Fatal Python error: PyThreadState_Get: no current thread on MacOS 10.12.5

[imyourm8]

Last few lines from verbose output:

python -v -c 'from caffe2.python import core'

.............

import caffe2.python.extension_loader # precompiled from caffe2/python/extension_loader.pyc
WARNING:root:This caffe2 python run does not have GPU support. Will run in CPU only mode.
WARNING:root:Debug message: No module named caffe2_pybind11_state_gpu
dlopen("caffe2/python/caffe2_pybind11_state.so", a);
Fatal Python error: PyThreadState_Get: no current thread
Abort trap: 6

My .bash_profile lines:

export PATH=$PATH:$HOME/bin:/usr/local/bin
export PYTHONPATH=/usr/local:$PYTHONPATH
export PYTHONPATH=$PYTHONPATH:$HOME/Work/Projects/caffe2/build

Python version:

python -c 'import sys; print(sys.version)'
2.7.13 (default, Jun 23 2017, 11:27:19) 
[GCC 4.2.1 Compatible Apple LLVM 8.1.0 (clang-802.0.42)]

This is some lines from crash report:

Thread 0 Crashed:: Dispatch queue: com.apple.main-thread
0   libsystem_kernel.dylib          0x00007fffa47c8d42 __pthread_kill + 10
1   libsystem_pthread.dylib         0x00007fffa48b6457 pthread_kill + 90
2   libsystem_c.dylib               0x00007fffa472e420 abort + 129
3   org.python.python               0x0000000110c7e88e Py_FatalError + 49
4   org.python.python               0x0000000110c7dd88 PyThreadState_Get + 28
5   org.python.python               0x0000000110c7ac82 Py_InitModule4_64 + 62
6   caffe2_pybind11_state.so        0x000000010ff6eb80 initcaffe2_pybind11_state + 48
7   org.python.python               0x000000010eb19fbe _PyImport_LoadDynamicModule + 150
8   org.python.python               0x000000010eb18ce3 import_submodule + 280
9   org.python.python               0x000000010eb1885d load_next + 273
10  org.python.python               0x000000010eb1783f PyImport_ImportModuleLevel + 656
11  org.python.python               0x000000010eafb000 builtin___import__ + 124
12  org.python.python               0x000000010ea854c1 PyObject_Call + 98
13  org.python.python               0x000000010eb07eb4 PyEval_CallObjectWithKeywords + 166
14  org.python.python               0x000000010eb03b9c PyEval_EvalFrameEx + 15400
15  org.python.python               0x000000010eaffd7f PyEval_EvalCodeEx + 1621
16  org.python.python               0x000000010eaff724 PyEval_EvalCode + 32
17  org.python.python               0x000000010eb16361 PyImport_ExecCodeModuleEx + 219
18  org.python.python               0x000000010eb19237 load_source_module + 1063
19  org.python.python               0x000000010eb18ce3 import_submodule + 280
20  org.python.python               0x000000010eb1885d load_next + 273
21  org.python.python               0x000000010eb1783f PyImport_ImportModuleLevel + 656
22  org.python.python               0x000000010eafb000 builtin___import__ + 124
23  org.python.python               0x000000010ea854c1 PyObject_Call + 98
24  org.python.python               0x000000010eb07eb4 PyEval_CallObjectWithKeywords + 166
25  org.python.python               0x000000010eb03b9c PyEval_EvalFrameEx + 15400
26  org.python.python               0x000000010eaffd7f PyEval_EvalCodeEx + 1621
27  org.python.python               0x000000010eaff724 PyEval_EvalCode + 32
28  org.python.python               0x000000010eb16361 PyImport_ExecCodeModuleEx + 219
29  org.python.python               0x000000010eb19237 load_source_module + 1063
30  org.python.python               0x000000010eb18ce3 import_submodule + 280
31  org.python.python               0x000000010eb18ade ensure_fromlist + 345
32  org.python.python               0x000000010eb178ea PyImport_ImportModuleLevel + 827
33  org.python.python               0x000000010eafb000 builtin___import__ + 124
34  org.python.python               0x000000010ea854c1 PyObject_Call + 98
35  org.python.python               0x000000010eb07eb4 PyEval_CallObjectWithKeywords + 166
36  org.python.python               0x000000010eb03b9c PyEval_EvalFrameEx + 15400
37  org.python.python               0x000000010eaffd7f PyEval_EvalCodeEx + 1621
38  org.python.python               0x000000010eaff724 PyEval_EvalCode + 32
39  org.python.python               0x000000010eb16361 PyImport_ExecCodeModuleEx + 219
40  org.python.python               0x000000010eb19237 load_source_module + 1063
41  org.python.python               0x000000010eb18ce3 import_submodule + 280
42  org.python.python               0x000000010eb18ade ensure_fromlist + 345
43  org.python.python               0x000000010eb178ea PyImport_ImportModuleLevel + 827
44  org.python.python               0x000000010eafb000 builtin___import__ + 124
45  org.python.python               0x000000010ea854c1 PyObject_Call + 98
46  org.python.python               0x000000010eb07eb4 PyEval_CallObjectWithKeywords + 166
47  org.python.python               0x000000010eb03b9c PyEval_EvalFrameEx + 15400
48  org.python.python               0x000000010eaffd7f PyEval_EvalCodeEx + 1621
49  org.python.python               0x000000010eaff724 PyEval_EvalCode + 32
50  org.python.python               0x000000010eb2157d run_mod + 49
51  org.python.python               0x000000010eb21743 PyRun_StringFlags + 100
52  org.python.python               0x000000010eb21699 PyRun_SimpleStringFlags + 69
53  org.python.python               0x000000010eb3263c Py_Main + 2188
54  libdyld.dylib                   0x00007fffa469a235 start + 1

Compiled from sources without GPU support. Followed everything. Before i had python 2.6 and python 3 installed, i removed them. After that i rebuilt everything again. Still same error is produced. Thanks for advance.

[imyourm8]

This command is failing: from caffe2.python.caffe2_pybind11_state import *

[aaronmarkham]

That error can be fixed if you tweak your python bindings. Look here: https://caffe2.ai/docs/getting-started.html?platform=mac&configuration=compile#python-configuration And you'll probably need to use the install_name_tool to point the library to the right python like this: sudo install_name_tool -change libpython2.7.dylib ~/anaconda/lib/libpython2.7.dylib /usr/local/caffe2/python/caffe2_pybind11_state.so

[imyourm8]

Didnt help =(

sudo install_name_tool -change libpython2.7.dylib /usr/lib/libpython2.7.dylib /usr/local/caffe2/python/caffe2_pybind11_state.so

This is result of otool:

sudo otool -L /usr/local/caffe2/python/caffe2_pybind11_state.so
/usr/local/caffe2/python/caffe2_pybind11_state.so:
    @rpath/libCaffe2_CPU.dylib (compatibility version 0.0.0, current version 0.0.0)
    /usr/local/opt/protobuf/lib/libprotobuf.13.dylib (compatibility version 14.0.0, current version 14.0.0)
    /usr/local/opt/glog/lib/libglog.0.dylib (compatibility version 1.0.0, current version 1.0.0)
    /usr/local/opt/gflags/lib/libgflags.2.2.dylib (compatibility version 2.2.0, current version 2.2.0)
    /usr/local/opt/opencv/lib/libopencv_highgui.2.4.dylib (compatibility version 2.4.0, current version 2.4.13)
    /usr/local/opt/opencv/lib/libopencv_imgproc.2.4.dylib (compatibility version 2.4.0, current version 2.4.13)
    /System/Library/Frameworks/Python.framework/Versions/2.7/Python (compatibility version 2.7.0, current version 2.7.10)
    /usr/local/opt/opencv/lib/libopencv_core.2.4.dylib (compatibility version 2.4.0, current version 2.4.13)
    /usr/lib/libc++.1.dylib (compatibility version 1.0.0, current version 307.5.0)
    /usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current version 1238.50.2)

[joeblau]

I also ran into this same error. I've tried setting my LD_LIBRARY_PATH, DYLD_LIBRARY_PATH, using install_name_tooland I'm still seeing

WARNING:root:This caffe2 python run does not have GPU support. Will run in CPU only mode.
WARNING:root:Debug message: No module named caffe2_pybind11_state_gpu
dlopen("caffe2/python/caffe2_pybind11_state.so", a);
Fatal Python error: PyThreadState_Get: no current thread

[ShangxuanWu]

Hey I found the solution. I use pure python not anaconda or something else.

The cause of this problem is two versions existing in /usr/bin and /usr/local/bin

Luckily I got a whole new macbook. It only have one python 2.7.10 under /usr/bin and thus I didn't get this issue.

I have another macbook, which have two versions (2.7.13 under /usr/local/bin installed by brew)

The solution is to get rid of the 2.7.13 version. Then everything will be fine.

[NoviceZeng]

This is caused by linking a static version of libpython into ycmd's ycm_core.so. This leads to multiple copies of the python interpreter loaded when python loads ycmd_core.so and this messes up python's global state. The details aren't important.

The solution is that the version of Python linked and run against must be built with either --enable-shared or --enable-framework (on OS X). This is achieved as follows (NOTE: for Mac, replace --enable-shared with --enable-framework):

When building python from source: ./configure --enable-shared {options} When building python from pyenv: PYTHON_CONFIGURE_OPTS="--enable-shared" pyenv install {version}

[tdowgielewicz]

Hi. I konw it's not directly related to your post however google index high this post, and i was going back and back here. If you deal with this problem with anaconda on windows What have helped me is upgrading python

activate myEnv
conda update python

[ppwwyyxx]

This should have been fixed by https://github.com/pytorch/pytorch/commit/73f6715f4725a0723d8171d3131e09ac7abf0666 .

[vasily-v-ryabov]

@ppwwyyxx thanks a lot for pointing out to proper fix! It saved me several hours or maybe few days.