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Default compilation without AVX2

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This commit is contained in:
Saurabh
2021-07-20 12:32:34 -04:00
committed by Heng Li
parent f68b4b22df
commit 34e273c8ee
6 changed files with 70 additions and 42 deletions
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main.c
+31
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@@ -149,6 +149,33 @@ static inline void yes_or_no(mm_mapopt_t *opt, int flag, int long_idx, const cha
int main(int argc, char *argv[])
{
#ifdef LISA_HASH
#if VECTORIZE && __AVX512BW__
fprintf(stderr, "Using LISA hash with AVX512-vectorized last-mile search.\n");
#else
fprintf(stderr, "Using LISA hash with sequential last-mile search.\n");
#endif
#else
fprintf(stderr, "Using default hash lookup.\n");
#endif
#if defined(VECTORIZED_CHAINING) && defined(__AVX512BW__)
fprintf(stderr, "Using AVX512-vectorized chaining.\n");
#else
fprintf(stderr, "Using default chaining.\n");
#endif
#if defined (ALIGN_AVX) && (defined(__AVX512BW__) || (defined(__AVX2__) && defined(APPLY_AVX2)))
#ifdef __AVX512BW__
fprintf(stderr, "Using AVX512-vectorized alignment.\n");
#elif __AVX2__
fprintf(stderr, "Using AVX2-vectorized alignment.\n");
#endif
#else
fprintf(stderr, "Using default SSE-vectorized alignment.\n");
#endif
const char *opt_str = "2aSDw:k:K:t:r:f:Vv:g:G:I:d:XT:s:x:Hcp:M:n:z:A:B:O:E:m:N:Qu:R:hF:LC:yYPo:Z:";
ketopt_t o = KETOPT_INIT;
mm_mapopt_t opt;
@@ -163,6 +190,7 @@ int main(int argc, char *argv[])
mm_verbose = 3;
liftrlimit();
mm_realtime0 = realtime();
double mapping_time = realtime();
mm_set_opt(0, &ipt, &opt);
string preset_arg = "";
@@ -453,7 +481,9 @@ int main(int argc, char *argv[])
lh = new lisa_hash<uint64_t, uint64_t>(preset_arg, prefix);
fprintf(stderr, "Loading done.\n");
total_time = __rdtsc();
fprintf(stderr, "\nIndexing Real time: %.3f sec;\n", realtime() - mapping_time);
#endif
mapping_time = realtime();
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);
@@ -495,6 +525,7 @@ int main(int argc, char *argv[])
fprintf(stderr, "\n Number of reads = %lld Minimizer hit time = %lld dp_chaining time = %lld alignment time = %lld total time = %lld \n", num_reads, minimizer_hit_time, dp_chaining_time, alignment_time, __rdtsc() - total_time);
#endif
fprintf(stderr, "Total ticks: %lld \n",__rdtsc() - total_time);
fprintf(stderr, "\nMapping Real time: %.3f sec;\n", realtime() - mapping_time);
#ifdef LISA_HASH
delete lh;
#endif