python - Linux 上的 MATLAB MEX 文件无法在 libpython.2.7.so 中找到符号

Question

我一直在做一个项目，使用 libpython2.7.so 将 Python 解释器作为 MEX 文件嵌入到 MATLAB 中，但是每当我尝试导入作为扩展模块实现的 Python 模块时都会遇到问题。例如，尝试导入itertools会导致以下错误：

>> py_import itertools
ImportError: /usr/lib64/python2.7/lib-dynload/itertoolsmodule.so: undefined symbol: PyTuple_Type
??? Error using ==> pymex_fns
Python exception inside py_import.

Error in ==> py_import at 24
    py_obj = pymex_fns(py_function_t.IMPORT, name);

无论我是否LD_LIBRARY_PATH在调用之前清除，都会发生此行为Py_Initialize()，并且从 MATLAB 中调用ldd（itertools.so在此示例中为）不会产生任何(not found)消息。下面，我粘贴了使用LD_DEBUG=libsset 运行 MATLAB 的结果，首先使用LD_LIBRARY_PATHMATLAB 的启动设置，然后setenv('LD_LIBRARY_PATH', '')在尝试导入之前运行之后。

我该如何解决这个问题，并允许动态加载扩展模块？

使用 MATLAB-default LD_LIBRARY_PATH：

>> py_import itertools           
      3018: find library=libpython2.7.so.1.0 [0]; searching
      3018:  search path=/usr/local/MATLAB/R2011a/bin/glnxa64/../../bin/glnxa64:/usr/local/MATLAB/R2011a/bin/glnxa64:/usr/local/MATLAB/R2011a/bin/glnxa64/../../sys/os/glnxa64      (RPATH from file /usr/local/MATLAB/R2011a/bin/glnxa64/MATLAB)
      3018:   trying file=/usr/local/MATLAB/R2011a/bin/glnxa64/../../bin/glnxa64/libpython2.7.so.1.0
      3018:   trying file=/usr/local/MATLAB/R2011a/bin/glnxa64/libpython2.7.so.1.0
      3018:   trying file=/usr/local/MATLAB/R2011a/bin/glnxa64/../../sys/os/glnxa64/libpython2.7.so.1.0
      3018:  search path=/usr/local/MATLAB/R2011a/sys/os/glnxa64        (LD_LIBRARY_PATH)
      3018:   trying file=/usr/local/MATLAB/R2011a/sys/os/glnxa64/libpython2.7.so.1.0
      3018:  search path=/usr/local/MATLAB/R2011a/bin/glnxa64       (RPATH from file /usr/local/MATLAB/R2011a/bin/glnxa64/MATLAB)
      3018:   trying file=/usr/local/MATLAB/R2011a/bin/glnxa64/libpython2.7.so.1.0
      3018:  search path=/usr/local/MATLAB/R2011a/extern/lib/glnxa64:/usr/local/MATLAB/R2011a/runtime/glnxa64:/usr/local/MATLAB/R2011a/sys/java/jre/glnxa64/jre/lib/amd64/native_threads:/usr/local/MATLAB/R2011a/sys/java/jre/glnxa64/jre/lib/amd64/server:/usr/local/MATLAB/R2011a/sys/java/jre/glnxa64/jre/lib/amd64     (LD_LIBRARY_PATH)
      3018:   trying file=/usr/local/MATLAB/R2011a/extern/lib/glnxa64/libpython2.7.so.1.0
      3018:   trying file=/usr/local/MATLAB/R2011a/runtime/glnxa64/libpython2.7.so.1.0
      3018:   trying file=/usr/local/MATLAB/R2011a/sys/java/jre/glnxa64/jre/lib/amd64/native_threads/libpython2.7.so.1.0
      3018:   trying file=/usr/local/MATLAB/R2011a/sys/java/jre/glnxa64/jre/lib/amd64/server/libpython2.7.so.1.0
      3018:   trying file=/usr/local/MATLAB/R2011a/sys/java/jre/glnxa64/jre/lib/amd64/libpython2.7.so.1.0
      3018:  search cache=/etc/ld.so.cache
      3018:   trying file=/lib64/libpython2.7.so.1.0
      3018: 
      3018: find library=libutil.so.1 [0]; searching
      3018:  search path=/usr/local/MATLAB/R2011a/bin/glnxa64/../../bin/glnxa64:/usr/local/MATLAB/R2011a/bin/glnxa64:/usr/local/MATLAB/R2011a/bin/glnxa64/../../sys/os/glnxa64      (RPATH from file /usr/local/MATLAB/R2011a/bin/glnxa64/MATLAB)
      3018:   trying file=/usr/local/MATLAB/R2011a/bin/glnxa64/../../bin/glnxa64/libutil.so.1
      3018:   trying file=/usr/local/MATLAB/R2011a/bin/glnxa64/libutil.so.1
      3018:   trying file=/usr/local/MATLAB/R2011a/bin/glnxa64/../../sys/os/glnxa64/libutil.so.1
      3018:  search path=/usr/local/MATLAB/R2011a/sys/os/glnxa64        (LD_LIBRARY_PATH)
      3018:   trying file=/usr/local/MATLAB/R2011a/sys/os/glnxa64/libutil.so.1
      3018:  search path=/usr/local/MATLAB/R2011a/bin/glnxa64       (RPATH from file /usr/local/MATLAB/R2011a/bin/glnxa64/MATLAB)
      3018:   trying file=/usr/local/MATLAB/R2011a/bin/glnxa64/libutil.so.1
      3018:  search path=/usr/local/MATLAB/R2011a/extern/lib/glnxa64:/usr/local/MATLAB/R2011a/runtime/glnxa64:/usr/local/MATLAB/R2011a/sys/java/jre/glnxa64/jre/lib/amd64/native_threads:/usr/local/MATLAB/R2011a/sys/java/jre/glnxa64/jre/lib/amd64/server:/usr/local/MATLAB/R2011a/sys/java/jre/glnxa64/jre/lib/amd64     (LD_LIBRARY_PATH)
      3018:   trying file=/usr/local/MATLAB/R2011a/extern/lib/glnxa64/libutil.so.1
      3018:   trying file=/usr/local/MATLAB/R2011a/runtime/glnxa64/libutil.so.1
      3018:   trying file=/usr/local/MATLAB/R2011a/sys/java/jre/glnxa64/jre/lib/amd64/native_threads/libutil.so.1
      3018:   trying file=/usr/local/MATLAB/R2011a/sys/java/jre/glnxa64/jre/lib/amd64/server/libutil.so.1
      3018:   trying file=/usr/local/MATLAB/R2011a/sys/java/jre/glnxa64/jre/lib/amd64/libutil.so.1
      3018:  search cache=/etc/ld.so.cache
      3018:   trying file=/lib64/libutil.so.1
      3018: 
      3018: 
      3018: calling init: /lib64/libutil.so.1
      3018: 
      3018: 
      3018: calling init: /lib64/libpython2.7.so.1.0
      3018: 
      3018: 
      3018: calling init: /home/cgranade/academics/software-projects/pymex-embed/src/pymex_fns.mexa64
      3018: 
      3018: /home/cgranade/academics/software-projects/pymex-embed/src/pymex_fns.mexa64: error: symbol lookup error: undefined symbol: mexLibrary (fatal)
      3018: /usr/lib64/python2.7/lib-dynload/itertoolsmodule.so: error: symbol lookup error: undefined symbol: PyTuple_Type (fatal)
??? Error using ==> pymex_fns
Python exception inside py_import.

Error in ==> py_import at 24
    py_obj = pymex_fns(py_function_t.IMPORT, name);

清除LD_LIBRARY_PATH：

>> py_import itertools           
      3125: find library=libpython2.7.so.1.0 [0]; searching
      3125:  search path=/usr/local/MATLAB/R2011a/bin/glnxa64/../../bin/glnxa64:/usr/local/MATLAB/R2011a/bin/glnxa64:/usr/local/MATLAB/R2011a/bin/glnxa64/../../sys/os/glnxa64      (RPATH from file /usr/local/MATLAB/R2011a/bin/glnxa64/MATLAB)
      3125:   trying file=/usr/local/MATLAB/R2011a/bin/glnxa64/../../bin/glnxa64/libpython2.7.so.1.0
      3125:   trying file=/usr/local/MATLAB/R2011a/bin/glnxa64/libpython2.7.so.1.0
      3125:   trying file=/usr/local/MATLAB/R2011a/bin/glnxa64/../../sys/os/glnxa64/libpython2.7.so.1.0
      3125:  search path=/usr/local/MATLAB/R2011a/sys/os/glnxa64        (LD_LIBRARY_PATH)
      3125:   trying file=/usr/local/MATLAB/R2011a/sys/os/glnxa64/libpython2.7.so.1.0
      3125:  search path=/usr/local/MATLAB/R2011a/bin/glnxa64       (RPATH from file /usr/local/MATLAB/R2011a/bin/glnxa64/MATLAB)
      3125:   trying file=/usr/local/MATLAB/R2011a/bin/glnxa64/libpython2.7.so.1.0
      3125:  search path=/usr/local/MATLAB/R2011a/extern/lib/glnxa64:/usr/local/MATLAB/R2011a/runtime/glnxa64:/usr/local/MATLAB/R2011a/sys/java/jre/glnxa64/jre/lib/amd64/native_threads:/usr/local/MATLAB/R2011a/sys/java/jre/glnxa64/jre/lib/amd64/server:/usr/local/MATLAB/R2011a/sys/java/jre/glnxa64/jre/lib/amd64     (LD_LIBRARY_PATH)
      3125:   trying file=/usr/local/MATLAB/R2011a/extern/lib/glnxa64/libpython2.7.so.1.0
      3125:   trying file=/usr/local/MATLAB/R2011a/runtime/glnxa64/libpython2.7.so.1.0
      3125:   trying file=/usr/local/MATLAB/R2011a/sys/java/jre/glnxa64/jre/lib/amd64/native_threads/libpython2.7.so.1.0
      3125:   trying file=/usr/local/MATLAB/R2011a/sys/java/jre/glnxa64/jre/lib/amd64/server/libpython2.7.so.1.0
      3125:   trying file=/usr/local/MATLAB/R2011a/sys/java/jre/glnxa64/jre/lib/amd64/libpython2.7.so.1.0
      3125:  search cache=/etc/ld.so.cache
      3125:   trying file=/lib64/libpython2.7.so.1.0
      3125: 
      3125: find library=libutil.so.1 [0]; searching
      3125:  search path=/usr/local/MATLAB/R2011a/bin/glnxa64/../../bin/glnxa64:/usr/local/MATLAB/R2011a/bin/glnxa64:/usr/local/MATLAB/R2011a/bin/glnxa64/../../sys/os/glnxa64      (RPATH from file /usr/local/MATLAB/R2011a/bin/glnxa64/MATLAB)
      3125:   trying file=/usr/local/MATLAB/R2011a/bin/glnxa64/../../bin/glnxa64/libutil.so.1
      3125:   trying file=/usr/local/MATLAB/R2011a/bin/glnxa64/libutil.so.1
      3125:   trying file=/usr/local/MATLAB/R2011a/bin/glnxa64/../../sys/os/glnxa64/libutil.so.1
      3125:  search path=/usr/local/MATLAB/R2011a/sys/os/glnxa64        (LD_LIBRARY_PATH)
      3125:   trying file=/usr/local/MATLAB/R2011a/sys/os/glnxa64/libutil.so.1
      3125:  search path=/usr/local/MATLAB/R2011a/bin/glnxa64       (RPATH from file /usr/local/MATLAB/R2011a/bin/glnxa64/MATLAB)
      3125:   trying file=/usr/local/MATLAB/R2011a/bin/glnxa64/libutil.so.1
      3125:  search path=/usr/local/MATLAB/R2011a/extern/lib/glnxa64:/usr/local/MATLAB/R2011a/runtime/glnxa64:/usr/local/MATLAB/R2011a/sys/java/jre/glnxa64/jre/lib/amd64/native_threads:/usr/local/MATLAB/R2011a/sys/java/jre/glnxa64/jre/lib/amd64/server:/usr/local/MATLAB/R2011a/sys/java/jre/glnxa64/jre/lib/amd64     (LD_LIBRARY_PATH)
      3125:   trying file=/usr/local/MATLAB/R2011a/extern/lib/glnxa64/libutil.so.1
      3125:   trying file=/usr/local/MATLAB/R2011a/runtime/glnxa64/libutil.so.1
      3125:   trying file=/usr/local/MATLAB/R2011a/sys/java/jre/glnxa64/jre/lib/amd64/native_threads/libutil.so.1
      3125:   trying file=/usr/local/MATLAB/R2011a/sys/java/jre/glnxa64/jre/lib/amd64/server/libutil.so.1
      3125:   trying file=/usr/local/MATLAB/R2011a/sys/java/jre/glnxa64/jre/lib/amd64/libutil.so.1
      3125:  search cache=/etc/ld.so.cache
      3125:   trying file=/lib64/libutil.so.1
      3125: 
      3125: 
      3125: calling init: /lib64/libutil.so.1
      3125: 
      3125: 
      3125: calling init: /lib64/libpython2.7.so.1.0
      3125: 
      3125: 
      3125: calling init: /home/cgranade/academics/software-projects/pymex-embed/src/pymex_fns.mexa64
      3125: 
      3125: /home/cgranade/academics/software-projects/pymex-embed/src/pymex_fns.mexa64: error: symbol lookup error: undefined symbol: mexLibrary (fatal)
      3125: /usr/lib64/python2.7/lib-dynload/itertoolsmodule.so: error: symbol lookup error: undefined symbol: PyTuple_Type (fatal)

score 1 · Accepted Answer

尝试从 MATLAB 内部和系统 shell 上运行常规 python：

贝壳

$ LD_DEBUG_OUTPUT=./ld_debug_out LD_DEBUG=all python -c 'import numpy'

MATLAB

>> !LD_DEBUG_OUTPUT=./ld_debug_out LD_DEBUG=all python -c 'import numpy'

并检查输出文件（可能all信息太多了！）。注意我导入numpy了，因为itertools在我的安装中没有相应的共享库..

一种想法是在调用之前尝试在 MEX 函数中手动加载共享库Py_Initialize()：

dlopen('libpython2.7.so', RTLD_GLOBAL|RTLD_LAZY);

我在一台 Windows 机器上，但上次我玩这个时我也遇到了一些问题。我记得一旦导入，某些 C 扩展模块无法在同一个会话中卸载和重新加载（在嵌入 Python 的托管进程的生命周期内）。请参阅这些备注和相关PEP。

python - Linux 上的 MATLAB MEX 文件无法在 libpython.2.7.so 中找到符号

1 回答 1

贝壳

MATLAB

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