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Gaius-Augustus / BRAKER

BRAKER is a pipeline for fully automated prediction of protein coding gene structures with GeneMark-ES/ET/EP/ETP and AUGUSTUS in novel eukaryotic genomes
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Augustus config path error: cp: cannot stat '/usr/share/augustus/config//': No such file or directory #772

Closed sanjaysrikakulam closed 4 months ago

sanjaysrikakulam commented 4 months ago

Hi,

Since the last update of the container, we have been facing issues related to the AUGUSTUS tool config and script paths.

Error We are using the container docker://teambraker/braker3:v3.0.7.3 via singularity, and we get the error cp: cannot stat '/usr/share/augustus/config//': No such file or directory

Solution Upon looking into the Dockerfile, I see some leftovers from the last cleanup. Please remove these lines that overwrite the AUGUSTUS ENVs

sanjaysrikakulam commented 4 months ago

PR removing the overwrite lines

KatharinaHoff commented 4 months ago

Thank you! I have merged the request. It was careless of me not to remove that. I will today also push a new image to dockerhub.

sanjaysrikakulam commented 4 months ago

Cool, no worries, it happens.

Thank you!

KatharinaHoff commented 4 months ago

https://hub.docker.com/layers/teambraker/braker3/v3.0.7.4/images/sha256-60448aa9c29d72eb42d2b1bf869e3fa98acbaca5cc6fcad9b0f7097dbd847a8d?context=repo

I will close here. Thanks, again!