Good afternoon,

I have been getting this error message when I run the afni_system_check command:

------------------------------ python libs -------------------------------
++ module loaded: PyQt4
   module file : /usr/local/lib/python2.7/site-packages/PyQt4/__init__.pyc

** failed to load module matplotlib.pyplot
-- matplotlib.pyplot is not required, but is desirable

-- python binaries under /usr/local/bin:
    /usr/local/bin/python3 (sym link to /usr/local/Cellar/python@3.8/3.8.5/Frameworks/Python.framework/Versions/3.8/bin/python3.8)
    /usr/local/bin/python3.8 (sym link to /usr/local/Cellar/python@3.8/3.8.5/Frameworks/Python.framework/Versions/3.8/bin/python3.8)

I eventually figured out that a python 2.7 vs. 3.8 issue was at play, so I followed your advice to install Miniconda to better manage the multiple python versions on my system. This solved the problem beautifully, and when I ran the afni_system_check, I got the following message:

------------------------------ python libs -------------------------------
++ module loaded: PyQt4
   module file : /usr/local/lib/python2.7/site-packages/PyQt4/__init__.pyc

++ module loaded: matplotlib.pyplot
   module file : /Users/achoe2/miniconda3/envs/py27_afni_tiny/lib/python2.7/site-packages/matplotlib/pyplot.pyc

-- python binaries under /usr/local/bin:
    /usr/local/bin/python3 (sym link to /usr/local/Cellar/python@3.8/3.8.5/Frameworks/Python.framework/Versions/3.8/bin/python3.8)
    /usr/local/bin/python3.8 (sym link to /usr/local/Cellar/python@3.8/3.8.5/Frameworks/Python.framework/Versions/3.8/bin/python3.8)

I was pretty happy about this, until… I tried to run my AP scripts, which, unfortunately are all tcsh scripts – and as far as I can tell, conda doesn’t run on tcsh.

So at this point, I’m hoping that you could tell me that I am totally wrong, conda can be run using tcsh shell. But if this is not the case, would you please recommend how I should proceed? My bash shell scripting skills are quite minimal, and all the example scripts from the AFNI tutorials are tcsh scripts.


Sincerely,
Ann