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Pipeline fails at TSEBRA step if snoRNA features are present in the Liftoff reference GFF #120

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GallVp opened this issue Dec 4, 2024 · 1 comment · Fixed by #122
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Pipeline fails at TSEBRA step if snoRNA features are present in the Liftoff reference GFF #120

GallVp opened this issue Dec 4, 2024 · 1 comment · Fixed by #122
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GallVp commented Dec 4, 2024

Description of the bug

The downstream logic in the pipeline creates a malformed GFF as snoRNA is not a recognised feature. This causes TSEBRA to fail. For now, the problem can be solved by filtering out soRNA after Liftoff.

Possible also remove other non-supported features: https://www.ncbi.nlm.nih.gov/genbank/genomes_gff/

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plant-food-research-open/genepal: 0.5.0
@GallVp GallVp added the bug Something isn't working label Dec 4, 2024
@GallVp GallVp added this to the 0.6.0 milestone Dec 4, 2024
@GallVp GallVp self-assigned this Dec 4, 2024
@GallVp GallVp mentioned this issue Dec 4, 2024
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GallVp commented Dec 4, 2024

Linked to #121

@GallVp GallVp mentioned this issue Dec 5, 2024
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@GallVp GallVp linked a pull request Dec 5, 2024 that will close this issue
Fixed TSEBRA failure issue #122
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Fixed TSEBRA failure issue Plant-Food-Research-Open/genepal
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