’
   24 | # define BOOST_PRAGMA_MESSAGE(x) _Pragma(BOOST_STRINGIZE(message(x)))
      |                                  ^~~~~~~
../../boost_1_77_0/boost/config/pragma_message.hpp:24:34: note: in definition of macro ‘BOOST_PRAGMA_MESSAGE’
   24 | # define BOOST_PRAGMA_MESSAGE(x) _Pragma(BOOST_STRINGIZE(message(x)))
      |                                  ^~~~~~~
../../boost_1_77_0/boost/progress.hpp:23:1: note: in expansion of macro ‘BOOST_HEADER_DEPRECATED’
   23 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp> or <boost/timer/progress_display.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
../../boost_1_77_0/boost/config/pragma_message.hpp:24:34: note: ‘#pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.’
   24 | # define BOOST_PRAGMA_MESSAGE(x) _Pragma(BOOST_STRINGIZE(message(x)))
      |                                  ^~~~~~~
../../boost_1_77_0/boost/config/pragma_message.hpp:24:34: note: in definition of macro ‘BOOST_PRAGMA_MESSAGE’
   24 | # define BOOST_PRAGMA_MESSAGE(x) _Pragma(BOOST_STRINGIZE(message(x)))
      |                                  ^~~~~~~
../../boost_1_77_0/boost/timer.hpp:21:1: note: in expansion of macro ‘BOOST_HEADER_DEPRECATED’
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/local/cuda/include/CL/opencl.h:24,
                 from ./OpenCL/inc/commonMacros.h:13,
                 from ./lib/monte_carlo.h:28,
                 from ./lib/monte_carlo.cpp:23:
/usr/local/cuda/include/CL/cl.h:26:104: note: ‘#pragma message: cl_version.h: CL_TARGET_OPENCL_VERSION is not defined. Defaulting to 300 (OpenCL 3.0)’
   26 | #pragma message("cl_version.h: CL_TARGET_OPENCL_VERSION is not defined. Defaulting to 300 (OpenCL 3.0)")
      |                                                                                                        ^
In file included from /usr/local/cuda/include/CL/opencl.h:24,
                 from ./OpenCL/inc/commonMacros.h:13,
                 from ./lib/monte_carlo.h:28,
                 from ./lib/parallel_mc.h:26,
                 from ./lib/parallel_mc.cpp:24:
/usr/local/cuda/include/CL/cl.h:26:104: note: ‘#pragma message: cl_version.h: CL_TARGET_OPENCL_VERSION is not defined. Defaulting to 300 (OpenCL 3.0)’
   26 | #pragma message("cl_version.h: CL_TARGET_OPENCL_VERSION is not defined. Defaulting to 300 (OpenCL 3.0)")
      |                                                                                                        ^
In file included from ../../boost_1_77_0/boost/smart_ptr/detail/sp_thread_sleep.hpp:22,
                 from ../../boost_1_77_0/boost/smart_ptr/detail/yield_k.hpp:23,
                 from ../../boost_1_77_0/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14,
                 from ../../boost_1_77_0/boost/smart_ptr/detail/spinlock.hpp:42,
                 from ../../boost_1_77_0/boost/smart_ptr/detail/spinlock_pool.hpp:25,
                 from ../../boost_1_77_0/boost/smart_ptr/shared_ptr.hpp:29,
                 from ../../boost_1_77_0/boost/shared_ptr.hpp:17,
                 from ../../boost_1_77_0/boost/date_time/time_clock.hpp:17,
                 from ../../boost_1_77_0/boost/thread/thread_time.hpp:9,
                 from ../../boost_1_77_0/boost/thread/lock_types.hpp:18,
                 from ../../boost_1_77_0/boost/thread/pthread/thread_data.hpp:12,
                 from ../../boost_1_77_0/boost/thread/thread_only.hpp:17,
                 from ../../boost_1_77_0/boost/thread/thread.hpp:12,
                 from ./lib/parallel.h:31,
                 from ./lib/parallel_mc.cpp:23:
../../boost_1_77_0/boost/config/pragma_message.hpp:24:34: note: ‘#pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> or <boost/timer/progress_display.hpp> instead.’
   24 | # define BOOST_PRAGMA_MESSAGE(x) _Pragma(BOOST_STRINGIZE(message(x)))
      |                                  ^~~~~~~
../../boost_1_77_0/boost/config/header_deprecated.hpp:23:37: note: in expansion of macro ‘BOOST_PRAGMA_MESSAGE’
   23 | # define BOOST_HEADER_DEPRECATED(a) BOOST_PRAGMA_MESSAGE("This header is deprecated. Use " a " instead.")
      |                                     ^~~~~~~~~~~~~~~~~~~~
../../boost_1_77_0/boost/progress.hpp:23:1: note: in expansion of macro ‘BOOST_HEADER_DEPRECATED’
   23 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp> or <boost/timer/progress_display.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
../../boost_1_77_0/boost/config/pragma_message.hpp:24:34: note: ‘#pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.’
   24 | # define BOOST_PRAGMA_MESSAGE(x) _Pragma(BOOST_STRINGIZE(message(x)))
      |                                  ^~~~~~~
../../boost_1_77_0/boost/config/header_deprecated.hpp:23:37: note: in expansion of macro ‘BOOST_PRAGMA_MESSAGE’
   23 | # define BOOST_HEADER_DEPRECATED(a) BOOST_PRAGMA_MESSAGE("This header is deprecated. Use " a " instead.")
      |                                     ^~~~~~~~~~~~~~~~~~~~
../../boost_1_77_0/boost/timer.hpp:21:1: note: in expansion of macro ‘BOOST_HEADER_DEPRECATED’
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
In file included from ../../boost_1_77_0/boost/config/header_deprecated.hpp:18,
                 from ../../boost_1_77_0/boost/progress.hpp:22,
                 from ./lib/parallel_progress.h:26,
                 from ./lib/parallel_progress.cpp:25:
../../boost_1_77_0/boost/config/pragma_message.hpp:24:34: note: ‘#pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> or <boost/timer/progress_display.hpp> instead.’
   24 | # define BOOST_PRAGMA_MESSAGE(x) _Pragma(BOOST_STRINGIZE(message(x)))
      |                                  ^~~~~~~
../../boost_1_77_0/boost/config/header_deprecated.hpp:23:37: note: in expansion of macro ‘BOOST_PRAGMA_MESSAGE’
   23 | # define BOOST_HEADER_DEPRECATED(a) BOOST_PRAGMA_MESSAGE("This header is deprecated. Use " a " instead.")
      |                                     ^~~~~~~~~~~~~~~~~~~~
../../boost_1_77_0/boost/progress.hpp:23:1: note: in expansion of macro ‘BOOST_HEADER_DEPRECATED’
   23 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp> or <boost/timer/progress_display.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
../../boost_1_77_0/boost/config/pragma_message.hpp:24:34: note: ‘#pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.’
   24 | # define BOOST_PRAGMA_MESSAGE(x) _Pragma(BOOST_STRINGIZE(message(x)))
      |                                  ^~~~~~~
../../boost_1_77_0/boost/config/header_deprecated.hpp:23:37: note: in expansion of macro ‘BOOST_PRAGMA_MESSAGE’
   23 | # define BOOST_HEADER_DEPRECATED(a) BOOST_PRAGMA_MESSAGE("This header is deprecated. Use " a " instead.")
      |                                     ^~~~~~~~~~~~~~~~~~~~
../../boost_1_77_0/boost/timer.hpp:21:1: note: in expansion of macro ‘BOOST_HEADER_DEPRECATED’
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/local/cuda/include/CL/opencl.h:24,
                 from ./OpenCL/inc/commonMacros.h:13,
                 from ./OpenCL/inc/wrapcl.h:2,
                 from ./OpenCL/src/wrapcl.cpp:1:
/usr/local/cuda/include/CL/cl.h:26:104: note: ‘#pragma message: cl_version.h: CL_TARGET_OPENCL_VERSION is not defined. Defaulting to 300 (OpenCL 3.0)’
   26 | #pragma message("cl_version.h: CL_TARGET_OPENCL_VERSION is not defined. Defaulting to 300 (OpenCL 3.0)")
      |                                                                                                        ^
./OpenCL/src/wrapcl.cpp: In function ‘void SetupQueue(_cl_command_queue**, cl_context, _cl_device_id**)’:
./OpenCL/src/wrapcl.cpp:334:34: warning: ‘_cl_command_queue* clCreateCommandQueue(cl_context, cl_device_id, cl_command_queue_properties, cl_int*)’ is deprecated [-Wdeprecated-declarations]
  334 |     *queue = clCreateCommandQueue(context, devices[0], *props, &err); checkErr(err);
      |              ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/local/cuda/include/CL/opencl.h:24,
                 from ./OpenCL/inc/commonMacros.h:13,
                 from ./OpenCL/inc/wrapcl.h:2,
                 from ./OpenCL/src/wrapcl.cpp:1:
/usr/local/cuda/include/CL/cl.h:1980:1: note: declared here
 1980 | clCreateCommandQueue(cl_context                     context,
      | ^~~~~~~~~~~~~~~~~~~~

do anyone using ubuntu on wsl have the same trouble?

Panzer-vor-08 commented 1 year ago

problem solved, same as https://github.com/DeltaGroupNJUPT/Vina-GPU/issues/24