Upgrade python 3.14 - #25
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Move the dependency floors off versions that cap out at cp312 so the project can install and run on Python 3.14: - numpy: >=1.26.4,<1.27.0 -> >=2.1.0,<3.0.0 (1.26 has no cp314 wheels; cp314 first ships in the numpy 2.x line) - dask/distributed: <2025.0.0 -> >=2025.1.0 (2024.x predates 3.14 and is incompatible with bokeh 3) - bokeh: <3.0.0 -> >=3.1.0 (2.x has no cp314 wheels; modern dask needs 3.1+) - scipy: >=1.14.0 -> >=1.16.0; biotite: >=0.41.2 -> >=1.1.0 Raise requires-python to >=3.11, add 3.11-3.14 classifiers, extend the CI matrix to 3.11/3.12/3.13/3.14, and update the Python badges.
biotite 0.41's afdb.fetch accepted the full 'AF-<acc>-F1-model_v4' id and stripped the accession internally; biotite >=1.0 rejects it with "Cannot extract AFDB identifier". Extract the bare UniProt accession in fetch_one_afdb and pass that to biotite instead of the raw id. Because biotite now writes files named by the bare accession, canonicalize both sides of the missing-id reconciliation in retrieve_afdb_chunk_to_h5_concurrent so full-format inputs are matched to their downloaded structures rather than being reported missing. Surfaced by the biotite bump in the Python 3.14 upgrade; fixes the test_afdb_download suite.
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