MRG: update serialization code #49
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Adamtaranto
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Sep 23, 2024
* Add toml package as testing dependency. * Add version attribute to new KmerCountTable instances. * Test version attribute. * Track total bases consumed with attr consumed * Add tests for consumed attr * Add sum_counts attr to get total counts in table. * Add tests for sum_counts attr * Add __len__ method to get total unique kmer count. * Add tests for __len__ method. * Add __getitem__ and __setitem__ methods * Tests for __getitem__ and __setitem__ dunder methods. * Make KmerCountTable iterable * Add tests for __iter__ * Add serde and flate2 * Add serialisation support * Add serialisation tests * Add niffler * sort imports * Use niffler for gzip read/write * Style fixes by Ruff * bump serde * MRG: update serialization code (#49) * Do format updates on top of current commit rather than head. (#46) * update serde_json version * switch to using built-in temp_path * write two additional tests * Style fixes by Ruff * clean up docstrings viz cargo doc --document-private-items --------- Co-authored-by: Adam Taranto <[email protected]> Co-authored-by: ctb <[email protected]> --------- Co-authored-by: Adamtaranto <[email protected]> Co-authored-by: C. Titus Brown <[email protected]> Co-authored-by: ctb <[email protected]>
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NOTE: PR into #31
This PR updates #31 in the following ways:
mainbranch;temp_filefixture for pytesttmp_pathbuilt-in fixture;serde_jsonversion to 1.0.128;