This is a bug pattern that seems to be in many places in phast:
```
char c;
...
while ((c = (char)getopt_long(argc, argv,
"i:o:s:e:l:G:r:T:a:g:c:C:L:I:A:M:O:w:N:Y:X:fuDVxPzRSk4mh", long_opts,
&opt_idx)) != -1) {``` The casts in commit 273b8ce6 silenced the warnings where the compiler was warning about this bug... -- You are receiving this because you authored the thread. Reply to this email directly or view it on GitHub: https://github.com/CshlSiepelLab/phast/issues/15#issuecomment-461182677
