Flawfinder version 2.0.10, (C) 2001-2019 David A. Wheeler. Number of rules (primarily dangerous function names) in C/C++ ruleset: 223 Examining data/spaced-1.2.0-201605+dfsg/src/variance.cpp Examining data/spaced-1.2.0-201605+dfsg/src/variance.h Examining data/spaced-1.2.0-201605+dfsg/src/patternset.h Examining data/spaced-1.2.0-201605+dfsg/src/spaced.cc Examining data/spaced-1.2.0-201605+dfsg/src/patternset.cpp Examining data/spaced-1.2.0-201605+dfsg/src/sort.h FINAL RESULTS: data/spaced-1.2.0-201605+dfsg/src/patternset.cpp:355:2: [2] (buffer) char: Statically-sized arrays can be improperly restricted, leading to potential overflows or other issues (CWE-119!/CWE-120). Perform bounds checking, use functions that limit length, or ensure that the size is larger than the maximum possible length. char tokens[6] = {'.', ' ', ',', ';', '\n', '\t'}; data/spaced-1.2.0-201605+dfsg/src/patternset.cpp:361:8: [2] (misc) open: Check when opening files - can an attacker redirect it (via symlinks), force the opening of special file type (e.g., device files), move things around to create a race condition, control its ancestors, or change its contents? (CWE-362). fasta.open(inFile); data/spaced-1.2.0-201605+dfsg/src/sort.h:74:11: [2] (buffer) char: Statically-sized arrays can be improperly restricted, leading to potential overflows or other issues (CWE-119!/CWE-120). Perform bounds checking, use functions that limit length, or ensure that the size is larger than the maximum possible length. unsigned char alphabet[256]={}; data/spaced-1.2.0-201605+dfsg/src/sort.h:131:10: [2] (misc) open: Check when opening files - can an attacker redirect it (via symlinks), force the opening of special file type (e.g., device files), move things around to create a race condition, control its ancestors, or change its contents? (CWE-362). outfile.open(filename.c_str()); data/spaced-1.2.0-201605+dfsg/src/sort.h:161:11: [2] (buffer) char: Statically-sized arrays can be improperly restricted, leading to potential overflows or other issues (CWE-119!/CWE-120). Perform bounds checking, use functions that limit length, or ensure that the size is larger than the maximum possible length. unsigned char alphabet[256]={}; data/spaced-1.2.0-201605+dfsg/src/sort.h:512:11: [2] (buffer) char: Statically-sized arrays can be improperly restricted, leading to potential overflows or other issues (CWE-119!/CWE-120). Perform bounds checking, use functions that limit length, or ensure that the size is larger than the maximum possible length. unsigned char alphabet[256]={}; data/spaced-1.2.0-201605+dfsg/src/spaced.cc:78:22: [2] (integer) atoi: Unless checked, the resulting number can exceed the expected range (CWE-190). If source untrusted, check both minimum and maximum, even if the input had no minus sign (large numbers can roll over into negative number; consider saving to an unsigned value if that is intended). weight = atoi(argv[++i]); data/spaced-1.2.0-201605+dfsg/src/spaced.cc:86:24: [2] (integer) atoi: Unless checked, the resulting number can exceed the expected range (CWE-190). If source untrusted, check both minimum and maximum, even if the input had no minus sign (large numbers can roll over into negative number; consider saving to an unsigned value if that is intended). dontcare = atoi(argv[++i]); data/spaced-1.2.0-201605+dfsg/src/spaced.cc:94:22: [2] (integer) atoi: Unless checked, the resulting number can exceed the expected range (CWE-190). If source untrusted, check both minimum and maximum, even if the input had no minus sign (large numbers can roll over into negative number; consider saving to an unsigned value if that is intended). number = atoi(argv[++i]); data/spaced-1.2.0-201605+dfsg/src/spaced.cc:102:23: [2] (integer) atoi: Unless checked, the resulting number can exceed the expected range (CWE-190). If source untrusted, check both minimum and maximum, even if the input had no minus sign (large numbers can roll over into negative number; consider saving to an unsigned value if that is intended). threads = atoi(argv[++i]); data/spaced-1.2.0-201605+dfsg/src/spaced.cc:135:15: [2] (misc) fopen: Check when opening files - can an attacker redirect it (via symlinks), force the opening of special file type (e.g., device files), move things around to create a race condition, control its ancestors, or change its contents? (CWE-362). if (!(file = fopen(filename, "r"))) { data/spaced-1.2.0-201605+dfsg/src/variance.cpp:621:16: [2] (misc) open: Check when opening files - can an attacker redirect it (via symlinks), force the opening of special file type (e.g., device files), move things around to create a race condition, control its ancestors, or change its contents? (CWE-362). pattern_out.open(outFile); ANALYSIS SUMMARY: Hits = 12 Lines analyzed = 3132 in approximately 0.09 seconds (33048 lines/second) Physical Source Lines of Code (SLOC) = 2252 Hits@level = [0] 27 [1] 0 [2] 12 [3] 0 [4] 0 [5] 0 Hits@level+ = [0+] 39 [1+] 12 [2+] 12 [3+] 0 [4+] 0 [5+] 0 Hits/KSLOC@level+ = [0+] 17.3179 [1+] 5.3286 [2+] 5.3286 [3+] 0 [4+] 0 [5+] 0 Dot directories skipped = 1 (--followdotdir overrides) Minimum risk level = 1 Not every hit is necessarily a security vulnerability. There may be other security vulnerabilities; review your code! See 'Secure Programming HOWTO' (https://dwheeler.com/secure-programs) for more information.