Error Importing PyMC3: 'TheanoConfigParser' object has no attribute 'gcc__cxxflags'

[RylanSchaeffer]

Description of your problem

I try importing PyMC3 and get the following error:

(base) rylansch@openmind7 /om2/user/rylansch/FieteLab-ddCRP$ python3
Python 3.7.4 (default, Aug 13 2019, 20:35:49) 
[GCC 7.3.0] :: Anaconda, Inc. on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import pymc3 as pm
WARNING (theano.tensor.blas): Using NumPy C-API based implementation for BLAS functions.
Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
  File "/om2/user/rylansch/anaconda3/lib/python3.7/site-packages/pymc3/__init__.py", line 39, in <module>
    __set_compiler_flags()
  File "/om2/user/rylansch/anaconda3/lib/python3.7/site-packages/pymc3/__init__.py", line 35, in __set_compiler_flags
    current = theano.config.gcc__cxxflags
AttributeError: 'TheanoConfigParser' object has no attribute 'gcc__cxxflags'

Versions and main components

• PyMC3 Version: 3.11.1
• Theano Version: 1.0.5
• Python Version: 3.7.4
• Operating system: LSB Version: :core-4.1-amd64:core-4.1-noarch
• How did you install PyMC3: (conda/pip) pip
• Operating system:

$ lsb_release -a
LSB Version:    :core-4.1-amd64:core-4.1-noarch
Distributor ID: CentOS
Description:    CentOS Linux release 7.7.1908 (Core)
Release:        7.7.1908
Codename:       Core

[RylanSchaeffer]

I can import theano apparently without problem:

(base) rylansch@openmind7 /om2/user/rylansch/FieteLab-ddCRP$ python
Python 3.7.4 (default, Aug 13 2019, 20:35:49) 
[GCC 7.3.0] :: Anaconda, Inc. on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import theano
WARNING (theano.tensor.blas): Using NumPy C-API based implementation for BLAS functions.
>>> 

[brandonwillard]

This version of PyMC3 requires theano-pymc==1.1.2.

[RylanSchaeffer]

@brandonwillard , I also have that version installed:

$ pip install theano-pymc==1.1.2
Requirement already satisfied: theano-pymc==1.1.2 in /rdma/vast-rdma/vast/fiete/rylansch/anaconda3/lib/python3.7/site-packages (1.1.2)

[RylanSchaeffer]

Is it possible theano is conflicting with theano-pymc?

[RylanSchaeffer]

I uninstalled theano and now I have a new error:

(base) rylansch@openmind7 /om2/user/rylansch/FieteLab-ddCRP$ python3
Python 3.7.4 (default, Aug 13 2019, 20:35:49) 
[GCC 7.3.0] :: Anaconda, Inc. on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import pymc3
Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
  File "/om2/user/rylansch/anaconda3/lib/python3.7/site-packages/pymc3/__init__.py", line 39, in <module>
    __set_compiler_flags()
  File "/om2/user/rylansch/anaconda3/lib/python3.7/site-packages/pymc3/__init__.py", line 35, in __set_compiler_flags
    current = theano.config.gcc__cxxflags
AttributeError: module 'theano' has no attribute 'config'

[RylanSchaeffer]

This SO comment directed me to this SO post, which suggests there's some problem with Theano's installation.

[brandonwillard]

The old Theano package will conflict with the Theano-PyMC package, so you can't have them both installed in the same environment.

[RylanSchaeffer]

Yep! Uninstalling everything and reinstalling PyMC3 with conda worked.

[isosphere]

A pip uninstall theano fixed this for me, for folks that would like to try a minimal solution.

[Aiman73]

@RylanSchaeffer how to uninstall everything?

[leoTiez]

@Aiman73
This should do the trick

python3 -m pip uninstall theano
python3 -m pip uninstall theano-pymc
python3 -m pip uninstall pymc3
python3 -m pip install pymc3

Replace python3 with your preferred python version.

[jtlz2]

@leoTiez Thank you!

[19Kaushiki]

I am trying to import theano and pymc3 but using following versions
PyMC3 Version: 3.11.4
Theano Version: 1.0.5
Python Version: 3.10.13
Using MacOS M2
I get the following error:
'TheanoConfigParser' object has no attribute 'change_flags'

[fonnesbeck]

@19Kaushiki You should be using the latest PyMC version from this repository, and not PyMC3. That version is long outdated, and may not work at all with a M2 Mac.

[19Kaushiki]

I tried importing pymc. I am still facing an error:

AttributeError: module 'numpy.config' has no attribute 'get_info'

Also theano throws the same error:

AttributeError: 'TheanoConfigParser' object has no attribute 'change_flags'

[fonnesbeck]

You should not be using Theano at all with PyMC v5. I would try again with a clean conda environment. Just do conda install pymc from a new conda env and it should set everything up properly.

[19Kaushiki]

It is still giving me the error:
AttributeError: module 'numpy.config' has no attribute 'get_info'

I have created new environment and uninstalled and re-installed pymc. I do not understand what might be creating a problem

[19Kaushiki]

I figured it out - was able to import pymc - thank you

[canyon289]

Glad you figured it out PyMC3 is deprecated. For anyone else reading this dont try importing it. If its installed in your environment delete it and probably the whole env. Im locking this issue as such