Fixing critical bug where complexity calculation is incorrect - #42
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mourisl merged 1 commit intoDec 13, 2024
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…tart reading into the wrong sequence, due to case 'S' falling through to case 'M'
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Partially fixes #41
Due to a fallthrough to 'I' in the switch, an extra offset is added for any cigar strings containing 'S'. This causes the program to start reading into incorrect sequence characters from a previous alignment (or junk data, usually 0).