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r1112: added --print-chains for debugging

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Heng Li
2021-11-18 21:26:41 -05:00
parent d0cff3eb36
commit b276772890
3 changed files with 5 additions and 2 deletions
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main.c
+3 -1
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@@ -7,7 +7,7 @@
#include "mmpriv.h"
#include "ketopt.h"
#define MM_VERSION "2.23-r1111"
#define MM_VERSION "2.23-r1112-dirty"
#ifdef __linux__
#include <sys/resource.h>
@@ -76,6 +76,7 @@ static ko_longopt_t long_options[] = {
{ "cap-kalloc", ko_required_argument, 349 },
{ "q-occ-frac", ko_required_argument, 350 },
{ "chain-skip-scale",ko_required_argument,351 },
{ "print-chains", ko_no_argument, 352 },
{ "help", ko_no_argument, 'h' },
{ "max-intron-len", ko_required_argument, 'G' },
{ "version", ko_no_argument, 'V' },
@@ -233,6 +234,7 @@ int main(int argc, char *argv[])
else if (c == 348) opt.flag |= MM_F_QSTRAND | MM_F_NO_INV; // --qstrand
else if (c == 349) opt.cap_kalloc = mm_parse_num(o.arg); // --cap-kalloc
else if (c == 350) opt.q_occ_frac = atof(o.arg); // --q-occ-frac
else if (c == 352) mm_dbg_flag |= MM_DBG_PRINT_CHAIN; // --print-chains
else if (c == 330) {
fprintf(stderr, "[WARNING] \033[1;31m --lj-min-ratio has been deprecated.\033[0m\n");
} else if (c == 314) { // --frag