Working in a mixed-platform environment, I periodically run into eol (end-of-line) issues causing problems with software. I've been bitten by this several times recently with Mauve: the Mac version will work on files with Unix end-of-lines (LF) but not those with Mac end-of-lines (CR); I'm not sure about Windows files (CRLF). This is fine, except there is no error message or indication of a problem with the fasta file -- Mauve just does nothing. Is there some way to either (a) make Mauve eol-agnostic, or (b) generate an error message if there is a problem with an input file?
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