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KwanLab / Autometa

Autometa: Automated Extraction of Genomes from Shotgun Metagenomes
https://autometa.readthedocs.io
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Fix Issue#350 #353

Closed Sidduppal closed 4 months ago

Sidduppal commented 7 months ago
chasemc commented 4 months ago

Check failing tests at https://github.com/KwanLab/Autometa/actions/runs/7856568206/job/21439481711?pr=353

chasemc commented 4 months ago

The failing tests need to be fixed via updating to the new Biopython function for gc calculations (note the factor difference (https://github.com/biopython/biopython/issues/4622#issuecomment-1934396369)):

"Function 'GC' in Bio.SeqUtils was deprecated in Release 1.80, and removed in Release 1.82. Instead use function 'gc_fraction'"

https://github.com/biopython/biopython/blob/biopython-183/DEPRECATED.rst#biosequtils