amrex-astro / workflow Goto Github PK

Hi,
Thanks for this very cool repo and instructions.
I found your file: https://github.com/AMReX-Astro/workflow/blob/f376a31c62e9d93de6e44865aafb1cb8d812c306/sphinx_docs/source/olcf-jupyter.rst.
And I just implemented it to use jupyter lab, however, I had 2 minor issues.

One is actually mentioned in: conda/conda#7980 and I used the workaround that they expressed via introducing above your instructions point 2 the source line:

2. Next, we need to make sure that the environment will be available when we launch our jupyter session::

    source /sw/summit/python/3.7/anaconda3/5.3.0/etc/profile.d/conda.sh
    conda activate my_env
    ipython kernel install --user --name=my_env
    conda deactivate my_env 

The path for conda.sh was that one because prior to any conda commands (i.e. before following your point 1), I ran module load python/3.7.0-anaconda3-5.3.0.

The second change was that I had to open in my browser (safari) localhost:8888/tree instead of just localhost:8888, otherwise I would get the error message in: jupyterlab/jupyterlab#8164.

I thought I should open this issue here, and ask if there are better fixes for these issues and if you want me to add these lines to olcf-jupyter.rst (as notes probably).

Thank you again for the very helpful instructions,
Diana

what's the best way to organize this?

one possibility is to start by putting existing scripts in some directory hierarchy and then looking for the commonality among them.

We should move the managing jobs sections from the individual code docs here.

Also, do we want to continue using latex for the docs? or do we want to switch to markdown for this?