[Bug]: Tries to write core_typemap.pkl into the install location

[yarikoptic]

What happened?

In a work with @manimoh I have tried to run the script within singularity container where I installed pynwb but it crashed since tried to

$> singularity exec ./mvmdmlab-nwbconverters.sing /opt/miniconda-latest/envs/mvdmlab/bin/python3                          
Python 3.10.16 | packaged by conda-forge | (main, Dec  5 2024, 14:16:10) [GCC 13.3.0] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import pynwb
^[..Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
  File "/opt/miniconda-latest/envs/mvdmlab/lib/python3.10/site-packages/pynwb/__init__.py", line 250, in <module>
    __load_core_namespace()
  File "/opt/miniconda-latest/envs/mvdmlab/lib/python3.10/site-packages/pynwb/__init__.py", line 229, in __load_core_namespace
    with open(__resources['cached_typemap_path'], 'wb') as f:
PermissionError: [Errno 13] Permission denied: '/opt/miniconda-latest/envs/mvdmlab/lib/python3.10/site-packages/pynwb/core_typemap.pkl'

>>> pkg_resources
<module 'pkg_resources' from '/opt/miniconda-latest/envs/mvdmlab/lib/python3.10/site-packages/pkg_resources/__init__.py'>
*>>> pkg_resources.get_distribution('pynwb')
pynwb 2.8.3 (/opt/miniconda-latest/envs/mvdmlab/lib/python3.10/site-packages)

the same with 3.-

$> singularity exec ./mvmdmlab-nwbconverters.sing /opt/miniconda-latest/envs/mvdmlab/bin/python3                          
Python 3.10.16 | packaged by conda-forge | (main, Dec  5 2024, 14:16:10) [GCC 13.3.0] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import pynwb
Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
  File "/opt/miniconda-latest/envs/mvdmlab/lib/python3.10/site-packages/pynwb/__init__.py", line 240, in <module>
    __load_core_namespace()
  File "/opt/miniconda-latest/envs/mvdmlab/lib/python3.10/site-packages/pynwb/__init__.py", line 219, in __load_core_namespace
    with open(__resources['cached_typemap_path'], 'wb') as f:
PermissionError: [Errno 13] Permission denied: '/opt/miniconda-latest/envs/mvdmlab/lib/python3.10/site-packages/pynwb/core_typemap.pkl'
>>> pkg_resources
Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
NameError: name 'pkg_resources' is not defined
>>> import pkg_resources
<stdin>:1: DeprecationWarning: pkg_resources is deprecated as an API. See https://setuptools.pypa.io/en/latest/pkg_resources.html
>>> pkg_resources.get_distribution('pynwb')
pynwb 3.0.0 (/opt/miniconda-latest/envs/mvdmlab/lib/python3.10/site-packages)

Steps to Reproduce

create a singularity container

• here is the Singularityfile I used: https://github.com/vandermeerlab/mvdmlab_npx_to_nwb/blob/86840c8af228a995113dde5ef6f1a7d83766ffd2/src/Singularity
• from WiP: container recipe vandermeerlab/mvdmlab_npx_to_nwb#1

Operating System

Linux

Python Executable

Conda

Python Version

3.10

Package Versions

No response

Code of Conduct

• I agree to follow this project's Code of Conduct
• Have you checked the Contributing document?
• Have you ensured this bug was not already reported?

[stephprince]

@yarikoptic thanks for reporting, I believe this is an issue related to the TypeMap caching that was recently introduced for performance speedups on import of PyNWB

I can take a look at this (@rly I think this could be an additional motivation for your proposal in #2045)

[yarikoptic]

FWIW -- "caching" is great, but should likely to go to appropriate to caches folder. We use https://pypi.org/project/platformdirs/ for that, e.g. here