Multi Thread option (align) without SnakeMake

[kiranpatil222]

Hi,

I am using NextStarin on shell mode, as i am new to using snakemake

Just wanted to know if there is an option to give --threads/cores so that to increase augar align

[jameshadfield]

Yes, you can run augur align --nthreads X .... Run augur align --help to see all the options.

For Snakemake workflows we typically use the threads directive

P.S. I transferred this issue to the augur repo, the nextstrain.org repo is specific to the code behind the nextstrain.org website

[kiranpatil222]

thank you