fedora 23
integer weakness #25


Weakness Breakdown


An integer overflow occurs when the answer to an arithmetic operation exceeds the maximum size of the integer type used to store it. The resulting value will appear to have wrapped around the maximum value and started again at the minimum value. This would look like a clock that represents 13:00 by pointing at 1:00. An attacker can use an integer overflow during a buffer length calculation, which results in the allocated buffer being too small to hold the data copied into it, thus causing a buffer overflow.

Warning code(s):

Unless checked, the resulting number can exceed the expected range.

File Name:



The highlighted line of code below is the trigger point of this particular Fedora 23 integer weakness.

	bsw2opt_t *opt;
	bwaidx_t *idx;
	int c;

	opt = bsw2_init_opt();
	while ((c = getopt(argc, argv, "q:r:a:b:t:T:w:d:z:m:s:c:N:Hf:MI:SG:C")) >= 0) {
		switch (c) {
		case 'q': opt->q = atoi(optarg); break;
		case 'r': opt->r = atoi(optarg); break;
		case 'a': opt->a = atoi(optarg); break;
		case 'b': opt->b = atoi(optarg); break;
		case 'w': opt->bw = atoi(optarg); break;
		case 'T': opt->t = atoi(optarg); break;
		case 't': opt->n_threads = atoi(optarg); break;
		case 'z': opt->z = atoi(optarg); break;
		case 's': opt->is = atoi(optarg); break;
		case 'm': opt->mask_level = atof(optarg); break;
		case 'c': opt->coef = atof(optarg); break;
		case 'N': opt->t_seeds = atoi(optarg); break;
		case 'M': opt->multi_2nd = 1; break;
		case 'H': opt->hard_clip = 1; break;
		case 'f': xreopen(optarg, "w", stdout); break;
		case 'I': opt->max_ins = atoi(optarg); break;
		case 'S': opt->skip_sw = 1; break;
		case 'C': opt->cpy_cmt = 1; break;
		case 'G': opt->max_chain_gap = atoi(optarg); break;
		default: return 1;
	opt->qr = opt->q + opt->r;

	if (optind + 2 > argc) {
		fprintf(stderr, "\n");
		fprintf(stderr, "Usage:   bwa bwasw [options] <target.prefix> <query.fa> [query2.fa]\n\n");
		fprintf(stderr, "Options: -a INT   score for a match [%d]\n", opt->a);
		fprintf(stderr, "         -b INT   mismatch penalty [%d]\n", opt->b);
		fprintf(stderr, "         -q INT   gap open penalty [%d]\n", opt->q);
		fprintf(stderr, "         -r INT   gap extension penalty [%d]\n", opt->r);
		fprintf(stderr, "         -w INT   band width [%d]\n", opt->bw);
		fprintf(stderr, "         -m FLOAT mask level [%.2f]\n", opt->mask_level);
		fprintf(stderr, "\n");
		fprintf(stderr, "         -t INT   number of threads [%d]\n", opt->n_threads);
		fprintf(stderr, "         -f FILE  file to output results to instead of stdout\n");
		fprintf(stderr, "         -H       in SAM output, use hard clipping instead of soft clipping\n");
		fprintf(stderr, "         -C       copy FASTA/Q comment to SAM output\n");
		fprintf(stderr, "         -M       mark multi-part alignments as secondary\n");
		fprintf(stderr, "         -S       skip Smith-Waterman read pairing\n");
		fprintf(stderr, "         -I INT   ignore pairs with insert >=INT for inferring the size distr [%d]\n", opt->max_ins); 

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