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Fix M genbank reference#2

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jameshadfield wants to merge 1 commit into
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annotation-fix
Open

Fix M genbank reference#2
jameshadfield wants to merge 1 commit into
mainfrom
annotation-fix

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Without this the augur ancestral step in the nextclade pipeline fails: "KeyError: 'GPC'". Augur ancestral's reading of GenBank files is:

for 'CDS' features use the locus_tag or the gene. If neither, then silently ignore [1]

[1] https://github.com/nextstrain/augur/blob/4b9397bacea57a2436267c1312c075e925201191/augur/io/sequences.py#L455

Without this the `augur ancestral` step in the nextclade pipeline
fails: "KeyError: 'GPC'". Augur ancestral's reading of GenBank files
is:

> for 'CDS' features use the locus_tag or the gene. If neither, then silently ignore [1]

[1] https://github.com/nextstrain/augur/blob/4b9397bacea57a2436267c1312c075e925201191/augur/io/sequences.py#L455
@jameshadfield jameshadfield requested a review from rneher May 11, 2026 23:18
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