Problem importing AMICO - No module named 'core'

[dilaraerisen]

Hi,

I got this error after trying to import AMICO:

dilara@dilara-500-250et:~$ python
Python 3.6.3 |Anaconda custom (64-bit)| (default, Oct 13 2017, 12:02:49) 
[GCC 7.2.0] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import spams
>>> import amico
Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
  File "/home/dilara/anaconda3/lib/python3.6/site-packages/amico/__init__.py", line 1, in <module>
    from core import Evaluation
ModuleNotFoundError: No module named 'core'

I do not get any errors during installation.

dilara@dilara-500-250et:~/AMICO-master$ pip install .
Processing /home/dilara/AMICO-master
Requirement already satisfied: dipy in /home/dilara/anaconda3/lib/python3.6/site-packages (from amico==1.0) (0.14.0)
Requirement already satisfied: nibabel>=2.1.0 in /home/dilara/anaconda3/lib/python3.6/site-packages (from dipy->amico==1.0) (2.3.0)
Requirement already satisfied: h5py>=2.4.0 in /home/dilara/anaconda3/lib/python3.6/site-packages (from dipy->amico==1.0) (2.7.0)
Requirement already satisfied: numpy>=1.7 in /home/dilara/anaconda3/lib/python3.6/site-packages (from h5py>=2.4.0->dipy->amico==1.0) (1.13.3)
Requirement already satisfied: six in /home/dilara/anaconda3/lib/python3.6/site-packages (from h5py>=2.4.0->dipy->amico==1.0) (1.11.0)
Building wheels for collected packages: amico
  Running setup.py bdist_wheel for amico ... done
  Stored in directory: /home/dilara/.cache/pip/wheels/d1/94/31/61888e4e578b43385618bb376053b2adb983ba5816227b51e9
Successfully built amico
Installing collected packages: amico
Successfully installed amico-1.0

SPAMS and Camino Toolkit seems to be working fine as far as I can tell. I am using Ubuntu 16.04 and Anaconda3-5.0.1. Can you tell what is wrong with my installation?

Best,
Dilara

[daducci]

Hi Dilara,

usually this error means that the compilation was unsuccessful, typically due to the external SPAMS module. Can you please check and test it works properly?

[dilaraerisen]

Hi,
I wasn't able to install SPAMS directly from pip repository in the first place so I've installed manually with:

wget https://gforge.inria.fr/frs/download.php/file/37660/spams-python.anaconda-v2.6.1-2018-08-06.tar.gz
tar -zxvf spams-python.anaconda-v2.6.1-2018-08-06.tar.gz
cd spams-2.6.1
python setup.py install

I don't know if it has something to do with the manual installation but I ran the tests located in "test" folder in my python install directory where the SPAMS is installed and they all worked out fine.

Best,
Dilara

[seantma]

Hi @daducci , I'm getting the same error that @dilaraerisen is experiencing.

My SPAMS was installed through the conda package manager. I had issues installing the test.pypi.org repo on OSX. The error was related to

gcc: spams_wrap.cpp
clang: error: unsupported option '-fopenmp'

My conda command was: conda install -c conda-forge python-spams

The version of SPAMS installed:

% conda list python-spams
#packages in environment at /Users/tt/anaconda3
#Name Version Build Channel
python-spams 2.6.1 py36_blas_openblash6af021c_200 [blas_openblas] conda-forge

Any suggestions?

Sean

[ptelyash]

Any solution to this? Have the same issue, with no installation errors (for all packages).