[CRITICAL] Fixed a bug in the alignment fixer

lenarother / moderna

A program for comparative RNA modeling.

GNU General Public License v3.0

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[CRITICAL] Fixed a bug in the alignment fixer #64

Closed cosi1 closed 7 years ago

cosi1 commented 7 years ago

Hello @lenarother and @krother,

this is a fix to a critical bug discovered by a user: when the template sequence in the alignment differs from the actual sequence of the template and AlignmentMatcher attempts to fix it, it destroys gapped fragments of the alignment.

Please review and merge!

Best, -p-

cosi1 commented 7 years ago

Well, it seems that the new code is failing the test, but I couldn't make the original code pass this test as well... What's going on?