r1245: allow shorter hits for splice:sr

Author: lh3

minimap.h

@@ -5,7 +5,7 @@
 #include <stdio.h>
 #include <sys/types.h>
 
-#define MM_VERSION "2.28-r1242-dirty"
+#define MM_VERSION "2.28-r1245-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

options.c

@@ -179,10 +179,11 @@ int mm_set_opt(const char *preset, mm_idxopt_t *io, mm_mapopt_t *mo)
 		} else if (strcmp(preset, "splice:sr") == 0) {
 			mo->flag |= MM_F_NO_PRINT_2ND | MM_F_2_IO_THREADS | MM_F_HEAP_SORT | MM_F_FRAG_MODE | MM_F_PE_IND;
 			mo->noncan = 5, mo->b = 4, mo->q = 6, mo->q2 = 24;
-			mo->end_bonus = 10;
-			mo->mini_batch_size = 50000000;
+			mo->min_chain_score = 25;
+			mo->min_dp_max = 40;
 			mo->pe_ori = 0<<1|1; // FR
 			mo->best_n = 10;
+			mo->mini_batch_size = 50000000;
 		}
 	} else return -1;
 	return 0;