Error when installing

Question

Error when installing

Closed this issue 2 years ago · 8 comments

Hello, thanks for sharing your code.

I've tried to install pyceres but got next output

Obtaining file:///home/daddywesker/3rdPrtyLibs/pyceres
Requirement already satisfied: numpy in /home/daddywesker/anaconda3/envs/AvatarCLIP/lib/python3.7/site-packages (from pyceres==0.0.0) (1.21.5)
Installing collected packages: pyceres
  Running setup.py develop for pyceres
    ERROR: Command errored out with exit status 1:
     command: /home/daddywesker/anaconda3/envs/AvatarCLIP/bin/python -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/home/daddywesker/3rdPrtyLibs/pyceres/setup.py'"'"'; __file__='"'"'/home/daddywesker/3rdPrtyLibs/pyceres/setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' develop --no-deps
         cwd: /home/daddywesker/3rdPrtyLibs/pyceres/
    Complete output (181 lines):
    running develop
    running egg_info
    creating pyceres.egg-info
    writing pyceres.egg-info/PKG-INFO
    writing dependency_links to pyceres.egg-info/dependency_links.txt
    writing requirements to pyceres.egg-info/requires.txt
    writing top-level names to pyceres.egg-info/top_level.txt
    writing manifest file 'pyceres.egg-info/SOURCES.txt'
    reading manifest file 'pyceres.egg-info/SOURCES.txt'
    writing manifest file 'pyceres.egg-info/SOURCES.txt'
    running build_ext
    -- The C compiler identification is GNU 9.4.0
    -- The CXX compiler identification is GNU 9.4.0
    -- Detecting C compiler ABI info
    -- Detecting C compiler ABI info - done
    -- Check for working C compiler: /usr/bin/cc - skipped
    -- Detecting C compile features
    -- Detecting C compile features - done
    -- Detecting CXX compiler ABI info
    -- Detecting CXX compiler ABI info - done
    -- Check for working CXX compiler: /usr/bin/c++ - skipped
    -- Detecting CXX compile features
    -- Detecting CXX compile features - done
    -- Found METIS: /usr/include (found suitable version "5.1.0", minimum required is "5.1.0")
    -- Looking for pthread.h
    -- Looking for pthread.h - found
    -- Performing Test CMAKE_HAVE_LIBC_PTHREAD
    -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Failed
    -- Looking for pthread_create in pthreads
    -- Looking for pthread_create in pthreads - not found
    -- Looking for pthread_create in pthread
    -- Looking for pthread_create in pthread - found
    -- Found Threads: TRUE
    -- Found AMD headers in: /usr/include/suitesparse
    -- Found AMD library: /usr/lib/x86_64-linux-gnu/libamd.so
    -- Found CAMD headers in: /usr/include/suitesparse
    -- Found CAMD library: /usr/lib/x86_64-linux-gnu/libcamd.so
    -- Found CCOLAMD headers in: /usr/include/suitesparse
    -- Found CCOLAMD library: /usr/lib/x86_64-linux-gnu/libccolamd.so
    -- Found CHOLMOD headers in: /usr/include/suitesparse
    -- Found CHOLMOD library: /usr/lib/x86_64-linux-gnu/libcholmod.so
    -- Found COLAMD headers in: /usr/include/suitesparse
    -- Found COLAMD library: /usr/lib/x86_64-linux-gnu/libcolamd.so
    -- Found SPQR headers in: /usr/include/suitesparse
    -- Found SPQR library: /usr/lib/x86_64-linux-gnu/libspqr.so
    -- Found Config headers in: /usr/include/suitesparse
    -- Found Config library: /usr/lib/x86_64-linux-gnu/libsuitesparseconfig.so
    -- Found Intel Thread Building Blocks (TBB) library (2020.1 / 11101) include location: . Assuming SuiteSparseQR was compiled with TBB.
    -- Looking for shm_open in rt
    -- Looking for shm_open in rt - found
    -- Adding librt to SuiteSparse_config libraries (required on Linux & Unix [not OSX] if SuiteSparse is compiled with timing).
    -- Found METIS: /usr/include (found version "5.1.0")
    -- Looking for cholmod_metis
    -- Looking for cholmod_metis - found
    -- Found SuiteSparse: /usr/include/suitesparse (found suitable version "5.7.1", minimum required is "5.7.1") found components: AMD CAMD CCOLAMD CHOLMOD COLAMD SPQR Config
    -- Found CUDAToolkit: /usr/local/cuda-11.3/include (found suitable version "11.3.58", minimum required is "11.3.58")
    -- Found required Ceres dependency: Eigen version 3.3.7 in /usr/lib/cmake/eigen3
    -- Found required Ceres dependency: glog
    -- Found required Ceres dependency: gflags
    -- Found Ceres version: 2.2.0 installed in: /usr/local with components: [EigenSparse, SparseLinearAlgebraLibrary, LAPACK, SuiteSparse, SchurSpecializations, Multithreading]
    -- Found METIS: /usr/include (found suitable version "5.1.0", minimum required is "5.1.0")
    -- Found AMD headers in: /usr/include/suitesparse
    -- Found AMD library: /usr/lib/x86_64-linux-gnu/libamd.so
    -- Found CAMD headers in: /usr/include/suitesparse
    -- Found CAMD library: /usr/lib/x86_64-linux-gnu/libcamd.so
    -- Found CCOLAMD headers in: /usr/include/suitesparse
    -- Found CCOLAMD library: /usr/lib/x86_64-linux-gnu/libccolamd.so
    -- Found CHOLMOD headers in: /usr/include/suitesparse
    -- Found CHOLMOD library: /usr/lib/x86_64-linux-gnu/libcholmod.so
    -- Found COLAMD headers in: /usr/include/suitesparse
    -- Found COLAMD library: /usr/lib/x86_64-linux-gnu/libcolamd.so
    -- Found SPQR headers in: /usr/include/suitesparse
    -- Found SPQR library: /usr/lib/x86_64-linux-gnu/libspqr.so
    -- Found Config headers in: /usr/include/suitesparse
    -- Found Config library: /usr/lib/x86_64-linux-gnu/libsuitesparseconfig.so
    -- Found Intel Thread Building Blocks (TBB) library (2020.1 / 11101) include location: . Assuming SuiteSparseQR was compiled with TBB.
    -- Adding librt to SuiteSparse_config libraries (required on Linux & Unix [not OSX] if SuiteSparse is compiled with timing).
    -- Found METIS: /usr/include (found version "5.1.0")
    -- Found required Ceres dependency: Eigen version 3.3.7 in /usr/lib/cmake/eigen3
    CMake Error at /usr/local/lib/cmake/Ceres/FindGlog.cmake:349 (add_library):
      add_library cannot create imported target "glog::glog" because another
      target with the same name already exists.
    Call Stack (most recent call first):
      /usr/local/lib/cmake/Ceres/CeresConfig.cmake:248 (find_package)
      /usr/local/share/colmap/COLMAPConfig.cmake:92 (find_package)
      CMakeLists.txt:14 (find_package)
    
    
    -- Found required Ceres dependency: glog
    -- Found required Ceres dependency: gflags
    -- Found Ceres version: 2.2.0 installed in: /usr/local with components: [EigenSparse, SparseLinearAlgebraLibrary, LAPACK, SuiteSparse, SchurSpecializations, Multithreading]
    -- Found Boost: /usr/lib/x86_64-linux-gnu/cmake/Boost-1.71.0/BoostConfig.cmake (found version "1.71.0") found components: program_options filesystem system unit_test_framework
    -- Found Eigen3: /usr/include/eigen3 (Required is at least version "2.91.0")
    -- Found Eigen
    --   Includes : /usr/include/eigen3
    -- Found FreeImage
    --   Includes : /usr/include
    --   Libraries : /usr/lib/x86_64-linux-gnu/libfreeimage.so
    -- Found Glog
    --   Includes : /usr/include
    --   Libraries : /usr/lib/x86_64-linux-gnu/libglog.so
    CMake Warning (dev) at /opt/cmake-3.22.0-linux-x86_64/share/cmake-3.22/Modules/FindOpenGL.cmake:315 (message):
      Policy CMP0072 is not set: FindOpenGL prefers GLVND by default when
      available.  Run "cmake --help-policy CMP0072" for policy details.  Use the
      cmake_policy command to set the policy and suppress this warning.
    
      FindOpenGL found both a legacy GL library:
    
        OPENGL_gl_LIBRARY: /usr/lib/x86_64-linux-gnu/libGL.so
    
      and GLVND libraries for OpenGL and GLX:
    
        OPENGL_opengl_LIBRARY: /usr/lib/x86_64-linux-gnu/libOpenGL.so
        OPENGL_glx_LIBRARY: /usr/lib/x86_64-linux-gnu/libGLX.so
    
      OpenGL_GL_PREFERENCE has not been set to "GLVND" or "LEGACY", so for
      compatibility with CMake 3.10 and below the legacy GL library will be used.
    Call Stack (most recent call first):
      /usr/local/share/colmap/COLMAPConfig.cmake:109 (find_package)
      CMakeLists.txt:14 (find_package)
    This warning is for project developers.  Use -Wno-dev to suppress it.
    
    -- Found OpenGL: /usr/lib/x86_64-linux-gnu/libOpenGL.so
    -- Found Glew
    --   Includes : /usr/include
    --   Libraries : /usr/lib/x86_64-linux-gnu/libGLEW.so
    -- Using header-only CGAL
    -- Targetting Unix Makefiles
    -- Using /usr/bin/c++ compiler.
    -- Found GMP: /usr/local/lib/libgmp.so
    -- Found MPFR: /usr/local/lib/libmpfr.so
    -- Found Boost: /usr/lib/x86_64-linux-gnu/cmake/Boost-1.71.0/BoostConfig.cmake (found suitable version "1.71.0", minimum required is "1.48")
    -- Boost include dirs: /usr/include
    -- Boost libraries:
    -- Using gcc version 4 or later. Adding -frounding-math
    -- pybind11 v2.8.1
    -- Found PythonInterp: /home/daddywesker/anaconda3/envs/AvatarCLIP/bin/python (found version "3.7.13")
    -- Found PythonLibs: /home/daddywesker/anaconda3/envs/AvatarCLIP/lib/libpython3.7m.so
    -- Performing Test HAS_FLTO
    -- Performing Test HAS_FLTO - Success
    -- Configuring incomplete, errors occurred!
    See also "/home/daddywesker/3rdPrtyLibs/pyceres/build/temp.linux-x86_64-3.7/CMakeFiles/CMakeOutput.log".
    See also "/home/daddywesker/3rdPrtyLibs/pyceres/build/temp.linux-x86_64-3.7/CMakeFiles/CMakeError.log".
    ['cmake', '/home/daddywesker/3rdPrtyLibs/pyceres', '-DCMAKE_LIBRARY_OUTPUT_DIRECTORY=/home/daddywesker/3rdPrtyLibs/pyceres', '-DPYTHON_EXECUTABLE=/home/daddywesker/anaconda3/envs/AvatarCLIP/bin/python', '-DVERSION_INFO=0.0.0', '-DCMAKE_BUILD_TYPE=Release']
    /home/daddywesker/anaconda3/envs/AvatarCLIP/lib/python3.7/site-packages/setuptools/command/easy_install.py:147: EasyInstallDeprecationWarning: easy_install command is deprecated. Use build and pip and other standards-based tools.
      EasyInstallDeprecationWarning,
    /home/daddywesker/anaconda3/envs/AvatarCLIP/lib/python3.7/site-packages/setuptools/command/install.py:37: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools.
      setuptools.SetuptoolsDeprecationWarning,
    Traceback (most recent call last):
      File "<string>", line 1, in <module>
      File "/home/daddywesker/3rdPrtyLibs/pyceres/setup.py", line 91, in <module>
        install_requires=['numpy'],
      File "/home/daddywesker/anaconda3/envs/AvatarCLIP/lib/python3.7/site-packages/setuptools/__init__.py", line 87, in setup
        return distutils.core.setup(**attrs)
      File "/home/daddywesker/anaconda3/envs/AvatarCLIP/lib/python3.7/site-packages/setuptools/_distutils/core.py", line 148, in setup
        return run_commands(dist)
      File "/home/daddywesker/anaconda3/envs/AvatarCLIP/lib/python3.7/site-packages/setuptools/_distutils/core.py", line 163, in run_commands
        dist.run_commands()
      File "/home/daddywesker/anaconda3/envs/AvatarCLIP/lib/python3.7/site-packages/setuptools/_distutils/dist.py", line 967, in run_commands
        self.run_command(cmd)
      File "/home/daddywesker/anaconda3/envs/AvatarCLIP/lib/python3.7/site-packages/setuptools/dist.py", line 1214, in run_command
        super().run_command(command)
      File "/home/daddywesker/anaconda3/envs/AvatarCLIP/lib/python3.7/site-packages/setuptools/_distutils/dist.py", line 986, in run_command
        cmd_obj.run()
      File "/home/daddywesker/anaconda3/envs/AvatarCLIP/lib/python3.7/site-packages/setuptools/command/develop.py", line 34, in run
        self.install_for_development()
      File "/home/daddywesker/anaconda3/envs/AvatarCLIP/lib/python3.7/site-packages/setuptools/command/develop.py", line 114, in install_for_development
        self.run_command('build_ext')
      File "/home/daddywesker/anaconda3/envs/AvatarCLIP/lib/python3.7/site-packages/setuptools/_distutils/cmd.py", line 313, in run_command
        self.distribution.run_command(command)
      File "/home/daddywesker/anaconda3/envs/AvatarCLIP/lib/python3.7/site-packages/setuptools/dist.py", line 1214, in run_command
        super().run_command(command)
      File "/home/daddywesker/anaconda3/envs/AvatarCLIP/lib/python3.7/site-packages/setuptools/_distutils/dist.py", line 986, in run_command
        cmd_obj.run()
      File "/home/daddywesker/3rdPrtyLibs/pyceres/setup.py", line 34, in run
        self.build_extension(ext)
      File "/home/daddywesker/3rdPrtyLibs/pyceres/setup.py", line 76, in build_extension
        subprocess.check_call(['cmake', ext.sourcedir] + cmake_args, cwd=self.build_temp, env=env)
      File "/home/daddywesker/anaconda3/envs/AvatarCLIP/lib/python3.7/subprocess.py", line 363, in check_call
        raise CalledProcessError(retcode, cmd)
    subprocess.CalledProcessError: Command '['cmake', '/home/daddywesker/3rdPrtyLibs/pyceres', '-DCMAKE_LIBRARY_OUTPUT_DIRECTORY=/home/daddywesker/3rdPrtyLibs/pyceres', '-DPYTHON_EXECUTABLE=/home/daddywesker/anaconda3/envs/AvatarCLIP/bin/python', '-DVERSION_INFO=0.0.0', '-DCMAKE_BUILD_TYPE=Release']' returned non-zero exit status 1.
    ----------------------------------------
ERROR: Command errored out with exit status 1: /home/daddywesker/anaconda3/envs/AvatarCLIP/bin/python -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/home/daddywesker/3rdPrtyLibs/pyceres/setup.py'"'"'; __file__='"'"'/home/daddywesker/3rdPrtyLibs/pyceres/setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' develop --no-deps Check the logs for full command output.

In one of the logs error mentioned

/usr/bin/ld: CMakeFiles/cmTC_29694.dir/CheckFunctionExists.c.o: in function `main':
CheckFunctionExists.c:(.text+0x14): undefined reference to `sgemm_'

I've tried to add

find_package(LAPACK REQUIRED)
find_package(BLAS REQUIRED)
target_link_libraries(pyceres PRIVATE ${PYCERES_LIBRARIES} ${LAPACK_LIBRARIES} ${BLAS_LIBRARIES})

in CMakeLists.txt as it suggested on some sites for this problem but it doesn't help. Any suggestions?

I'm on Linux Mint 20, forgot to say.

Answer 1 · 2022-11-14T09:02:48.000Z

I've tried to cmake build this repo to see what else could i know about an issue. Here is what i've got after cmake ..

CMake Error at /usr/local/lib/cmake/Ceres/FindGlog.cmake:349 (add_library):
  add_library cannot create imported target "glog::glog" because another
  target with the same name already exists.
Call Stack (most recent call first):
  /usr/local/lib/cmake/Ceres/CeresConfig.cmake:248 (find_package)
  /usr/local/share/colmap/COLMAPConfig.cmake:92 (find_package)
  CMakeLists.txt:16 (find_package)

Unfortunately, i don't know how to beat it.

Answer 2 · 2022-11-14T10:13:50.000Z

O'kay, i've fixed installation by commenting those lines

find_package(Ceres 2.1 REQUIRED)
if(${CERES_VERSION} VERSION_LESS "2.2.0")
    set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -std=c++14")
else()
    set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -std=c++17")
endif()

Since ceres is already been imported in find_package(COLMAP REQUIRED) because colmap requires ceres. Now i need to check if it is launching.

Answer 3 · 2022-11-14T10:23:25.000Z

Well, both examples are working. I guess, selfsolved issue.

Answer 4 · 2023-07-13T07:25:35.000Z

hello ! i want to ask for where these code were modified from？

Answer 5 · 2023-07-13T07:36:16.000Z

Sorry, I'm not getting what modified codes you are telling about? All I've done is this:

O'kay, i've fixed installation by commenting those lines
find_package(Ceres 2.1 REQUIRED)
if(${CERES_VERSION} VERSION_LESS "2.2.0")
    set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -std=c++14")
else()
    set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -std=c++17")
endif()
Since ceres is already been imported in find_package(COLMAP REQUIRED) because colmap requires ceres. Now i need to check if it is launching.

Answer 6 · 2023-07-13T07:42:22.000Z

Which file is these code you annotated in?

…

------------------ 原始邮件 ------------------ 发件人: ***@***.***>; 发送时间: 2023年7月13日(星期四) 下午3:36 收件人: ***@***.***>; 抄送: ***@***.***>; ***@***.***>; 主题: Re: [cvg/pyceres] Error when installing (Issue #9) Sorry, I'm not getting what modified codes you are telling about? All I've done is this: O'kay, i've fixed installation by commenting those lines find_package(Ceres 2.1 REQUIRED) if(${CERES_VERSION} VERSION_LESS "2.2.0") set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -std=c++14") else() set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -std=c++17") endif() Since ceres is already been imported in find_package(COLMAP REQUIRED) because colmap requires ceres. Now i need to check if it is launching. — Reply to this email directly, view it on GitHub, or unsubscribe. You are receiving this because you commented.Message ID: ***@***.***>

Answer 7 · 2023-07-13T07:47:55.000Z

Unfortunately, I don't remember. And they've already updated repo since then and fixed this issue (#10)

Answer 8 · 2023-07-13T07:49:05.000Z

OK,thanks

…

------------------ 原始邮件 ------------------ 发件人: ***@***.***>; 发送时间: 2023年7月13日(星期四) 下午3:48 收件人: ***@***.***>; 抄送: ***@***.***>; ***@***.***>; 主题: Re: [cvg/pyceres] Error when installing (Issue #9) Unfortunately, I don't remember. And they've already updated repo since then. — Reply to this email directly, view it on GitHub, or unsubscribe. You are receiving this because you commented.Message ID: ***@***.***>