fork/minimap2
1
0
Fork 0
mirror of https://github.com/lh3/minimap2.git synced 2026-10-05 07:18:13 +08:00
Code Issues Packages Projects Releases Wiki Activity

r655: options to map to one strand of the ref #91

Browse Source
This commit is contained in:
Heng Li
2018-01-16 10:34:30 -05:00
parent eecc06086f
commit 33f8157961
5 changed files with 29 additions and 3 deletions
Download Patch File Download Diff File Expand all files Collapse all files
main.c
+5 -1
View File
@@ -6,7 +6,7 @@
#include "mmpriv.h"
#include "getopt.h"
#define MM_VERSION "2.7-r654"
#define MM_VERSION "2.7-r655-dirty"
#ifdef __linux__
#include <sys/resource.h>
@@ -45,6 +45,8 @@ static struct option long_options[] = {
{ "splice-flank", optional_argument, 0, 0 },
{ "idx-no-seq", no_argument, 0, 0 },
{ "end-seed-pen", required_argument, 0, 0 }, // 21
{ "for-only", no_argument, 0, 0 }, // 22
{ "rev-only", no_argument, 0, 0 }, // 23
{ "help", no_argument, 0, 'h' },
{ "max-intron-len", required_argument, 0, 'G' },
{ "version", no_argument, 0, 'V' },
@@ -142,6 +144,8 @@ int main(int argc, char *argv[])
else if (c == 0 && long_idx ==18) opt.flag |= MM_F_INDEPEND_SEG; // --no-pairing
else if (c == 0 && long_idx ==20) ipt.flag |= MM_I_NO_SEQ; // --idx-no-seq
else if (c == 0 && long_idx ==21) opt.anchor_ext_shift = atoi(optarg); // --end-seed-pen
else if (c == 0 && long_idx ==22) opt.flag |= MM_F_FOR_ONLY; // --for-only
else if (c == 0 && long_idx ==23) opt.flag |= MM_F_REV_ONLY; // --rev-only
else if (c == 0 && long_idx == 14) { // --frag
if (optarg == 0 || strcmp(optarg, "yes") == 0 || strcmp(optarg, "y") == 0)
opt.flag |= MM_F_FRAG_MODE;