Convert os.path to pathlib based Paths

[oerc0122]

Description of work

• Replace os.path methods with pathlib.Paths
• Rework MDANSE.Core.Platform to work with Paths rather than strs

To test
Nothing should change, standard tests.

[oerc0122]

It should be noted this conflicts with the MDANSE.Core.Platform definition.

[MBartkowiakSTFC]

As far as I can tell, CurrentSession.py is not referred to by any other file, since in the end the 'session' objects were implemented in the GUI instead. You're welcome to solve the conflict by deleting CurrentSession.py

[MBartkowiakSTFC]

At the moment, manual testing shows problems with saving the input parameters in the output files:

  File "MDANSE/Framework/Jobs/IJob.py", line 419, in run
    raise JobError(self, tb)
MDANSE.Framework.Jobs.IJob.JobError: Traceback (most recent call last):
  File "MDANSE/Framework/Jobs/IJob.py", line 412, in run
    self.finalize()
  File "MDANSE/Framework/Jobs/AngularCorrelation.py", line 213, in finalize
    self._outputData.write(
  File "MDANSE/Framework/OutputVariables/IOutputVariable.py", line 42, in write
    temp_format.write(basename, self, header, inputs)
  File "MDANSE/Framework/Formats/MDAFormat.py", line 64, in write
    HDFFormat.write(filename, data, header, run_instance, extension)
  File "MDANSE/Framework/Formats/HDFFormat.py", line 97, in write
    inputs = run_instance.output_configuration()
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "MDANSE/Framework/Configurable.py", line 209, in output_configuration
    result[name] = conf.to_json()
                   ^^^^^^^^^^^^^^
  File "MDANSE/Framework/Configurators/IConfigurator.py", line 263, in to_json
    return self._encoder.encode(self._original_input)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "[email protected]/3.11.9_1/Frameworks/Python.framework/Versions/3.11/lib/python3.11/json/encoder.py", line 200, in encode
    chunks = self.iterencode(o, _one_shot=True)
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "[email protected]/3.11.9_1/Frameworks/Python.framework/Versions/3.11/lib/python3.11/json/encoder.py", line 258, in iterencode
    return _iterencode(o, 0)
           ^^^^^^^^^^^^^^^^^
  File "[email protected]/3.11.9_1/Frameworks/Python.framework/Versions/3.11/lib/python3.11/json/encoder.py", line 180, in default
    raise TypeError(f'Object of type {o.__class__.__name__} '
TypeError: Object of type PosixPath is not JSON serializable

[MBartkowiakSTFC]

I did not find any other problems caused by the changes. It seems to work fine now. I agree that the specific test for encoding all the inputs to JSON can be added in a separate PR.

[oerc0122]

I did not find any other problems caused by the changes. It seems to work fine now. I agree that the specific test for encoding all the inputs to JSON can be added in a separate PR.

c.f. #658