fix #441 use L3 feature instead to L1 as template to create features when transcript_id exists

NBISweden / AGAT

Another Gtf/Gff Analysis Toolkit

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fix #441 use L3 feature instead to L1 as template to create features when transcript_id exists #442

Closed Juke34 closed 3 months ago

Juke34 commented 3 months ago

Otherwise it can mess up with wrong transcript_id

mschilli87 commented 3 months ago

@Juke34: Can you give an example of 'messing up' and how one can detect if one is affected? Would be great to know if I better re-build my annotation file and re-analyse all my data due to this bug or if that would be just a huge waste of time.

Juke34 commented 3 months ago

Hi @mschilli87 The bug concerns only GTF input annotations that have only level3 features (CDS,exons;etc.) and that was output in GTF (GFF output are fine excepted their transcript_id attribute that become wrong but are anyway useless in GFF). See issue #441 for an example