testFileRead.c

int testfgets(char *fastqFile) {
    clock_t start, end;
    double cpu_time_used;
    char *line = malloc(sizeof(char) * MAXLINELEN);

    start = clock();
    FILE *ptr;
    if ((ptr = fopen(fastqFile, "r")) == NULL) {
        printf("no such file as %s \n", fastqFile);
        return 0;
    }

    char *aline; /* this variable is not used, it suppresses a compiler warning */

    while ((aline = fgets(line, MAXLINELEN, ptr)) != NULL) {
        //do something
    }

    fclose(ptr);
    end = clock();
    cpu_time_used = ((double) (end - start)) / CLOCKS_PER_SEC;
    printf("time taken for fgets: %f \n", cpu_time_used);
}

int testGetLine(char *fastqFile) {
    clock_t start, end;
    double cpu_time_used;
    char *line = malloc(sizeof(char) * MAXLINELEN);

    start = clock();
    FILE * ptr;
    size_t len = MAXLINELEN;
    ssize_t read;

    ptr = fopen(fastqFile, "r");
    if (ptr == NULL){
        printf("no such file as %s \n", fastqFile);
        return 0;
    }

    while ((read = getline(&line, &len, ptr)) != -1) {
        //do something
    }

    fclose(ptr);
    end = clock();
    cpu_time_used = ((double) (end - start)) / CLOCKS_PER_SEC;
    printf("time taken for getline: %f \n", cpu_time_used);
}

int testfscanf(char *fastqFile) {
    clock_t start, end;
    double cpu_time_used;
    char *line = malloc(sizeof(char) * MAXLINELEN);

    start = clock();
    FILE *ptr;
    if ((ptr = fopen(fastqFile, "r")) == NULL) {
        printf("no such file as %s \n", fastqFile);
        return 0;
    }

    while (fscanf(ptr, "%[^\n]\n", line) == 1) {
        //do something
    }

    fclose(ptr);
    end = clock();
    cpu_time_used = ((double) (end - start)) / CLOCKS_PER_SEC;
    printf("time taken for fscanf: %f \n", cpu_time_used);
}