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https://forum.ugene.net/forum/YaBB.pl General Category >> Bugs and Issues >> GenBank import: error if elements of a join() vector are not sorted in ascending order https://forum.ugene.net/forum/YaBB.pl?num=1729591289 Message started by Pawel Malecki on Oct 22^nd, 2024 at 5:01pm

Title: GenBank import: error if elements of a join() vector are not sorted in ascending order
Post by Pawel Malecki on Oct 22^nd, 2024 at 5:01pm

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).

Title: Re: GenBank import: error if elements of a join() vector are not sorted in ascending order
Post by Dmitrii Sukhomlinov on Oct 22^nd, 2024 at 5:15pm

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

Title: Re: GenBank import: error if elements of a join() vector are not sorted in ascending order
Post by Pawel Malecki on Oct 22^nd, 2024 at 6:20pm

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.