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put option operations in another file

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This commit is contained in:
Heng Li
2018-01-26 08:38:37 -05:00
parent dd18307e66
commit 123bc1d91d
6 changed files with 157 additions and 144 deletions
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main.c
+5
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@@ -47,6 +47,7 @@ static struct option long_options[] = {
{ "end-seed-pen", required_argument, 0, 0 }, // 21
{ "for-only", no_argument, 0, 0 }, // 22
{ "rev-only", no_argument, 0, 0 }, // 23
{ "heap-sort", optional_argument, 0, 0 }, // 24
{ "help", no_argument, 0, 'h' },
{ "max-intron-len", required_argument, 0, 'G' },
{ "version", no_argument, 0, 'V' },
@@ -169,6 +170,10 @@ int main(int argc, char *argv[])
if (optarg == 0 || strcmp(optarg, "yes") == 0 || strcmp(optarg, "y") == 0)
opt.flag |= MM_F_SPLICE_FLANK;
else opt.flag &= ~MM_F_SPLICE_FLANK;
} else if (c == 0 && long_idx == 24) { // --heap-sort
if (optarg == 0 || strcmp(optarg, "yes") == 0 || strcmp(optarg, "y") == 0)
opt.flag |= MM_F_HEAP_SORT;
else opt.flag &= ~MM_F_HEAP_SORT;
} else if (c == 'S') {
opt.flag |= MM_F_OUT_CS | MM_F_CIGAR | MM_F_OUT_CS_LONG;
if (mm_verbose >= 2)