remove debug lines

Author: Mengyao Zhao

src/ssw.c

@@ -180,10 +180,8 @@ static __m128i* qP_byte (const int8_t* read_num,
 			j = i;
 			for (segNum = 0; LIKELY(segNum < 16) ; segNum ++) {
 				*t++ = j>= readLen ? bias : mat[nt * n + read_num[j]] + bias;
-                fprintf(stderr, "%d\t", *(t-1)); // Mengyao
 				j += segLen;
 			}
-            fprintf(stderr, "\n");    // Mengyao
 		}
 	}
 	return vProfile;
@@ -209,7 +207,6 @@ static alignment_end* sw_sse2_byte (const int8_t* ref,
 												   is set to 0, it will not be used */
 	 						 uint8_t bias,  /* Shift 0 point to a positive value. */
 							 int32_t maskLen) {
-    fprintf(stderr, "in sw_sse2_byte function\n");   // Mengyao
 
     // Put the largest number of the 16 numbers in vm into m.
     #define max16(m, vm) (vm) = _mm_max_epu8((vm), _mm_srli_si128((vm), 8)); \
@@ -259,7 +256,6 @@ static alignment_end* sw_sse2_byte (const int8_t* ref,
 		step = -1;
 	}
 	for (i = begin; LIKELY(i != end); i += step) {
-        uint16_t val[8];    // Mengyao
 		int32_t cmp;
 		__m128i e, vF = vZero, vMaxColumn = vZero; /* Initialize F value to 0.
 							   Any errors to vH values will be corrected in the Lazy_F loop.
@@ -284,10 +280,6 @@ static alignment_end* sw_sse2_byte (const int8_t* ref,
 			vH = _mm_max_epu8(vH, e);
 			vH = _mm_max_epu8(vH, vF);
 			vMaxColumn = _mm_max_epu8(vMaxColumn, vH);
-            memcpy(val, &vMaxColumn, sizeof(val));  // Mengyao
-            printf("j: %d\tvMaxColumn1: %i %i %i %i %i %i %i %i \n",    // Mengyao
-            j, val[0], val[1], val[2], val[3], val[4], val[5],
-            val[6], val[7]);
 
 			/* Save vH values. */
 			_mm_store_si128(pvHStore + j, vH);
@@ -321,11 +313,6 @@ static alignment_end* sw_sse2_byte (const int8_t* ref,
 		}
 
 end:		
-        memcpy(val, &vMaxColumn, sizeof(val));  // Mengyao
-        printf("vMaxColumn2: %i %i %i %i %i %i %i %i \n",
-           val[0], val[1], val[2], val[3], val[4], val[5],
-           val[6], val[7]);
-
 		vMaxScore = _mm_max_epu8(vMaxScore, vMaxColumn);
 		vTemp = _mm_cmpeq_epi8(vMaxMark, vMaxScore);
 		cmp = _mm_movemask_epi8(vTemp);
@@ -335,7 +322,6 @@ static alignment_end* sw_sse2_byte (const int8_t* ref,
 			max16(temp, vMaxScore);
 			vMaxScore = vMaxMark;
 
-            fprintf(stderr, "temp: %d\n", temp);   // Mengyao
 			if (LIKELY(temp > max)) {
 				max = temp;
 				if (max + bias >= 255) break;	//overflow
@@ -855,7 +841,6 @@ s_align* ssw_align (const s_profile* prof,
 	// Find the alignment scores and ending positions
 	if (prof->profile_byte) {
 		bests = sw_sse2_byte(ref, 0, refLen, readLen, weight_gapO, weight_gapE, prof->profile_byte, -1, prof->bias, maskLen);
-        fprintf(stderr, "bests[0].score: %d\n", bests[0].score); // Mengyao
 		if (prof->profile_word && bests[0].score == 255) {
 			free(bests);
 			bests = sw_sse2_word(ref, 0, refLen, readLen, weight_gapO, weight_gapE, prof->profile_word, -1, maskLen);