Fix CI failure: bump netcdf4, replace Namespace with standard dict for io.abinit.pseudos

[DanielYang59]

Fix CI failure, to fix #4221

TODOs:

• investigate netcdf4 compatibility with NP2
• double check latest monty compatibility

[DanielYang59]

It turns out the issue is two-fold:
My fault goes first, looks like the override on update is not complete to handle Iterator correctly, and surely I would fix this ASAP:

from monty.collections import Namespace

namespace_dict = Namespace()

namespace_dict.update(zip(["a", "b"], [1, 2]))
print(namespace_dict)  # {}

namespace_dict.update({"a":1, "b":2})
print(namespace_dict)  # {'a': 1, 'b': 2}

---

After fixing this issue, the usage of Namespace in oncvpsp_header method of io.abinit.pseudo.NcAbinitHeader seems unexpected to me around pop:

pymatgen/src/pymatgen/io/abinit/pseudos.py

Line 783 in b28b4c2

header.pop("pspd")

According to the original docstring (before my clean up in materialsvirtuallab/monty#722):

A dictionary that does not permit to redefine its keys.

As such I would consider pop "redefined its keys" as it removed the key from the dictionary.

Currently I don't see any error with replacing Namespace dict by a standard dict, so I might use standard dict for now until someone have any comment.

[DanielYang59]

@shyuep This should fix failure.

Regarding the Namespace issue from monty I would fix it ASAP but I don't think it's relevant anymore, i.e. after we fixed that implementation it still cannot be used (intentionally) as pop would not be allowed which "redefines the keys".

[DanielYang59]

Thanks!