Comments (13)
AndreBiedenkapp
commented on July 18, 2024
We've never tested it on Mac OSX, only Ubuntu 16.04, 18.04 or ArchLinux.
Something I would recommend is to use at least Python3.4. Also, the pyrfr needs swig3.0. So the best thing would be to use conda to easily setup the environment.
Let me know if that solved the issue.
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abhinavs95
commented on July 18, 2024
Hi @AndreBiedenkapp I'm pasting the stacktrace below for your reference. I face this error when I try to create plots using fanova visualizer.
I am already using python 3.6 and swig 3.0.12 in a conda environment. I tried both installing from source and using pip.
This is the initial error I faced:
Traceback (most recent call last):
File "/anaconda3/envs/fanova/lib/python3.6/site-packages/pyrfr/regression.py", line 14, in swig_import_helper
return importlib.import_module(mname)
File "/anaconda3/envs/fanova/lib/python3.6/importlib/__init__.py", line 126, in import_module
return _bootstrap._gcd_import(name[level:], package, level)
File "<frozen importlib._bootstrap>", line 994, in _gcd_import
File "<frozen importlib._bootstrap>", line 971, in _find_and_load
File "<frozen importlib._bootstrap>", line 955, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 658, in _load_unlocked
File "<frozen importlib._bootstrap>", line 571, in module_from_spec
File "<frozen importlib._bootstrap_external>", line 922, in create_module
File "<frozen importlib._bootstrap>", line 219, in _call_with_frames_removed
ImportError: dlopen(/anaconda3/envs/fanova/lib/python3.6/site-packages/pyrfr/_regression.cpython-36m-darwin.so, 2): Symbol not found: __ZNKSt5ctypeIcE13_M_widen_initEv
Referenced from: /anaconda3/envs/fanova/lib/python3.6/site-packages/pyrfr/_regression.cpython-36m-darwin.so
Expected in: /usr/lib/libstdc++.6.dylib
in /anaconda3/envs/fanova/lib/python3.6/site-packages/pyrfr/_regression.cpython-36m-darwin.so
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "fanova-run-mnist.py", line 2, in <module>
from fanova import fANOVA
File "/anaconda3/envs/fanova/lib/python3.6/site-packages/fanova/__init__.py", line 1, in <module>
from fanova.fanova import *
File "/anaconda3/envs/fanova/lib/python3.6/site-packages/fanova/fanova.py", line 5, in <module>
import pyrfr.regression as reg
File "/anaconda3/envs/fanova/lib/python3.6/site-packages/pyrfr/regression.py", line 17, in <module>
_regression = swig_import_helper()
File "/anaconda3/envs/fanova/lib/python3.6/site-packages/pyrfr/regression.py", line 16, in swig_import_helper
return importlib.import_module('_regression')
File "/anaconda3/envs/fanova/lib/python3.6/importlib/__init__.py", line 126, in import_module
return _bootstrap._gcd_import(name[level:], package, level)
ModuleNotFoundError: No module named '_regression'
I tried to fix it by installing gcc after which I get the following:
2018-11-14 13:26:01.168 python[895:20002] -[NSApplication _setup:]: unrecognized selector sent to instance 0x7ff168de3a30
2018-11-14 13:26:01.170 python[895:20002] *** Terminating app due to uncaught exception 'NSInvalidArgumentException', reason: '-[NSApplication _setup:]: unrecognized selector sent to instance 0x7ff168de3a30'
*** First throw call stack:
(
0 CoreFoundation 0x00007fff328dd43d __exceptionPreprocess + 256
1 libobjc.A.dylib 0x00007fff5e7ea720 objc_exception_throw + 48
2 CoreFoundation 0x00007fff3295a255 -[NSObject(NSObject) __retain_OA] + 0
3 CoreFoundation 0x00007fff3287cad0 ___forwarding___ + 1486
4 CoreFoundation 0x00007fff3287c478 _CF_forwarding_prep_0 + 120
5 libtk8.6.dylib 0x000000011eba331d TkpInit + 413
6 libtk8.6.dylib 0x000000011eafb17e Initialize + 2622
7 _tkinter.cpython-36m-darwin.so 0x000000011e923a16 _tkinter_create + 1174
8 python 0x000000010b5c2088 _PyCFunction_FastCallDict + 200
9 python 0x000000010b698f4f call_function + 143
10 python 0x000000010b696abf _PyEval_EvalFrameDefault + 46847
11 python 0x000000010b68a209 _PyEval_EvalCodeWithName + 425
12 python 0x000000010b699b1c _PyFunction_FastCallDict + 364
13 python 0x000000010b5408b0 _PyObject_FastCallDict + 320
14 python 0x000000010b567fe8 method_call + 136
15 python 0x000000010b547efe PyObject_Call + 62
16 python 0x000000010b5e9385 slot_tp_init + 117
17 python 0x000000010b5ed8c1 type_call + 241
18 python 0x000000010b540821 _PyObject_FastCallDict + 177
19 python 0x000000010b548a67 _PyObject_FastCallKeywords + 327
20 python 0x000000010b699048 call_function + 392
21 python 0x000000010b696b6f _PyEval_EvalFrameDefault + 47023
22 python 0x000000010b69930c fast_function + 188
23 python 0x000000010b698fac call_function + 236
24 python 0x000000010b696abf _PyEval_EvalFrameDefault + 46847
25 python 0x000000010b68a209 _PyEval_EvalCodeWithName + 425
26 python 0x000000010b699b1c _PyFunction_FastCallDict + 364
27 python 0x000000010b5408b0 _PyObject_FastCallDict + 320
28 python 0x000000010b567fe8 method_call + 136
29 python 0x000000010b547efe PyObject_Call + 62
30 python 0x000000010b696cc0 _PyEval_EvalFrameDefault + 47360
31 python 0x000000010b68a209 _PyEval_EvalCodeWithName + 425
32 python 0x000000010b6993ba fast_function + 362
33 python 0x000000010b698fac call_function + 236
34 python 0x000000010b696abf _PyEval_EvalFrameDefault + 46847
35 python 0x000000010b69930c fast_function + 188
36 python 0x000000010b698fac call_function + 236
37 python 0x000000010b696abf _PyEval_EvalFrameDefault + 46847
38 python 0x000000010b68a209 _PyEval_EvalCodeWithName + 425
39 python 0x000000010b6993ba fast_function + 362
40 python 0x000000010b698fac call_function + 236
41 python 0x000000010b696abf _PyEval_EvalFrameDefault + 46847
42 python 0x000000010b68a209 _PyEval_EvalCodeWithName + 425
43 python 0x000000010b6993ba fast_function + 362
44 python 0x000000010b698fac call_function + 236
45 python 0x000000010b696abf _PyEval_EvalFrameDefault + 46847
46 python 0x000000010b68a209 _PyEval_EvalCodeWithName + 425
47 python 0x000000010b6993ba fast_function + 362
48 python 0x000000010b698fac call_function + 236
49 python 0x000000010b696b6f _PyEval_EvalFrameDefault + 47023
50 python 0x000000010b68a209 _PyEval_EvalCodeWithName + 425
51 python 0x000000010b6e2d4c PyRun_FileExFlags + 252
52 python 0x000000010b6e2224 PyRun_SimpleFileExFlags + 372
53 python 0x000000010b708d66 Py_Main + 3734
54 python 0x000000010b538929 main + 313
55 libdyld.dylib 0x00007fff5f8b8085 start + 1
)
libc++abi.dylib: terminating with uncaught exception of type NSException
Abort trap: 6
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AndreBiedenkapp
commented on July 18, 2024
Thank you for posting the trace.
You said that
[you] face this error when [you] try to create plots using fanova visualizer.
Does that mean that you can run the following minimal example?
from fanova import fANOVA
import numpy as np
X = np.random.randn(10, 2)
y = np.random.rand(10, 1)
f = fANOVA(X, y)
importances = f.quantify_importance([0, 1])
for k in importances:
print(k, importances[k])I would be very surprised if that were the case though.
From ImportError: dlopen(/anaconda3/envs/fanova/lib/python3.6/site-packages/pyrfr/_regression.cpython-36m-darwin.so, 2): Symbol not found: __ZNKSt5ctypeIcE13_M_widen_initEv I'm guessing that something went wrong with swigging the pyrfr.
Could you only install pyrfr (through pip) in a new&clean conda environment and run
from pyrfr import regressionFrom that could you please send me the output that you get when installing pyrfr and (if an error occurs) also the trace again?
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abhinavs95
commented on July 18, 2024
Does that mean that you can run the following minimal example?
Yes I can run the minimal example you posted above with no errors.
Could you only install pyrfr (through pip) in a new&clean conda environment and run
I could install pyrfr with no errors. Importing the regression package from pyrfr gives me the following (looks like the initial error I encountered):
>>> from pyrfr import regression
Traceback (most recent call last):
File "/anaconda3/envs/f-test/lib/python3.6/site-packages/pyrfr/regression.py", line 14, in swig_import_helper
return importlib.import_module(mname)
File "/anaconda3/envs/f-test/lib/python3.6/importlib/__init__.py", line 126, in import_module
return _bootstrap._gcd_import(name[level:], package, level)
File "<frozen importlib._bootstrap>", line 994, in _gcd_import
File "<frozen importlib._bootstrap>", line 971, in _find_and_load
File "<frozen importlib._bootstrap>", line 955, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 658, in _load_unlocked
File "<frozen importlib._bootstrap>", line 571, in module_from_spec
File "<frozen importlib._bootstrap_external>", line 922, in create_module
File "<frozen importlib._bootstrap>", line 219, in _call_with_frames_removed
ImportError: dlopen(/anaconda3/envs/f-test/lib/python3.6/site-packages/pyrfr/_regression.cpython-36m-darwin.so, 2): Symbol not found: __ZNKSt5ctypeIcE13_M_widen_initEv
Referenced from: /anaconda3/envs/f-test/lib/python3.6/site-packages/pyrfr/_regression.cpython-36m-darwin.so
Expected in: /usr/lib/libstdc++.6.dylib
in /anaconda3/envs/f-test/lib/python3.6/site-packages/pyrfr/_regression.cpython-36m-darwin.so
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
File "/anaconda3/envs/f-test/lib/python3.6/site-packages/pyrfr/regression.py", line 17, in <module>
_regression = swig_import_helper()
File "/anaconda3/envs/f-test/lib/python3.6/site-packages/pyrfr/regression.py", line 16, in swig_import_helper
return importlib.import_module('_regression')
File "/anaconda3/envs/f-test/lib/python3.6/importlib/__init__.py", line 126, in import_module
return _bootstrap._gcd_import(name[level:], package, level)
ModuleNotFoundError: No module named '_regression'
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AndreBiedenkapp
commented on July 18, 2024
Okay that is very unfortunate. Some part of the pyrfr is not getting swigged correctly. It seems to me that it might be due to Mac OSX.
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AndreBiedenkapp
commented on July 18, 2024
Another potential way to fix the setup would be to (again) create a new&clean conda environment.
In that environment please first run conda install gxx_linux-64 gcc_linux-64 swig.
Then you can install pyrfr and fANOVA through pip.
Please report the result of running the two examples above.
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abhinavs95
commented on July 18, 2024
@AndreBiedenkapp running conda install gxx_linux-64 gcc_linux-64 swig gives me the following:
Solving environment: failed
PackagesNotFoundError: The following packages are not available from current channels:
- gxx_linux-64
- gcc_linux-64
Current channels:
- https://repo.anaconda.com/pkgs/main/osx-64
- https://repo.anaconda.com/pkgs/main/noarch
- https://repo.anaconda.com/pkgs/free/osx-64
- https://repo.anaconda.com/pkgs/free/noarch
- https://repo.anaconda.com/pkgs/r/osx-64
- https://repo.anaconda.com/pkgs/r/noarch
- https://repo.anaconda.com/pkgs/pro/osx-64
- https://repo.anaconda.com/pkgs/pro/noarch
To search for alternate channels that may provide the conda package you're
looking for, navigate to
https://anaconda.org
and use the search bar at the top of the page.
I think they are linux only packages and are not available for mac.
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AndreBiedenkapp
commented on July 18, 2024
That's surprising. Which Anaconda version are you using?
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abhinavs95
commented on July 18, 2024
Conda version 4.5.11
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AndreBiedenkapp
commented on July 18, 2024
Anaconda 5.0 switched from OS-provided compiler tools to [their] own toolsets.
see conda-compiler-tools
Looks like the packages I asked you to install are only available for anaconda 5.0 and higher.
Could you please upgrade your conda to the latest version and try again?
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abhinavs95
commented on July 18, 2024
@AndreBiedenkapp I have been trying to update conda to version 5. I tried a bunch of stuff including conda update conda and conda update anaconda. But after updating the version remains unchanged at 4.5.11. I'm not sure why this is happening.
The only other way is to remove current version and download version 5 fresh. But I'll be losing my current envs that way, so I'm looking for another fix.
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AndreBiedenkapp
commented on July 18, 2024
That's unfortunate.
As I mentioned before, something with the swigging process of the pyrfr seems to be going wrong, which is most likely due to gcc version.
If you don't intend on using Anaconda 5.0, it might be more difficult to setup everything correctly for mac.
Could you double check that the requirements listed here https://github.com/automl/random_forest_run are fullfilled?
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abhinavs95
commented on July 18, 2024
Hi @AndreBiedenkapp yes I double checked the requirements. I installed fanova on a linux instance and things are working fine now. I will update on this thread if I am able to make it work on my mac (doing a fresh install using anaconda 5.0). Thank you for your help!
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- Segmentation fault while running the example code with SWIG 4.0 HOT 4
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