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test_ED.cc
83 lines (59 loc) · 2.46 KB
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test_ED.cc
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#include "SIMD_ED.h"
int main () {
unsigned int *test = new unsigned int[4];
//for (int i = 0; i < 4; i++)
//test[i] = 1 << i;
test[0] = 1;
test[1] = 0;
test[2] = 0;
test[3] = 0;
//unsigned long int *bit_cast = (unsigned long int*) mask;
unsigned long *bit_cast = (unsigned long*) test;
for (int i = 0; i < 2; i++)
cout << bit_cast[i] << " " << 8 * sizeof(unsigned long) - _tzcnt_u64(bit_cast[i]) << endl;
unsigned long checking[2];
checking[0] = 0;
checking[1] = 4;
for (int i = 0; i < 2; i++)
cout << 8 * sizeof(unsigned long) - _tzcnt_u64(checking[i]) << endl;
char read_t[_MAX_LENGTH_] __aligned__;
char ref_t[_MAX_LENGTH_] __aligned__;
uint8_t read_bit0_t[_MAX_LENGTH_ / 4] __aligned__;
uint8_t read_bit1_t[_MAX_LENGTH_ / 4] __aligned__;
uint8_t ref_bit0_t[_MAX_LENGTH_ / 4] __aligned__;
uint8_t ref_bit1_t[_MAX_LENGTH_ / 4] __aligned__;
strcpy(read_t,
"ACGCTAGTAGCCGGAATAACAGGTAGGCCTACATTTTCTATACGGCGCCGGCAACCTTGAGGGGCCGCGCCCCGTTACACTTTATACGTTTCCCTTGCAAGCCTTCGTGTCGGAGCATATGTATATGG");
sse3_convert2bit1(read_t, read_bit0_t, read_bit1_t);
strcpy(ref_t,
"CGCTATTAGCCGGAATAACAGGTAGGCCTACATTTTCTATACGGCGCCGGCAACCTTGAGGGGCCGTGCCCCGTTACACTTTATACGTTTCCCTTGCAAGCCTTCGTGTCGGAGCATATGTATATGGC");
sse3_convert2bit1(ref_t, ref_bit0_t, ref_bit1_t);
__m128i *read_bit0_mask = (__m128i*) read_bit0_t;
__m128i *read_bit1_mask = (__m128i*) read_bit1_t;
__m128i *ref_bit0_mask = (__m128i*) ref_bit0_t;
__m128i *ref_bit1_mask = (__m128i*) ref_bit1_t;
*read_bit0_mask = shift_left_sse1(*read_bit0_mask, 1);
*read_bit1_mask = shift_left_sse1(*read_bit1_mask, 1);
__m128i mask_bit0 = _mm_xor_si128(*read_bit0_mask, *ref_bit0_mask);
__m128i mask_bit1 = _mm_xor_si128(*read_bit1_mask, *ref_bit1_mask);
__m128i mask = _mm_or_si128(mask_bit0, mask_bit1);
print128_bit(mask);
cout << endl;
bit_cast = (unsigned long*) &mask;
for (int i = 0; i < 2; i++)
cout << bit_cast[i] << " " << _tzcnt_u64(bit_cast[i]) << endl;
strcpy(read_t,
"ACGCTAGTAGCCGGAATAACAGGTAGGCCTACATTTTCTATACGGCGCCGGCAACCTTGAGGGGCCGCGCCCCGTTACACTTTATACGTTTCCCTTGCAAGCCTTCGTGTCGGAGCATATGTATATGG");
strcpy(ref_t,
"CGCTATTAGCCGGAATAACAGGTAGGCCTACATTTTCTATACGGCGCCGGCAACCTTGAGGGGCCGTGCCCCGTTACACTTTATACGTTTCCCTTGCAAGCCTTCGTGTCGGAGCATATGTATATGGC");
SIMD_ED test_obj;
test_obj.init(4);
test_obj.load_reads(read_t, ref_t, 128);
test_obj.reset();
test_obj.run();
string CIGAR;
int ED;
test_obj.backtrack();
cout << "ED: " << test_obj.get_ED() << " CIGAR: " << test_obj.get_CIGAR() << endl;
return 0;
}