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// Copyright 2013 Calvin Morrison
#include <stdio.h>
#include <stdlib.h>
#include <unistd.h>
#include <stdint.h>
#include <stdbool.h>
#include <errno.h>
int main() {
size_t len = 0;
unsigned long long counts[256] = {0};
char buffer[4096];
bool header = false;
len = fread(&buffer, 1, 1, stdin);
if(errno) {
if(buffer[0] == '>') {
header = true;
while((len = fread(&buffer, 1, 4096, stdin)) != 0) {
unsigned int i = 0;
for(i = 0; i < len; i++) {
if(buffer[i] == '>') {
header = true;
continue;
}
else if(buffer[i] == '\n' && header == true)
header = false;
if(header == false ) {
counts[(int)buffer[i]]++;
}
}
}
}
else {
fprintf(stderr, "this does not look like a fasta file\n");
exit(EXIT_FAILURE);
}
} else {
fprintf(stderr, "could not read file\n");
exit(EXIT_FAILURE);
}
printf("A:%llu\nC:%llu\nG:%llu\nT:%llu\n",
counts['a'] + counts['A'],
counts['c'] + counts['C'],
counts['g'] + counts['G'],
counts['t'] + counts['T']);
return EXIT_SUCCESS;
}
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