File: common.c

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miniasm 0.2%2Bdfsg-2
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#include "miniasm.h"

int ma_verbose = 3;

void ma_opt_init(ma_opt_t *opt)
{
	opt->min_span = 2000;
	opt->min_match = 100;
	opt->min_dp = 3;
	opt->min_iden = .05;
	opt->cov_ratio = 0.;

	opt->max_hang = 1000;
	opt->min_ovlp = opt->min_span;
	opt->int_frac = .8;

	opt->gap_fuzz = 1000;
	opt->n_rounds = 2;
	opt->bub_dist = 50000;
	opt->max_ext = 4;
	opt->min_ovlp_drop_ratio = .5;
	opt->max_ovlp_drop_ratio = .7;
	opt->final_ovlp_drop_ratio = .8;
}