UGENE Forum - GenBank import: error if elements of a join() vector are not sorted in ascending order

Jan 17^th, 2025 at 2:45am

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UGENE Forum › General Category › Bugs and Issues › GenBank import: error if elements of a join() vector are not sorted in ascending order

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GenBank import: error if elements of a join() vector are not sorted in ascending order (Read 281 times)

Oct 22^nd, 2024 at 5:01pm

Pawel Malecki Offline
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As in the topic title: GenBank annotated files fail to load if there is one or more annotations defined using join() vector which has elements not given in ascending order (CLC Workbench exporter can produce such files). Changing the order manually in a text editor makes such files load just fine (at least on Windows).

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Reply #1 - Oct 22^nd, 2024 at 5:15pm

Dmitrii Sukhomlinov Offline
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Hello,

Could you, please, send us the file example? I tried to reproduce that and UGENE handled to load everything.

Best regards,
Dmitrii Sukhomlinov,
The UGENE team.
Support up: https://patreon.com/uniprougene https://boosty.to/ugene

Best regards,
Dmitrii Sukhomlinov,
The UGENE team.

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Reply #2 - Oct 22^nd, 2024 at 6:20pm

Pawel Malecki Offline
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My bad, there is a rather nonsensical annotation artifact from CLC Workbench in the same file which causes the problem:
Code:

join(1221^1222,complement(1221^1222),complement(1221^1222))

Removing that entry makes the file load fine with any element order in join() vectors.

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