zzh
/
fast-bwa
1
0
Fork 0
Code Issues Pull Requests Packages Projects Releases Wiki Activity

r963: expose mask_level

This commit is contained in:
Heng Li 2014-10-30 11:33:43 -04:00
parent 6db2fd98aa
commit 9bf898fa10
2 changed files with 3 additions and 2 deletions
Show Stats Download Patch File Download Diff File Expand all files Collapse all files

3
fastmap.c
View File

@ -55,7 +55,7 @@ int main_mem(int argc, char *argv[])
opt = mem_opt_init(); opt = mem_opt_init();
memset(&opt0, 0, sizeof(mem_opt_t)); memset(&opt0, 0, sizeof(mem_opt_t));
while ((c = getopt(argc, argv, "epaFMCSPHVYjk:c:v:s:r:t:R:A:B:O:E:U:w:L:d:T:Q:D:m:I:N:W:x:G:h:y:K:")) >= 0) { while ((c = getopt(argc, argv, "epaFMCSPHVYjk:c:v:s:r:t:R:A:B:O:E:U:w:L:d:T:Q:D:m:I:N:W:x:G:h:y:K:X:")) >= 0) {
if (c == 'k') opt->min_seed_len = atoi(optarg), opt0.min_seed_len = 1; if (c == 'k') opt->min_seed_len = atoi(optarg), opt0.min_seed_len = 1;
else if (c == 'x') mode = optarg; else if (c == 'x') mode = optarg;
else if (c == 'w') opt->w = atoi(optarg), opt0.w = 1; else if (c == 'w') opt->w = atoi(optarg), opt0.w = 1;
@ -87,6 +87,7 @@ int main_mem(int argc, char *argv[])
else if (c == 'y') opt->max_mem_intv = atol(optarg), opt0.max_mem_intv = 1; else if (c == 'y') opt->max_mem_intv = atol(optarg), opt0.max_mem_intv = 1;
else if (c == 'C') copy_comment = 1; else if (c == 'C') copy_comment = 1;
else if (c == 'K') fixed_chunk_size = atoi(optarg); else if (c == 'K') fixed_chunk_size = atoi(optarg);
else if (c == 'X') opt->mask_level = atof(optarg);
else if (c == 'h') { else if (c == 'h') {
opt0.max_XA_hits = opt0.max_XA_hits_alt = 1; opt0.max_XA_hits = opt0.max_XA_hits_alt = 1;
opt->max_XA_hits = opt->max_XA_hits_alt = strtol(optarg, &p, 10); opt->max_XA_hits = opt->max_XA_hits_alt = strtol(optarg, &p, 10);

2
main.c
View File

@ -4,7 +4,7 @@
#include "utils.h" #include "utils.h"
#ifndef PACKAGE_VERSION #ifndef PACKAGE_VERSION
#define PACKAGE_VERSION "0.7.10-r960-dirty" #define PACKAGE_VERSION "0.7.10-r963-dirty"
#endif #endif
int bwa_fa2pac(int argc, char *argv[]); int bwa_fa2pac(int argc, char *argv[]);