Simsi-transfer

- Replace np.NaN with np.nan for pandas 2.0 compatibility

- Update pyarrow dependency to >=16.0

- Add total_jobs to JobPools
- Decrease subprocess logging level to DEBUG
- Fix unit tests

- Update job-pool to v0.3.0
- Added scaffold for readthedocs documentation
- Cleaned up test_maxquant.py and test_utils.py; added test for fill_missing_min_max_scans
- Added fill_missing_min_max_scans function for allpeptides.txt
- Fixed statistics output if skip_evidence == True
- Proper type hinting and some more docstrings
- Added missing parameters to docstrings

- Fix missing tmt_ms_level argument for tmt_requantify

- Add cache folder option to reuse previously generated results from a different SIMSI run (27)
- Memory and runtime optimizations (26)
- Hotfix for NaN handling in evidence assembly
- Added "Potential contaminant" column in SIMSI output based on the "Proteins" column
- Added sorting step to prevent rare event of incorrect probability strings
- Added validation option for mzml conversion
- Improved raw file converter interface
- Removing importlib dependency from poetry
- Improved SIMSI version retrieval for logger
- Added sorting of raw files to prevent downstream problems