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Dfam-consortium / RepeatModeler

De-Novo Repeat Discovery Tool
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recover from round-6 #252

Open XuanZhang-Black opened 1 month ago

XuanZhang-Black commented 1 month ago

Hi! I ran RepeatModeler for a 700Mb lepidoptera genome. But the program was terminated by the administrator before the round-6 was finished because the server upgrade. Then I tried to add "-recoverDir RM_238134. SunJul" for recovery, and I got "This directory (RM_238134. SunJul) appears to contain a successful run of RepeatModeler. If this is not the case, please report this as a bug at the RepeatMasker website (www.repeatmasker.org)". My round-6 hasn't finished running yet, although it produced the consensi.fa file, so I wonder how to recover RepeatModeler from round-6? Is it possible to move the consens.fa and families.stk files out of the round-6 folder?

Best Wishes!

Sincerely, Xuan Zhang

rmhubley commented 1 month ago

Oh that's unfortunate. The recovery is not written to handle a partial round. Instead it simply repeats the last round again. You could get it to do that by simply moving your round-6 directory to say "round-6.bak", make a new empty "round-6" directory, and retry the recover option. Obviously this is going to redo the entire search for round-6.