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oushujun / EDTA

Extensive de-novo TE Annotator
https://genomebiology.biomedcentral.com/articles/10.1186/s13059-019-1905-y
GNU General Public License v3.0
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Question about threads #380

Closed chao77777777 closed 9 months ago

chao77777777 commented 10 months ago

Hi， Due to our limited computing resources，I would like to know why the computing resources used in this step “Use RepeatModeler to identify any remaining TEs that are missed by structure-based methods” are greater than the specified number of threads, and how the computing resources required in this step are calculated. Best wishes， Wang

oushujun commented 10 months ago

Hello Wang,

What is the EDTA version you are using? RepeatMasker and RepeatModeler may use 4x the threads you give via the -pa parameter. The latest EDTA version has reduced the number of threads to 1/4 that passed to -pa. If you still have issues, please contact the RepeatModeler developer: https://github.com/Dfam-consortium/RepeatModeler

Thank you for using EDTA! Shujun

chao77777777 commented 10 months ago

Hi Shujun， Thanks for your reply . I need to update EDTA. Extensive de-novo TE Annotator (EDTA) v2.0.1. Best wishes， Wang