issue for excessive number of cores

FelixKrueger / TrimGalore

A wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS data

GNU General Public License v3.0

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issue for excessive number of cores #104

Closed dahun73 closed 4 years ago

dahun73 commented 4 years ago

Hi all!!

It's really helpful using 'trimgalore'! Thank you in advance. Actually, I have a question for number of core issue. Our server has 40 cores now. When I run trim galore, however, there is number of cores issue.

Why this issue happend? Also, if I ignore this issue and run more than 8 cores, is there any problems happening?

Thanks! Dahun

FelixKrueger commented 4 years ago

Hi Dahun,

According to tests we ran a while ago there doesn't seem to be any additional benefit of specifying a very high number of cores, please see these release notes for more information: https://github.com/FelixKrueger/TrimGalore/releases/tag/0.6.0 It will probably work nevertheless.

dahun73 commented 4 years ago

Thank you for kind explanation!

There is not huge difference from 2 to 8 cores. Then, I should use just 4 cores. :)

Thanks!!

Dahun

FelixKrueger commented 4 years ago

Indeed, I think we also concluded that using 4 cores seems to be something like a sweet spot.