fork/minimap2
1
0
Fork 0
mirror of https://github.com/lh3/minimap2.git synced 2026-09-30 21:58:12 +08:00
Code Issues Packages Projects Releases Wiki Activity

multi-seg working on toy examples

Browse Source
This commit is contained in:
Heng Li
2017-09-25 13:42:04 -04:00
parent a742f10164
commit 3bb66e1ed3
6 changed files with 62 additions and 16 deletions
Download Patch File Download Diff File Expand all files Collapse all files
main.c
+6
View File
@@ -37,6 +37,9 @@ static struct option long_options[] = {
{ "cost-non-gt-ag", required_argument, 0, 0 },
{ "no-sam-sq", no_argument, 0, 0 },
{ "sr", no_argument, 0, 0 },
{ "multi-segment", no_argument, 0, 0 },
{ "2nd-seg-rev", no_argument, 0, 0 },
{ "2nd-seg-for", no_argument, 0, 0 },
{ "help", no_argument, 0, 'h' },
{ "max-intron-len", required_argument, 0, 'G' },
{ "version", no_argument, 0, 'V' },
@@ -115,6 +118,9 @@ int main(int argc, char *argv[])
else if (c == 0 && long_idx ==11) opt.noncan = atoi(optarg); // --cost-non-gt-ag
else if (c == 0 && long_idx ==12) opt.flag |= MM_F_NO_SAM_SQ; // --no-sam-sq
else if (c == 0 && long_idx ==13) opt.flag |= MM_F_SR; // --sr
else if (c == 0 && long_idx ==14) opt.flag |= MM_F_MULTI_SEG; // --multi-seg
else if (c == 0 && long_idx ==15) opt.flag |= MM_F_SEG_REV; // --2nd-seg-rev
else if (c == 0 && long_idx ==16) opt.flag &= ~MM_F_SEG_REV; // --2nd-seg-for
else if (c == 'V') {
puts(MM_VERSION);
return 0;