--- a/chromeister/src/combine_reads.c	Wed Dec 12 07:18:40 2018 -0500
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,82 +0,0 @@
-#include <stdio.h>
-#include <stdlib.h>
-#include <string.h>
-#include <ctype.h>
-#include "structs.h"
-#include "commonFunctions.h"
-
-#define MAX(x, y) (((x) > (y)) ? (x) : (y))
-#define MIN(x, y) (((x) <= (y)) ? (x) : (y))
-#define STARTING_SEQS 1000
-#define PIECE_OF_DB_REALLOC 3200000 //half a gigabyte if divided by 8 bytes
-#define MATVAL 101
-
-int main(int argc, char ** av){
-    
-    if(argc != 2) terror("USE:: combine_reads <file>");
-
-    FILE * results, * data;
-    data = fopen(av[1], "rt");
-    if(data == NULL) terror("Could not open input file");
-
-    uint64_t * mat = (uint64_t *) calloc(MATVAL, sizeof(uint64_t));
-    if(mat == NULL) terror("Could not allocate matrix array");
-
-    char buffer[MAXLID];
-    if ((results = fopen("accu.log", "r")) == NULL){
-        results = fopen("accu.log", "wt");
-    }else{
-        // Load the matrix
-        uint64_t i;
-        
-        for(i=0;i<100;i++){
-            if(0 == fgets(buffer, MAXLID, results)) terror("Missing number on load");
-            
-            //fprintf(stdout, "Have %s\n", buffer);
-            buffer[strlen(buffer)-1] = '\0';
-            mat[i] = asciiToUint64(buffer);
-            //fprintf(stdout, "%"PRIu64"\n", mat[i]);
-            //getchar();
-        }
-        fclose(results);
-        results = fopen("accu.log", "wt"); // Re open
-    }
-
-    // Read file 
-    uint64_t read_id_1, read_id_2, coverage, identity, length, current, currmax, j;
-    while(!feof(data)){
-        if(0 == fgets(buffer, MAXLID, data) && !feof(data)) terror("Missing values");
-        // 2 77277 89 64 213
-        sscanf(buffer, "%"PRIu64" %"PRIu64" %"PRIu64" %"PRIu64" %"PRIu64, &read_id_1, &read_id_2, &coverage, &identity, &length);
-        //fprintf(stdout, "%"PRIu64" %"PRIu64" %"PRIu64" %"PRIu64" %"PRIu64"\n", read_id_1, read_id_2, coverage, identity, length);
-        currmax = MIN(identity, coverage);
-        //fprintf(stdout, "%"PRIu64"\n", currmax);
-        current = read_id_1;
-        /*
-        for(j=currmax; j > 1; j--){
-            if(current != lasts[j]){
-                mat[j]++;
-                lasts[j] = current;
-            }
-        }
-        */
-        mat[currmax] += 1;
-
-    }
-
-    for(j=99; j>0; j--){
-        mat[j] += mat[j+1];
-    }
-    mat[0] = mat[1];
-
-    for(j=0; j<100; j++){
-        fprintf(stdout, "%"PRIu64"\n", mat[j]);
-        fprintf(results, "%"PRIu64"\n", mat[j]);
-    }
-
-
-    fclose(results);
-    fclose(data);
-    free(mat);
-    return 0;
-}
\ No newline at end of file