add pickling

[CunliangGeng]

Changes

• add __reduce__ to ensure pickling works for all attributes of e.g. BGC, GCF, ...
• add save_data method to NPLinker class

With the save_data method, it's ready to save all relevant data to a pickle file for the development of webapp.

[CunliangGeng]

• update docs #260
• improving type hints and usage of abc #259
• add pickling #258 👈
• fix mypy and ruff errors #257
• refactor NPLinker class #256
• rename molfam to mf to uniform the abbreviation for MolecularFamily #255
• refactor MetcalfScoring methods #254
• use uniformed attribute name id  #253
• Add LinkGraph to replace ObjectLink and LinkCollection #252
• merge DataLinks get_common_strains to ObjectLink #250
• merge DataLinks to MetcalfScoring class #249
• merge LinkFinder to MetcalfScoring class #248
• add abstract base class for scoring methods #247
• Specify config file explicitly for initializing NPLinker #246
• fix empty caplog #245
• dev

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[sonarcloud]

Quality Gate failed

Failed conditions
43.8% Coverage on New Code (required ≥ 80%)

See analysis details on SonarCloud

[CunliangGeng]

Merge activity

• Jun 17, 9:40 AM EDT: @CunliangGeng started a stack merge that includes this pull request via Graphite.
• Jun 17, 9:41 AM EDT: @CunliangGeng merged this pull request with Graphite.