Found the following significant warnings:
  ./phyclust/phyclust_label.h:49:42: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./phyclust/phyclust_em.h:72:34: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  phyclust/phyclust_label.h:49:42: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  phyclust/phyclust_em.h:72:34: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  phyclust/phyclust_em_control.c:14:34: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  phyclust/phyclust_label.c:12:42: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  msdir/ms.h:67:15: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  msdir/ms.h:69:11: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  msdir/R_ms.h:20:12: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  msdir/ms.c:802:6: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  msdir/ms.c:989:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  msdir/ms.c:1006:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  msdir/ms.c:1066:13: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  msdir/ms.c:1108:13: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  msdir/ms.c:1122:24: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  msdir/ms.c:1122:37: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  msdir/ms.c:1145:13: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  msdir/ms_main.c:11:24: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  msdir/ms_main.c:101:15: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  msdir/R_rand.c:12:12: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  msdir/streec.c:243:40: warning: while loop has empty body [-Wempty-body]
  msdir/streec.c:476:37: warning: while loop has empty body [-Wempty-body]
  seq-gen/evolve.h:76:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  seq-gen/evolve.h:77:17: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  seq-gen/aamodels.c:60:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  seq-gen/aamodels.c:63:24: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  seq-gen/aamodels.c:98:38: warning: invalid UTF-8 in comment [-Winvalid-utf8]
  seq-gen/aamodels.c:292:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  seq-gen/aamodels.c:350:24: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  seq-gen/eigen.c:47:38: warning: for loop has empty body [-Wempty-body]
  seq-gen/eigen.c:51:40: warning: for loop has empty body [-Wempty-body]
  seq-gen/evolve.c:79:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  seq-gen/evolve.c:95:17: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  seq-gen/evolve.c:130:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  seq-gen/evolve.c:172:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  seq-gen/model.c:81:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  seq-gen/model.c:82:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  seq-gen/model.c:84:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  seq-gen/nucmodels.c:83:14: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  seq-gen/nucmodels.c:84:25: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  seq-gen/nucmodels.c:396:14: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  seq-gen/nucmodels.c:456:25: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  seq-gen/treefile.h:57:20: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  seq-gen/seq-gen.c:90:23: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  seq-gen/seq-gen.c:91:23: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  seq-gen/seq-gen.c:93:23: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  seq-gen/seq-gen.c:94:27: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  seq-gen/seq-gen.c:95:27: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  seq-gen/seq-gen.c:96:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  seq-gen/seq-gen.c:97:24: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  seq-gen/seq-gen.c:101:23: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  seq-gen/seq-gen.c:166:23: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  seq-gen/seq-gen.c:703:20: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  seq-gen/seq-gen.c:732:20: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  seq-gen/seq-gen.c:807:14: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  seq-gen/seq-gen.c:900:17: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  seq-gen/treefile.c:254:20: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  seq-gen/twister.c:195:25: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  seq-gen/twister.c:237:20: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  paml_baseml/baseml.c:52:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  paml_baseml/treesub.c:2168:16: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  paml_baseml/treesub.c:2256:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  paml_baseml/tools.c:1176:40: warning: for loop has empty body [-Wempty-body]
  paml_baseml/tools.c:1179:38: warning: for loop has empty body [-Wempty-body]
  paml_baseml/tools.c:1182:44: warning: for loop has empty body [-Wempty-body]
  paml_baseml/tools.c:1329:12: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See '/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/phyclust.Rcheck/00install.out' for details.