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Slow Re-squiggle though set --process 40 to run tombo resquiggle over multiple cores #441

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jouhpf opened this issue Oct 7, 2023 · 3 comments

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@jouhpf
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jouhpf commented Oct 7, 2023

Dear developers, I have used tombo resquiggle without a command --processes,the expect process time is 24hours. Then , I used --processes 40 and --processes 50 to to run tombo resquiggle over multiple cores, but the expect process time did not get shorter(remain 24hours).
I want to speed up process by use this command, but it seems not work. I want to konw why the command don't work and want to ask you are there any method to speed up the resquiggle time?
(My device: Intel core E5 128Cores 256 threads, and the data is about four million)
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@xzhbio
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xzhbio commented Dec 14, 2023

I've got the same issue, if you are able to solve this problem, plz let me know, thank you.

@marcus1487
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Tombo is deprecated. I would highly recommend moving your pipeline to the Remora signal analysis API.

@jouhpf
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jouhpf commented Dec 15, 2023

@marcus1487 thank you for your replay!I will try to use Remora next

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