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translate: Fix error handling of reference sequence features #1168

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merged 2 commits into from
Feb 24, 2023
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translate: Fix error handling of reference sequence features #1168

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translate: Fix error handling of reference sequence features
victorlin Feb 24, 2023
f192902
Update changelog
victorlin Feb 24, 2023
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5 changes: 5 additions & 0 deletions CHANGES.md
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Expand Up @@ -2,6 +2,11 @@

## __NEXT__

### Bug fixes

* translate: Fix error handling when features cannot be read from reference sequence file. [#1168][] (@victorlin)

[#1168]: https://github.com/nextstrain/augur/pull/1168

## 21.0.1 (17 February 2023)

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2 changes: 1 addition & 1 deletion augur/translate.py
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Expand Up @@ -351,10 +351,10 @@ def run(args):

## load features; only requested features if genes given
features = load_features(args.reference_sequence, genes)
print("Read in {} features from reference sequence file".format(len(features)))
if features is None:
print("ERROR: could not read features of reference sequence file")
return 1
print("Read in {} features from reference sequence file".format(len(features)))

### translate every feature - but not 'nuc'!
translations = {}
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