r1203: added preset lr:hqae

lh3 · Mar 20, 2024 · c881b14 · c881b14
1 parent f18dadb
commit c881b14
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Showing 2 changed files with 5 additions and 1 deletion.
diff --git a/minimap.h b/minimap.h
@@ -5,7 +5,7 @@
 #include <stdio.h>
 #include <sys/types.h>
 
-#define MM_VERSION "2.27-r1202-dirty"
+#define MM_VERSION "2.27-r1203-dirty"
 
 #define MM_F_NO_DIAG       (0x001LL) // no exact diagonal hit
 #define MM_F_NO_DUAL       (0x002LL) // skip pairs where query name is lexicographically larger than target name

diff --git a/options.c b/options.c
@@ -114,6 +114,10 @@ int mm_set_opt(const char *preset, mm_idxopt_t *io, mm_mapopt_t *mo)
 			mo->a = 1, mo->b = 4, mo->q = 6, mo->q2 = 26, mo->e = 2, mo->e2 = 1;
 			mo->min_dp_max = 200;
 		}
+	} else if (strcmp(preset, "lr:hqae") == 0) { // high-quality assembly evaluation
+		io->flag = 0, io->k = 25, io->w = 51;
+		mo->min_mid_occ = 50, mo->max_mid_occ = 500;
+		mo->rmq_inner_dist = 5000;
 	} else if (strcmp(preset, "map-iclr-prerender") == 0) {
 		io->flag = 0, io->k = 15;
 		mo->b = 6, mo->transition = 1;