Mixed case FASTA and upper case REF still causes mismatch/skipping.
This was mentioned in issue #46 at the end (after closing), and @lbeltrame provided a simple diff to fix it. Since it seems to have fallen off the radar, here is a new pull request with their fix.
BTW: Using the -n option is not a viable fix, since it skips and also produces lots of pointless warnings.
Mixed case FASTA and upper case REF still causes mismatch/skipping.
This was mentioned in issue #46 at the end (after closing), and @lbeltrame provided a simple diff to fix it. Since it seems to have fallen off the radar, here is a new pull request with their fix.
BTW: Using the
-noption is not a viable fix, since it skips and also produces lots of pointless warnings.