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TobyBaril / EarlGrey

Earl Grey: A fully automated TE curation and annotation pipeline
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-recoverDir option for RepeatModeler? #125

Closed r-mashoodh closed 4 months ago

r-mashoodh commented 4 months ago

Hey Toby,

Thanks again for all your work on this. I searched the issues/instructions and so I am not sure if I missed this but is there a way to use -recoverDir on an EarlGrey run that may have stopped mid-way through the RepeatModeler step?

I know that in RepeatModeler one has to specificy the directory where complete rounds were stored, so perhaps not possible, but just wanted to check.

cheers Rahia

TobyBaril commented 4 months ago

Hi Rahia,

For the moment we haven't implemented the -recoverDir option as it is a bit hit-and-miss on whether the directory is actually recoverable or not, and often it just fails to recover the runs. I can add it back to our list of things to think about though!

r-mashoodh commented 4 months ago

ok, thanks!