List of required packages

[sassy-crick]

Dear all,

I think it would be beneficial to have a list of required packages. The currently provided information appears to be a bit thin here.
In particular:

numpy>=1.14.5
matplotlib
kiwisolver>=1.0.1
cycler>=0.10
pillow>=6.2.0
packaging>=20.0
pyparsing>=2.2.1
fonttools>=4.22.0
python-dateutil>=2.7
six>=1.5

The only way I found out about them was when these Python packages messed up the centrally installed Python when I installed the software, and it was only by chance I noticed it when debugging a different problem on our HPC cluster.

Thanks!

[mrneont]

OK, thanks, it is nice to have an explicit list of additional dependencies. Thanks for pointing those out.

I would note that some of those are listed in the conda environment notes, here:
https://afni.nimh.nih.gov/pub/dist/doc/htmldoc/background_install/miniconda.html#make-new-envs-from-text-file-afni-minimal-python
I guess I haven't been sure of some of the "sub" dependencies, that is true. That is, I know that Python's pillow is needed, but that seems to typically arrive with installing Matplotlib. (Though note that we do have a dependency on Matplotlib v>=2.2.3.)

I think several of the above listed dependencies are probably "just" sub-dependencies of major things that are installed---is that possible? For example, from grepping "conda list" in my conda environment, all of those dependencies except for "fonttools" are installed, just by installping Python=3.9, matplotlib>=2.2.3, numpy and scipy.

What mechanism do you use to install things like matplotlib and numpy on your system?

thanks,
pt