Function gpu_sw::gpu_sw
[−]
[src]
pub fn gpu_sw(
b_sq_pr: &(&[BElm], &[BElm]),
sbst_mt: &SbstMt,
algn_scr_schm: &AlgnScrSchm,
is_dna: bool
) -> PrAlgn
Run the Smith Waterman algorithm on GPU.
Examples
use self::gpu_sw::{gpu_sw, gt_alphbt, SbstMt, AlgnScrSchm}; let is_dna = true; let alphbt = gt_alphbt(is_dna); let b_sq_pr = (&b"GGTTGACTA"[..], &b"TGTTACGG"[..]); let mut sbst_mt = SbstMt::default(); for &alphbt_elm_1 in alphbt.iter() { for &alphbt_elm_2 in alphbt.iter() { sbst_mt.insert((alphbt_elm_1, alphbt_elm_2), if alphbt_elm_1 == alphbt_elm_2 {1.} else {-1.}); } } let algn_scr_schm = AlgnScrSchm::new(-7., -1.); let pr_algn = gpu_sw(&b_sq_pr, &sbst_mt, &algn_scr_schm, is_dna); println!("{:?}.", &pr_algn);