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/clustalo-1.2.4/src/clustal-omega-config.h
Examining data/clustalo-1.2.4/src/clustal-omega.h
Examining data/clustalo-1.2.4/src/clustal/mbed.h
Examining data/clustalo-1.2.4/src/clustal/ktuple_pair.h
Examining data/clustalo-1.2.4/src/clustal/progress.c
Examining data/clustalo-1.2.4/src/clustal/pair_dist.c
Examining data/clustalo-1.2.4/src/clustal/symmatrix.h
Examining data/clustalo-1.2.4/src/clustal/seq.h
Examining data/clustalo-1.2.4/src/clustal/log.c
Examining data/clustalo-1.2.4/src/clustal/muscle_tree.h
Examining data/clustalo-1.2.4/src/clustal/tree.c
Examining data/clustalo-1.2.4/src/clustal/hhalign_wrapper.h
Examining data/clustalo-1.2.4/src/clustal/muscle_upgma.c
Examining data/clustalo-1.2.4/src/clustal/util.h
Examining data/clustalo-1.2.4/src/clustal/progress.h
Examining data/clustalo-1.2.4/src/clustal/list.h
Examining data/clustalo-1.2.4/src/clustal/list.c
Examining data/clustalo-1.2.4/src/clustal/tree.h
Examining data/clustalo-1.2.4/src/clustal/ktuple_pair.c
Examining data/clustalo-1.2.4/src/clustal/queue.h
Examining data/clustalo-1.2.4/src/clustal/muscle_upgma.h
Examining data/clustalo-1.2.4/src/clustal/weights.h
Examining data/clustalo-1.2.4/src/clustal/weights.c
Examining data/clustalo-1.2.4/src/clustal/pair_dist.h
Examining data/clustalo-1.2.4/src/clustal/log.h
Examining data/clustalo-1.2.4/src/clustal/symmatrix.c
Examining data/clustalo-1.2.4/src/clustal/hhalign_wrapper.c
Examining data/clustalo-1.2.4/src/clustal/muscle_tree.c
Examining data/clustalo-1.2.4/src/clustal/seq.c
Examining data/clustalo-1.2.4/src/clustal/util.c
Examining data/clustalo-1.2.4/src/clustal/mbed.c
Examining data/clustalo-1.2.4/src/hhalign/hhhalfalignment.h
Examining data/clustalo-1.2.4/src/hhalign/hhhalfalignment-C.h
Examining data/clustalo-1.2.4/src/hhalign/hhfullalignment-C.h
Examining data/clustalo-1.2.4/src/hhalign/hhfunc-C.h
Examining data/clustalo-1.2.4/src/hhalign/hhutil-C.h
Examining data/clustalo-1.2.4/src/hhalign/hash-C.h
Examining data/clustalo-1.2.4/src/hhalign/hhalignment.h
Examining data/clustalo-1.2.4/src/hhalign/hhhit-C.h
Examining data/clustalo-1.2.4/src/hhalign/hhhmm-C.h
Examining data/clustalo-1.2.4/src/hhalign/general.h
Examining data/clustalo-1.2.4/src/hhalign/list.h
Examining data/clustalo-1.2.4/src/hhalign/hash.h
Examining data/clustalo-1.2.4/src/hhalign/list-C.h
Examining data/clustalo-1.2.4/src/hhalign/hhalign.h
Examining data/clustalo-1.2.4/src/hhalign/hhfullalignment.h
Examining data/clustalo-1.2.4/src/hhalign/hhfunc.h
Examining data/clustalo-1.2.4/src/hhalign/hhhit.h
Examining data/clustalo-1.2.4/src/hhalign/hhmatrices-C.h
Examining data/clustalo-1.2.4/src/hhalign/hhhitlist-C.h