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r968: allow large mini_batch; resolves #491

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Heng Li
2020-01-18 12:24:44 -05:00
parent 24f50f38e8
commit d2e14705e7
6 changed files with 19 additions and 17 deletions
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main.c
+3 -2
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@@ -7,7 +7,7 @@
#include "mmpriv.h"
#include "ketopt.h"
#define MM_VERSION "2.17-r967-dirty"
#define MM_VERSION "2.17-r968-dirty"
#ifdef __linux__
#include <sys/resource.h>
@@ -167,7 +167,7 @@ int main(int argc, char *argv[])
else if (c == 's') opt.min_dp_max = atoi(o.arg);
else if (c == 'C') opt.noncan = atoi(o.arg);
else if (c == 'I') ipt.batch_size = mm_parse_num(o.arg);
else if (c == 'K') opt.mini_batch_size = (int)mm_parse_num(o.arg);
else if (c == 'K') opt.mini_batch_size = mm_parse_num(o.arg);
else if (c == 'R') rg = o.arg;
else if (c == 'h') fp_help = stdout;
else if (c == '2') opt.flag |= MM_F_2_IO_THREADS;
@@ -382,6 +382,7 @@ int main(int argc, char *argv[])
if (argc != o.ind + 1) mm_mapopt_update(&opt, mi);
if (mm_verbose >= 3) mm_idx_stat(mi);
if (junc_bed) mm_idx_bed_read(mi, junc_bed, 1);
ret = 0;
if (!(opt.flag & MM_F_FRAG_MODE)) {
for (i = o.ind + 1; i < argc; ++i) {
ret = mm_map_file(mi, argv[i], &opt, n_threads);