Python Logger/C++ Debug Mechanism Addition and Journal removal

[mpatrou]

Short description of the changes:

Python logger mechanism added, journal removed and other cleanup changes

Long description of the changes:

The code include the following changes:

• python logging initialized and added in src/ and pyproject; journal removed
• python logging initialized and added in tests/; journal removed
• logging functions that call journal removed in tests/
• journal removed from lib/; regular print statement inside the DEBUG blocks added
• all building files for python (pyproject, meta etc.) and C (cmake files) are updated to remove journal
• environment and pyproject updated to match dev multiphonon dependency versions
• _version import from init; hard-coded value removed
• code cleanup

The PR enables python logging with various levels:
pytest --log-cli-level=DEBUG

also the building process of C libraries and python are found and attached in the testing section.

Check list for the pull request

• I have read the [CONTRIBUTING]
• I have read the [CODE_OF_CONDUCT]
• I have added tests for my changes
• I have updated the documentation accordingly

Check list for the reviewer

• I have read the [CONTRIBUTING]
• I have verified the proposed changes
• best software practices
  • all internal functions have an underbar, as is python standard
  • clearly named variables (better to be verbose in variable names)
  • code comments explaining the intent of code blocks
• All the tests are passing
• The documentation is up to date
• code comments added when explaining intent

Manual test for the reviewer

python part only:

• pip install -e .
• pytest

cmake installation python and /C:

• mkdir build && cd build/
• export PREFIX=$CONDA_PREFIX
• cmake -DCONDA_BUILD=TRUE -DCMAKE_INSTALL_PREFIX=$PREFIX -DDEPLOYMENT_PREFIX=$PREFIX ..
• make
• make install
• cd .. && pytest

Print various logging levels in pytest:

• pytest --log-cli-level=DEBUG
• pytest --log-cli-level=INFO
• etc

References

[Story] [Histogram] Replace Journal with python logging module

[codecov-commenter]

Codecov Report

Attention: Patch coverage is 78.04878% with 9 lines in your changes missing coverage. Please review.

Project coverage is 76.96%. Comparing base (7a74f35) to head (9f50543).

Files with missing lines	Patch %	Lines
src/histogram/ndarray/NumpyNdArray.py	33.33%	4 Missing ⚠️
src/histogram/NdArrayDataset.py	60.00%	2 Missing ⚠️
src/histogram/hpickle.py	0.00%	2 Missing ⚠️
src/histogram/hdf/Renderer.py	66.66%	1 Missing ⚠️

Additional details and impacted files

@@            Coverage Diff             @@
##             next       #6      +/-   ##
==========================================
- Coverage   76.97%   76.96%   -0.02%     
==========================================
  Files          42       42              
  Lines        3175     3173       -2     
==========================================
- Hits         2444     2442       -2     
  Misses        731      731              

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[KyleQianliMa]

Tested locally both python and c++ part. Both works with new python logging. Please make sure to squash and merge.