feature request: adjust fastqc -t switch according to the CPUs available in the system

[georgemarselis-nvi]

use lscpu | grep 'CPU(s):' | awk '{print $2 }' to find the amount of cpus

[karinlag]

I think you might rather go with parallelling it, maybe? Just having a fixed number of cpus for each, but using parallell (or something similar) to fire off several at the time.

[georgemarselis-nvi]

it does that itself, we just need to grab the amount of available CPUs on the host. Best Regards,

…

---- George Marselis Linux Engineer HPC and Bioinformatics @NVI

________________________________ From: Karin Lagesen ***@***.***> Sent: Wednesday, April 26, 2023 7:24:27 PM To: NorwegianVeterinaryInstitute/DemultiplexRawSequenceData Cc: Marselis, George; Assign Subject: Re: [NorwegianVeterinaryInstitute/DemultiplexRawSequenceData] feature request: adjust fastqc -t switch according to the CPUs available in the system (Issue #55) I think you might rather go with parallelling it, maybe? Just having a fixed number of cpus for each, but using parallell (or something similar) to fire off several at the time. — Reply to this email directly, view it on GitHub<#55 (comment)>, or unsubscribe<https://github.com/notifications/unsubscribe-auth/ASS7CRGEMOEH6SM44KDXCCDXDFK4XANCNFSM6AAAAAAXMTXMJQ>. You are receiving this because you were assigned.Message ID: ***@***.***>

[karinlag]

👍