000055 notebooks gotchas

[yarikoptic]

Considering to use 000055 for the workshop demos, trying to run the provided from this repo notebooks. This issue will collect gotchas I encounter, and will be populate with items, checking them out if/when resolved. Notebooks are under 000055/BruntonLab/peterson21/

• Fig_coarse_labels.ipynb first cell %pip install -r requirements.txt leads to ERROR: Failed building wheel for scipy and thus failure

[jwodder]

@yarikoptic Do you happen to be using Python 3.10? Scipy doesn't have wheels for 3.10 out yet, and trying to install it on any platform for which there isn't a wheel (list of wheels here) probably isn't such a hot idea.

[yarikoptic]

good "try" - I forgot to check, but that happened on the hub.dandiarchive.org and I hope we do not rush jumping to 3.10 there - still 3.9 there.

[yarikoptic]

FWIW here is the beginning of the long error report from that pip install:

...
Requirement already satisfied: numcodecs>=0.6.4 in /opt/conda/lib/python3.9/site-packages (from zarr->lazy_ops==0.2.0->-r requirements.txt (line 1)) (0.9.1)
Requirement already satisfied: asciitree in /opt/conda/lib/python3.9/site-packages (from zarr->lazy_ops==0.2.0->-r requirements.txt (line 1)) (0.3.3)
Building wheels for collected packages: matplotlib, scipy, nwbwidgets
  Building wheel for matplotlib (setup.py) ... error
  ERROR: Command errored out with exit status 1:
   command: /opt/conda/bin/python -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-install-gu1rnebu/matplotlib_387c961b349d4cc5b5dc729f0639d05e/setup.py'"'"'; __file__='"'"'/tmp/pip-install-gu1rnebu/matplotlib_387c961b349d4cc5b5dc729f0639d05e/setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' bdist_wheel -d /tmp/pip-wheel-ew1bc1lw
       cwd: /tmp/pip-install-gu1rnebu/matplotlib_387c961b349d4cc5b5dc729f0639d05e/
  Complete output (849 lines):
...