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Published 20 hours ago • verified publisher icon Gaius-Augustus

multithreading the process

Open TaehyungKwon opened this issue 3 years ago • 1 comments

Hi,

I was wondering if there is any multithreading scripts or pipeline in Augustus 3. There was a closed issue regarding the matter, which starts with splitting genome, but I cannot find it anymore. Could you kindly help me with the process?

TaehyungKwon avatar Aug 12 '20 20:08 TaehyungKwon

We have described it in this book chapter: https://math-inf.uni-greifswald.de/storages/uni-greifswald/fakultaet/mnf/mathinf/stanke/augustus_wrp.pdf

The relevant part is around the key word: createAugustusJoblist.pl It creates command lines that can be run in parallel, e.g. using a cluster or GNU parallel.

join_aug_pred.pl figures out what to do in the overlapping parts and makes a single output file.

MarioStanke avatar Aug 13 '20 10:08 MarioStanke